Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008773.1 Hibiscus syriacus cultivar Beakdansim tig00111881_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1239499
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:230780 original size:216 final size:218
Alignment explanation
Indices: 230406--230839 Score: 732
Period size: 216 Copynumber: 2.0 Consensus size: 218
230396 TCTCTATCGT
* *
230406 TGTTGAGTTAATCGATCGAAGGAATCAGCCAAGAGGGGGTGAATTGGCAATAAAAATTTCGGTGG
1 TGTTGAGTTAATCGATCGAAGGAATCAGCCAAGAGGGGGTGAATTAGCAATAAAAAATTCGGTGG
* * * * *
230471 AAGCTTTTGTAGAAAATTGAAAATATTTGCACAACGATTTAGAGTGGTTCGAGTTTCTCAACCAA
66 AAGCTTTTGCAGAAAATTGAAAAAAGTTACACAACGATTTAGAGTGGTTCGACTTTCTCAACCAA
230536 AGTCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCC-ACAAATTCACTAATTTG-TCT
131 AGTCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCCAACAAATTCACTAATTTGTTCT
230599 TTCTTTTGAGGACAAAGAGTAAC
196 TTCTTTTGAGGACAAAGAGTAAC
*
230622 TGTTGAGTTAATCGATCGACGGAATC-GACCAAGAGGGGGTGAATTAGCAATTAAAAAATT-GGT
1 TGTTGAGTTAATCGATCGAAGGAATCAG-CCAAGAGGGGGTGAATTAGCAA-TAAAAAATTCGGT
*
230685 GGAAGCTTTTGCAGAAAATTGAAAAAAGTTACACAGCGATTTAGAGTGGTTCGACTTTCTCAACC
64 GGAAGCTTTTGCAGAAAATTGAAAAAAGTTACACAACGATTTAGAGTGGTTCGACTTTCTCAACC
*
230750 AAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGTT
129 AAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCCAACAAATTCACTAATTTGTT
230815 CTTTCTTTTGAGGACAAAGAGTAAC
194 CTTTCTTTTGAGGACAAAGAGTAAC
230840 CTTACAACTC
Statistics
Matches: 204, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
215 1 0.00
216 152 0.75
217 25 0.12
218 26 0.13
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (218 bp):
TGTTGAGTTAATCGATCGAAGGAATCAGCCAAGAGGGGGTGAATTAGCAATAAAAAATTCGGTGG
AAGCTTTTGCAGAAAATTGAAAAAAGTTACACAACGATTTAGAGTGGTTCGACTTTCTCAACCAA
AGTCTACGTCCACTACCTTAGCTATCCACACTAAGAATTTTCCAACAAATTCACTAATTTGTTCT
TTCTTTTGAGGACAAAGAGTAAC
Found at i:231446 original size:64 final size:64
Alignment explanation
Indices: 231314--231492 Score: 193
Period size: 64 Copynumber: 2.8 Consensus size: 64
231304 TGGAACACTT
* * *
231314 AGTGCATCGGTGCATTA-AGTGTGTATCGATGCATAATATGCATTCGATGTTTTGAATAAGCCTA
1 AGTGCATCGATGCA-TAGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAGCCTA
* * * *
231378 AGTGCATCGATGCATGGTGTGTGCATTGATGCATAAAATGCATTCGATGTTTCATTAA-AA-CCT
1 AGTGCATCGATGCATAGAGTGTGCATCGATGCATAAAATGCATTCGATGTTT--TGAATAAGCCT
*
231441 G
64 A
** * * *
231442 AGTGCATCGATGCATAGAAAGTGCATCGATGCATAAACTGTATTTGATGTT
1 AGTGCATCGATGCATAGAGTGTGCATCGATGCATAAAATGCATTCGATGTT
231493 CAATTTATTC
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
63 1 0.01
64 90 0.94
65 2 0.02
66 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (64 bp):
AGTGCATCGATGCATAGAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAATAAGCCTA
Found at i:233025 original size:16 final size:16
Alignment explanation
Indices: 232985--233030 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
232975 TATAAATAAG
232985 TTCAAACATCCAAAAAAA
1 TTCAAACATCC--AAAAA
* *
233003 TTTAAACATCCACAAA
1 TTCAAACATCCAAAAA
233019 TTCAAACATCCA
1 TTCAAACATCCA
233031 TAAGCATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 15 0.60
18 10 0.40
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (16 bp):
TTCAAACATCCAAAAA
Found at i:234542 original size:18 final size:19
Alignment explanation
Indices: 234519--234555 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
234509 TTTCATTGAA
*
234519 AAACCGATAAA-CCGAACC
1 AAACCGAAAAACCCGAACC
234537 AAACCGAAAAACCCGAACC
1 AAACCGAAAAACCCGAACC
234556 GTTAAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.51, C:0.35, G:0.11, T:0.03
Consensus pattern (19 bp):
AAACCGAAAAACCCGAACC
Found at i:235821 original size:11 final size:11
Alignment explanation
Indices: 235805--235831 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
235795 TTCATAGCCA
235805 TTTTATGAAAG
1 TTTTATGAAAG
235816 TTTTATGAAAG
1 TTTTATGAAAG
235827 TTTTA
1 TTTTA
235832 GCTGAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (11 bp):
TTTTATGAAAG
Found at i:236659 original size:263 final size:263
Alignment explanation
Indices: 236193--240396 Score: 5007
Period size: 263 Copynumber: 16.0 Consensus size: 263
236183 ATAATATCAT
* * * *
236193 GGTTGCGACTTGTAATGTCAACTTGTGTACTAATAGAATAGATTGCACCCA-A-TTTCATGTCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* *
236256 CCAAAGAAAGCACGTTGCAATAT-GAAATATTATCATTTTAAAAAATAAAAGCGATTGAACGTAA
66 CCAAAGAAAGCACGTTGCAATCTAG-AATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAA
* * ** *
236320 AGTATTATGCAAGTTTTAGTCGATGGAGCCTTGGCGTTCTGCACGACAAACAAATAGGTTAAGAG
130 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* *
236385 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTACGCCCCAAAATATCACGGTTCTAAAGGA
195 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
236450 AATA
260 AATA
* *
236454 TGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATTGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
*
236519 CCAGAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
** ** * *
236584 GTATTATGAAAGTTTTAGTTGATGGAGCCTTGGCGTTCTGCACAACAAACAAATAGGTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * * * *
236649 ACAAAGTATTACGATTAGGAAAAATAGAAACGGTTACGCCCCAAAATATCACAGTTCTAAAGGGA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
236714 ATA
261 ATA
** * *
236717 GGTTATGACTTGTAATGTCAACTTGTGTATTATTAGAATAGATTGCTCCCAGAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
236782 CTAAGGTAAGCACGTTGCAATAT-GTAATATTATCATTTTTAAAAATAAAAGCAATTGCAAT-TA
66 CCAAAGAAAGCACGTTGCAATCTAG-AATATTATCATTTTAAAAAATAAAAGCGATTG-AATGTA
* * * * * * *
236845 AAGAATTATGAAAGTTGTAGTCGATGAAGCCTTGGCGTTCCCCACAAAAATCAAATAGGTTAATA
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* ** * *
236910 GCACAAAATATTACGA-TAGGCAAAATAGAAACTATTGTGCCCTAGAATATCACGGTTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
236974 AAATA
259 AAATA
* * * * * *
236979 GGTTGCAACTCGTAATGTCAACTTGTGTATTAATTG-ATAGATTGCGCTCAGAGTATCATGGGCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
237043 CCAAAGAAAGTGCAC--TGCAATATGGAATATTATCATTTTAAAAATTAAAAGTGATTGCATCTA
66 CCAAAGAAA--GCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTA
* *
237106 AAGTATTATGAAAGTTTTATCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * * * *
237171 ACACAAAGTATTACGATTAGGTAAAACAGAAATGGTTGCGCCCCAGAATATCACGGTTCTAAAGA
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
237236 AAATA
259 AAATA
* * *
237241 GGTTACGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCAAAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * *
237306 ACAAAGAAA-CACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATT-ACGTGTAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGA-ATGTAA
* ** * * * * *
237369 AGTATTATGAAAGTTTTCGTTGATGGACCCTTGGCATTCCACACAACAAACAAATAGGTTAAGAG
130 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* ** * * * *
237434 CACAAAGTATTATGATTAGGCAAAATAGAAACGGTTATGCCCCATAATATCACGATCCTAAA-AA
195 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
237498 AATA
260 AATA
** * * * * * * *
237502 GGTTTTGATTTGTAATGTCAACCTATGTATTATTAGAATAGGTTGCTCCAAGAGTGTCATGGCCT
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC-
* * * * * * *
237567 CTC-AGGAAAGCTCATTGCAATAT-GAAATATTATAATTTTAAAAAATAAAAGCAATTGCAAT-T
65 CCCAAAGAAAGCACGTTGCAATCTAG-AATATTATCATTTTAAAAAATAAAAGCGATTG-AATGT
* *
237629 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCATTCCCCATGACAATCAAATAGGTTAAG
128 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
* * * * * *
237694 AGCACAAATTATTACGATTAGGAAAAATAGAAACGGTTGCACCCCAAAATGTCATGGTTCTAAAG
193 AGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAG
237759 GAAATA
258 GAAATA
* * *
237765 AGTTGCGAATTG-AACTGTCAACTTGTGTATTAATAG-ATAGATTGTGCCCAGAGTGTCATGG-C
1 GGTTGCGACTTGTAA-TGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * * * * * *
237827 CCCAAAGAAATCGCATTGCAATATGGAATATTATCATTTT-AAAAATAAAAGTGATTGCACT-AA
65 CCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTG-AATGTA
* *
237890 AAGTATTATGAAAGTTATAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGGTTAAGA
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * *
237955 ACACAAAGTATTACGATTAGGTAAAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
238020 AAATA
259 AAATA
* *
238025 GGTTGCGACTTGTAATGTCAACTTATGTATTAATAGAATAGATTGCGTCCAGAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
238090 CCAAAGAAACCACGTTACAATATGGAATATTATCATTTTAAAAAATAAAAGCTATTGTATGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * * * ** *
238155 GTATTATGAAAGTTTTAGCAG-TCAGAGCC-TGGTGTTTCGTACGACAATCAAATAGTTTAAGAG
131 GTATTATGAAAGTTTTAGCCGAT-GGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* * * * * * * *
238218 -ATAAAAGTATTACGATTAGACAAAATAGAAGCGATTGTGCTCCAGAATATCAGGGATCT-AAGG
195 CA-CAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
*
238281 AAGTA
259 AAATA
* * * * *
238286 GGTTGTGACTTGTAATGTCAACTTGTGTATTATTATAATTA-ATTGCTCCCAGAGTGTCATGGAC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAA-TAGATTGCGCCCAGAGTGTCATGGCC
*** * * *
238350 TTTAAAGAAAGCATGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCAAT-TA
65 CCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTG-AATGTA
* *
238414 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGGTTAAGG
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
** * ** * *
238479 GCACAAAGTATTACGATTAGGC---A-AGAAATTGTTGCACTTCAGAACATAACGGTTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
238540 AAATA
259 AAATA
* * *
238545 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAG-ATAGATTGCTCCCAAAGTGTCATGCCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATG-GCC
* * * * ****
238609 CCCAAAGAAAGCGCATTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCGCCTAA
65 CCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAA
* * * ** * * *
238674 AGTATTATGAAAGTTTTAGTCGATGGAGACTTGGCGTTTCGTAGGACAATAAAATAAGTTAAGAG
130 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* *** * * * *
238739 CACAAAGTATTATGATTATTTAAACTAGAAACGGTTACGCCGCAGAATATCACGGTTTTAAAGGA
195 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
238804 AATA
260 AATA
* * * *
238808 GGTTACGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCACCCATAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
238873 CCAAAGAAAGCATGTTGCAATCTAGTATATTATCATTTTAAAAAATAAAAGCTATTGTACGTGAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * * *
238938 GTATTATGAAAGTTTTCA-CCGGTGGAGCCTTGGCATTCCCTACGAAAATCAAATAGGTTAAGAG
131 GTATTATGAAAGTTTT-AGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* *
239002 CACAAA-TATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAAAATATCACGTTTCTAAAGGA
195 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
239066 AATA
260 AATA
* * * * * * * * *
239070 GGTTGCGACTTGTAATTTCTACTTGTGTATTAACATAATCGATTTCACCTAGAGTGTCATTG-CC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * ** * *
239134 CCAAAGAAAGCATGTTACAATCT-GAAATATT-TACATTTTAAAAAATAAAAATGATTGCATCTA
66 CCAAAGAAAGCACGTTGCAATCTAG-AATATTAT-CATTTTAAAAAATAAAAGCGATTGAATGTA
* * * * * *
239197 AAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGTGTTCCCTATGATAATCAAATAGATTAAGA
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * * * * * * *
239262 GCACAAAGCATTACGATTAGGCAAAATAAAAACGATTGCGCCCCAAAATATAACAGTTCTCAATG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
239327 AAATA
259 AAATA
* * *
239332 GGTTGCGACTTGTAATTTCAACTTGTGTATTAATAGAATAGATTGCGCTCAGAATGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * *
239397 CCAAAGAAAGCACATTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
** *
239462 GTATTATGAAAGTTTTAGTTGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * * *
239527 ACAAAATATTACGATTAGGCAAAATAGACACGGTTGTGCCCCATAATATCACGGTTCTAAAGGAA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
239592 ATA
261 ATA
* * *
239595 GGTTGAGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAAAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * * **
239660 CCAAAGAAAGAATGTTGCAATCTATAATATTATCATTTTAAAATAGAAAAGAGATTGCGTGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * ** *
239725 GTATTATGAAAGTTTTAACCGATGGAGCCTTGGCGTTTCATACGATAATCAAATAGGTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * ** * * * * *
239790 AAAAAGTATTACAATTAAACAAAATAGAAGCGGTTGCACTCCAGAATATCACAGTTCTAAAGAAA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
239855 ATA
261 ATA
* * ** * *
239858 GGTTGTGACTTGTATTGTCAACTTGTGTATTAATAGAATAGATTGAACCAAGAGTTTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
239923 CTAAGGAAAGCAAC-TTGCAATTTAGAATACTATCATTTTAAAATATAAAAGCAATTG--TGCTT
66 CCAAAGAAAGC-ACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATG--T
* * *
239985 AAAGTTTTATGAAAGTTTTAGCCGATAGAGCCTTGGCGTTCCCCACAACAATCAAATAGGTTAAG
128 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
* *
240050 AGCACAAAGTATTACGATTAGGCAAAATAGAAACTGTTGCGCCCCAGAATATCACAGTTCTAAAG
193 AGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAG
240115 GAAATA
258 GAAATA
* * *
240121 GGTTTCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGTGCCCAAAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * *
240186 CTAAAGAAAGCACGTTGCAATCTAGAATATTTATCATTTTAAAAAATAAAATCGATTGCATGTAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATA-TTATCATTTTAAAAAATAAAAGCGATTGAATGTAA
* * ** *
240251 AATATTATGAAAGTTTTAGCC-ATCGGAGCCTTGGTGTTCCGTACGACAATCAAATAGTTTAAGA
130 AGTATTATGAAAGTTTTAGCCGAT-GGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * * * * * * *
240315 GCACAAAGTAATACAATTAGAC-AAATAGAAGCAGTTGCGCTCCAGGATATCACGATTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
240379 AAATA
259 AAATA
* *
240384 AGTTGTGACTTGT
1 GGTTGCGACTTGT
240397 TCTCTTTAAA
Statistics
Matches: 3377, Mismatches: 506, Indels: 118
0.84 0.13 0.03
Matches are distributed among these distances:
257 2 0.00
258 42 0.01
259 168 0.05
260 182 0.05
261 567 0.17
262 858 0.25
263 1426 0.42
264 130 0.04
266 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (263 bp):
GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
ATA
Found at i:237187 original size:524 final size:522
Alignment explanation
Indices: 235361--240396 Score: 5228
Period size: 524 Copynumber: 9.6 Consensus size: 522
235351 ATTGAGTTGA
* ** * *
235361 AAAGTATTACGATTAGGTAAAATAGAAACATTTATGCACCAGAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGTGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * * *
235426 ATGTTGCGACTTTTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCATAGTATCATGACC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * * * **
235491 CCAAAGAAAACATGTTGCAATCTGAAATATTAACATTTTAAAAAATAAAAGCGATTGCGCCTAAA
131 CCAAAGAAAGCA--CTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTAAA
** * * ** * *
235556 GTATTATGAGTGTTTTAGCTCAAGGAGCCTTGGCGTTCCCCACTACAATCAAATAGATTAAGAGC
194 GTATTATGAAAGTTTTAGC-GATGGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAGAGC
* * * * * ** *
235621 ACAAAGTATTACGATTAAGCAAAATAGAAATGGTTGCACCCCAGAATATTATGGTTCTCAAGGAA
258 ACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACAGTTCTAAAGGAA
** * * * * ** * *
235686 ATAGGTT-AAAATTAT-ATAT--A--T-T-TATCT-A-ACAAT-GA-ACCAAACCA-AATGT-AT
323 ATAGGTTGCGACTTGTAATGTCAACTTGTGTAT-TAATAGAATAGATTGC-ACCCAGAGTGTCAT
** ** ** * * * ** * * * ** *** *
235737 GATCTGC-TTGAATGGCTTA-GTACTCCTAGATGTTCATTATAATTTA-GGTACAATTCCCTTCA
386 GGCCCCCAAAGAA-AGC--ACGT--TGC-A-ATATGGAATATTA-TCATTTTA-AA---AAATAA
* * ** * * * * * * *
235799 TAGCCATTTTA-TGAAAGTTTTATGAAAGTTTTAGCTGAAGGAACCTTGACGTTCCACACGACAA
439 AAGCGATTGCACTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAA
*
235863 TCAAATAGATTAAGAGCAC
504 TCAAATAGGTTAAGAGCAC
* * * * * *
235882 AAAATATTATGATTAGGCAAAATAGAAACGGTTGCT-TCCTAGAATATCATGGTTCTCAAGGAAA
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTG-TGCCCCAGAATATCACGGTTCTAAAGGAAA
* * *
235946 TAGGTTGCGACTTATAATGTCAACTTGTGTATTAATAG-ATAGATTGCACCCAAAGTGTCATGGC
65 TAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGC
* * * * * * ***
236010 CCCAAAGAAAGCAAGTTGTAATATGGACTATTAACATTTTAAAAAATAAAAGCGATTGTGCCTAA
130 CCCAAAGAAAGC-A-CTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTAA
* ** * * * *
236075 AGTATTTTGAAAGTTTTAGTCGATGGAGCCTTGGCGTTCCACATGGCAATTAAATAGGTTAAGAA
193 AGTATTATGAAAGTTTTAG-CGATGGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAGAG
* * * * *
236140 CACAAAGTATTACGATTAAGCAAAACAGAAACGATTGCGCCCC---ATA--ATA--TC-------
257 CACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACAGTTCTAAAGGA
* *
236191 -AT-GGTTGCGACTTGTAATGTCAACTTGTGTACTAATAGAATAGATTGCACCCA-A-TTTCATG
322 AATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCATG
* * * *
236252 TCCCCCAAAGAAAGCACGTTGCAATATGAAATATTATCATTTTAAAAAATAAAAGCGATTGAACG
387 GCCCCCAAAGAAAGCACGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACT
* * ** *
236317 TAAAGTATTATGCAAGTTTTAGTCGATGGAGCCTTGGCGTTCTGCACGACAAACAAATAGGTTAA
452 TAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAA
236382 GAGCAC
517 GAGCAC
** *
236388 AAAGTATTACGATTAGGCAAAATAGAAACGGTTACGCCCCAAAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGTGCCCCAGAATATCACGGTTCTAAAGGAAAT
* *
236453 ATGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATTGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCA-TGGC
* * * * *
236518 CCCAGAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAA
130 CCCAAAGAAAGCAC--TGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTAA
* * * * *
236583 AGTATTATGAAAGTTTTAGTTGATGGAGCCTTGGCGTTCTGCACAACAAACAAATAGGTTAAGAG
193 AGTATTATGAAAGTTTTAG-CGATGGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAGAG
* * *
236648 CACAAAGTATTACGATTAGGAAAAATAGAAACGGTTACGCCCCAAAATATCACAGTTCTAAAGGG
257 CACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACAGTTCTAAAGGA
** * *
236713 AATAGGTTATGACTTGTAATGTCAACTTGTGTATTATTAGAATAGATTGCTCCCAGAGTGTCATG
322 AATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCATG
* * * * * * *
236778 GCCCCTAAGGTAAGCACGTTGCAATATGTAATATTATCATTTTTAAAAATAAAAGCAATTGCAAT
387 GCCCCCAAAGAAAGCACGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACT
* * * * * *
236843 TAAAGAATTATGAAAGTTGTAGTCGATGAAGCCTTGGCGTTCCCCACAAAAATCAAATAGGTTAA
452 TAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAA
*
236908 TAGCAC
517 GAGCAC
* ** *
236914 AAAATATTACGA-TAGGCAAAATAGAAACTATTGTGCCCTAGAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGTGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * *
236978 AGGTTGCAACTCGTAATGTCAACTTGTGTATTAATTG-ATAGATTGCGCTCAGAGTATCATGGGC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCAT-GGC
* *
237042 CCCAAAGAAAGTGCACTGCAATATGGAATATTATCATTTTAAAAATTAAAAGTGATTGCATCTAA
130 CCCAAAGAAA--GCACTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTAA
* ** *
237107 AGTATTATGAAAGTTTTATCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAA
193 AGTATTATGAAAGTTTTAGC-GATGGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAGAG
* * * * *
237172 CACAAAGTATTACGATTAGGTAAAACAGAAATGGTTGCGCCCCAGAATATCACGGTTCTAAAGAA
257 CACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACAGTTCTAAAGGA
* * * *
237237 AATAGGTTACGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCAAAGTGTCATG
322 AATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCATG
* * * *
237302 GCCCACAAAGAAA-CACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATT--ACG
387 GCCCCCAAAGAAAGCACGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCAC-
* ** * * * * *
237364 TGTAAAGTATTATGAAAGTTTTCGTTGATGGACCCTTGGCATTCCACACAACAAACAAATAGGTT
451 T-TAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTT
237429 AAGAGCAC
515 AAGAGCAC
* * * * * *
237437 AAAGTATTATGATTAGGCAAAATAGAAACGGTTATGCCCCATAATATCACGATCCTAAA-AAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGTGCCCCAGAATATCACGGTTCTAAAGGAAAT
** * * * * * * *
237501 AGGTTTTGATTTGTAATGTCAACCTATGTATTATTAGAATAGGTTGCTCCAAGAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * * * **
237566 TCTC-AGGAAAGCTCATTGCAATATGAAATATTATAATTTTAAAAAATAAAAGCAATTGCAAT-T
131 -C-CAAAGAAAG--CACTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGC-ATCT
* ** *
237629 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCATTCCCCATGACAATCAAATAGGTTAAG
191 AAAGTATTATGAAAGTTTTAG-CGATGGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAG
* * * * **
237694 AGCACAAATTATTACGATTAGGAAAAATAGAAACGGTTGCACCCCAAAATGTCATGGTTCTAAAG
255 AGCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACAGTTCTAAAG
* * **
237759 GAAATAAGTTGCGAATTG-AACTGTCAACTTGTGTATTAATAG-ATAGATTGTGCCCAGAGTGTC
320 GAAATAGGTTGCGACTTGTAA-TGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTC
* * * *
237822 ATGG-CCCCAAAGAAATCGCATTGCAATATGGAATATTATCATTTT-AAAAATAAAAGTGATTGC
384 ATGGCCCCCAAAGAAAGCACGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGC
* * *
237885 ACTAAAAGTATTATGAAAGTTATAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGGT
449 ACTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGT
*
237950 TAAGAACAC
514 TAAGAGCAC
* * *
237959 AAAGTATTACGATTAGGTAAAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGTGCCCCAGAATATCACGGTTCTAAAGGAAAT
* *
238024 AGGTTGCGACTTGTAATGTCAACTTATGTATTAATAGAATAGATTGCGTCCAGAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGG-C
* * * * *
238089 CCCAAAGAAACCACGTTACAATATGGAATATTATCATTTTAAAAAATAAAAGCT-ATTGTATGTA
130 CCCAAAGAAAGCAC--TGCAATCTGGAATATTATCATTTTAAAAAATAAAAG-TGATTGCATCTA
* * * *
238153 AAGTATTATGAAAGTTTTAGC-AGTCAGAGCC-TGGTGTTTCGTACGACAATCAAATAGTTTAAG
192 AAGTATTATGAAAGTTTTAGCGA-T-GGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAG
* * * * * ** *
238216 AG-ATAAAAGTATTACGATTA-GACAAAATAGAAGCGATTGTGCTCCAGAATATCAGGGATCT-A
255 AGCA-CAAAGTATTACGATTAGGA-AAAATAGAAACGGTTGCGCCCCAGAATATCACAGTTCTAA
* * * * *
238278 AGGAAGTAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTATAATTA-ATTGCTCCCAGAGTG
318 AGGAAATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAA-TAGATTGCACCCAGAGTG
* *** *
238342 TCATGGACTTTAAAGAAAGCATGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATT
382 TCATGGCCCCCAAAGAAAGCACGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATT
* *
238407 GCAATTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAG
447 GCACTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAG
*
238472 GTTAAGGGCAC
512 GTTAAGAGCAC
** ** ** * *
238483 AAAGTATTACGATTAGGC---A-AGAAATTGTTGCACTTCAGAACATAACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGTGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * *
238544 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAG-ATAGATTGCTCCCAAAGTGTCATGCCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATG--G
* **
238608 CCCCAAAGAAAGCGCATTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCGCCTA
129 CCCCAAAGAAA--GCACTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTA
* * * * *
238673 AAGTATTATGAAAGTTTTAGTCGATGGAGACTTGGCGTTTCGTAGGACAATAAAATAAGTTAAGA
192 AAGTATTATGAAAGTTTTAG-CGATGGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAGA
* *** * * * * *
238738 GCACAAAGTATTATGATTATTTAAACTAGAAACGGTTACGCCGCAGAATATCACGGTTTTAAAGG
256 GCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACAGTTCTAAAGG
* * *
238803 AAATAGGTTACGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCACCCATAGTGTCAT
321 AAATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCAT
* * * * * *
238868 GGCCCCCAAAGAAAGCATGTTGCAATCTAGTATATTATCATTTTAAAAAATAAAAGCTATTGTAC
386 GGCCCCCAAAGAAAGCACGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCAC
* * * * * *
238933 GTGAAGTATTATGAAAGTTTTCA-CCGGTGGAGCCTTGGCATTCCCTACGAAAATCAAATAGGTT
451 TTAAAGTATTATGAAAGTTTT-AGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTT
238997 AAGAGCAC
515 AAGAGCAC
* * *
239005 AAA-TATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAAAATATCACGTTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGTGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * * * * * *
239069 AGGTTGCGACTTGTAATTTCTACTTGTGTATTAACATAATCGATTTCACCTAGAGTGTCATTGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* *
239134 CCAAAGAAAGCA-TGTTACAATCTGAAATATT-TACATTTTAAAAAATAAAAATGATTGCATCTA
131 CCAAAGAAAGCACTG---CAATCTGGAATATTAT-CATTTTAAAAAATAAAAGTGATTGCATCTA
* * * * *
239197 AAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGTGTTCCCTATGATAATCAAATAGATTAAGA
192 AAGTATTATGAAAGTTTTAGC-GATGGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAGA
* * * * * * * *
239262 GCACAAAGCATTACGATTAGGCAAAATAAAAACGATTGCGCCCCAAAATATAACAGTTCTCAATG
256 GCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACAGTTCTAAAGG
* * * *
239327 AAATAGGTTGCGACTTGTAATTTCAACTTGTGTATTAATAGAATAGATTGCGCTCAGAATGTCAT
321 AAATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCAT
* *
239392 GGCCCCCAAAGAAAGCACATTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGCGATTGCAC
386 GGCCCCCAAAGAAAGCACGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCAC
* ** *
239457 GTAAAGTATTATGAAAGTTTTAGTTGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTTA
451 TTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTA
239522 AGAGCAC
516 AGAGCAC
* * *
239529 AAAATATTACGATTAGGCAAAATAGACACGGTTGTGCCCCATAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGTGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * *
239594 AGGTTGAGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAAAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGG-C
* * ** * * * * *
239659 CCCAAAGAAAGAATGTTGCAATCTATAATATTATCATTTTAAAATAGAAAAGAGATTGCGTGTAA
130 CCCAAAGAAAGCA--CTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTAA
* * * *
239724 AGTATTATGAAAGTTTTAACCGATGGAGCCTTGGCGTTTCATACGATAATCAAATAGGTTAAGAG
193 AGTATTATGAAAGTTTT-AGCGATGGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAGAG
* * * * * * *
239789 CAAAAAGTATTACAATTA-AACAAAATAGAAGCGGTTGCACTCCAGAATATCACAGTTCTAAAGA
257 CACAAAGTATTACGATTAGGA-AAAATAGAAACGGTTGCGCCCCAGAATATCACAGTTCTAAAGG
* * * * *
239853 AAATAGGTTGTGACTTGTATTGTCAACTTGTGTATTAATAGAATAGATTGAACCAAGAGTTTCAT
321 AAATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCAT
* * * * * * * **
239918 GGCCCCTAAGGAAAGCAAC-TTGCAATTTAGAATACTATCATTTTAAAATATAAAAGCAATTGTG
386 GGCCCCCAAAGAAAGC-ACGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCA
* * *
239982 CTTAAAGTTTTATGAAAGTTTTAGCCGATAGAGCCTTGGCGTTCCCCACAACAATCAAATAGGTT
450 CTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTT
240047 AAGAGCAC
515 AAGAGCAC
* * *
240055 AAAGTATTACGATTAGGCAAAATAGAAACTGTTGCGCCCCAGAATATCACAGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGTGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * *
240120 AGGTTTCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGTGCCCAAAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* *
240185 CCTAAAGAAAGCACGTTGCAATCTAGAATATTTATCATTTTAAAAAATAAAA-TCGATTGCATGT
131 CC-AAAGAAAGCAC--TGCAATCTGGAATA-TTATCATTTTAAAAAATAAAAGT-GATTGCATCT
* * * *
240249 AAAATATTATGAAAGTTTTAGCCATCGGAGCCTTGGTGTTCCGTACGACAATCAAATAGTTTAAG
191 AAAGTATTATGAAAGTTTTAGCGAT-GGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAG
* * * * * * *
240314 AGCACAAAGTAATACAATTA-GACAAATAGAAGCAGTTGCGCTCCAGGATATCAC-GATTCTAAA
255 AGCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACAG-TTCTAAA
* *
240377 GGAAATAAGTTGTGACTTGT
319 GGAAATAGGTTGCGACTTGT
240397 TCTCTTTAAA
Statistics
Matches: 3805, Mismatches: 593, Indels: 229
0.82 0.13 0.05
Matches are distributed among these distances:
504 4 0.00
505 15 0.00
506 152 0.04
507 21 0.01
508 152 0.04
509 10 0.00
510 2 0.00
511 7 0.00
512 4 0.00
513 12 0.00
514 14 0.00
515 8 0.00
517 3 0.00
519 22 0.01
520 315 0.08
521 223 0.06
522 419 0.11
523 370 0.10
524 1001 0.26
525 265 0.07
526 680 0.18
527 104 0.03
529 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (522 bp):
AAAGTATTACGATTAGGCAAAATAGAAACGGTTGTGCCCCAGAATATCACGGTTCTAAAGGAAAT
AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
CCAAAGAAAGCACTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTAAAGT
ATTATGAAAGTTTTAGCGATGGAGCCTTGGCGTTCCGTACGACAATCAAATAGGTTAAGAGCACA
AAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACAGTTCTAAAGGAAATA
GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCATGGCCC
CCAAAGAAAGCACGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACTTAAA
GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
AC
Found at i:240720 original size:76 final size:76
Alignment explanation
Indices: 240612--240755 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
240602 TGCGGGCATG
* * * * *
240612 GAAATAACTCCACCCAAGTTAGTCAAGACACCCCATAAA-CGTTGAGCATCCTCAGCAAGGAACG
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCA-AAAGCATTGAGAATCCTCAGCAAGGAACG
240676 CATAGGGGCTTC
65 CATAGGGGCTTC
* * **
240688 GAAACAACTCCGCCCAAATTAATCAAGACACCCTAAAAGCATTGAGAATCCTCCTCAAGGAACGC
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
240753 ATA
66 ATA
240756 AGGTCTTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 3 0.05
76 55 0.95
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (76 bp):
GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
ATAGGGGCTTC
Found at i:241848 original size:11 final size:11
Alignment explanation
Indices: 241832--241858 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
241822 GATTGCGCCT
241832 AAAGTATTATG
1 AAAGTATTATG
241843 AAAGTATTATG
1 AAAGTATTATG
241854 AAAGT
1 AAAGT
241859 TTTAGCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (11 bp):
AAAGTATTATG
Found at i:242366 original size:2 final size:2
Alignment explanation
Indices: 242359--242383 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
242349 ACTAAAGAAA
242359 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
242384 AAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:242710 original size:23 final size:23
Alignment explanation
Indices: 242684--242731 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
242674 ATAAAGTACA
*
242684 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
242707 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
242730 AT
1 AT
242732 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:243482 original size:18 final size:18
Alignment explanation
Indices: 243459--243495 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
243449 CGAAATATAT
243459 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
243477 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
243495 A
1 A
243496 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:243725 original size:23 final size:23
Alignment explanation
Indices: 243699--243757 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
243689 ATGCGAGATA
243699 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
243722 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
*
243745 GCTACCTATTACA
1 GATACCTATTACA
243758 ATAGAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:245189 original size:21 final size:21
Alignment explanation
Indices: 245163--245202 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
245153 TATTTTCAGA
245163 GGATAT-TTAGCTTATATTTTC
1 GGATATGTTA-CTTATATTTTC
*
245184 GGATATGTTATTTATATTT
1 GGATATGTTACTTATATTT
245203 AATCGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (21 bp):
GGATATGTTACTTATATTTTC
Found at i:245393 original size:20 final size:19
Alignment explanation
Indices: 245347--245393 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
245337 TCCGGTATCA
*
245347 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
245366 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
245387 TTTTACC
1 TTTTACC
245394 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:245541 original size:20 final size:20
Alignment explanation
Indices: 245515--245560 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
245505 CACTTTTAAA
245515 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
245534 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
245555 TTTACC
1 TTTACC
245561 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:246886 original size:3 final size:3
Alignment explanation
Indices: 246868--246941 Score: 79
Period size: 3 Copynumber: 25.7 Consensus size: 3
246858 ATCCTACAAA
246868 AAT AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
246912 ACA- AAT AAAT AAT -AT AAT -AT AAT -AT AAT AA
1 A-AT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AA
246942 AATGTTTTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 16
0.80 0.00 0.20
Matches are distributed among these distances:
2 10 0.16
3 47 0.75
4 6 0.10
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:247553 original size:84 final size:83
Alignment explanation
Indices: 247303--247596 Score: 297
Period size: 84 Copynumber: 3.5 Consensus size: 83
247293 TTGAAGGTCT
* * * * * * *
247303 TTGGCAGATAACTCTTCTTGCATTGAGCTATGCTGGAAATGATGGTGCCTTTGAGCTGAGTGGAG
1 TTGGCAAATAAC-CTTCTTGCCTTGAGCTATGTTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAG
247368 TCGAACTCGAAGGTC-TTTG
64 TCGAACTCGAAGGTCTTTTG
* * * * * *
247387 TTGACAGATAAACCTTCTAGCCTTGAG-TAATGCTT-TAAATGATGTGCCTTGGAGCTAAGCATA
1 TTGGCAAAT-AACCTTCTTGCCTTGAGCT-ATG-TTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* *
247450 GTTGAACTTGAAGGTCTTTTG
63 GTCGAACTCGAAGGTCTTTTG
* *
247471 TTGGCAAACAACCCTTCTTTCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAAATAA-CCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
247536 CGAACTCGAAGGTCTTTTG
65 CGAACTCGAAGGTCTTTTG
* * * * * *
247555 CTAGAAAATAGAACTTCTTACCTTGAGCTATATTGCAAATGA
1 TTGGCAAATA-ACCTTCTTGCCTTGAGCTATGTTGCAAATGA
247597 ACATGATATC
Statistics
Matches: 173, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
83 34 0.20
84 133 0.77
85 6 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (83 bp):
TTGGCAAATAACCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTTG
Found at i:247822 original size:124 final size:124
Alignment explanation
Indices: 247660--247890 Score: 376
Period size: 124 Copynumber: 1.9 Consensus size: 124
247650 GGCACGATAT
** *
247660 CCTTCGTCGTGAAGTTGAAATTGTGGAGGGACCCTTCGTTGTGAAGTTGAGCCTTAAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCCTTCGTTGTGAAGTTGAGCCTTAAATTGGATA
*
247725 TCCTTC-TTCGTGAAGTTGAAATCCAGTCTAAAGATGAATGTTACTGGTGAGGACGATTC
66 TCCTTCGTT-GTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGAGGACGATTC
* *
247784 CCTTCGTCGTGAAGTTGAAACAGTGAATGG-CCCATTCGTTGTGAAGTTGAGCCTTGAATTGGAT
1 CCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCC-TTCGTTGTGAAGTTGAGCCTTAAATTGGAT
247848 ATCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
65 ATCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
247891 GCTTCGAGTC
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
123 3 0.03
124 94 0.95
125 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (124 bp):
CCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCCTTCGTTGTGAAGTTGAGCCTTAAATTGGATA
TCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGAGGACGATTC
Found at i:248219 original size:240 final size:245
Alignment explanation
Indices: 247784--248302 Score: 717
Period size: 240 Copynumber: 2.1 Consensus size: 245
247774 AGGACGATTC
* * *
247784 CCTTCGTCGTGAAGTTGAAACAGTGAATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAATC-GTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* * * * *
247849 TCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTTCGAGTCCAATATCCTTCGC
65 TCCTTCGTAGTAAAGTTGAAATCCAAGCT----AT-AATGTTACTTCGAGTCCAATATCCTTCAC
247914 CGTGAAGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAA
125 CGTGAAGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAA
* * *
247979 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATC-TA-G-AG-TTGGCACGATAT
190 TTGGATATCATTCATCATGAAGTTGAAATCCAATCTTATGTAGATGGGCACGATAT
* * *
248031 CCTTCGTCGTGAAGTTGAGATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGACTTTAATA
1 CCTTCGTCGTGAAGTTGA-ATCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* *
248096 TCCTTCGTAGTAAAGTTGAAATCCAAGCT-T-TTGTTATTTCGAGTCCAATATCCTTCACCGTGA
65 TCCTTCGTAGTAAAGTTGAAATCCAAGCTATAATGTTACTTCGAGTCCAATATCCTTCACCGTGA
* * * *
248159 AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTGGGTTTTGAATTGGA
130 AGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAATTGGA
*
248224 TATCATTCGTCATGAAGTTGAAATCCAATCTTATGTAGATGGGCACGATAT
195 TATCATTCATCATGAAGTTGAAATCCAATCTTATGTAGATGGGCACGATAT
* *
248275 CCTTTGTCGTGAAGTTGAAATCATGGAT
1 CCTTCGTCGTGAAGTTG-AATCGTGGAT
248303 TTGTGGGCAC
Statistics
Matches: 243, Mismatches: 23, Indels: 15
0.86 0.08 0.05
Matches are distributed among these distances:
240 117 0.48
241 2 0.01
242 2 0.01
243 2 0.01
244 35 0.14
245 1 0.00
247 82 0.34
248 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (245 bp):
CCTTCGTCGTGAAGTTGAATCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATAT
CCTTCGTAGTAAAGTTGAAATCCAAGCTATAATGTTACTTCGAGTCCAATATCCTTCACCGTGAA
GTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAATTGGAT
ATCATTCATCATGAAGTTGAAATCCAATCTTATGTAGATGGGCACGATAT
Found at i:248327 original size:43 final size:43
Alignment explanation
Indices: 248263--248345 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
248253 CTTATGTAGA
**
248263 TGGGCACGATATCCTTTGTCGTGAAGTTGAAATCATGGATTTG
1 TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGATTTG
* *
248306 TGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1 TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGAT
248346 GGCCCCTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGATTTG
Found at i:250987 original size:12 final size:12
Alignment explanation
Indices: 250970--251020 Score: 59
Period size: 12 Copynumber: 4.0 Consensus size: 12
250960 GGTCCTATAA
250970 AAATAATAAAAT
1 AAATAATAAAAT
250982 AAATAATAATAAT
1 AAATAATAA-AAT
250995 -AATAATAATAAAT
1 AAATAAT-A-AAAT
251008 AAATGAATAAAAT
1 AAAT-AATAAAAT
251021 GTTTTGTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 15 0.44
13 11 0.32
14 5 0.15
15 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:250989 original size:3 final size:3
Alignment explanation
Indices: 250966--251005 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
250956 TGTGGGTCCT
*
250966 ATA AAA ATA ATA A-A ATAA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
251006 ATAAATGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:252769 original size:19 final size:18
Alignment explanation
Indices: 252721--252786 Score: 91
Period size: 17 Copynumber: 3.7 Consensus size: 18
252711 GAAAGTCAAC
252721 GGTCA-ACGGTCGGGTCG
1 GGTCAGACGGTCGGGTCG
252738 GGTCA-ACGGTCGGGTCG
1 GGTCAGACGGTCGGGTCG
*
252755 GGTCAGTAGGGTCGGGTCG
1 GGTCAG-ACGGTCGGGTCG
252774 GGTCAGACCGGTC
1 GGTCAGA-CGGTC
252787 AAAACCGATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 22 0.50
18 1 0.02
19 21 0.48
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.18
Consensus pattern (18 bp):
GGTCAGACGGTCGGGTCG
Found at i:252816 original size:11 final size:11
Alignment explanation
Indices: 252787--252817 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
252777 CAGACCGGTC
*
252787 AAAACCGATTG
1 AAAACCGGTTG
252798 AAAACCGGTTG
1 AAAACCGGTTG
252809 AAAACCGGT
1 AAAACCGGT
252818 CAAACCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (11 bp):
AAAACCGGTTG
Found at i:259491 original size:5 final size:5
Alignment explanation
Indices: 259481--259535 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
259471 AACGGTCAAC
* * *
259481 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTC- AGTAG GGTCG GGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
259532 GGTC
1 GGTC
259536 AGACCGGTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
4 2 0.05
5 35 0.85
7 4 0.10
ACGTcount: A:0.07, C:0.20, G:0.53, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:259494 original size:17 final size:17
Alignment explanation
Indices: 259474--259511 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
259464 GAAAGTCAAC
259474 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
259491 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
259508 GGTC
1 GGTC
259512 GGGTCAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:259526 original size:19 final size:19
Alignment explanation
Indices: 259481--259537 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 19
259471 AACGGTCAAC
*
259481 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTC-A--GTAG
259503 GGTCGGGTCGGGTCAGTAG
1 GGTCGGGTCGGGTCAGTAG
259522 GGTCGGGTCGGGTCAG
1 GGTCGGGTCGGGTCAG
259538 ACCGGTCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 19 0.56
21 1 0.03
22 14 0.41
ACGTcount: A:0.09, C:0.19, G:0.53, T:0.19
Consensus pattern (19 bp):
GGTCGGGTCGGGTCAGTAG
Found at i:259544 original size:19 final size:19
Alignment explanation
Indices: 259480--259544 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
259470 CAACGGTCAA
259480 CGGTCGGGTCGGGTCA-AC
1 CGGTCGGGTCGGGTCAGAC
259498 GGTCGGGTCGGGTCGGGTCAGTA-
1 ---C-GGTCGGGTCGGGTCAG-AC
*
259521 GGGTCGGGTCGGGTCAGAC
1 CGGTCGGGTCGGGTCAGAC
259540 CGGTC
1 CGGTC
259545 AAACCGGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 1 0.03
19 20 0.53
21 1 0.03
22 15 0.39
24 1 0.03
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.18
Consensus pattern (19 bp):
CGGTCGGGTCGGGTCAGAC
Found at i:260799 original size:84 final size:84
Alignment explanation
Indices: 260530--260837 Score: 349
Period size: 84 Copynumber: 3.7 Consensus size: 84
260520 GAATGAAATA
* * * *
260530 GAACTCGAAGGTC---T-TTGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATAATGGTG
1 GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGAT-GTG
* * * *
260591 TCTTTGAGCTGAGTGGAGTC
65 CCTTGGAGCTGAGCGTAGTC
** * * * * * *
260611 GAACTCGAAGGTC-TTTGTTAACAGATAAACCTTCTAGCCTTGAGTTATGCTT-TAAATGATGTA
1 GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATG-TTGCAAATGATGTG
260674 CCTTGGAGCTGAGCGTAGTC
65 CCTTGGAGCTGAGCGTAGTC
260694 GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGC
1 GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGC
260759 CTTGGAGCTGAGCGTAGTC
66 CTTGGAGCTGAGCGTAGTC
* * * * ** *
260778 GAATTCGAAGGTCTTTTGTTGGAAAATATCACTTCTTTTCTTGAGCTATTTTGCAAATGA
1 GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGA
260838 ACACAATATC
Statistics
Matches: 192, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
81 13 0.07
83 34 0.18
84 144 0.75
85 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (84 bp):
GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGC
CTTGGAGCTGAGCGTAGTC
Found at i:261065 original size:124 final size:124
Alignment explanation
Indices: 260901--261131 Score: 392
Period size: 124 Copynumber: 1.9 Consensus size: 124
260891 GGCTTGATAT
**
260901 CCTTCGTCGTGAAGTTGAAATTGTAGAGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTAGAGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
*
260966 TCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGAGCACGATTC
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGAGCACGATTC
* * *
261025 CCTTTGTCGTGAAGTTGAAACCGT-GAATGGTCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGAT
1 CCTTCGTCGTGAAGTTGAAACCGTAG-AGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGAT
261089 ATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
65 ATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
261132 GCTTCGAGTC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
123 1 0.01
124 99 0.99
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (124 bp):
CCTTCGTCGTGAAGTTGAAACCGTAGAGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGAGCACGATTC
Found at i:261069 original size:32 final size:34
Alignment explanation
Indices: 261023--261110 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 34
261013 TGAGCACGAT
*
261023 TCCCTTTGTCGTGAAGTTGAAACCGTGAA-TGG-
1 TCCCTTCGTCGTGAAGTTGAAACCGTGAATTGGA
* * *
261055 TCCCTTCGTTGTGAAGTTG-AGCCTTGAATTGGA
1 TCCCTTCGTCGTGAAGTTGAAACCGTGAATTGGA
*
261088 TATCCTTCGTCGTGAAGTTGAAA
1 T-CCCTTCGTCGTGAAGTTGAAA
261111 TCCAATCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
31 7 0.16
32 20 0.44
33 1 0.02
34 16 0.36
35 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (34 bp):
TCCCTTCGTCGTGAAGTTGAAACCGTGAATTGGA
Found at i:261460 original size:240 final size:242
Alignment explanation
Indices: 261025--261493 Score: 710
Period size: 240 Copynumber: 1.9 Consensus size: 242
261015 AGCACGATTC
* * *
261025 CCTTTGTCGTGAAGTTGAAACCGTGAATGGTCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGAATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* * *
261090 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTTCGAGTCCAATATCCTTCGC
66 TCCTTCGTCCTGAAGTTGAAATCCAAGCT----AT-AATATTGCTTCGAGTCCAATATCCTTCGC
* *
261155 CGTGAAGTTGAAATTGGCTCTGAATGAAACTGTGAAGCCCCTTGGCCTTGAAGTTGAGCTTTGAA
126 CGTGAAGTTGAAATTGGCTCTGAATGAAACTGTGAAGCCCCTTCGCCGTGAAGTTGAGCTTTGAA
*
261220 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATATAGAGTTAGTACTATAT
191 TTGGATATCATTCATCGTGAAGTTGAAATCCAATATAGAGTTAGTACTATAT
* * * *
261272 CCTTCGTCGTGAAGTTGAGATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGACTTGAATA
1 CCTTCGTCGTGAAGTTGAAACCGTGAATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* *
261337 TCCTTCGTCCTGAAGTTGAAATCCAAGCT-T-TTATTGTTTCGAGTCCAATATCCTTCGCCGTGA
66 TCCTTCGTCCTGAAGTTGAAATCCAAGCTATAATATTGCTTCGAGTCCAATATCCTTCGCCGTGA
* *
261400 AGTTGAAATTGGCTCTGAATGAAACTAG-GAAGCCCCTTCGCCGTGAAGTTGGGCTTTGAATTTG
131 AGTTGAAATTGGCTCTGAATGAAACT-GTGAAGCCCCTTCGCCGTGAAGTTGAGCTTTGAATTGG
261464 ATATCATTCATCGTGAAGTTGAAATCCAAT
195 ATATCATTCATCGTGAAGTTGAAATCCAAT
261494 CTTGTGTAGA
Statistics
Matches: 204, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
240 117 0.57
241 1 0.00
242 1 0.00
247 85 0.42
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (242 bp):
CCTTCGTCGTGAAGTTGAAACCGTGAATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGAATA
TCCTTCGTCCTGAAGTTGAAATCCAAGCTATAATATTGCTTCGAGTCCAATATCCTTCGCCGTGA
AGTTGAAATTGGCTCTGAATGAAACTGTGAAGCCCCTTCGCCGTGAAGTTGAGCTTTGAATTGGA
TATCATTCATCGTGAAGTTGAAATCCAATATAGAGTTAGTACTATAT
Found at i:261586 original size:43 final size:44
Alignment explanation
Indices: 261504--261587 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
261494 CTTGTGTAGA
** *
261504 TGGGCACGATATCCTTCTTTCGTGAAGTTGAAATCATGGATTTG
1 TGGGCACGATATCCTTCCATCGTGAAGCTGAAATCATGGATTTG
* *
261548 TGGGCACGATATCC-TCCATCGTGGAGCTGAAATTATGGAT
1 TGGGCACGATATCCTTCCATCGTGAAGCTGAAATCATGGAT
261588 GGCCCCTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 21 0.60
44 14 0.40
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
TGGGCACGATATCCTTCCATCGTGAAGCTGAAATCATGGATTTG
Found at i:262330 original size:44 final size:44
Alignment explanation
Indices: 262267--262357 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
262257 AAGATATAAA
262267 AATGCAAGAATTCTGTAAAACATTGCCACTTAATTCAGGCTCGC
1 AATGCAAGAATTCTGTAAAACATTGCCACTTAATTCAGGCTCGC
* *
262311 AATGCAAGAATTCTGTAAAACATTGCCTCTTAATTCTGGCTCGC
1 AATGCAAGAATTCTGTAAAACATTGCCACTTAATTCAGGCTCGC
262355 AAT
1 AAT
262358 CGAATCGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (44 bp):
AATGCAAGAATTCTGTAAAACATTGCCACTTAATTCAGGCTCGC
Found at i:264351 original size:21 final size:21
Alignment explanation
Indices: 264325--264375 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
264315 CTCCAGGTCA
* *
264325 GCAACCTTTTCATCTGCCTCT
1 GCAACCTTTTCATCTACCCCT
264346 GCAACCTTTTCATCTACCCCT
1 GCAACCTTTTCATCTACCCCT
264367 GCAA-CTTTT
1 GCAACCTTTT
264376 GGCTAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.18, C:0.37, G:0.08, T:0.37
Consensus pattern (21 bp):
GCAACCTTTTCATCTACCCCT
Found at i:265768 original size:2 final size:2
Alignment explanation
Indices: 265761--265807 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
265751 AACTAAAGAA
265761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
265803 AT AT A
1 AT AT A
265808 ATGATAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:265860 original size:2 final size:2
Alignment explanation
Indices: 265844--265878 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
265834 TAAAAAGGGA
*
265844 AT AT AG AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
265879 GAACCGGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:266727 original size:11 final size:11
Alignment explanation
Indices: 266711--266737 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
266701 GGGACTGTAA
266711 AAATAATAAAT
1 AAATAATAAAT
266722 AAATAATAAAT
1 AAATAATAAAT
266733 AAATA
1 AAATA
266738 TAATAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:267751 original size:12 final size:12
Alignment explanation
Indices: 267736--267766 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
267726 ATTATTTAAA
267736 CGGGTATCAGGC
1 CGGGTATCAGGC
*
267748 CGGGTATCGGGC
1 CGGGTATCAGGC
267760 CGGGTAT
1 CGGGTAT
267767 ATATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.19
Consensus pattern (12 bp):
CGGGTATCAGGC
Found at i:267905 original size:13 final size:12
Alignment explanation
Indices: 267874--267905 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
267864 TTTTAATATT
267874 TATCGGGTCGGG
1 TATCGGGTCGGG
267886 TATCGGGTCGGG
1 TATCGGGTCGGG
267898 TAATCGGG
1 T-ATCGGG
267906 GCAGGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.12, C:0.16, G:0.47, T:0.25
Consensus pattern (12 bp):
TATCGGGTCGGG
Found at i:268001 original size:36 final size:37
Alignment explanation
Indices: 267924--268003 Score: 119
Period size: 36 Copynumber: 2.2 Consensus size: 37
267914 TTCCAAACTC
*
267924 GTCCCCGTCCCCGTTTAGCATAAACGGTTTTTCCCCA
1 GTCCCCGTCCCCGTTTAGCATAAACAGTTTTTCCCCA
* *
267961 -TCCCCGTCCTCGTTTAGCATAAACAGTTTTT-CTCA
1 GTCCCCGTCCCCGTTTAGCATAAACAGTTTTTCCCCA
267996 GTCCCCGT
1 GTCCCCGT
268004 TTAATTCGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
35 3 0.08
36 36 0.92
ACGTcount: A:0.16, C:0.36, G:0.15, T:0.33
Consensus pattern (37 bp):
GTCCCCGTCCCCGTTTAGCATAAACAGTTTTTCCCCA
Found at i:269226 original size:76 final size:76
Alignment explanation
Indices: 269120--269263 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
269110 TGCGGGCATG
* * * * *
269120 GAAATAACTCCACCCAAGTTAGTCAAGACACCCCATAAA-CGTTGAGCATCCTCAGCAAGGAACG
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCA-AAAGCATTGAGAATCCTCAGCAAGGAACG
269184 CATAGGGGCTTC
65 CATAGGGGCTTC
* * **
269196 GAAACAACTCCGCCCAAATTAATCAAGACACCCTAAAAGCATTGAGAATCCTCCTCAAGGAACGC
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
269261 ATA
66 ATA
269264 AGGTCTTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 3 0.05
76 55 0.95
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (76 bp):
GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
ATAGGGGCTTC
Found at i:271013 original size:22 final size:19
Alignment explanation
Indices: 270981--271027 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
270971 AATAATGTTA
* *
270981 TATTATATTTAAAATATTAAT
1 TATTAAATTTTAAATATT--T
271002 TATTAAATTTTAAATATTT
1 TATTAAATTTTAAATATTT
271021 TATTAAA
1 TATTAAA
271028 AATATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTAAATTTTAAATATTT
Found at i:271239 original size:21 final size:22
Alignment explanation
Indices: 271206--271282 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
271196 TTGATTACTT
271206 TATTATAATATTAAAAATA-TAA
1 TATTAT-ATATTAAAAATATTAA
*
271228 TATTATATATTAGAAATATTAA
1 TATTATATATTAAAAATATTAA
* *
271250 TA-TATATATATAAATATTTTAA
1 TATTATATAT-TAAAAATATTAA
271272 TAATTA-ATATT
1 T-ATTATATATT
271283 TTGATTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
21 18 0.38
22 22 0.47
23 5 0.11
24 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (22 bp):
TATTATATATTAAAAATATTAA
Found at i:271273 original size:22 final size:22
Alignment explanation
Indices: 271206--271267 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
271196 TTGATTACTT
*
271206 TATTATAATATTAAAAATA-TAA
1 TATTAT-ATATTAGAAATATTAA
271228 TATTATATATTAGAAATATTAA
1 TATTATATATTAGAAATATTAA
*
271250 TA-TATATA-TATAAATATT
1 TATTATATATTAGAAATATT
271268 TTAATAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.24
21 17 0.46
22 11 0.30
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TATTATATATTAGAAATATTAA
Found at i:272910 original size:647 final size:647
Alignment explanation
Indices: 271563--274789 Score: 5903
Period size: 647 Copynumber: 5.0 Consensus size: 647
271553 ATCACTCAAC
*
271563 GACTCCTACAGTAAATCCAAAAATAAAAAGAAAAATAAAGGAAAATAATATTGTATGAAAAAGAT
1 GACTCCTACAATAAATCCAAAAA-AAAAAGAAAAA-AAAGGAAAATAATATTGTATGAAAAAGAT
*
271628 ACATGGACCCCAGTCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
64 ACATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
* *
271693 GTCATTGAAACATGTGACTAAATTAATCAATCAAATCATCATCGATATTTTGATTTAATCAATCA
129 GTCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCA
* * * *
271758 AATCGTTTAATTATTTAAATATTTCAGGTGACATGATAATTAAAATATTTTGTTATAATTGTACA
194 GATTGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACA
* *
271823 ATTAGTCATTATTACTTATATATTGTTTTAATTTGATCTTAATTTTAATAAACTAAATTAAATTT
259 ATTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTT
* *
271888 AACTCTCGAATCATGTGGTGTCATATGTTATTAGTGATACTATGGTTGAAAAATAAATAAATCAA
324 AACTCTCGAATCATGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAAATAAATAAATCAA
* * *
271953 TGCACACGAGGGTAAGGGGAATCAAACAAAGAACCCTTTGGGTGACATATAAGCACCAAACCATT
389 TGCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATT
* *
272018 AAGTCAATGCAACCATTTCACATAATTTAGACAATAAATAATATATATAATGTATCTTAGTATAT
454 AAGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATAT
272083 AAACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAAAATAAATTTTATTTTTGT
519 AAACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTT--AAATAAATTTTATTTTTGT
*
272148 CTTAATTTATTAAATGTA-TTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACT
582 CTTAACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACT
272212 T
647 T
* * * *
272213 GACTCCTACAGTAAATCCAAAAATAAAAA-AAAATAAAGG-AAATTATATTGTATGAAAAGGATA
1 GACTCCTACAATAAATCCAAAAA-AAAAAGAAAAAAAAGGAAAATAATATTGTATGAAAAAGATA
* *
272276 CATGGACCCCAGTCCACAATTTTCATTCCATCTTAAATACTATAACAATGATTATGTAATTTATG
65 CATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATG
* *
272341 TCATTGAAACATGTGACTAAATTATTCAATCAAACCATCATCGATATTTTGATTTAATCAATCAG
130 TCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAG
* *
272406 ATCGTTTAATTATTTAAATATTTCAGGTGATATGACAATTAAAATATTTTGTTATAATTATACAA
195 ATTGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACAA
272471 TTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTA
260 TTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTA
*
272536 ACTCTCGAATCATGTGATGTCATATGTCATTAGTGACACTATGGTTGAAAAATAAATAAATCAAT
325 ACTCTCGAATCATGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAAATAAATAAATCAAT
*
272601 GCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAATCATTA
390 GCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTA
272666 AGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATA
455 AGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATA
*
272731 AACACTTTACTTAAATTCATAATATTTTATATTATTAATTTTTAAATAAATTTTATTTTTGTCTT
520 AACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAATAAATTTTATTTTTGTCTT
272796 AACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
585 AACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
272859 GACTCCTACAATAAATCCAAAAAAAAAAGAAAAAAAAGGAAAATAATATTGTATGAAAAAGATAC
1 GACTCCTACAATAAATCCAAAAAAAAAAGAAAAAAAAGGAAAATAATATTGTATGAAAAAGATAC
272924 ATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGT
66 ATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGT
272989 CATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGA
131 CATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGA
273054 TTGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACAAT
196 TTGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACAAT
*
273119 TAGTCATTATTATTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAA
261 TAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAA
*
273184 CTCTCGAATCATGTGATGTCATATGTCATTAGTGACACTATGGTTGAAAAATAAATAAATCAATG
326 CTCTCGAATCATGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAAATAAATAAATCAATG
*
273249 CACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAATCATTAA
391 CACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAA
273314 GTCAAGGCAACCATTTCACATAATTTAGACAATAAAT-A-ATATATAATGTATCTTAGTATATAA
456 GTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATAA
273377 ACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAAT-AATTTTA-TTTTGTCTTA
521 ACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAATAAATTTTATTTTTGTCTTA
273440 ACTTATTAAATGTA-TTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
586 ACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
273501 GACTCCTACAATAAATCCAAAAAAAAAAAAGAAAAAAAAGGAAAATAATATTGTATGAAAAAGAT
1 GACTCCTACAATAAATCC--AAAAAAAAAAGAAAAAAAAGGAAAATAATATTGTATGAAAAAGAT
273566 ACATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
64 ACATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTAT
273631 GTCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCA
129 GTCATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCA
273696 GATTGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACA
194 GATTGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACA
* *
273761 ATTAGTCATTATTATTTATATATTGTTTCAATTTGATCTTAATTTTAATAAACTAAATTAAATTT
259 ATTAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTT
*
273826 AACTCTCGAATCGTGTGGTGTCATATGTCATTAGTGACACTATGGTTG-AAAATAAATAAATCAA
324 AACTCTCGAATCATGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAAATAAATAAATCAA
*
273890 TGCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATAT-ATCACCAAACCATT
389 TGCACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATT
273954 AAGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATAT
454 AAGTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATAT
274019 AAACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAATAAATTTTATTTTTGTCT
519 AAACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAATAAATTTTATTTTTGTCT
274084 TAACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
584 TAACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
274148 GACTCCTACAATAAATCC----AAAAAA-AAAAAAAAGGAAAATAATATTGTATG-AAAAGATAC
1 GACTCCTACAATAAATCCAAAAAAAAAAGAAAAAAAAGGAAAATAATATTGTATGAAAAAGATAC
274207 ATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGT
66 ATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGT
274272 CATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGA
131 CATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGA
274337 TTGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACAAT
196 TTGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACAAT
274402 TAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAA
261 TAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAA
*
274467 CTCTCGAATCGTGTGGTGTCATATGTCATTAGTGACACTATGGTTG-AAAATAAATAAATCAATG
326 CTCTCGAATCATGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAAATAAATAAATCAATG
274531 CACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAA
391 CACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAA
274596 GTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATAA
456 GTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATAA
274661 ACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAAAATAAATTTTATTTTTGTCT
521 ACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTT--AAATAAATTTTATTTTTGTCT
274726 TAACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
584 TAACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
274790 ACAAGTATAT
Statistics
Matches: 2521, Mismatches: 43, Indels: 34
0.97 0.02 0.01
Matches are distributed among these distances:
639 379 0.15
640 148 0.06
641 6 0.00
642 201 0.08
643 91 0.04
644 428 0.17
645 118 0.05
646 103 0.04
647 1009 0.40
648 5 0.00
649 4 0.00
650 29 0.01
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (647 bp):
GACTCCTACAATAAATCCAAAAAAAAAAGAAAAAAAAGGAAAATAATATTGTATGAAAAAGATAC
ATGGACCCCAATCCACAATTTTCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGT
CATTAAAACATGTGACTAAATTAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGA
TTGTTTAATTATTTAAATATTTCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACAAT
TAGTCATTATTACTTATATATTGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAA
CTCTCGAATCATGTGGTGTCATATGTCATTAGTGACACTATGGTTGAAAAATAAATAAATCAATG
CACATGAGGGCAAGGGGAATCAAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAA
GTCAAGGCAACCATTTCACATAATTTAGACAATAAATCATATATATAATGTATCTTAGTATATAA
ACACTTTACTTAAATTCATAATATTTTATATTCTTAATTTTTAAATAAATTTTATTTTTGTCTTA
ACTTATTAAATGTATTTTTTTATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
Found at i:274810 original size:29 final size:27
Alignment explanation
Indices: 274770--274887 Score: 76
Period size: 29 Copynumber: 4.1 Consensus size: 27
274760 AAAATATATG
**
274770 TTTTAATCTTATCTTCACTTACAAGTATA
1 TTTTAAT-TTATCTTCACTTA-AAAAATA
*
274799 TTTTAACTTTATCTTCATTTAAAAAATA
1 TTTTAA-TTTATCTTCACTTAAAAAATA
* * *
274827 TTTTATTTTTATCTTAATTTTAAAAATATA
1 TTTTA-ATTTATCTTCA-CTTAAAAA-ATA
* * *
274857 TTTTCTAA-TTATTTTAACTTAAAATATA
1 -TTT-TAATTTATCTTCACTTAAAAAATA
274885 TTT
1 TTT
274888 ATATAGTTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
27 3 0.04
28 22 0.30
29 32 0.43
30 12 0.16
31 3 0.04
32 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (27 bp):
TTTTAATTTATCTTCACTTAAAAAATA
Found at i:274837 original size:28 final size:28
Alignment explanation
Indices: 274770--274860 Score: 85
Period size: 29 Copynumber: 3.1 Consensus size: 28
274760 AAAATATATG
* **
274770 TTTTAA-TCTTATCTTCACTTACAAGTATA
1 TTTTAACT-TTATCTTCATTTA-AAAAATA
274799 TTTTAACTTTATCTTCATTTAAAAAATA
1 TTTTAACTTTATCTTCATTTAAAAAATA
** *
274827 TTTTATTTTTATCTTAATTTTAAAAATATA
1 TTTTAACTTTATCTTCA-TTTAAAAA-ATA
274857 TTTT
1 TTTT
274861 CTAATTATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 19 0.36
29 26 0.49
30 8 0.15
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.55
Consensus pattern (28 bp):
TTTTAACTTTATCTTCATTTAAAAAATA
Found at i:274920 original size:29 final size:29
Alignment explanation
Indices: 274879--275011 Score: 102
Period size: 29 Copynumber: 4.7 Consensus size: 29
274869 TTTAACTTAA
* * *
274879 AATATATTTATATAGTTTATTCTTATTTC
1 AATATAATAATATATTTTATTCTTATTTC
274908 AATATAATAATATATATTT-TGTCCTTATATTC
1 AATATAATAATATAT-TTTAT-T-CTTAT-TTC
* * *
274940 ACT-TAAAAATATATTTTATTCTTATTTT
1 AATATAATAATATATTTTATTCTTATTTC
274968 AA-ATTAA-AGATATATTTTATTCTTATTT-
1 AATA-TAATA-ATATATTTTATTCTTATTTC
274996 --TA-AATAATATATTTTA
1 AATATAATAATATATTTTA
275012 ATTTAAAAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
25 12 0.14
26 1 0.01
27 1 0.01
28 4 0.05
29 40 0.46
30 8 0.09
31 16 0.18
32 5 0.06
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (29 bp):
AATATAATAATATATTTTATTCTTATTTC
Found at i:277171 original size:18 final size:19
Alignment explanation
Indices: 277148--277184 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
277138 TTTCATTGAA
*
277148 AAACCGATAAA-CCGAACC
1 AAACCGAAAAACCCGAACC
277166 AAACCGAAAAACCCGAACC
1 AAACCGAAAAACCCGAACC
277185 GTTAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.51, C:0.35, G:0.11, T:0.03
Consensus pattern (19 bp):
AAACCGAAAAACCCGAACC
Found at i:278454 original size:11 final size:11
Alignment explanation
Indices: 278438--278464 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
278428 TTCATAGCCA
278438 TTTTATGAAAG
1 TTTTATGAAAG
278449 TTTTATGAAAG
1 TTTTATGAAAG
278460 TTTTA
1 TTTTA
278465 GCTGAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (11 bp):
TTTTATGAAAG
Found at i:278722 original size:262 final size:262
Alignment explanation
Indices: 277991--283029 Score: 5240
Period size: 262 Copynumber: 19.3 Consensus size: 262
277981 ATTGAGTTGA
* ** ** *
277991 AAAGTATTACGATTAGGTAAAATAGAAACATTTATGCACCAGAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * *
278056 AGGTTGCGACTTTTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCAGAGTATCATGACC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCC
* * * * * *
278121 CCAAAGAAAACATGTTGCAATCTGAAATATTAACATTTTAAAAAATAAAAGCGATTGCGCCTAAA
131 CCAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTAAA
** * * * *
278186 GTATTATGAGTGTTTTAGCTCAAGGAGCCTTGGCGTTCCCCACTACAATCAAATAGATTAAGAGC
196 GTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
278251 AC
261 AC
* * * * * *
278253 AAAGTATTACGATTAAGCAAAATAGAAATGGTTGCACCCCAGAATATTATGGTTCTCAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
** * * * * ** **
278318 AGGTT-AAAATTAT-ATATC-A-TAT-T-TATCT-A-ACAAT-GA-ACCAAACCAAA-TGT-ATG
66 AGGTTGCGACTTGTAATGTCAACT-TGTGTAT-TAATAGAATAGATTGC-GCCCAAAGTGTCATG
* ** ** * * * * * * * *** * *
278371 ATCTGC-TTGAATGGCTTAGTACTCCTAGAT-G-TTCATTATAATTTAGGTACAATTCCCTTCAT
128 -GCCCCAAAGAA-AGC-AAGT--TGCAATATGGAAT-ATTATCATTT---TA-AA---AAATAAA
* ** * * * * *
278433 AGCCATTTTA--TGAAAGTTTTATGAAAGTTTTAGCTGAAGGAACCTTGACGTTCCACACGACAA
180 AGCGATTGCACCT-AAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAA
*
278496 TCAAATAGATTAAGAGCAC
244 TCAAATAGGTTAAGAGCAC
* * ** * * *
278515 AAAATATTATGATTAGGCAAAATAGAAACGGTTGCTTCCTAGAATATCATGGTTCTCAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
*
278580 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAG-ATAGATTGCACCCAAAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCC
* * * **
278644 CCAAAGAAAGCAAGTTGTAATATGGACTATTAACATTTTAAAAAATAAAAGCGATTGTGCCTAAA
131 CCAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTAAA
* * * * * *
278709 GTGTTTTTGAAAGTTTTAG-TCGATGGAGCCTTGGCGTTCCACATGGCAATTAAATAGGTTAAGA
196 GT-ATTATGAAAGTTTTAGCT-GATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
*
278773 ACAC
259 GCAC
* * *
278777 AAAGTATTACGATTAGGCAAAACAGAAACGATTGCGCCCCA-TA-AT-A----TC--------AT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * *
278827 -GGTTGCGACTTGTAATGTCAACTTGTGTACTAATAGAACAGATTGCACCC-AA-TTTCATGTCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATG--G
* * * *
278889 CCCCAAAGAAAGCACGTTGCAATATGAAATATTATCATTTTAAAAAATAAAAGCGATTGAACGTA
129 CCCCAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTA
* ** *
278954 AAGTATTATGCAAGTTTTAG-TCGATGGAGCCTTGGCGTTCTGCACGACAAACAAATAGGTTAAG
194 AAGTATTATGAAAGTTTTAGCT-GATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
279018 AGCAC
258 AGCAC
* *
279023 AAAGTATTACGATTAGGCAAAATAGAAACGGTTACGCCCCAAAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * *
279088 ATGTTGCGACTTGTAATGCCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATTGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCA-TG-G
* * * * * **
279153 CCCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATTGAATGTA
129 CCCCAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTA
* ** * *
279218 AAGTATTATGAAAGTTTTAGTTGATGGAGCCTTGGCGTTCTGCACAACAAACAAATAGGTTAAGA
194 AAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
279283 GCAC
259 GCAC
* * * * *
279287 AAAGTATTACGATTAGGAAAAATAGAAACGGTTACGCCCCAAAATATCACAGTTCTAAAGGGAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * *
279352 AGGTTGTGACTTGTAATGTCAACTTGTGTATTATTAGAATAGATTGCTCCCAGAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCC
* * * * * * * **
279417 CTAAGGTAAGCACGTTGCAATATGTAATATTATCATTTTTAAAAATAAAAGCAATTGCAATTAAA
131 CCAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTAAA
* * * * * *
279482 GAATTATGAAAGTTGTAG-TCGATGAAGCCTTGGCGTTCCCCACAAAAATCAAATAGGTTAATAG
196 GTATTATGAAAGTTTTAGCT-GATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
279546 CAC
260 CAC
* ** * *
279549 AAAATATTACGA-TAGGCAAAATAGAAACTATTGTGCCCTAGAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * * *
279613 AGGTTGCAACTCGTAATGTCAACTTGTGTATTAATTG-ATAGATTGCGCTCAGAGTATCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGG-C
* *
279677 CCCAAAGAAAGTGC-A-TTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCT
130 CCCAAAGAAA--GCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCT
*
279740 AAAGTATTATGAAAGTTTTATCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
193 AAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
*
279805 AACAC
258 AGCAC
* * * *
279810 AAAGTATTACGATTAGGTAAAACAGAAATGGTTGCGCCCCAGAATATCACGGTTCTAAAGAAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * *
279875 AGGTTACGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGAGCCCAAAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCC
* * * * * ***
279940 CACAAAGAAA-CACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATTACGTGTAA
131 C-CAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTAA
* * * * * * *
280004 AGTATTATGAAAGTTTTCGTTGATGGACCCTTGGCATTCCACACAACAAACAAATAGGTTAAGAG
195 AGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
280069 CAC
260 CAC
* ** * * * *
280072 AAAGTATTATGATTAGGCAAAATAGAAACGGTTATGCCCCATAATATCACGATCCTAAA-AAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * * * *
280136 AGGTTGTGATTTGTAATGTCAACCTATGTATTATTAGAATAGGTTGC-TCCAAGAGTGTCATGGC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAA-AGTGTCATGGC
* ** * * * **
280200 CTCTC-AGGAAAGCTCGTTGCAATATGAAATATTATAATTTTAAAAAATAAAAGCAATTGCAATT
130 C-C-CAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCT
* * *
280264 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCATTCCCCATGACAATCAAATAGGTTAAG
193 AAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
280329 AGCAC
258 AGCAC
* * * * *
280334 AAATTATTACGATTAGGAAAAATAGAAACGGTTGCACCCCAAAATATCATGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * *
280399 AAGTTGCGAATTG-AACTGTCAACTTGTGTATTAATAG-ATAGATTGTGCCCAGAGTGTCATGGC
66 AGGTTGCGACTTGTAA-TGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGC
*
280462 CCCAAAGAAATCGC-A-TTGCAATATGGAATATTATCATTTT-AAAAATAAAAGTGATTGCA-CT
130 CCCAAAGAAA--GCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCT
* * *
280523 AAAAGTATTATGAAAGTTATAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGGTTAA
193 -AAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAA
*
280588 GAACAC
257 GAGCAC
* * *
280594 AAAGTATTACGATTAGGTAAAACAGAAACGGTTGCACCCCAGAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * *
280659 AGGTTGCGACTTGTAATGTCAACTTATGTATTAATAGAATAGATTGCGTCCAGAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGG-C
* * * * * **
280724 CCCAAAGAAACCACGTTACAATATGGAATATTATCATTTTAAAAAATAAAAGCTATTGTATGTAA
130 CCCAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTAA
* * * * ** *
280789 AGTATTATGAAAGTTTTAGCAG-TCAGAGCC-TGGTGTTTCGTACGACAATCAAATAGTTTAAGA
195 AGTATTATGAAAGTTTTAGCTGAT-GGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
*
280852 G-ATA
259 GCA-C
* * * * * * * *
280856 AAAGTATTACGATTAGACAAAATAGAAGCGATTGTGCTCCAGAATATCAGGGATCT-AAGGAAGT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * *
280920 AGGTTGTGACTTGTAATGTCAACTTGTGTATTATTATAATTA-ATTGCTCCCAGAGTGTCATGGA
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAA-TAGATTGCGCCCAAAGTGTCATGG-
*** * **
280984 CTTTAAAGAAAGCATGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCAATTA
129 CCCCAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTA
* * *
281049 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGGTTAAGG
194 AAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
281114 GCAC
259 GCAC
** * * ** * *
281118 AAAGTATTACGATTAGGC---A-AGAAATTGTTACACTTCAGAACATAACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* *
281179 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAG-ATAGATTGCTCCCAAAGTGTCATGCCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATG-GC
* * * *
281243 CCCAAAGAAAGCGCA-TTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCGCCTA
130 CCCAAAGAAAGC-AAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTA
* * ** * * *
281307 AAGTATTATGAAAGTTTTAG-TCGATGGAGACTTGGCGTTTCGTAGGACAATAAAATAAGTTAAG
194 AAGTATTATGAAAGTTTTAGCT-GATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
281371 AGCAC
258 AGCAC
* *** * * * *
281376 AAAGTATTATGATTATTTAAACTAGAAACGGTTACGCCGCAGAATATCACGGTTTTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * *
281441 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCACCCACAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGG-C
* * * * * * * *
281506 CCCAAAGAAAGCATGTTGCAATCTAGTATATTATCATTTTAAAAAATAAAAGCTATTGTACGTGA
130 CCCAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTAA
* * * * *
281571 AGTATTATGAAAGTTTTCA-CCGGTGGAGCCTTGGCATTCCCTACGAAAATCAAATAGGTTAAGA
195 AGTATTATGAAAGTTTT-AGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
281635 GCAC
259 GCAC
* * *
281639 AAA-TATTACGATTAGGCAAAATAGAAACGGTTACGCCCCAAAATATCACGTTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * * * * * * *
281703 AGGTTGCGACTTGTAATTTCTACTTGTGTATTAACATAATCGATTTCACCTAGAGTGTCATTGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCC
* * * * ** *
281768 CCAAAGAAAGCATGTTACAATCTGAAATATT-TACATTTTAAAAAATAAAAATGATTGCATCTAA
131 CCAAAGAAAGCAAGTTGCAATATGGAATATTAT-CATTTTAAAAAATAAAAGCGATTGCACCTAA
* * * * *
281832 AGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGTGTTCCCTATGATAATCAAATAGATTAAGAG
195 AGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
281897 CAC
260 CAC
* * * * * * * *
281900 AAAGCATTACGATTAGGCAAAATAAAAACGATTGCGCCCCAAAATATAACAGTTCTCAATGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* *
281965 AGGTTGCGACTTGTAATTTCAACTTGTGTATTAATAGAATAGATTGCGCTCAGAA-TGTCATGGC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCA-AAGTGTCATGG-
* *
282029 CCCCAAAGAAAGCACA-TTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACGT
129 CCCCAAAGAAAGCA-AGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCT
* *
282093 AAAGTATTATGAAAGTTTTAGTTGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTTAAG
193 AAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
282158 AGCAC
258 AGCAC
* * * * *
282163 AAAATACTACGATTAGGCAAAATAGACACGGTTGTGCCCCATAATATCACGGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
*
282228 AGGTTGAGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGG-C
* ** * * * ***
282293 CCCAAAGAAAG-AATGTTGCAATCTATAATATTATCATTTTAAAATAGAAAAGAGATTGCGTGTA
130 CCCAAAGAAAGCAA-GTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTA
* * * * ** *
282357 AAGTATTATGAAAGTTTTAACCGATGGAGCCTTGGCATTTCATACGATAATCAAATAGGTTAAGA
194 AAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
*
282422 GCAA
259 GCAC
* ** * * * * *
282426 AAAGTATTACAATTAAACAAAATAGAAGCGGTTGCACTCCAGAATATCACAGTTCTAAAGAAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * ** *
282491 AGGTTGTGACTTGTATTGTCAACTTGTGTATTAATAGAATAGATTG-AACCAAGAGTTTCATGGC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAA-AGTGTCATGGC
* * * * * * * * ** *
282555 CCTAAGGAAAGCAACTTGCAATTTAGAATACTATCATTTTAAAATATAAAAGCAATTGTGCTTAA
130 CCCAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTAA
* * * *
282620 AGTTTTATGAAAGTTTTAGCCGATAGAGCCTTGGCGTTCCCCACAACAATCAAATAGGTTAAGAG
195 AGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
282685 CAC
260 CAC
* * *
282688 AAAGTATTACGATTAGGCAAAATAGAAACTGTTGCGCCCCATAATATCACAGTTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* *
282753 AGGTTTCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGTGCCCAAAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCC
* * * * **
282818 CCTAAAGAAAGCACGTTGCAATCTAGAATATTTATCATTTTAAAAAATAAAATCGATTGCATGTA
131 CC-AAAGAAAGCAAGTTGCAATATGGAATA-TTATCATTTTAAAAAATAAAAGCGATTGCACCTA
* * * ** *
282883 AAATATTATGAAAGTTTTAGC-CATCGGAGCCTTGGTGTTCCGTACGACAATCAAATAGTTTAAG
194 AAGTATTATGAAAGTTTTAGCTGAT-GGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
282947 AGCAC
258 AGCAC
* * * * * * * *
282952 AAAGTAATACAATTAGAC-AAATAGAAGCAGTTGCGCTCCAGGATATCACGATTCTAAAGGAAAT
1 AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* *
283016 AAGTTGTGACTTGT
66 AGGTTGCGACTTGT
283030 TCTCTTTAAA
Statistics
Matches: 4006, Mismatches: 649, Indels: 243
0.82 0.13 0.05
Matches are distributed among these distances:
245 6 0.00
246 130 0.03
247 76 0.02
248 2 0.00
249 1 0.00
253 8 0.00
254 6 0.00
255 11 0.00
256 12 0.00
257 10 0.00
258 170 0.04
259 48 0.01
260 221 0.06
261 585 0.15
262 1517 0.38
263 794 0.20
264 355 0.09
265 5 0.00
266 7 0.00
267 15 0.00
268 13 0.00
269 8 0.00
270 6 0.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (262 bp):
AAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCC
CCAAAGAAAGCAAGTTGCAATATGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACCTAAA
GTATTATGAAAGTTTTAGCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
AC
Found at i:283353 original size:76 final size:76
Alignment explanation
Indices: 283245--283388 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
283235 TGCGGGCATG
* * * * *
283245 GAAATAACTCCACCCAAGTTAGTCAAGACACCCCATAAA-CGTTGAGCATCCTCAGCAAGGAACG
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCA-AAAGCATTGAGAATCCTCAGCAAGGAACG
283309 CATAGGGGCTTC
65 CATAGGGGCTTC
* * **
283321 GAAACAACTCCGCCCAAATTAATCAAGACACCCTAAAAGCATTGAGAATCCTCCTCAAGGAACGC
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
283386 ATA
66 ATA
283389 AGGTCTTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 3 0.05
76 55 0.95
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (76 bp):
GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
ATAGGGGCTTC
Found at i:284514 original size:11 final size:11
Alignment explanation
Indices: 284498--284524 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
284488 GATTGCGCCT
284498 AAAGTATTATG
1 AAAGTATTATG
284509 AAAGTATTATG
1 AAAGTATTATG
284520 AAAGT
1 AAAGT
284525 TTTAGCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (11 bp):
AAAGTATTATG
Found at i:285944 original size:3 final size:3
Alignment explanation
Indices: 285927--285991 Score: 50
Period size: 3 Copynumber: 21.7 Consensus size: 3
285917 ATCCTACAAA
285927 AAT AAT AAAT AAAT AAT AAT -AT AAT AAT AAT AAT AA- ACA- AAT AAAT
1 AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT -AAT
285973 AAAT AAT -AT AAT -AT AAT AA
1 -AAT AAT AAT AAT AAT AAT AA
285992 AATGTTTTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.15
3 33 0.60
4 14 0.25
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:285991 original size:8 final size:8
Alignment explanation
Indices: 285927--285985 Score: 54
Period size: 8 Copynumber: 7.5 Consensus size: 8
285917 ATCCTACAAA
285927 AATAATA-
1 AATAATAT
285934 AATAA-AT
1 AATAATAT
285941 AATAATAT
1 AATAATAT
285949 AATAATAAT
1 AATAAT-AT
*
285958 AATAA-ACA
1 AATAATA-T
285966 AATAA-AT
1 AATAATAT
285973 AAATAATAT
1 -AATAATAT
285982 AATA
1 AATA
285986 TAATAAAATG
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
6 1 0.02
7 11 0.25
8 23 0.52
9 9 0.20
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (8 bp):
AATAATAT
Found at i:286464 original size:84 final size:82
Alignment explanation
Indices: 286340--286647 Score: 266
Period size: 84 Copynumber: 3.7 Consensus size: 82
286330 GAATGAAATA
* * *
286340 GAACTTGAAGGTCTTTG--GCAGAT-AACTCTTCTTGCATTGAGCTATGCTGGAAATGATGGTGC
1 GAACTCGAAGGTCTTTGTTGCAGATAAAC-CTTCTTGCCTTGAGCTATGCTGCAAATGAT-GTGC
* * * *
286402 CTTTGAGTTGAGTGGAGTC
64 CTTAGAGCTGAGCGTAGTC
* **
286421 GAACTCGAAGGTCTTTGTTGACAGATAAACCTTCTAGCCTTGAG-TAATGCTTTAAATGATGTGC
1 GAACTCGAAGGTCTTTGTTG-CAGATAAACCTTCTTGCCTTGAGCT-ATGCTGCAAATGATGTGC
* * *
286485 CTTAGAGCTAAGCATAGTT
64 CTTAGAGCTGAGCGTAGTC
* * * * * *
286504 GAACTTGAAGGTCTTTTGTTGGCAAACAACCCTTCTTTCCTTGAGCTATGTTGCAAATGATGTGC
1 GAACTCGAAGGTC-TTTGTT-GCAGATAAACCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGC
*
286569 CTTGGAGCTGAGCGTAGTC
64 CTTAGAGCTGAGCGTAGTC
* * * * **
286588 GAACTCGAAGGTCTTTTGCTAGAAAATAGAA-CTTCTTACCTTGAGCTATATTGCAAATGA
1 GAACTCGAAGGTC-TTTG-TTGCAGATA-AACCTTCTTGCCTTGAGCTATGCTGCAAATGA
286648 ACATGATATC
Statistics
Matches: 185, Mismatches: 32, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
81 16 0.09
83 30 0.16
84 132 0.71
85 7 0.04
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (82 bp):
GAACTCGAAGGTCTTTGTTGCAGATAAACCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCT
TAGAGCTGAGCGTAGTC
Found at i:286873 original size:124 final size:124
Alignment explanation
Indices: 286711--286941 Score: 349
Period size: 124 Copynumber: 1.9 Consensus size: 124
286701 GGCACGATAT
** *
286711 CCTTCGTCGTGAAGTTGAAATTGTGGAGGGACCCTTCGTTGTGAAGTTGAGACTTAAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCCTTCGTTGTGAAGTTGAGACTTAAATTGGATA
*
286776 ACCTTC-TTCGTGAAGTTAAAATCCAGTCTAAAGATGAATGTTACTGGTGAGGACGATTC
66 ACCTTCGTT-GTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGGACGATTC
* * *
286835 CCTTCGTCGTGAAGTTGAAACAGTGAATGG-CCCATTCGTTGTGAAGTTGAGCCTTGAATTGGAT
1 CCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCC-TTCGTTGTGAAGTTGAGACTTAAATTGGAT
* *
286899 ATCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
65 AACCTTCGTTGTGAAGTTAAAATCCAATCTAAAGATGAATGTT
286942 GCTTCGAGTC
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
123 3 0.03
124 91 0.95
125 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (124 bp):
CCTTCGTCGTGAAGTTGAAACAGTGAAGGGACCCTTCGTTGTGAAGTTGAGACTTAAATTGGATA
ACCTTCGTTGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGGACGATTC
Found at i:287270 original size:240 final size:245
Alignment explanation
Indices: 286835--287353 Score: 690
Period size: 240 Copynumber: 2.1 Consensus size: 245
286825 AGGACGATTC
* * * *
286835 CCTTCGTCGTGAAGTTGAAACAGTGAATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAATC-GTGGATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* * * * *
286900 TCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTTCGAGTCCAATATCCTTCGC
65 TCCTTCGTAGTAAAGTTGAAATCCAAGCT----AT-AATGTTACTTCGAGTCCAATATCCTTCAC
286965 CGTGAAGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAA
125 CGTGAAGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAA
* * *
287030 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATC-T-AG-AG-TTGACACGATAT
190 TTGGATATCATTCATCATGAAGTTGAAATCCAATCTTGAGTAGATGGACACGATAT
* * *
287082 CCTTCGTCGTGAAGTTGAGATCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGACTTTAATA
1 CCTTCGTCGTGAAGTTGA-ATCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* *
287147 TCCTTCGTAGTAAAGTTGAAATCCAAGCT-T-TTGTTATTTCGAGTCCAATATCCTTCACCGTGA
65 TCCTTCGTAGTAAAGTTGAAATCCAAGCTATAATGTTACTTCGAGTCCAATATCCTTCACCGTGA
* * * *
287210 AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTGGGTTTTGAATTGGA
130 AGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAATTGGA
* * *
287275 TATCATTCGTCATGAAGTTGAAATCCAATCTTGTGTAGATGGGCACGATAT
195 TATCATTCATCATGAAGTTGAAATCCAATCTTGAGTAGATGGACACGATAT
* *
287326 CCTTTGTCGTGAAGTTGAAATCATGGAT
1 CCTTCGTCGTGAAGTTG-AATCGTGGAT
287354 TTGTGGGCAC
Statistics
Matches: 240, Mismatches: 26, Indels: 15
0.85 0.09 0.05
Matches are distributed among these distances:
240 117 0.49
241 1 0.00
242 2 0.01
243 2 0.01
244 34 0.14
245 1 0.00
247 81 0.34
248 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (245 bp):
CCTTCGTCGTGAAGTTGAATCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATAT
CCTTCGTAGTAAAGTTGAAATCCAAGCTATAATGTTACTTCGAGTCCAATATCCTTCACCGTGAA
GTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAATTGGAT
ATCATTCATCATGAAGTTGAAATCCAATCTTGAGTAGATGGACACGATAT
Found at i:287378 original size:43 final size:43
Alignment explanation
Indices: 287314--287396 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
287304 CTTGTGTAGA
**
287314 TGGGCACGATATCCTTTGTCGTGAAGTTGAAATCATGGATTTG
1 TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGATTTG
* *
287357 TGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1 TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGAT
287397 GGCCCCTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGATTTG
Found at i:289972 original size:12 final size:12
Alignment explanation
Indices: 289955--290005 Score: 59
Period size: 12 Copynumber: 4.0 Consensus size: 12
289945 GGTCCTATAA
289955 AAATAATAAAAT
1 AAATAATAAAAT
289967 AAATAATAATAAT
1 AAATAATAA-AAT
289980 -AATAATAATAAAT
1 AAATAAT-A-AAAT
289993 AAATGAATAAAAT
1 AAAT-AATAAAAT
290006 GTTTTGTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 15 0.44
13 11 0.32
14 5 0.15
15 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (12 bp):
AAATAATAAAAT
Found at i:289974 original size:3 final size:3
Alignment explanation
Indices: 289951--289990 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
289941 TGTGGGTCCT
*
289951 ATA AAA ATA ATA A-A ATAA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
289991 ATAAATGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:291726 original size:17 final size:17
Alignment explanation
Indices: 291706--291744 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
291696 GAAAGTCAAC
291706 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
291723 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
291740 GGTCA
1 GGTCA
291745 GGTCAGTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:291806 original size:11 final size:11
Alignment explanation
Indices: 291777--291807 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
291767 CAGACCGGTC
*
291777 AAAACCGATTG
1 AAAACCGGTTG
291788 AAAACCGGTTG
1 AAAACCGGTTG
291799 AAAACCGGT
1 AAAACCGGT
291808 CAAACCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (11 bp):
AAAACCGGTTG
Found at i:299074 original size:5 final size:5
Alignment explanation
Indices: 299064--299123 Score: 68
Period size: 5 Copynumber: 11.8 Consensus size: 5
299054 AACGATCAAC
* * *
299064 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTC- AGTAG GGTCG GGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
299115 GGTCG GGTC
1 GGTCG GGTC
299124 AGACCAGTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
4 2 0.04
5 40 0.87
7 4 0.09
ACGTcount: A:0.07, C:0.20, G:0.53, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:299079 original size:17 final size:17
Alignment explanation
Indices: 299059--299094 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
299049 AAGTCAACGA
299059 TCAACGGTCGGGTCGGG
1 TCAACGGTCGGGTCGGG
299076 TCAACGGTCGGGTCGGG
1 TCAACGGTCGGGTCGGG
299093 TC
1 TC
299095 GGGTCAGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.25, G:0.44, T:0.19
Consensus pattern (17 bp):
TCAACGGTCGGGTCGGG
Found at i:299113 original size:24 final size:23
Alignment explanation
Indices: 299064--299127 Score: 103
Period size: 24 Copynumber: 2.8 Consensus size: 23
299054 AACGATCAAC
299064 GGTCGGGTCGGGTCA-ACGGTCG
1 GGTCGGGTCGGGTCAGACGGTCG
*
299086 GGTCGGGTCGGGTCAGTAGGGTCG
1 GGTCGGGTCGGGTCAG-ACGGTCG
299110 GGTCGGGTCGGGTCAGAC
1 GGTCGGGTCGGGTCAGAC
299128 CAGTTAAACC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 15 0.39
23 1 0.03
24 22 0.58
ACGTcount: A:0.09, C:0.20, G:0.52, T:0.19
Consensus pattern (23 bp):
GGTCGGGTCGGGTCAGACGGTCG
Found at i:300387 original size:84 final size:84
Alignment explanation
Indices: 300118--300425 Score: 349
Period size: 84 Copynumber: 3.7 Consensus size: 84
300108 GAATGAAATA
* * * *
300118 GAACTCGAAGGTC---T-TTGGCAGATAACCCTTCTTGCCTTAAGCTATGCTGCAAATAATGGTG
1 GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGAT-GTG
* * * *
300179 TCTTTGAGCTGAGTGGAGTC
65 CCTTAGAGCTGAGCGTAGTC
* * * * * * *
300199 GAACTCGAAGGTC-TTTGTTGACAGATAAACCTTCTAGCCTTGAGTTATGCTT-TAAATGATGTA
1 GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATG-TTGCAAATGATGTG
*
300262 CCTTGGAGCTGAGCGTAGTC
65 CCTTAGAGCTGAGCGTAGTC
300282 GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGC
1 GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGC
300347 CTTAGAGCTGAGCGTAGTC
66 CTTAGAGCTGAGCGTAGTC
* * * * ** *
300366 GAATTCGAAGGTCTTTTGTTGGAAAATATCACTTCTTTTCTTGAGCTATTTTGCAAATGA
1 GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGA
300426 ACACAATATC
Statistics
Matches: 193, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
81 13 0.07
83 34 0.18
84 145 0.75
85 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (84 bp):
GAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGC
CTTAGAGCTGAGCGTAGTC
Found at i:300653 original size:124 final size:124
Alignment explanation
Indices: 300489--300719 Score: 392
Period size: 124 Copynumber: 1.9 Consensus size: 124
300479 GGCTTGATAT
**
300489 CCTTCGTCGTGAAGTTGAAATTGTAGAGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTAGAGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
*
300554 TCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGAGCACGATTC
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGAGCACGATTC
* * *
300613 CCTTTGTCGTGAAGTTGAAACCGT-GAATGGTCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGAT
1 CCTTCGTCGTGAAGTTGAAACCGTAG-AGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGAT
300677 ATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
65 ATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
300720 GCTTCAAGTC
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
123 1 0.01
124 99 0.99
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (124 bp):
CCTTCGTCGTGAAGTTGAAACCGTAGAGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTACTGGTGAGCACGATTC
Found at i:300657 original size:32 final size:34
Alignment explanation
Indices: 300611--300698 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 34
300601 TGAGCACGAT
*
300611 TCCCTTTGTCGTGAAGTTGAAACCGTGAA-TGG-
1 TCCCTTCGTCGTGAAGTTGAAACCGTGAATTGGA
* * *
300643 TCCCTTCGTTGTGAAGTTG-AGCCTTGAATTGGA
1 TCCCTTCGTCGTGAAGTTGAAACCGTGAATTGGA
*
300676 TATCCTTCGTCGTGAAGTTGAAA
1 T-CCCTTCGTCGTGAAGTTGAAA
300699 TCCAATCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
31 7 0.16
32 20 0.44
33 1 0.02
34 16 0.36
35 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (34 bp):
TCCCTTCGTCGTGAAGTTGAAACCGTGAATTGGA
Found at i:301048 original size:240 final size:242
Alignment explanation
Indices: 300613--301081 Score: 699
Period size: 240 Copynumber: 1.9 Consensus size: 242
300603 AGCACGATTC
* * *
300613 CCTTTGTCGTGAAGTTGAAACCGTGAATGGTCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGAATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* * *
300678 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTTCAAGTCCAATATCCTTCGC
66 TCCTTCGTCCTGAAGTTGAAATCCAAGCT----AT-AATATTGCTTCAAGTCCAATATCCTTCGC
* * **
300743 CGTGAAGTTGAAATTGGCTCTGAATGAAACTGTGAAGCCCCTTGGCTTTGAAGTTGAGCTTTGAA
126 CGTGAAGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTGAGCTTTGAA
*
300808 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATATAGAGTTAGTACTATAT
191 TTGGATATCATTCATCGTGAAGTTGAAATCCAATATAGAGTTAGTACTATAT
* * * *
300860 CCTTCGTCGTGAAGTTGAGATCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGACTTGAATA
1 CCTTCGTCGTGAAGTTGAAACCGTGAATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* * *
300925 TCCTTCGTCCTGAAGTTGAAATCCAAGCT-T-TTATTGTTTCGAGTCCAATATCCTTCGCCGTGA
66 TCCTTCGTCCTGAAGTTGAAATCCAAGCTATAATATTGCTTCAAGTCCAATATCCTTCGCCGTGA
* *
300988 AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTGGGCTTTGAATTTGA
131 AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTGAGCTTTGAATTGGA
301053 TATCATTCATCGTGAAGTTGAAATCCAAT
196 TATCATTCATCGTGAAGTTGAAATCCAAT
301082 CTTGTGTAGA
Statistics
Matches: 202, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
240 116 0.57
242 1 0.00
247 85 0.42
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (242 bp):
CCTTCGTCGTGAAGTTGAAACCGTGAATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGAATA
TCCTTCGTCCTGAAGTTGAAATCCAAGCTATAATATTGCTTCAAGTCCAATATCCTTCGCCGTGA
AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTGAGCTTTGAATTGGA
TATCATTCATCGTGAAGTTGAAATCCAATATAGAGTTAGTACTATAT
Found at i:301174 original size:43 final size:44
Alignment explanation
Indices: 301092--301175 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
301082 CTTGTGTAGA
** *
301092 TGGGCACGATATCCTTCTTTCGTGAAGTTGAAATCATGGATTTG
1 TGGGCACGATATCCTTCCATCGTGAAGCTGAAATCATGGATTTG
* *
301136 TGGGCACGATATCC-TCCATCGTGGAGCTGAAATTATGGAT
1 TGGGCACGATATCCTTCCATCGTGAAGCTGAAATCATGGAT
301176 GGCCCCTTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 21 0.60
44 14 0.40
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
TGGGCACGATATCCTTCCATCGTGAAGCTGAAATCATGGATTTG
Found at i:301918 original size:44 final size:44
Alignment explanation
Indices: 301855--301945 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
301845 AAGATATAAA
301855 AATGCAAGAATTCTGTAAAACATTGCCACTTAATTCAGGCTCGC
1 AATGCAAGAATTCTGTAAAACATTGCCACTTAATTCAGGCTCGC
* *
301899 AATGCAAGAATTCTGTAAAACATTGCCTCTTAATTCTGGCTCGC
1 AATGCAAGAATTCTGTAAAACATTGCCACTTAATTCAGGCTCGC
301943 AAT
1 AAT
301946 CGAATCGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (44 bp):
AATGCAAGAATTCTGTAAAACATTGCCACTTAATTCAGGCTCGC
Found at i:303938 original size:21 final size:21
Alignment explanation
Indices: 303912--303961 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
303902 TCCAGGTCAT
* *
303912 CAACCTTTTCATCTGCCTCTG
1 CAACCTTTTCATCTACCCCTG
303933 CAACCTTTTCATCTACCCCTG
1 CAACCTTTTCATCTACCCCTG
303954 CAA-CTTTT
1 CAACCTTTT
303962 GGCTAACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.18, C:0.38, G:0.06, T:0.38
Consensus pattern (21 bp):
CAACCTTTTCATCTACCCCTG
Found at i:305356 original size:2 final size:2
Alignment explanation
Indices: 305349--305373 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
305339 AACTAAAGAA
305349 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
305374 ATGATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:305427 original size:2 final size:2
Alignment explanation
Indices: 305411--305483 Score: 130
Period size: 2 Copynumber: 37.0 Consensus size: 2
305401 TAAAAAGGGA
*
305411 AT AT AG AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
305452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
305484 GAACCGGTGT
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 67 0.99
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:306330 original size:11 final size:11
Alignment explanation
Indices: 306314--306350 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
306304 GGGACTGTAA
306314 AAATAATAAAT
1 AAATAATAAAT
306325 AAATAATAAAT
1 AAATAATAAAT
306336 AAATAATATAAT
1 AAATAATA-AAT
306348 AAA
1 AAA
306351 ATGATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.76
12 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:307357 original size:12 final size:12
Alignment explanation
Indices: 307342--307384 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
307332 ATTATTTAAA
*
307342 CGGGTATCAGGC
1 CGGGTATCGGGC
307354 CGGGTATCGGGC
1 CGGGTATCGGGC
307366 CGGGTATCGGGC
1 CGGGTATCGGGC
307378 CGGGTAT
1 CGGGTAT
307385 ATATATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.19
Consensus pattern (12 bp):
CGGGTATCGGGC
Found at i:307481 original size:42 final size:38
Alignment explanation
Indices: 307382--307469 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 38
307372 TCGGGCCGGG
* *
307382 TATATA-TAT-ATTTAAATTAAATATATAAATATTATA
1 TATATATTATAATTTAATTTAAATTTATAAATATTATA
* *
307418 TATATATTTTAATTTAATTTAAATTTATTAATATTATA
1 TATATATTATAATTTAATTTAAATTTATAAATATTATA
307456 TATATATATATAAT
1 TATATAT-TATAAT
307470 AATTATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
36 6 0.14
37 2 0.05
38 31 0.70
39 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (38 bp):
TATATATTATAATTTAATTTAAATTTATAAATATTATA
Found at i:307517 original size:13 final size:12
Alignment explanation
Indices: 307486--307517 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
307476 TTTTAATATT
307486 TATCGGGTCGGG
1 TATCGGGTCGGG
307498 TATCGGGTCGGG
1 TATCGGGTCGGG
307510 TAATCGGG
1 T-ATCGGG
307518 GCAGGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.12, C:0.16, G:0.47, T:0.25
Consensus pattern (12 bp):
TATCGGGTCGGG
Found at i:307613 original size:36 final size:37
Alignment explanation
Indices: 307536--307613 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 37
307526 TACCAAACTC
* *
307536 GTCCCCGTCCCCGTTTAGCATAAACGGTTTTTCCCCA
1 GTCCCCATCCCCGTTTAGCATAAACAGTTTTTCCCCA
* *
307573 -TCCCCATCCTCGTTTAGCATAAACAGTTTTT-CTCA
1 GTCCCCATCCCCGTTTAGCATAAACAGTTTTTCCCCA
307608 GTCCCC
1 GTCCCC
307614 GTTTAATTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 3 0.08
36 33 0.92
ACGTcount: A:0.18, C:0.37, G:0.13, T:0.32
Consensus pattern (37 bp):
GTCCCCATCCCCGTTTAGCATAAACAGTTTTTCCCCA
Found at i:308841 original size:76 final size:76
Alignment explanation
Indices: 308735--308878 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
308725 TGCGGGCATG
* * * * *
308735 GAAATAACTCCACCCAAGTTAGTCAAGACACCCCATAAA-CGTTGAGCATCCTCAGCAAGGAACG
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCA-AAAGCATTGAGAATCCTCAGCAAGGAACG
308799 CATAGGGGCTTC
65 CATAGGGGCTTC
* * **
308811 GAAACAACTCCGCCCAAATTAATCAAGACACCCTAAAAGCATTGAGAATCCTCCTCAAGGAACGC
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
308876 ATA
66 ATA
308879 AGGTCTTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 3 0.05
76 55 0.95
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (76 bp):
GAAACAACTCCACCCAAATTAATCAAGACACCCCAAAAGCATTGAGAATCCTCAGCAAGGAACGC
ATAGGGGCTTC
Found at i:309613 original size:11 final size:11
Alignment explanation
Indices: 309597--309623 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
309587 GATTGCGCCT
309597 AAAGTATTATG
1 AAAGTATTATG
309608 AAAGTATTATG
1 AAAGTATTATG
309619 AAAGT
1 AAAGT
309624 TTTAGCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (11 bp):
AAAGTATTATG
Found at i:310127 original size:2 final size:2
Alignment explanation
Indices: 310120--310160 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
310110 ACTAAAGAAA
310120 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
310161 AATAATAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:311055 original size:3 final size:3
Alignment explanation
Indices: 311037--311106 Score: 69
Period size: 3 Copynumber: 23.7 Consensus size: 3
311027 ATCCTACAAA
311037 AAT AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AA- ACA-
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
311081 AAT AAAT AAAT AAT -AT AAT -AT AAT AA
1 AAT -AAT -AAT AAT AAT AAT AAT AAT AA
311107 AATGTTTTTG
Statistics
Matches: 60, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
2 8 0.13
3 42 0.70
4 10 0.17
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:311719 original size:84 final size:83
Alignment explanation
Indices: 311469--311762 Score: 297
Period size: 84 Copynumber: 3.5 Consensus size: 83
311459 TTGAAGGTCT
* * * * * * *
311469 TTGGCAGATAACTCTTCTTGCATTGAGCTATGCTGGAAATGATAGTGCCTTTGAGCTGAGTGGAG
1 TTGGCAAATAAC-CTTCTTGCCTTGAGCTATGTTGCAAATGAT-GTGCCTTGGAGCTGAGCGTAG
311534 TCGAACTCGAAGGTC-TTTG
64 TCGAACTCGAAGGTCTTTTG
* * * * * *
311553 TTGACAGATAAACCTTCTAGCCTTGAG-TAATGCTT-TAAATGATGTGCCTTGGAGCTAAGCATA
1 TTGGCAAAT-AACCTTCTTGCCTTGAGCT-ATG-TTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* *
311616 GTTGAACTTGAAGGTCTTTTG
63 GTCGAACTCGAAGGTCTTTTG
* *
311637 TTGGCAAACAACCCTTCTTTCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAAATAA-CCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
311702 CGAACTCGAAGGTCTTTTG
65 CGAACTCGAAGGTCTTTTG
* * * * * *
311721 CTAGAAAATAGAACTTCTTACCTTGAGCTATATTGCAAATGA
1 TTGGCAAATA-ACCTTCTTGCCTTGAGCTATGTTGCAAATGA
311763 ACATGATATC
Statistics
Matches: 173, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
83 34 0.20
84 133 0.77
85 6 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (83 bp):
TTGGCAAATAACCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTTG
Found at i:311988 original size:124 final size:124
Alignment explanation
Indices: 311826--312056 Score: 374
Period size: 124 Copynumber: 1.9 Consensus size: 124
311816 GGCACGATAT
* **
311826 CCTTTGTCGTGAAGTTGAAATTGTGGAGGGACCCTTCGTTGTGAAGTTGAGCCTTAAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACAGTGGAGGGACCCTTCGTTGTGAAGTTGAGCCTTAAATTGGATA
* *
311891 TCCTTCTTTGTGAAGTTAAAATCCAGTCTAAAGATGAATGTTACTGGTGAGGACGATTC
66 TCCTTCGTTGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGGACGATTC
* *
311950 CCTTCGTCGTGAAGTTGAAACAGTGGATGG-CCCATTCGTTGTGAAGTTGAGCCTTGAATTGGAT
1 CCTTCGTCGTGAAGTTGAAACAGTGGAGGGACCC-TTCGTTGTGAAGTTGAGCCTTAAATTGGAT
*
312014 ATCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTT
65 ATCCTTCGTTGTGAAGTTAAAATCCAATCTAAAGATGAATGTT
312057 GCTTCGAGTC
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
123 3 0.03
124 95 0.97
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (124 bp):
CCTTCGTCGTGAAGTTGAAACAGTGGAGGGACCCTTCGTTGTGAAGTTGAGCCTTAAATTGGATA
TCCTTCGTTGTGAAGTTAAAATCCAATCTAAAGATGAATGTTACTGGTGAGGACGATTC
Found at i:312385 original size:240 final size:244
Alignment explanation
Indices: 311950--312468 Score: 724
Period size: 240 Copynumber: 2.1 Consensus size: 244
311940 AGGACGATTC
*
311950 CCTTCGTCGTGAAGTTGAAACAGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACAGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* * * * *
312015 TCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTTCGAGTCCAATATCCTTCGC
66 TCCTTCGTAGTAAAGTTGAAATCCAAGCT----AT-AATGTTACTTCGAGTCCAATATCCTTCAC
312080 CGTGAAGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAA
126 CGTGAAGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAA
* * *
312145 TTGGATATCCTTCATCGTGAAGTTGAAATCCAATC-TAGAG-TTGGCACGATAT
191 TTGGATATCATTCATCATGAAGTTGAAATCCAATCTTAGAGATGGGCACGATAT
* * * * *
312197 CCTTCGTCGTGAAGTTGAGATAGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGACTTTAATA
1 CCTTCGTCGTGAAGTTGAAACAGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATA
* *
312262 TCCTTCGTAGTAAAGTTGAAATCCAAGCT-T-TTGTTATTTCGAGTCCAATATCCTTCACCGTGA
66 TCCTTCGTAGTAAAGTTGAAATCCAAGCTATAATGTTACTTCGAGTCCAATATCCTTCACCGTGA
* * * *
312325 AGTTGAAATTGGCTCTGAATGAAACTGGGAAGCCCCTTCGCCGTGAAGTTGGGTTTTGAATTGGA
131 AGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAATTGGA
* *
312390 TATCATTCGTCATGAAGTTGAAATCCAATCTTGTATAGATGGGCACGATAT
196 TATCATTCATCATGAAGTTGAAATCCAATC-T-TAGAGATGGGCACGATAT
*
312441 CCTTTGTCGTGAAGTTGAAATCA-TGGAT
1 CCTTCGTCGTGAAGTTGAAA-CAGTGGAT
312469 TTGTGGGCAC
Statistics
Matches: 242, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
240 117 0.48
242 1 0.00
243 4 0.02
244 34 0.14
245 1 0.00
247 85 0.35
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (244 bp):
CCTTCGTCGTGAAGTTGAAACAGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGAATA
TCCTTCGTAGTAAAGTTGAAATCCAAGCTATAATGTTACTTCGAGTCCAATATCCTTCACCGTGA
AGTTGAAACTGGCTCTGAATGAAACTGGGAAGCCCCTTCACCGTGAAGTTGAGCTTTGAATTGGA
TATCATTCATCATGAAGTTGAAATCCAATCTTAGAGATGGGCACGATAT
Found at i:312493 original size:43 final size:43
Alignment explanation
Indices: 312429--312511 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
312419 CTTGTATAGA
**
312429 TGGGCACGATATCCTTTGTCGTGAAGTTGAAATCATGGATTTG
1 TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGATTTG
* *
312472 TGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT
1 TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGAT
312512 GGCCCCTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
TGGGCACGATATCCTCCGTCGTGAAGTTGAAATCATGGATTTG
Found at i:315459 original size:76 final size:76
Alignment explanation
Indices: 315324--315467 Score: 191
Period size: 76 Copynumber: 1.9 Consensus size: 76
315314 TGCGGGCATG
* * * * *
315324 GAAATAACTCCACCCAAGTTAGTCAAGACACCCCATAAACGTTGAGCATCCTCAGCAAGGAACGC
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCATAAACATTGAGAATCCTCAGCAAGGAACGC
315389 ATAGGGGCTTC
66 ATAGGGGCTTC
* * **
315400 GAAACAACTCCGCCCAAATTAATCAAGACACCCTA-AAAGCATTGAGAATCCTCCTCAAGGAACG
1 GAAACAACTCCACCCAAATTAATCAAGACACCCCATAAA-CATTGAGAATCCTCAGCAAGGAACG
315464 CATA
65 CATA
315468 AGGTCTTGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 3 0.05
76 55 0.95
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.17
Consensus pattern (76 bp):
GAAACAACTCCACCCAAATTAATCAAGACACCCCATAAACATTGAGAATCCTCAGCAAGGAACGC
ATAGGGGCTTC
Found at i:317275 original size:17 final size:17
Alignment explanation
Indices: 317250--317291 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
317240 ATTAGATTAT
*
317250 TATATTAATATTAAATA
1 TATAATAATATTAAATA
* *
317267 TATAATAATATTCATTA
1 TATAATAATATTAAATA
317284 T-TAATAAT
1 TATAATAAT
317292 TTACTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TATAATAATATTAAATA
Found at i:317436 original size:22 final size:23
Alignment explanation
Indices: 317408--317465 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
317398 TTGATTACTT
317408 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
317430 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
317453 TATATATATATAT
1 TAT-TATA-ATAT
317466 ATTAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.57
23 6 0.20
24 4 0.13
25 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:319296 original size:639 final size:643
Alignment explanation
Indices: 317795--320348 Score: 4596
Period size: 639 Copynumber: 4.0 Consensus size: 643
317785 ATCCAAAAAG
*
317795 AAAAAGAAAAATAAAGGAAAATAATATTGTATGAAAAAGATACATGGACCCCAGTCCACAATTTT
1 AAAAAG-AAAATAAAGGAAAATAATATTGTATGAAAAAGATACATGGACCCCAATCCACAATTTT
* *
317860 CATTCCATCTTAAATATTGTAACAATGATTATGTAATTTATGTCATTGAAACATGTGACTAAATT
65 CATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGTCATTAAAACATGTGACTAAATT
* *
317925 AATCAATCAAATCATCATCGATATTTTGATTTAATCAATCAAATCGTTTAATTATTTAAATATTT
130 AATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGATCGTTTAATTATTTAAATATTT
*
317990 CAGGTGACATGACAATTAAAATATTTTGTTATAATTGTACAATTAGTCATTATTACTTATATATT
195 CAGGTGACATGACAATTAAAATATTTTGTTATAATTATACAATTAGTCATTATTACTTATATATT
* *
318055 GTTTTAATTTGATCTTAATTTTAATAAACTAAATTAAATTTAACTCTCGAATCATGTGGTGTCAT
260 GTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAACTCTCGAATCATGTGGTGTCAT
* * * *
318120 ATGTTATTAGTGATACTATGGTTGAAAAATAAATAAATCAATGCACACGAGGGTAAGGGGAATCA
325 ATGTCATTAGTGACACTATGGTTG-AAAATAAATAAATCAATGCACATGAGGGCAAGGGGAATCA
*
318185 AACAAAGAACCCTTTGGGTGACATATAAGCACCAAACCATTAAGTCAAGGCAACCATTTCACATA
389 AACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAAGTCAAGGCAACCATTTCACATA
*
318250 ATTTAGACAATAAATAATATATATAATGTATCTTAGTATATAAACACTTTACTTAAATTCATAAT
454 ATTTAGACAATAAATCATATATATAATGTATCTTAGTATATAAACACTTTACTTAAATTCATAAT
*
318315 ATTTTATATTCTTAATTTTTAAAAATAAATTTTATTTTTGTCTTAATTTATTAAATGTA-TTTTT
519 ATTTTATATTCTTAATTTTT-AAAATAAATTTTATTTTTGTCTTAACTTATTAAATGTATTTTTT
*
318379 TATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTTGACTCCTACAGTAAATCCAAAAA
583 TATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTTGACTCCTACAATAAATCC----A
* *
318444 TAAAAAGGAAAATAAAGGAAAATAATATTGTATGAAAAGGATACATGGACCCCAGTCCACAATTT
1 -AAAAA-GAAAATAAAGGAAAATAATATTGTATGAAAAAGATACATGGACCCCAATCCACAATTT
* *
318509 TCATTCCATCTTAAATACTATAACAATGATTATGTAATTTATGTCATTGAAACATGTGACTAAAT
64 TCATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGTCATTAAAACATGTGACTAAAT
*
318574 TATTCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGATCGTTTAATTATTTAAATATT
129 TAATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGATCGTTTAATTATTTAAATATT
*
318639 TCAGGTGATATGACAATTAAAATATTTTGTTATAATTATACAATTAGTCATTATTACTTATATAT
194 TCAGGTGACATGACAATTAAAATATTTTGTTATAATTATACAATTAGTCATTATTACTTATATAT
*
318704 TGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAACTCTCGAATCATGTGATGTCA
259 TGTTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAACTCTCGAATCATGTGGTGTCA
318769 TATGTCATTAGTGACACTATGGTTGAAAAATAAATAAATCAATGCACATGAGGGCAAGGGGAATC
324 TATGTCATTAGTGACACTATGGTTG-AAAATAAATAAATCAATGCACATGAGGGCAAGGGGAATC
*
318834 AAACAAAGAACCCTTTGGGTGATATAT-AGCACCAAATCATTAAGTCAAGGCAACCATTTCACAT
388 AAACAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAAGTCAAGGCAACCATTTCACAT
318898 AATTTAGACAATAAATCATATATATAATGTATCTTAGTATATAAACACTTTACTTAAATTCATAA
453 AATTTAGACAATAAATCATATATATAATGTATCTTAGTATATAAACACTTTACTTAAATTCATAA
318963 TATTTTATATTCTTAATTTTT-AAATAAATTTTATTTTTGTCTTAACTTATTAAATGTATTTTTT
518 TATTTTATATTCTTAATTTTTAAAATAAATTTTATTTTTGTCTTAACTTATTAAATGTATTTTTT
319027 TATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTTGACTCCTACAATAAATCC-
583 TATTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTTGACTCCTACAATAAATCCA
319087 AAAAA-AAAA-AAAGGAAAATAATATTGTATGAAAAAGATACATGGACCCCAATCCACAATTTTC
1 AAAAAGAAAATAAAGGAAAATAATATTGTATGAAAAAGATACATGGACCCCAATCCACAATTTTC
319150 ATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGTCATTAAAACATGTGACTAAATTA
66 ATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGTCATTAAAACATGTGACTAAATTA
*
319215 ATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGATTGTTTAATTATTTAAATATTTC
131 ATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGATCGTTTAATTATTTAAATATTTC
*
319280 AGGTGACATGACAATTAAAATATTTTGTTATAATTATACAATTAGTCATTATTATTTATATATTG
196 AGGTGACATGACAATTAAAATATTTTGTTATAATTATACAATTAGTCATTATTACTTATATATTG
*
319345 TTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAACTCTCGAATCGTGTGGTGTCATA
261 TTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAACTCTCGAATCATGTGGTGTCATA
319410 TGTCATTAGTGACACTATGGTTGAAAATAAATAAATCAATGCACATGAGGGCAAGGGGAATCAAA
326 TGTCATTAGTGACACTATGGTTGAAAATAAATAAATCAATGCACATGAGGGCAAGGGGAATCAAA
* *
319475 CAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAAGTCAAGGCAATCATTTCACATTAT
391 CAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAAGTCAAGGCAACCATTTCACATAAT
319540 TTAGACAATAAATCATATATATAATGTATCTTAGTATATAAACACTTTACTTAAATTCATAATAT
456 TTAGACAATAAATCATATATATAATGTATCTTAGTATATAAACACTTTACTTAAATTCATAATAT
319605 TTTATATTCTTAATTTTT-AAATAAATTTTATTTTTGTCTTAACTTATTAAATGTATTTTTTTAT
521 TTTATATTCTTAATTTTTAAAATAAATTTTATTTTTGTCTTAACTTATTAAATGTATTTTTTTAT
319669 TTTAATATAAAAATATATGTTTTAATCTTATCTTCACTTGACTCCTACAATAAATCCAAAAA
586 TTTAATATAAAAATATATGTTTTAATCTTATCTTCACTTGACTCCTACAATAAATCC----A
319731 AAAAAGAAAA-AAAGGAAAATAATATTGTATGAAAAAGATACATGGACCCCAATCCACAATTTTC
1 AAAAAGAAAATAAAGGAAAATAATATTGTATGAAAAAGATACATGGACCCCAATCCACAATTTTC
319795 ATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGTCATTAAAACATGTGACTAAATTA
66 ATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGTCATTAAAACATGTGACTAAATTA
*
319860 ATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGATTGTTTAATTATTTAAATATTTC
131 ATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGATCGTTTAATTATTTAAATATTTC
319925 AGGTGACATGACAATTAAAATATTTTGTTATAATTATACAATTAGTCATTATTACTTATATATTG
196 AGGTGACATGACAATTAAAATATTTTGTTATAATTATACAATTAGTCATTATTACTTATATATTG
*
319990 TTTCAATTTGGTCTTAATTTTAATAAAC-----TAAA-TTAACTCTCGAATCGTGTGGTGTCATA
261 TTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAACTCTCGAATCATGTGGTGTCATA
320049 TGTCATTAGTGACACTATGGTTGAAAATAAATAAATCAATGCACATGAGGGCAAGGGGAATCAAA
326 TGTCATTAGTGACACTATGGTTGAAAATAAATAAATCAATGCACATGAGGGCAAGGGGAATCAAA
320114 CAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAAGTCAAGGCAACCATTTCACATAAT
391 CAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAAGTCAAGGCAACCATTTCACATAAT
320179 TTAGACAATAAATCATATATATAATGTATCTTAGTATATAAACACTTTACTTAAATTCATAATAT
456 TTAGACAATAAATCATATATATAATGTATCTTAGTATATAAACACTTTACTTAAATTCATAATAT
320244 TTTATATTCTTAATTTTTAAAAATAAATTTTATTTTTGTCTTAACTTATTAAATGTATTTTTTTA
521 TTTATATTCTTAATTTTT-AAAATAAATTTTATTTTTGTCTTAACTTATTAAATGTATTTTTTTA
320309 TTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
585 TTTTAATATAAAAATATATGTTTTAATCTTATCTTCACTT
320349 ACAAGTATAT
Statistics
Matches: 1857, Mismatches: 36, Indels: 31
0.97 0.02 0.02
Matches are distributed among these distances:
638 66 0.04
639 788 0.42
640 8 0.00
641 85 0.05
642 5 0.00
644 5 0.00
645 280 0.15
647 36 0.02
648 64 0.03
649 121 0.07
650 398 0.21
651 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (643 bp):
AAAAAGAAAATAAAGGAAAATAATATTGTATGAAAAAGATACATGGACCCCAATCCACAATTTTC
ATTCCATCTTAAATACTGTAACAATGATTATGTAATTTATGTCATTAAAACATGTGACTAAATTA
ATCAATCAAACCATCATCGATATTTTGATTTAATCAATCAGATCGTTTAATTATTTAAATATTTC
AGGTGACATGACAATTAAAATATTTTGTTATAATTATACAATTAGTCATTATTACTTATATATTG
TTTCAATTTGGTCTTAATTTTAATAAACTAAATTAAATTTAACTCTCGAATCATGTGGTGTCATA
TGTCATTAGTGACACTATGGTTGAAAATAAATAAATCAATGCACATGAGGGCAAGGGGAATCAAA
CAAAGAACCCTTTGGGTGATATATAAGCACCAAACCATTAAGTCAAGGCAACCATTTCACATAAT
TTAGACAATAAATCATATATATAATGTATCTTAGTATATAAACACTTTACTTAAATTCATAATAT
TTTATATTCTTAATTTTTAAAATAAATTTTATTTTTGTCTTAACTTATTAAATGTATTTTTTTAT
TTTAATATAAAAATATATGTTTTAATCTTATCTTCACTTGACTCCTACAATAAATCCA
Found at i:320396 original size:28 final size:28
Alignment explanation
Indices: 320329--320420 Score: 78
Period size: 28 Copynumber: 3.1 Consensus size: 28
320319 AAAATATATG
* **
320329 TTTTAA-TCTTATCTTCACTTACAAGTATA
1 TTTTAACT-TTATCTTCATTTA-AAAAATA
320358 TTTTAACTTTATCTTCATTTAAAAAATA
1 TTTTAACTTTATCTTCATTTAAAAAATA
** *
320386 TTTTATTTTTATCTTAATTTTTAAAAATATA
1 TTTTAACTTTATCTTCA--TTTAAAAA-ATA
320417 TTTT
1 TTTT
320421 CTAATTATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 19 0.36
29 18 0.34
30 9 0.17
31 7 0.13
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.55
Consensus pattern (28 bp):
TTTTAACTTTATCTTCATTTAAAAAATA
Found at i:320566 original size:25 final size:28
Alignment explanation
Indices: 320448--320567 Score: 97
Period size: 29 Copynumber: 4.4 Consensus size: 28
320438 AAATATATTT
* * *
320448 ATATAGTTTATTCTTA-TTTCAATATAAT
1 ATATATTTTATTCTTATTTTAAAT-TAAG
* * * * *
320476 ATATATATTTGTCCTTATATTCACTTAA-
1 ATATAT-TTTATTCTTATTTTAAATTAAG
*
320504 AAATATTTTATTCTTATTTTAAATTAAAG
1 ATATATTTTATTCTTATTTTAAATT-AAG
320533 ATATATTTTATTCTTATTTTAAA-T-A-
1 ATATATTTTATTCTTATTTTAAATTAAG
320558 ATATATTTTA
1 ATATATTTTA
320568 ATTTAAAAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
25 10 0.13
26 1 0.01
27 14 0.18
28 13 0.17
29 33 0.43
30 5 0.07
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.54
Consensus pattern (28 bp):
ATATATTTTATTCTTATTTTAAATTAAG
Found at i:324005 original size:11 final size:11
Alignment explanation
Indices: 323989--324015 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
323979 TTCATAGCCA
323989 TTTTATGAAAG
1 TTTTATGAAAG
324000 TTTTATGAAAG
1 TTTTATGAAAG
324011 TTTTA
1 TTTTA
324016 GCTGAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (11 bp):
TTTTATGAAAG
Found at i:324067 original size:262 final size:262
Alignment explanation
Indices: 323734--325181 Score: 1298
Period size: 262 Copynumber: 5.5 Consensus size: 262
323724 GATTGCGCCT
** * * * *
323734 AAAGTATTATGAGTGTTTTAGCTCAAGGAGCCTTGGCGTTCCCCACTACAATCAAATAGATTAAG
1 AAAGTATTATGAAAGTTTTAGCTCAAGGAACCTTGACGTTCCACACGACAATCAAATAGATTAAG
* * *
323799 AGCACAAAGTATTACGATTAAGCAAAATAGAAATGGTTGCACCCCAGAATATTATGGTTCTCAAG
66 AGCACAAAATATTACGATTAAGCAAAATAGAAACGGTTGCACCCCAGAATATCATGGTTCTCAAG
323864 GAAATAGGTTAAAATTATATATCATATTTATCTAACAATGAACCAAACCAAATGTATGATCTGCT
131 GAAATAGGTTAAAATTATATATCATATTTATCTAACAATGAACCAAACCAAATGTATGATCTGCT
323929 TGAATGGCTTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCTTCATAGCCATTTTA
196 TGAATGGCTTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCTTCATAGCCATTTTA
323994 TG
261 TG
* *
323996 AAAGTTTTATGAAAGTTTTAGCTGAAGGAACCTTGACGTTCCACACGACAATCAAATAGATTAAG
1 AAAGTATTATGAAAGTTTTAGCTCAAGGAACCTTGACGTTCCACACGACAATCAAATAGATTAAG
* * ** *
324061 AGCACAAAAT-TTATGATTAGGCAAAATAG-AACGGTTGCTTCCTAGAATATCATGGTTCTCAAG
66 AGCACAAAATATTACGATTAAGCAAAATAGAAACGGTTGCACCCCAGAATATCATGGTTCTCAAG
** * * * ** ** *
324124 GAAATAGGTTGCGACTTTTAATGTCA-ACTTGTGTAT-TAACAGAATAGATTGC-GCCCAGA-GT
131 GAAATAGGTT-AAAATTAT-ATATCATA--T-T-TATCTAAC--AAT-GA-ACCAAACCAAATGT
* ** ** ** * * * ** *
324185 ATCATGACCCCAAAGAA-AACATGTTGCAAT-CT-GA-AAT-ATTA-ACATTT---TA-AA---A
186 ATGAT--CTGC-TTGAATGGC-T-TAGTACTCCTAGATGTTCATTATA-ATTTAGGTACAATTCC
** * * * ***
324237 AATAAAAGCGATTGCGCCT-
245 CTTCATAGCCATT--TTATG
** * * * *
324256 AAAGTATTATGAGTGTTTTAGCTCAAGGAGCCTTGGCGTTCCCCACTACAATCAAATAGATTAAG
1 AAAGTATTATGAAAGTTTTAGCTCAAGGAACCTTGACGTTCCACACGACAATCAAATAGATTAAG
* * * *
324321 AGCACAAAGTATTACGATTAAGAAAAATAGAAATGGTTGCACCCCAGAATATTATGGTTCTCAAG
66 AGCACAAAATATTACGATTAAGCAAAATAGAAACGGTTGCACCCCAGAATATCATGGTTCTCAAG
324386 GAAATAGGTTAAAATTATATATCATATTTATCTAACAATGAACCAAACCAAATGTATGATCTGCT
131 GAAATAGGTTAAAATTATATATCATATTTATCTAACAATGAACCAAACCAAATGTATGATCTGCT
324451 TGAATGGCTTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCTTCATAGCCATTTTA
196 TGAATGGCTTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCTTCATAGCCATTTTA
324516 TG
261 TG
* *
324518 AAAGTTTTATGAAAGTTTTAGCTGAAGGAACCTTGACGTTCCACACGACAATCAAATAGATTAAG
1 AAAGTATTATGAAAGTTTTAGCTCAAGGAACCTTGACGTTCCACACGACAATCAAATAGATTAAG
* * ** *
324583 AGCACAAAATATTATGATTAGGCAAAATAGAAACGGTTGCTTCCTAGAATATCATGGTTCTCAAG
66 AGCACAAAATATTACGATTAAGCAAAATAGAAACGGTTGCACCCCAGAATATCATGGTTCTCAAG
** * * * ** ** *
324648 GAAATAGGTTGCGACTTTTAATGTCA-ACTTGTGTAT-TAACAGAATAGATTGC-GCCCAGA-GT
131 GAAATAGGTT-AAAATTAT-ATATCATA--T-T-TATCTAAC--AAT-GA-ACCAAACCAAATGT
* ** ** ** * * * ** *
324709 ATCATGACCCCAAAGAA-AACATGTTGCAAT-CT-GA-AAT-ATTA-ACATTT---TA-AA---A
186 ATGAT--CTGC-TTGAATGGC-T-TAGTACTCCTAGATGTTCATTATA-ATTTAGGTACAATTCC
** * * * ***
324761 AATAAAAGCGATTGCGCCT-
245 CTTCATAGCCATT--TTATG
** * * * *
324780 AAAGTATTATGAGTGTTTTAGCTCAAGGAGCCTTGGCGTTCCCCACTACAATCAAATAGATTAAG
1 AAAGTATTATGAAAGTTTTAGCTCAAGGAACCTTGACGTTCCACACGACAATCAAATAGATTAAG
* * * *
324845 AGCACAAAGTATTACGATTAAGAAAAATAGAAATGGTTGCACCCCAGAATATTATGGTTCTCAAG
66 AGCACAAAATATTACGATTAAGCAAAATAGAAACGGTTGCACCCCAGAATATCATGGTTCTCAAG
324910 GAAATAGGTTAAAATTATATATCATATTTATCTAACAATGAACCAAACCAAATGTATGATCTGCT
131 GAAATAGGTTAAAATTATATATCATATTTATCTAACAATGAACCAAACCAAATGTATGATCTGCT
324975 TGAATGGCTTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCTTCATAGCCATTTTA
196 TGAATGGCTTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCTTCATAGCCATTTTA
325040 TG
261 TG
* *
325042 AAAGTTTTATGAAAGTTTTAGCTGAAGGAACCTTGACGTTCCACACGACAATCAAATAGATTAAG
1 AAAGTATTATGAAAGTTTTAGCTCAAGGAACCTTGACGTTCCACACGACAATCAAATAGATTAAG
* * ** *
325107 AGCACAAAATATTATGATTAGGCAAAATAGAAACGGTTGCTTCCTAGAATATCATGGTTCTCAAG
66 AGCACAAAATATTACGATTAAGCAAAATAGAAACGGTTGCACCCCAGAATATCATGGTTCTCAAG
325172 GAAATAGGTT
131 GAAATAGGTT
325182 GCGACTTGTA
Statistics
Matches: 904, Mismatches: 208, Indels: 148
0.72 0.17 0.12
Matches are distributed among these distances:
252 8 0.01
253 12 0.01
254 12 0.01
255 14 0.02
256 34 0.04
257 8 0.01
258 10 0.01
259 14 0.02
260 119 0.13
261 59 0.07
262 481 0.53
263 25 0.03
264 12 0.01
265 7 0.01
266 22 0.02
267 11 0.01
268 23 0.03
269 13 0.01
270 10 0.01
271 6 0.01
272 4 0.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (262 bp):
AAAGTATTATGAAAGTTTTAGCTCAAGGAACCTTGACGTTCCACACGACAATCAAATAGATTAAG
AGCACAAAATATTACGATTAAGCAAAATAGAAACGGTTGCACCCCAGAATATCATGGTTCTCAAG
GAAATAGGTTAAAATTATATATCATATTTATCTAACAATGAACCAAACCAAATGTATGATCTGCT
TGAATGGCTTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCTTCATAGCCATTTTA
TG
Found at i:324527 original size:11 final size:11
Alignment explanation
Indices: 324511--324537 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
324501 TTCATAGCCA
324511 TTTTATGAAAG
1 TTTTATGAAAG
324522 TTTTATGAAAG
1 TTTTATGAAAG
324533 TTTTA
1 TTTTA
324538 GCTGAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (11 bp):
TTTTATGAAAG
Found at i:325051 original size:11 final size:11
Alignment explanation
Indices: 325035--325061 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
325025 TTCATAGCCA
325035 TTTTATGAAAG
1 TTTTATGAAAG
325046 TTTTATGAAAG
1 TTTTATGAAAG
325057 TTTTA
1 TTTTA
325062 GCTGAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (11 bp):
TTTTATGAAAG
Found at i:325889 original size:263 final size:263
Alignment explanation
Indices: 325423--329621 Score: 4958
Period size: 262 Copynumber: 16.0 Consensus size: 263
325413 ATAATATCAT
* * * *
325423 GGTTGCGACTTGTAATGTCAACTTGTGTACTAATAGAATAGATTGCACCCA-A-TTTCATGTCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* *
325486 CCAAAGAAAGCACGTTGCAATAT-GAAATATTATCATTTTAAAAAATAAAAGCGATTGAACGTAA
66 CCAAAGAAAGCACGTTGCAATCTAG-AATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAA
* * ** *
325550 AGTATTATGCAAGTTTTAGTCGATGGAGCCTTGGCGTTCTGCACGACAAACAAATAGGTTAAGAG
130 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* *
325615 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTACGCCCCAAAATATCACGGTTCTAAAGGA
195 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
325680 AATA
260 AATA
* *
325684 TGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATTGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
325749 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
** *** * *
325814 GTATTATGAAAGTTTTAGTTGATGGAGCCTTGGCGTTTTGCACAACAAACAAATAGGTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * * * *
325879 ACAAAGTATTACGATTAGGAAAAATAGAAACGGTTACGCCCCAAAATATCACAGTTCTAAAGGGA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
325944 ATA
261 ATA
* * * *
325947 GGTTGTGACTTGTAATTTCAACTTGTGTATTATTAGAATAGATTGCTCCCAGAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
326012 CTAAGGTAAGCACGTTGCAATAT-GTAATATTATCATTTTTAAAAATAAAAGCAATTGCAAT-TA
66 CCAAAGAAAGCACGTTGCAATCTAG-AATATTATCATTTTAAAAAATAAAAGCGATTG-AATGTA
* * * * * * *
326075 AAGAATTATGAAAGTTGTAGTCGATGAAGCCTTGGCGTTCCCCACAAAAATCAAATAGGTTAATA
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* ** * * *
326140 GCACAAAATATTACGA-TAGGCAAAATAGAAACTATTGTGCCCTAGAATATCACGGTTATAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
326204 AAATA
259 AAATA
** * * * * *
326209 GGTTGAAACTCGTAATGTCAATTTGTGTATTAATTG-ATAGATTGCGCTCAGAGTATCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
** * * * * * *
326273 CCAAAGAAAGTGCATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * *
326338 GTATTATGAAAGTTTTATCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAAC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * * *
326403 ACAAAGTATTACGATTAGGTAAAACAGAAATGGTTGCGCCCCAGAATATCACGGTTCTAAAGAAA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
326468 ATA
261 ATA
* * *
326471 GGTTACGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCAAAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * *
326536 ACAAAGAAA-CACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATT-ACGTGTAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGA-ATGTAA
* ** * * * * *
326599 AGTATTATGAAAGTTTTCGTTGATGGACCCTTGGCATTCCACACAACAAACAAATAGGTTAAGAG
130 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* ** * * * *
326664 CACAAAGTATTATGATTAGGCAAAATAGAAACGGTTATGCCCCATAATATCACGATCCTAAA-AA
195 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
326728 AATA
260 AATA
* * * * * * * *
326732 GGTTGTGATTTGTAATGTCAACCTATGTATTATTAGAATAGGTTGCTCCAAGAGTGTCATGGCCT
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC-
* * * * *
326797 CTC-AGGAAAGCTCGTTGCAATAT-GAAATATTATAATTTTAAAAAATAAAAGC-ATTTGAAAT-
65 CCCAAAGAAAGCACGTTGCAATCTAG-AATATTATCATTTTAAAAAATAAAAGCGA-TTG-AATG
* *
326858 TAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCATTCCCCATGACAATCAAATAGGTTAA
127 TAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAA
* * * * *
326923 GAGCACAAATTATTACGATTAGGAAAAATAGAAACGGTTGCACCCCAAAATATCATGGTTCTAAA
192 GAGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAA
326988 GGAAATA
257 GGAAATA
* * *
326995 AGTTGCGAATTG-AACTGTCAACTTGTGTATTAATAG-ATAGATTGTGCCCAGAGTGTCATGG-C
1 GGTTGCGACTTGTAA-TGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * * * * * *
327057 CCCAAAGAAATCGCATTGCAATATGGAATATTATCATTTT-AAAAATAAAAGTGATTGCACT-AA
65 CCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTG-AATGTA
* *
327120 AAGTATTATGAAAGTTATAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGGTTAAGA
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * *
327185 ACACAAAGTATTACGATTAGGTAAAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
327250 AAATA
259 AAATA
* *
327255 GGTTGCGACTTGTAATGTCAACTTATGTATTAATAGAATAGATTGCGTCCAGAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
327320 CCAAAGAAACCACGTTACAATATGGAATATTATCATTTTAAAAAATAAAAGCTATTGTATGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * * * ** *
327385 GTATTATGAAAGTTTTAGCAG-TCAGAGCC-TGGTGTTTCGTACGACAATCAAATAGTTTAAGAG
131 GTATTATGAAAGTTTTAGCCGAT-GGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* * * * * * * * *
327448 -ATAAAAGTATTACGATTAGACAAAATAGAAGCGATTGTGCTCCAGAATATTAGGGATCT-AAGG
195 CA-CAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
**
327511 ATGTA
259 AAATA
* * * * *
327516 GGTTGTGACTTGTAATGTCAACTTGTGTATTATTATAATTA-ATTGCTCCCAGAGTGTCATGGAC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAA-TAGATTGCGCCCAGAGTGTCATGGCC
*** * * *
327580 TTTAAAGAAAGCATGTTGCAATATGGAATATTATCATTTT-AAAAATAAAAGCGATTGCAAT-TA
65 CCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTG-AATGTA
* *
327643 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGGTTAAGG
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
** * * ** * *
327708 GCACAAAGTATTACGATTAGGC---A-AGAAATTGTTACACTTCAGAACATAACGGTTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
327769 AAATA
259 AAATA
* * *
327774 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAG-ATAGATTGCTCCCAAAGTGTCATGCCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * ****
327838 CCAAAGAAAGCGCATTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCGCCTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * * ** * * *
327903 GTATTATGAAAGTTTTAGTCGATGGAGACTTGGCGTTTCGTAGGACAATAAAATAAGTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* *** * * * *
327968 ACAAAGTATTATGATTATTTAAACTAGAAACGGTTACGCCGCAGAATATCACGGTTTTAAAGGAA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
328033 ATA
261 ATA
* * *
328036 GGTTGCGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCACCCACAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
328101 CCAAAGAAAGCATGTTGCAATCTAGTATATTATCATTTT-AAAAATAAAAGCTATTGTACGTGAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * * *
328165 GTATTATGAAAGTTTTCA-CCGGTGGAGCCTTGGCATTCCCTACGAAAATCAAATAGGTTAAGAG
131 GTATTATGAAAGTTTT-AGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* * *
328229 CACAAA-TATTACGATTAGGCAAAATAGAAACGGTTACGCCCCAAAATATCACGTTTCTAAAGGA
195 CACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
328293 AATA
260 AATA
* * * * * * * * *
328297 GGTTGCGACTTGTAATTTCTACTTGTGTATTAACATAATCGATTTCACCTAGAGTGTCATTG-CC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * ** * *
328361 CCAAAGAAAGCATGTTACAATCT-GAAATATT-TACATTTTAAAAAATAAAAATGATTGCATCTA
66 CCAAAGAAAGCACGTTGCAATCTAG-AATATTAT-CATTTTAAAAAATAAAAGCGATTGAATGTA
* * * * * *
328424 AAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGTGTT-CCTATGATAATCAAATAGATTAAGA
129 AAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * * * * * * * *
328488 GCATAAAGCATTACGATTAGGCAAAATAAAAACGATTGCGCCCCAAAATATAACAGTTCTCAATG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
328553 AAATA
259 AAATA
* * *
328558 GGTTGCGACTTGTAATTTCAACTTGTGTATTAATAGAATAGATTGCGCTCAGAATGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * *
328623 CCAAAGAAAGCACATTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGCGATTGCACGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
** *
328688 GTATTATGAAAGTTTTAGTTGATGGAGCCTTGGCGTTCCACACGACAATC-AATAGGTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * * * *
328752 ACAAAATACTACGATTAGGCAAAATAGACACGGTTGTGCCCCATAATATCACGGTTCTAAAGGAA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
328817 ATA
261 ATA
* *
328820 GGTTGAGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * * **
328885 CCAAAGAAAGAATGTTGCAATCTATAATATTATCATTTTAAAATAGAAAAGAGATTGCGTGTAAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
* * ** *
328950 GTATTATGAAAGTTTTAACCGATGGAGCCTTGGCGTTTCATACGATAATCAAATAGGTTAAGAGC
131 GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
* * ** * * * * *
329015 AAAAAGTATTACAATTAAACAAAATAGAAGCGGTTGCACTCCAGAATATCACAGTTCTAAAGAAA
196 ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
329080 ATA
261 ATA
* * ** * *
329083 GGTTGTGACTTGTATTGTCAACTTGTGTATTAATAGAATAGATTGAACCAAGAGTTTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * * * * *
329148 CTAAGGAAAGCAAC-TTGCAATTTAGAATACTATCATTTTAAAATATAAAAGCAATTG--TGCTT
66 CCAAAGAAAGC-ACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATG--T
* * *
329210 AAAGTTTTATGAAAGTTTTAGCCGATAGAGCCTTGGCGTTCCCCACAACAATCAAATAGGTTAAG
128 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
* *
329275 AGCACAAAGTATTACGATTAGGCAAAATAGAAACTGTTGCGCCCCAGAATATCACAGTTCTAAAG
193 AGCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAG
329340 GAAATA
258 GAAATA
* * *
329346 GGTTTCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGTGCCCAAAGTGTCATGGCCC
1 GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
* * *
329411 CTAAAGAAAGCACGTTGCAATCTAGAATATTTATCATTTTAAAAAATAAAATCGATTGCATGTAA
66 CCAAAGAAAGCACGTTGCAATCTAGAATA-TTATCATTTTAAAAAATAAAAGCGATTGAATGTAA
* * ** *
329476 AATATTATGAAAGTTTTAGCC-ATCGGAGCCTTGGTGTTCCGTACGACAATCAAATAGTTTAAGA
130 AGTATTATGAAAGTTTTAGCCGAT-GGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * * * * * * *
329540 GCACAAAGTAATACAATTAGAC-AAATAGAAGCAGTTGCGCTCCAGGATATCACGATTCTAAAGG
194 GCACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
329604 AAATA
259 AAATA
* *
329609 AGTTGTGACTTGT
1 GGTTGCGACTTGT
329622 TCTCTTTAAA
Statistics
Matches: 3362, Mismatches: 515, Indels: 120
0.84 0.13 0.03
Matches are distributed among these distances:
256 2 0.00
257 75 0.02
258 132 0.04
259 2 0.00
260 284 0.08
261 721 0.21
262 1061 0.32
263 978 0.29
264 105 0.03
266 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (263 bp):
GGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCCC
CCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAAA
GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
ACAAAGTATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
ATA
Found at i:327363 original size:523 final size:522
Alignment explanation
Indices: 323541--329621 Score: 5584
Period size: 524 Copynumber: 11.7 Consensus size: 522
323531 CATTGAGTTG
* ** ** *
323541 AAAAGTATTACGATTAGGTAAAATAGAAACATTTATGCACCAGAATATCACGGTTCTAAAGGAAA
1 AAAA-TATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAA
* * * *
323606 TAGGTTGCGACTTTTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCAGAGTATCAT-GA
65 TAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGC
* * * * * ***
323670 CCCCAAAGAAAACATGTTGCAATCTGAAATATTAACATTTTAAAAAATAAAAACGATTGCGCCTA
130 CCCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGC-ATTGCATGTA
** * * *
323735 AAGTATTATGAGTGTTTTAGCTC-AAGGAGCCTTGGCGTTCCCCACTACAATCAAATAGATTAAG
194 AAGTATTATGAAAGTTTTAGC-CGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
* * * * * * *
323799 AGCACAAAGTATTACGATTAAGCAAAATAGAAATGGTTGCACCCCAGAATATTATGGTTCTCAAG
258 AGCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAG
** * * * * ** * *
323864 GAAATAGGTT-AAAATTAT-ATATC-A-TAT-T-TATCT-A-ACAAT-GA-ACCAAACCA-AATG
323 GAAATAGGTTGCGACTTGTAATGTCAACT-TGTGTAT-TAATAGAATAGATTGC-ACCCAGAGTG
* ** ** ** * * * * **
323918 T-ATGATCTGC-TTGAATGGC-TTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCT
385 TCATG-GCCCCAAAGAAACGCATT-GCAAT-CTAGA--AT-ATTATCATTT---TA-AA----AA
* * * ** * * * * * *
323980 TCATAGCCATTTTA-TGAAAGTTTTATGAAAGTTTTAGCTGAAGGAACCTTGACGTTCCACACGA
436 TAAAAGCGATTGCACTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGA
*
324044 CAATCAAATAGATTAAGAGCAC
501 CAATCAAATAGGTTAAGAGCAC
* ** * * *
324066 AAAAT-TTATGATTAGGCAAAATAG-AACGGTTGCTTCCTAGAATATCATGGTTCTCAAGGAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * *
324129 AGGTTGCGACTTTTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCAGAGTATCAT-GAC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * * ***
324193 CCCAAAGAAAACATGTTGCAATCTGAAATATTAACATTTTAAAAAATAAAAGCGATTGCGCCTAA
131 CCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGC-ATTGCATGTAA
** * * *
324258 AGTATTATGAGTGTTTTAGCTC-AAGGAGCCTTGGCGTTCCCCACTACAATCAAATAGATTAAGA
195 AGTATTATGAAAGTTTTAGC-CGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * * * * *
324322 GCACAAAGTATTACGATTAAGAAAAATAGAAATGGTTGCACCCCAGAATATTATGGTTCTCAAGG
259 GCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
** * * * * ** * *
324387 AAATAGGTT-AAAATTAT-ATATC-A-TAT-T-TATCT-A-ACAAT-GA-ACCAAACCA-AATGT
324 AAATAGGTTGCGACTTGTAATGTCAACT-TGTGTAT-TAATAGAATAGATTGC-ACCCAGAGTGT
* ** ** ** * * * * **
324441 -ATGATCTGC-TTGAATGGC-TTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCTT
386 CATG-GCCCCAAAGAAACGCATT-GCAAT-CTAGA--AT-ATTATCATTT---TA-AA----AAT
* * * ** * * * * * *
324503 CATAGCCATTTTA-TGAAAGTTTTATGAAAGTTTTAGCTGAAGGAACCTTGACGTTCCACACGAC
437 AAAAGCGATTGCACTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGAC
*
324567 AATCAAATAGATTAAGAGCAC
502 AATCAAATAGGTTAAGAGCAC
* ** * * *
324588 AAAATATTATGATTAGGCAAAATAGAAACGGTTGCTTCCTAGAATATCATGGTTCTCAAGGAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * *
324653 AGGTTGCGACTTTTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCAGAGTATCAT-GAC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * * ***
324717 CCCAAAGAAAACATGTTGCAATCTGAAATATTAACATTTTAAAAAATAAAAGCGATTGCGCCTAA
131 CCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGC-ATTGCATGTAA
** * * *
324782 AGTATTATGAGTGTTTTAGCTC-AAGGAGCCTTGGCGTTCCCCACTACAATCAAATAGATTAAGA
195 AGTATTATGAAAGTTTTAGC-CGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * * * * *
324846 GCACAAAGTATTACGATTAAGAAAAATAGAAATGGTTGCACCCCAGAATATTATGGTTCTCAAGG
259 GCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
** * * * * ** * *
324911 AAATAGGTT-AAAATTAT-ATATC-A-TAT-T-TATCT-A-ACAAT-GA-ACCAAACCA-AATGT
324 AAATAGGTTGCGACTTGTAATGTCAACT-TGTGTAT-TAATAGAATAGATTGC-ACCCAGAGTGT
* ** ** ** * * * * **
324965 -ATGATCTGC-TTGAATGGC-TTAGTACTCCTAGATGTTCATTATAATTTAGGTACAATTCCCTT
386 CATG-GCCCCAAAGAAACGCATT-GCAAT-CTAGA--AT-ATTATCATTT---TA-AA----AAT
* * * ** * * * * * *
325027 CATAGCCATTTTA-TGAAAGTTTTATGAAAGTTTTAGCTGAAGGAACCTTGACGTTCCACACGAC
437 AAAAGCGATTGCACTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGAC
*
325091 AATCAAATAGATTAAGAGCAC
502 AATCAAATAGGTTAAGAGCAC
* ** * * *
325112 AAAATATTATGATTAGGCAAAATAGAAACGGTTGCTTCCTAGAATATCATGGTTCTCAAGGAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* *
325177 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAG-ATAGATTGCACCCAAAGTGTCATGG-C
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * ** *
325240 CCCAAAGAAAGCAAGTTGTAATATGGGCTATTAACATTTTAAAAAATAAAAGCGATTG--TGCCT
131 CCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGC-ATTGCATG--T
* * * * * *
325303 AAAGTATTTTGAAAGTTTTAGTCGATGGAGCCTTGGCGTTCCACATGGCAATTAAATAGGTTAAG
193 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
* * * * *
325368 AACACAAAGTATTACGATTAGGCAAAACAGAAACGATTGCGCCCCA-TA-AT-A----TC-----
258 AGCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAG
* *
325421 ---AT-GGTTGCGACTTGTAATGTCAACTTGTGTACTAATAGAATAGATTGCACCCA-A-TTTCA
323 GAAATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCA
* *
325480 TGTCCCCCAAAGAAA-GCACGTTGCAATAT-GAAATATTATCATTTTAAAAAATAAAAGCGATTG
388 TG-GCCCCAAAGAAACGCA--TTGCAATCTAG-AATATTATCATTTT-AAAAATAAAAGCGATTG
* * * * ** *
325543 AACGTAAAGTATTATGCAAGTTTTAGTCGATGGAGCCTTGGCGTTCTGCACGACAAACAAATAGG
448 CACTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGG
325608 TTAAGAGCAC
513 TTAAGAGCAC
* * *
325618 AAAGTATTACGATTAGGCAAAATAGAAACGGTTACGCCCCAAAATATCACGGTTCTAAAGGAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* *
325683 ATGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATTGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* *
325748 CCCAAAGAAAGCACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCGATTGAATGTAA
131 CCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGC-ATTGCATGTAA
** *** * *
325813 AGTATTATGAAAGTTTTAGTTGATGGAGCCTTGGCGTTTTGCACAACAAACAAATAGGTTAAGAG
195 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* * * *
325878 CACAAAGTATTACGATTAGGAAAAATAGAAACGGTTACGCCCCAAAATATCACAGTTCTAAAGGG
260 CACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
* * * *
325943 AATAGGTTGTGACTTGTAATTTCAACTTGTGTATTATTAGAATAGATTGCTCCCAGAGTGTCATG
325 AATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCATG
* * * *
326008 GCCCCTAAGGTAA-GCACGTTGCAATAT-GTAATATTATCATTTTTAAAAATAAAAGCAATTGCA
390 GCCCC-AAAGAAACGCA--TTGCAATCTAG-AATATTATCA-TTTTAAAAATAAAAGCGATTGCA
* * * * * * * *
326071 ATTAAAGAATTATGAAAGTTGTAGTCGATGAAGCCTTGGCGTTCCCCACAAAAATCAAATAGGTT
450 CTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTT
*
326136 AATAGCAC
515 AAGAGCAC
** * * *
326144 AAAATATTACGA-TAGGCAAAATAGAAACTATTGTGCCCTAGAATATCACGGTTATAAAGGAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
** * * * * *
326208 AGGTTGAAACTCGTAATGTCAATTTGTGTATTAATTG-ATAGATTGCGCTCAGAGTATCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
** * * * *
326272 CCCAAAGAAAGTGCATTGCAATATGGAATATTATCATTTTAAAAAATAAAAGTGATTGCATCTAA
131 CCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAG-CATTGCATGTAA
* * *
326337 AGTATTATGAAAGTTTTATCTGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAA
195 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* * * *
326402 CACAAAGTATTACGATTAGGTAAAACAGAAATGGTTGCGCCCCAGAATATCACGGTTCTAAAGAA
260 CACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
* * * *
326467 AATAGGTTACGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCGCCCAAAGTGTCATG
325 AATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCATG
* * *
326532 GCCCACAAAGAAACACGTTGCAATCTAGAATATTATCATTTTAAAAAATAAAAGCAATT--ACGT
390 GCCC-CAAAGAAACGCATTGCAATCTAGAATATTATCATTTT-AAAAATAAAAGCGATTGCAC-T
* ** * * * *
326595 GTAAAGTATTATGAAAGTTTTCGTTGATGGACCCTTGGCATTCCACACAACAAACAAATAGGTTA
452 -TAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTTA
326660 AGAGCAC
516 AGAGCAC
* * ** * * * *
326667 AAAGTATTATGATTAGGCAAAATAGAAACGGTTATGCCCCATAATATCACGATCCTAAA-AAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * * * * *
326731 AGGTTGTGATTTGTAATGTCAACCTATGTATTATTAGAATAGGTTGCTCCAAGAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * * * * *
326796 TCTC-AGGAAAGCTCGTTGCAATATGAAATATTATAATTTTAAAAAATAAAAGCATTTGAAAT-T
131 -CCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGCA-TTG-CATGT
* *
326859 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCATTCCCCATGACAATCAAATAGGTTAAG
193 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
* * * *
326924 AGCACAAATTATTACGATTAGGAAAAATAGAAACGGTTGCACCCCAAAATATCATGGTTCTAAAG
258 AGCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAG
* * **
326989 GAAATAAGTTGCGAATTG-AACTGTCAACTTGTGTATTAATAG-ATAGATTGTGCCCAGAGTGTC
323 GAAATAGGTTGCGACTTGTAA-TGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTC
* * *
327052 ATGGCCCCAAAGAAATCGCATTGCAATATGGAATATTATCATTTTAAAAATAAAAGTGATTGCAC
387 ATGGCCCCAAAGAAA-CGCATTGCAATCTAGAATATTATCATTTTAAAAATAAAAGCGATTGCAC
* * * *
327117 TAAAAGTATTATGAAAGTTATAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGGTTA
451 TTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTTA
*
327182 AGAACAC
516 AGAGCAC
* * *
327189 AAAGTATTACGATTAGGTAAAACAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* *
327254 AGGTTGCGACTTGTAATGTCAACTTATGTATTAATAGAATAGATTGCGTCCAGAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * *
327319 CCCAAAGAAACCACGTTACAATATGGAATATTATCATTTTAAAAAATAAAAGCTATTGTATGTAA
131 CCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGC-ATTGCATGTAA
* * * * ** *
327384 AGTATTATGAAAGTTTTAGCAG-TCAGAGCC-TGGTGTTTCGTACGACAATCAAATAGTTTAAGA
195 AGTATTATGAAAGTTTTAGCCGAT-GGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGA
* * * * * * * *
327447 G-ATAAAAGTATTACGATTA-GACAAAATAGAAGCGATTGTGCTCCAGAATATTAGGGATCT-AA
259 GCA-CAAAGTATTACGATTAGGA-AAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAA
** * * * *
327509 GGATGTAGGTTGTGACTTGTAATGTCAACTTGTGTATTATTATAATTA-ATTGCTCCCAGAGTGT
322 GGAAATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAA-TAGATTGCACCCAGAGTGT
*** * *
327573 CATGGACTTTAAAGAAA-GCATGTTGCAATATGGAATATTATCATTTTAAAAATAAAAGCGATTG
386 CATGG-CCCCAAAGAAACGCA--TTGCAATCTAGAATATTATCATTTTAAAAATAAAAGCGATTG
* * *
327637 CAATTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGTGTTCCCCACGACAATCAAATAGG
448 CACTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGG
*
327702 TTAAGGGCAC
513 TTAAGAGCAC
* ** * * ** * *
327712 AAAGTATTACGATTAGGC---A-AGAAATTGTTACACTTCAGAACATAACGGTTCTAAAGGAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * *
327773 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAG-ATAGATTGCTCCCAAAGTGTCATGCCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * ***
327837 CCCAAAGAAAGCGCATTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGTGATTGCGCCTAA
131 CCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAG-CATTGCATGTAA
* * * ** * * *
327902 AGTATTATGAAAGTTTTAGTCGATGGAGACTTGGCGTTTCGTAGGACAATAAAATAAGTTAAGAG
195 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* *** * * * *
327967 CACAAAGTATTATGATTATTTAAACTAGAAACGGTTACGCCGCAGAATATCACGGTTTTAAAGGA
260 CACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGA
* *
328032 AATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAACAGAATAGATTGCACCCACAGTGTCATG
325 AATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCATG
* * * *
328097 GCCCCCAAAGAAA-GCATGTTGCAATCTAGTATATTATCATTTTAAAAATAAAAGCTATTGTACG
390 G-CCCCAAAGAAACGCA--TTGCAATCTAGAATATTATCATTTTAAAAATAAAAGCGATTGCACT
* * * *
328161 TGAAGTATTATGAAAGTTTTCA-CCGGTGGAGCCTTGGCATTCC-CTACGAAAATCAAATAGGTT
452 TAAAGTATTATGAAAGTTTT-AGCCGATGGAGCCTTGGCGTTCCAC-ACGACAATCAAATAGGTT
328224 AAGAGCAC
515 AAGAGCAC
* * *
328232 -AAATATTACGATTAGGCAAAATAGAAACGGTTACGCCCCAAAATATCACGTTTCTAAAGGAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * * * * * * * *
328296 AGGTTGCGACTTGTAATTTCTACTTGTGTATTAACATAATCGATTTCACCTAGAGTGTCATTG-C
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * * *
328360 CCCAAAGAAAGCATGTTACAATCTGAAATATT-TACATTTTAAAAAATAAAAATG-ATTGCATCT
131 CCCAAAGAAAGCACGTTGCAATCTGGAATATTAT-CATTTTAAAAAAT-AAAA-GCATTGCATGT
* * * * * *
328423 AAAGTATTATGAAAGTTTTAGCTGATGGAGCCTTGGTGTT-CCTATGATAATCAAATAGATTAAG
193 AAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
* * * * * * * * * *
328487 AGCATAAAGCATTACGATTAGGCAAAATAAAAACGATTGCGCCCCAAAATATAACAGTTCTCAAT
258 AGCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAG
* * * *
328552 GAAATAGGTTGCGACTTGTAATTTCAACTTGTGTATTAATAGAATAGATTGCGCTCAGAATGTCA
323 GAAATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCA
* *
328617 TGGCCCCCAAAGAAAGCACATTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGCGATTGCA
388 TGG-CCCCAAAGAAA-CGCATTGCAATCTAGAATATTATCATTTT-AAAAATAAAAGCGATTGCA
* **
328682 CGTAAAGTATTATGAAAGTTTTAGTTGATGGAGCCTTGGCGTTCCACACGACAATC-AATAGGTT
450 CTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTT
328746 AAGAGCAC
515 AAGAGCAC
* * * *
328754 AAAATACTACGATTAGGCAAAATAGACACGGTTGTGCCCCATAATATCACGGTTCTAAAGGAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* *
328819 AGGTTGAGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAAAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * ** * * * *
328884 CCCAAAGAAAGAATGTTGCAATCTATAATATTATCATTTTAAAATAGAAAAGAGATTGCGTGTAA
131 CCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAG-CATTGCATGTAA
* * ** *
328949 AGTATTATGAAAGTTTTAACCGATGGAGCCTTGGCGTTTCATACGATAATCAAATAGGTTAAGAG
195 AGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAG
* * * * * * * *
329014 CAAAAAGTATTACAATTA-AACAAAATAGAAGCGGTTGCACTCCAGAATATCACAGTTCTAAAGA
260 CACAAAGTATTACGATTAGGA-AAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGG
* * * * *
329078 AAATAGGTTGTGACTTGTATTGTCAACTTGTGTATTAATAGAATAGATTGAACCAAGAGTTTCAT
324 AAATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCAT
* * * * **
329143 GGCCCCTAAGGAAA-GCAACTTGCAATTTAGAATACTATCATTTTAAAATATAAAAGCAATTGTG
389 GGCCCC-AAAGAAACGC-A-TTGCAATCTAGAATATTATCATTTTAAAA-ATAAAAGCGATTGCA
* * * *
329207 CTTAAAGTTTTATGAAAGTTTTAGCCGATAGAGCCTTGGCGTTCCCCACAACAATCAAATAGGTT
450 CTTAAAGTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTT
329272 AAGAGCAC
515 AAGAGCAC
* * *
329280 AAAGTATTACGATTAGGCAAAATAGAAACTGTTGCGCCCCAGAATATCACAGTTCTAAAGGAAAT
1 AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
* * *
329345 AGGTTTCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGTGCCCAAAGTGTCATGGCC
66 AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
* * *
329410 CCTAAAGAAAGCACGTTGCAATCTAGAATATTTATCATTTTAAAAAATAAAATCGATTGCATGTA
131 CCCAAAGAAAGCACGTTGCAATCTGGAATA-TTATCATTTTAAAAAATAAAAGC-ATTGCATGTA
* * ** *
329475 AAATATTATGAAAGTTTTAGCC-ATCGGAGCCTTGGTGTTCCGTACGACAATCAAATAGTTTAAG
194 AAGTATTATGAAAGTTTTAGCCGAT-GGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAG
* * * * * * * *
329539 AGCACAAAGTAATACAATTA-GACAAATAGAAGCAGTTGCGCTCCAGGATATCACGATTCTAAAG
258 AGCACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAG
* *
329603 GAAATAAGTTGTGACTTGT
323 GAAATAGGTTGCGACTTGT
329622 TCTCTTTAAA
Statistics
Matches: 4841, Mismatches: 601, Indels: 227
0.85 0.11 0.04
Matches are distributed among these distances:
505 9 0.00
506 151 0.03
507 26 0.01
508 155 0.03
509 8 0.00
510 7 0.00
511 4 0.00
512 12 0.00
513 7 0.00
514 15 0.00
515 8 0.00
516 5 0.00
517 2 0.00
518 101 0.02
519 160 0.03
520 176 0.04
521 45 0.01
522 910 0.19
523 995 0.21
524 1287 0.27
525 311 0.06
526 342 0.07
527 105 0.02
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Consensus pattern (522 bp):
AAAATATTACGATTAGGCAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAAAT
AGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCGCCCAGAGTGTCATGGCC
CCCAAAGAAAGCACGTTGCAATCTGGAATATTATCATTTTAAAAAATAAAAGCATTGCATGTAAA
GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCCCACGACAATCAAATAGGTTAAGAGC
ACAAAGTATTACGATTAGGAAAAATAGAAACGGTTGCGCCCCAGAATATCACGGTTCTAAAGGAA
ATAGGTTGCGACTTGTAATGTCAACTTGTGTATTAATAGAATAGATTGCACCCAGAGTGTCATGG
CCCCAAAGAAACGCATTGCAATCTAGAATATTATCATTTTAAAAATAAAAGCGATTGCACTTAAA
GTATTATGAAAGTTTTAGCCGATGGAGCCTTGGCGTTCCACACGACAATCAAATAGGTTAAGAGC
AC
Found at i:332571 original size:12 final size:12
Alignment explanation
Indices: 332556--332592 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
332546 TTCAAAATAA
332556 TAATAAAAAAAT
1 TAATAAAAAAAT
332568 TAATTAAAAAAAT
1 TAA-TAAAAAAAT
*
332581 TAAAAAAAAAAT
1 TAATAAAAAAAT
332593 CAATTGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
TAATAAAAAAAT
Found at i:332575 original size:13 final size:13
Alignment explanation
Indices: 332559--332597 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
332549 AAAATAATAA
332559 TAAAAAAATTAAT
1 TAAAAAAATTAAT
332572 TAAAAAAATTAA-
1 TAAAAAAATTAAT
* *
332584 AAAAAAAATCAAT
1 TAAAAAAATTAAT
332597 T
1 T
332598 GTTAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAAAAATTAAT
Found at i:333188 original size:17 final size:16
Alignment explanation
Indices: 333161--333196 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
333151 TTAAATATTA
*
333161 TTTTAAATAATTATAT
1 TTTTAAATAATAATAT
333177 TTTTATAATAATAATAT
1 TTTTA-AATAATAATAT
333194 TTT
1 TTT
333197 CACATCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAAATAATAATAT
Found at i:340904 original size:3 final size:3
Alignment explanation
Indices: 340896--340962 Score: 82
Period size: 3 Copynumber: 21.0 Consensus size: 3
340886 CTGCACAAAT
340896 ATA ATA ATA ATTA ATTA ATA ATA AGTA ATA ATA ATA ATA ATAA ATAA
1 ATA ATA ATA A-TA A-TA ATA ATA A-TA ATA ATA ATA ATA AT-A AT-A
340943 ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA
340963 TTTTTTGTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.03
3 41 0.68
4 17 0.28
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:340930 original size:20 final size:18
Alignment explanation
Indices: 340896--340962 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 18
340886 CTGCACAAAT
340896 ATAATAATAATTAATTAATA
1 ATAATAATAA-TAA-TAATA
340916 ATAAGTAATAATAATAATA
1 ATAA-TAATAATAATAATA
340935 ATAAATAAATAATAATAATA
1 AT-AAT-AATAATAATAATA
340955 ATAA-AATA
1 ATAATAATA
340963 TTTTTTGTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.09
19 10 0.23
20 24 0.55
21 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (18 bp):
ATAATAATAATAATAATA
Found at i:340961 original size:17 final size:17
Alignment explanation
Indices: 340892--340962 Score: 78
Period size: 17 Copynumber: 4.3 Consensus size: 17
340882 TGGCCTGCAC
*
340892 AAAT-ATAATAATAATT
1 AAATAATAATAATAATA
*
340908 AATTAATAATAAGTAAT-
1 AAATAATAATAA-TAATA
340925 -AATAATAATAATAA-A
1 AAATAATAATAATAATA
340940 TAAATAATAATAATAATA
1 -AAATAATAATAATAATA
340958 AAATA
1 AAATA
340963 TTTTTTGTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
15 3 0.06
16 13 0.28
17 26 0.55
18 5 0.11
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (17 bp):
AAATAATAATAATAATA
Found at i:348140 original size:15 final size:16
Alignment explanation
Indices: 348122--348154 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
348112 TTATTATGTA
348122 AATATTTT-TTAATTT
1 AATATTTTATTAATTT
*
348137 AATATTTTATTATTTT
1 AATATTTTATTAATTT
348153 AA
1 AA
348155 AATTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
AATATTTTATTAATTT
Found at i:348546 original size:14 final size:14
Alignment explanation
Indices: 348517--348556 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
348507 CATCCGAAGC
348517 CATCCGACCG-GGG
1 CATCCGACCGAGGG
348530 CATCCGACCGAGGG
1 CATCCGACCGAGGG
348544 CATCCGACCGAGG
1 CATCCGACCGAGG
348557 CCATTCGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.20, C:0.38, G:0.35, T:0.07
Consensus pattern (14 bp):
CATCCGACCGAGGG
Found at i:348656 original size:29 final size:29
Alignment explanation
Indices: 348612--348805 Score: 361
Period size: 29 Copynumber: 6.7 Consensus size: 29
348602 ACGCGAGGAG
*
348612 CAGGAGTGCATAGCGACCTACAAGGTCGC
1 CAGGAGTGCATGGCGACCTACAAGGTCGC
348641 CAGGAGTGCATGGCGACCTACAAGGTCGC
1 CAGGAGTGCATGGCGACCTACAAGGTCGC
348670 CAGGAGTGCATGGCGACCTACAAGGTCGC
1 CAGGAGTGCATGGCGACCTACAAGGTCGC
348699 CAGGAGTGCATGGCGACCTACAAGGTCGC
1 CAGGAGTGCATGGCGACCTACAAGGTCGC
348728 CAGGAGTGCATGGCGACCTACAAGGTCGC
1 CAGGAGTGCATGGCGACCTACAAGGTCGC
*
348757 CCGGAGTGCATGGCGACCTACAAGGTCGC
1 CAGGAGTGCATGGCGACCTACAAGGTCGC
*
348786 CCGGAGTGCATGGCGACCTA
1 CAGGAGTGCATGGCGACCTA
348806 TGCTGGGAAG
Statistics
Matches: 163, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 163 1.00
ACGTcount: A:0.24, C:0.28, G:0.34, T:0.14
Consensus pattern (29 bp):
CAGGAGTGCATGGCGACCTACAAGGTCGC
Found at i:351844 original size:3 final size:3
Alignment explanation
Indices: 351838--351869 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
351828 CCTTTTTTTT
351838 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
351870 GCGGAGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:354103 original size:21 final size:20
Alignment explanation
Indices: 354079--354117 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
354069 AATAATTATT
*
354079 TAAAAAATTATTATTTTTACC
1 TAAAAAATTAAT-TTTTTACC
*
354100 TAAAATATTAATTTTTTA
1 TAAAAAATTAATTTTTTA
354118 ACATATCCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TAAAAAATTAATTTTTTACC
Found at i:361775 original size:27 final size:25
Alignment explanation
Indices: 361723--361776 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
361713 ACAAATAAAT
***
361723 TAACTTTTTTTCTCATTTTTTGTTA
1 TAACTTTTTTTCTCATTTAAGGTTA
361748 TAACTTTTTTTCTCAGTTTAAGGATTA
1 TAACTTTTTTTCTCA-TTTAAGG-TTA
361775 TA
1 TA
361777 TTGGTGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.62
26 4 0.17
27 5 0.21
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.59
Consensus pattern (25 bp):
TAACTTTTTTTCTCATTTAAGGTTA
Found at i:361992 original size:21 final size:21
Alignment explanation
Indices: 361968--362010 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
361958 TATTACCTTA
361968 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
361989 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
362010 A
1 A
362011 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:362028 original size:35 final size:35
Alignment explanation
Indices: 361979--362064 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
361969 ATTGAAGTAT
** * *
361979 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
362014 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
362049 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
362065 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:362247 original size:29 final size:29
Alignment explanation
Indices: 362195--362254 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
362185 GCAAACGGAA
* *
362195 TAAATGTTGGGGGACTGTATTGCAAGTTT
1 TAAATGTTGGGGGACTGAAATGCAAGTTT
362224 TAAATGTTGGGGGACCT-AAATGCAAGTTT
1 TAAATGTTGGGGGA-CTGAAATGCAAGTTT
362253 TA
1 TA
362255 GAAATGTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.35
Consensus pattern (29 bp):
TAAATGTTGGGGGACTGAAATGCAAGTTT
Found at i:362736 original size:2 final size:2
Alignment explanation
Indices: 362729--362764 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
362719 GCTTGTAACA
362729 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
362765 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:363396 original size:31 final size:31
Alignment explanation
Indices: 363361--363437 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
363351 TTTAAAAGTA
* * *
363361 AACAAATTGGTCATTGATATTATCGATTTGT
1 AACAAAATGGTCATTAACATTATCGATTTGT
** * *
363392 AACAAAATAATCACTAACGTTATCGATTTGT
1 AACAAAATGGTCATTAACATTATCGATTTGT
363423 AACAAAATGGTCATT
1 AACAAAATGGTCATT
363438 CCACCGTAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (31 bp):
AACAAAATGGTCATTAACATTATCGATTTGT
Found at i:368294 original size:24 final size:26
Alignment explanation
Indices: 368266--368316 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
368256 CCACTAGGGG
368266 CTATGAAAT-T-TTGTCCCGAAGGAC
1 CTATGAAATGTATTGTCCCGAAGGAC
* *
368290 CTATGTACTGTATTGTCCCGAAGGAC
1 CTATGAAATGTATTGTCCCGAAGGAC
368316 C
1 C
368317 ACTCCTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 1 0.04
26 15 0.65
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (26 bp):
CTATGAAATGTATTGTCCCGAAGGAC
Done.