Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold97
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: 856079
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:186428 original size:343 final size:343
Alignment explanation
Indices: 185811--186952 Score: 1495
Period size: 343 Copynumber: 3.3 Consensus size: 343
185801 ATAAAGTGTA
* * * * *
185811 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTG-AAAG-----GCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
* * *
185870 GCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTGTCCTGCTCT
66 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCT
* ** * * *
185930 TTAAGGACTGGAAAATGCCACCAATTTGTGTGGGCTTTAAAAG----GTGTCCTGCTCTTTGGGG
130 TTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGTGTCCCGCTCTTTGAGG
185991 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG-GG-GTCCTGCTCTTTAAGGACTGGAAA
194 ACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGAGGCGTCCTGCTCTTTAAGGACTGGAAA
* * *
186054 ATGTCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAA
257 ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAA
*
186119 CTTGTGTGGGCTTTGAAAGGGG
322 CTTGTGTGGGCTTTGAAAGGCG
* *
186141 TCCTGCTCTTTGGGGACTGAAAAGTGCCGCCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
*
186206 GCGCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
66 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
186271 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAATGTGTCCCGCTCTTTGAGGA
131 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-GTGTCCCGCTCTTTGAGGA
* * *
186336 CTGAAGGTGCCACCAACTTATGTGGGCTTT-AAGAGGTGTCCTGCTCTCTAAGGACTGGAAAATG
195 CTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTAAGGACTGGAAAATG
*
186400 CCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACT
260 CCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACT
*
186464 TGTGTGGGCTTTGAAAGGTG
324 TGTGTGGGCTTTGAAAGGCG
*
186484 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
*
186549 GCTCTTTGAGGACTGAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
66 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
*
186614 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGA
131 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAA-GTGTCCCGCTCTTTGAGGA
* *
186679 CTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAA
195 CTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAG---AGGCGTCCTGCTCTTTAAGGACTGGAA
** * *
186743 GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGGTGC
256 AATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGC
186807 CACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
316 CACCAACTTGTGTGGGCTTT----G-AAAGGCG
** * ** * *
186840 TCCCACTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGC-TTCAAAAGGGGAAGGCGTC
1 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGCATC
* *
186903 CTGCTCTTTGAGGACTGGGAA-GTGCCACCATCTTGTGTGGGCTTTAAAAG
64 CTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGGGTGGGCTTTAAAAG
186953 GTGTCCTGCT
Statistics
Matches: 720, Mismatches: 53, Indels: 51
0.87 0.06 0.06
Matches are distributed among these distances:
330 42 0.06
331 4 0.01
335 26 0.04
336 20 0.03
337 3 0.00
339 30 0.04
340 20 0.03
341 3 0.00
342 2 0.00
343 343 0.48
344 24 0.03
345 3 0.00
347 26 0.04
348 19 0.03
350 2 0.00
351 25 0.03
352 23 0.03
355 7 0.01
356 65 0.09
357 30 0.04
358 3 0.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (343 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGTGTCCCGCTCTTTGAGGAC
TGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCCTGCTCTTTAAGGACTGGAAAATGC
CACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTG
TGTGGGCTTTGAAAGGCG
Found at i:187964 original size:9 final size:9
Alignment explanation
Indices: 187952--187990 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
187942 TTTCTTTTTT
187952 TTTTGTTTG
1 TTTTGTTTG
187961 TTTTGTTTG
1 TTTTGTTTG
*
187970 TTTTGTTTT
1 TTTTGTTTG
187979 TTTTG-TTG
1 TTTTGTTTG
187987 TTTT
1 TTTT
187991 TTTTTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:187974 original size:14 final size:14
Alignment explanation
Indices: 187947--187996 Score: 61
Period size: 13 Copynumber: 3.7 Consensus size: 14
187937 AGATTTTTCT
187947 TTTTTTTTTGTTTG
1 TTTTTTTTTGTTTG
*
187961 -TTTTGTTTGTTT-
1 TTTTTTTTTGTTTG
187973 TGTTTTTTTTG-TTG
1 T-TTTTTTTTGTTTG
187987 TTTTTTTTTG
1 TTTTTTTTTG
187997 AAAAAGAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 22 0.71
14 9 0.29
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTGTTTG
Found at i:187991 original size:9 final size:8
Alignment explanation
Indices: 187949--187995 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 8
187939 ATTTTTCTTT
187949 TTTTTTTG
1 TTTTTTTG
187957 TTTGTTTTG
1 TTT-TTTTG
187966 TTTGTTTTG
1 TTT-TTTTG
187975 TTTTTTTTG
1 -TTTTTTTG
187984 TTGTTTTT-
1 TT-TTTTTG
187992 TTTT
1 TTTT
187996 GAAAAAGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 2 0.06
8 7 0.19
9 24 0.67
10 3 0.08
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:187991 original size:18 final size:17
Alignment explanation
Indices: 187940--187995 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
187930 CTTAAGCAGA
187940 TTTTTCTTT-TTTTTTTG
1 TTTTT-TTTGTTTTTTTG
*
187957 TTTGTTTTGTTTGTTTTG
1 TTTTTTTTGTTT-TTTTG
187975 TTTTTTTTGTTGTTTTT-
1 TTTTTTTTGTT-TTTTTG
187992 TTTT
1 TTTT
187996 GAAAAAGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 3 0.09
17 11 0.32
18 19 0.56
19 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTTG
Found at i:200518 original size:28 final size:28
Alignment explanation
Indices: 200478--200549 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
200468 AAAAAAAAAT
* ** *
200478 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCAAGGAAATAA
*
200506 CGGGGTTGGAGTATCCCCAATGAAATAA
1 CGGGGTTGGAGTATCCCCAAGGAAATAA
*
200534 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
200550 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCAAGGAAATAA
Found at i:200600 original size:52 final size:50
Alignment explanation
Indices: 200537--200706 Score: 132
Period size: 52 Copynumber: 3.3 Consensus size: 50
200527 GAAATAACGA
200537 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
1 GGTTGGAGTATCC-CGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
* * ** * *
200588 GAGTTGGAGTATCCCCGA-TGAAAGGAAAATTGG-CGTTTTGAAAATAAAACCG
1 G-GTTGGAGTAT-CCCGATTG--TGAAAAATTGGTATTTTTGGAAATAAAATCG
* * *
200640 GGATTGGAGTATCCCTGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAATCGG
1 GG-TTGGAGTATCCC-GATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATC-G
*
200693 GGTTGAAGTATCCC
1 GGTTGGAGTATCCC
200707 CTCGAAAATA
Statistics
Matches: 93, Mismatches: 15, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
51 7 0.08
52 66 0.71
53 20 0.22
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCG
Found at i:200723 original size:28 final size:28
Alignment explanation
Indices: 200681--200762 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 28
200671 AGTGTTTTAG
* *
200681 CGATAAA-ATCGGGGTTGAAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
200708 TCGA-AAATAACGGGGTTGGAGTAT-CCC
1 -CGATAAATAACGGGGTTGGAGTATCCCC
* *
200735 CGATGATTAACGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTATCCCC
200763 GATTGTGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.06
27 24 0.51
28 20 0.43
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (28 bp):
CGATAAATAACGGGGTTGGAGTATCCCC
Found at i:203333 original size:19 final size:18
Alignment explanation
Indices: 203309--203376 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
203299 CAGTAGCTAA
203309 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
203328 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
203343 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
203360 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
203377 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:203349 original size:13 final size:13
Alignment explanation
Indices: 203331--203355 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
203321 ACAATACTTA
203331 TGTATCGATACAT
1 TGTATCGATACAT
203344 TGTATCGATACA
1 TGTATCGATACA
203356 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:203353 original size:32 final size:32
Alignment explanation
Indices: 203312--203374 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
203302 TAGCTAATTA
*
203312 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
203344 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
203375 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:204947 original size:425 final size:423
Alignment explanation
Indices: 203434--205660 Score: 4258
Period size: 423 Copynumber: 5.3 Consensus size: 423
203424 TTTGTAGAAT
203434 GTATCGATACATTTGGAAATTTTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAA
1 GTATCGATACATTTGGAAA--TTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAA
* *
203499 TGGATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCCCCACGCGCAACCAACTC
64 TGGATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTC
*
203564 TCGAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACT
129 CCGAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACT
203629 CAAGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAG
194 CAAGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAG
*
203694 TTCATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCTGATAGTCTTTC
259 TTCATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTC
*
203759 ATCCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTAGCTCTTCGGATCGAAGT
324 ATCCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGT
203824 ACCTCTAAAAAAGGGGTCGAGCGCACGTCGCGACA
389 ACCTCTAAAAAAGGGGTCGAGCGCACGTCGCGACA
203859 GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAATG
1 GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAATG
203924 GATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
66 GATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
203989 GAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCA
131 GAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCA
*
204054 AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCAGTGGCGACTCCAAGTT
196 AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
204119 CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCAT
261 CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCAT
204184 CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTAC
326 CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTAC
204249 CTCTAAAAAAGGGGTCGAGCGCACGTCGCGACA
391 CTCTAAAAAAGGGGTCGAGCGCACGTCGCGACA
204282 GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAATG
1 GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAATG
*
204347 GATTCGACACAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
66 GATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
*
204412 GAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTTGTGACTCA
131 GAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCA
204477 AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
196 AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
*
204542 CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGATGAGCGATTCGTCCGATAGTCTTTCAT
261 CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCAT
204607 CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTAC
326 CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTAC
204672 CTCTAAAAAA-GGGTCGAGCGCACGTCGCGACA
391 CTCTAAAAAAGGGGTCGAGCGCACGTCGCGACA
204704 GTATCGATACATTTGGAAATTTTTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAA
1 GTATCGATACATTTGGAAA---TTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAA
204769 ATGGATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACT
63 ATGGATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACT
204834 CCCGAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGAC
128 CCCGAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGAC
204899 TCAAGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAA
193 TCAAGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAA
204964 GTTCATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTT
258 GTTCATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTT
*
205029 CATCCTCGCATATTCACTATCCTTTTTATTTTAAGACGAGTGAGCTTTGGCTCTTCGGATCGAAG
323 CATCCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAG
*
205094 TACCTCTAAAAAAGGGGTCGAGCGCACGTCGTGACA
388 TACCTCTAAAAAAGGGGTCGAGCGCACGTCGCGACA
*
205130 GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTTTATCTCAACTAAGGACAATAGGAAATG
1 GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAATG
205195 GATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
66 GATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
*
205260 GAGTCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCA
131 GAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCA
205325 AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
196 AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
205390 CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCAT
261 CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCAT
*
205455 CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATTGAAGTAC
326 CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTAC
205520 CTCTAAAAAAGGGGTCGAGCGCACGTCGCGACA
391 CTCTAAAAAAGGGGTCGAGCGCACGTCGCGACA
205553 GTATCGATACATTTGGAAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAAT
1 GTATCGATACATTTGG-AAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAAT
*
205618 GGATTCGACTCAGCAAAAAGTCATAAAAATCTAAAAAAGCATT
65 GGATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATT
205661 AGGAACAGGG
Statistics
Matches: 1775, Mismatches: 22, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
422 41 0.02
423 1209 0.68
424 89 0.05
425 396 0.22
426 40 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (423 bp):
GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAATG
GATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
GAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCA
AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCAT
CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTAC
CTCTAAAAAAGGGGTCGAGCGCACGTCGCGACA
Found at i:205071 original size:848 final size:846
Alignment explanation
Indices: 203434--205660 Score: 4258
Period size: 848 Copynumber: 2.6 Consensus size: 846
203424 TTTGTAGAAT
203434 GTATCGATACATTTGGAAATTTTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAA
1 GTATCGATACATTTGGAAA--TTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAA
* *
203499 TGGATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCCCCACGCGCAACCAACTC
64 TGGATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTC
*
203564 TCGAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACT
129 CCGAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACT
203629 CAAGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAG
194 CAAGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAG
*
203694 TTCATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCTGATAGTCTTTC
259 TTCATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTC
*
203759 ATCCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTAGCTCTTCGGATCGAAGT
324 ATCCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGT
203824 ACCTCTAAAAAAGGGGTCGAGCGCACGTCGCGACAGTATCGATACATTTGGAAATTTTTTTTTTC
389 ACCTCTAAAAAAGGGGTCGAGCGCACGTCGCGACAGTATCGATACATTTGGAAATTTTTTTTTTC
203889 AAACACTCTATCTCAACTAAGGACAATAGGAAATGGATTCGACTCAACAAAAAGTCATAAAAATC
454 AAACACTCTATCTCAACTAAGGACAATAGGAAATGGATTCGACTCAACAAAAAGTCATAAAAATC
203954 TAAAAAAGCATTTTCGCCACGCGTAACCAACTCCCGAGCCCAAACACGAATCTCTAAATTACGTA
519 TAAAAAAGCATTTTCGCCACGCGTAACCAACTCCCGAGCCCAAACACGAATCTCTAAATTACGTA
204019 GACCGCGAAATCGATGTTTTGAGTTTCGTGACTCAAGATATAGGTTTCAATAGGCATCCGATCAT
584 GACCGCGAAATCGATGTTTTGAGTTTCGTGACTCAAGATATAGGTTTCAATAGGCATCCGATCAT
204084 GCCTAGCCCAAAATGATCAGTGGCGACTCCAAGTTCATGGTCATTTCGTAATGACCACCCTAGAC
649 GCCTAGCCCAAAATGATCAGTGGCGACTCCAAGTTCATGGTCATTTCGTAATGACCACCCTAGAC
204149 TTATAGGACGAGCGATTCGTCCGATAGTCTTTCATCCTCGCATATTCACTATCCTTTTTATTTTA
714 TTATAGGACGAGCGATTCGTCCGATAGTCTTTCATCCTCGCATATTCACTATCCTTTTTATTTTA
*
204214 AGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTACCTCTAAAAAAGGGGTCGAGCGCACGTCGCG
779 AGACGAGTGAGCTTTGGCTCTTCGGATCGAAGTACCTCTAAAAAAGGGGTCGAGCGCACGTCGCG
204279 ACA
844 ACA
204282 GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAATG
1 GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAATG
*
204347 GATTCGACACAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
66 GATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
*
204412 GAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTTGTGACTCA
131 GAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCA
204477 AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
196 AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
*
204542 CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGATGAGCGATTCGTCCGATAGTCTTTCAT
261 CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCAT
204607 CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTAC
326 CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTAC
204672 CTCTAAAAAA-GGGTCGAGCGCACGTCGCGACAGTATCGATACATTTGGAAATTTTTTTTTTTTT
391 CTCTAAAAAAGGGGTCGAGCGCACGTCGCGACAGTATCGATACATTTGGAAA---TTTTTTTTTT
204736 CAAACACTCTATCTCAACTAAGGACAATAGGAAATGGATTCGACTCAACAAAAAGTCATAAAAAT
453 CAAACACTCTATCTCAACTAAGGACAATAGGAAATGGATTCGACTCAACAAAAAGTCATAAAAAT
204801 CTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCCGAGCCCAAACACGAATCTCTAAATTACGT
518 CTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCCGAGCCCAAACACGAATCTCTAAATTACGT
204866 AGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCAAGATATAGGTTTCAATAGGCATCCGATCA
583 AGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCAAGATATAGGTTTCAATAGGCATCCGATCA
*
204931 TGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTTCATGGTCATTTCGTAATGACCACCCTAGA
648 TGCCTAGCCCAAAATGATCAGTGGCGACTCCAAGTTCATGGTCATTTCGTAATGACCACCCTAGA
204996 CTTATAGGACGAGCGATTCGTCCGATAGTCTTTCATCCTCGCATATTCACTATCCTTTTTATTTT
713 CTTATAGGACGAGCGATTCGTCCGATAGTCTTTCATCCTCGCATATTCACTATCCTTTTTATTTT
*
205061 AAGACGAGTGAGCTTTGGCTCTTCGGATCGAAGTACCTCTAAAAAAGGGGTCGAGCGCACGTCGT
778 AAGACGAGTGAGCTTTGGCTCTTCGGATCGAAGTACCTCTAAAAAAGGGGTCGAGCGCACGTCGC
205126 GACA
843 GACA
*
205130 GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTTTATCTCAACTAAGGACAATAGGAAATG
1 GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAATG
205195 GATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
66 GATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
*
205260 GAGTCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCA
131 GAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCA
205325 AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
196 AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
205390 CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCAT
261 CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCAT
*
205455 CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATTGAAGTAC
326 CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTAC
205520 CTCTAAAAAAGGGGTCGAGCGCACGTCGCGACAGTATCGATACATTTGGAAAATTTTTTTTTTCA
391 CTCTAAAAAAGGGGTCGAGCGCACGTCGCGACAGTATCGATACATTTGG-AAATTTTTTTTTTCA
*
205585 AACACTCTATCTCAACTAAGGACAATAGGAAATGGATTCGACTCAGCAAAAAGTCATAAAAATCT
455 AACACTCTATCTCAACTAAGGACAATAGGAAATGGATTCGACTCAACAAAAAGTCATAAAAATCT
205650 AAAAAAGCATT
520 AAAAAAGCATT
205661 AGGAACAGGG
Statistics
Matches: 1356, Mismatches: 18, Indels: 11
0.98 0.01 0.01
Matches are distributed among these distances:
845 41 0.03
846 373 0.28
847 87 0.06
848 814 0.60
849 38 0.03
850 3 0.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (846 bp):
GTATCGATACATTTGGAAATTTTTTTTTTCAAACACTCTATCTCAACTAAGGACAATAGGAAATG
GATTCGACTCAACAAAAAGTCATAAAAATCTAAAAAAGCATTTTCGCCACGCGTAACCAACTCCC
GAGCCCAAACACGAATCTCTAAATTACGTAGACCGCGAAATCGATGTTTTGAGTTTCGTGACTCA
AGATATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAGTT
CATGGTCATTTCGTAATGACCACCCTAGACTTATAGGACGAGCGATTCGTCCGATAGTCTTTCAT
CCTCGCATATTCACTATCCTTTTTATTTTAAGTCGAGTGAGCTTTGGCTCTTCGGATCGAAGTAC
CTCTAAAAAAGGGGTCGAGCGCACGTCGCGACAGTATCGATACATTTGGAAATTTTTTTTTTCAA
ACACTCTATCTCAACTAAGGACAATAGGAAATGGATTCGACTCAACAAAAAGTCATAAAAATCTA
AAAAAGCATTTTCGCCACGCGTAACCAACTCCCGAGCCCAAACACGAATCTCTAAATTACGTAGA
CCGCGAAATCGATGTTTTGAGTTTCGTGACTCAAGATATAGGTTTCAATAGGCATCCGATCATGC
CTAGCCCAAAATGATCAGTGGCGACTCCAAGTTCATGGTCATTTCGTAATGACCACCCTAGACTT
ATAGGACGAGCGATTCGTCCGATAGTCTTTCATCCTCGCATATTCACTATCCTTTTTATTTTAAG
ACGAGTGAGCTTTGGCTCTTCGGATCGAAGTACCTCTAAAAAAGGGGTCGAGCGCACGTCGCGAC
A
Found at i:206386 original size:55 final size:54
Alignment explanation
Indices: 206302--206576 Score: 352
Period size: 55 Copynumber: 5.0 Consensus size: 54
206292 ATAAAGTGTA
* * * * * *
206302 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
*
206357 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * *
206412 TCCTGCTCTTTAAGGACTGGAAAATGCCAACAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * *
206467 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGGG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
* * * *
206522 TCCTGCTCTTTAAGGACTGGAAAATGTCACCAACTTGTGTGAGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
206577 CCACCAATTC
Statistics
Matches: 192, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
54 7 0.04
55 177 0.92
56 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
Found at i:206575 original size:110 final size:110
Alignment explanation
Indices: 206321--206576 Score: 415
Period size: 110 Copynumber: 2.3 Consensus size: 110
206311 TTGAGGAGTA
* * *
206321 AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
1 AAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
*
206386 CCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTAAGGACTGG
65 CCAACTTGTGTGGGCTTTAAGAGGGGTCCTGCTCTTTAAGGACTGG
* *
206432 AAAATGCCAACAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
206497 CAACTTGTGTGGGCTTTGAA-AGGGGTCCTGCTCTTTAAGGACTGG
66 CAACTTGTGTGGGCTTT-AAGAGGGGTCCTGCTCTTTAAGGACTGG
* *
206542 AAAATGTCACCAACTTGTGTGAGCTTTAAAAGGTG
1 AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
206577 CCACCAATTC
Statistics
Matches: 135, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
110 129 0.96
111 6 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (110 bp):
AAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
CAACTTGTGTGGGCTTTAAGAGGGGTCCTGCTCTTTAAGGACTGG
Found at i:207661 original size:155 final size:153
Alignment explanation
Indices: 207478--207932 Score: 549
Period size: 155 Copynumber: 2.9 Consensus size: 153
207468 TAGGATTCAG
* * * * *
207478 TTCTGG-AAAATTATGAGAATACCCTTAGGGGATACCTTCGACTTAGAAGTGCCCGATA-CCGTG
1 TTCTGGAAAAATTATAAAAATGCCTTTAGGGGATACCTTCGACTTAGAAGTGCCCGATACCCCT-
* * * *
207541 AGAGGATTTGAAAAGGATTATCGATGGGATGAACCTATCCTAAATACTTACCTTTGGCATTAAAA
65 AAAGGATTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATAC-TACCTTCGGCA-TAAAA
*
207606 TGGACTCGGTGACAATCTAAGACTCGA
128 -GGACTCGGTGACAACCTAAGACTCGA
* * *
207633 TT-TTGAAAAATTATAAAAATGCCTTTAGGGGATACGTTTGACTTAGAAGTGCCCGATACCCCTA
1 TTCTGGAAAAATTATAAAAATGCCTTTAGGGGATACCTTCGACTTAGAAGTGCCCGATACCCCTA
*
207697 AAGGATTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATAACCACCTTCGGCATAAAAGG
66 AAGGATTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAAT-ACTACCTTCGGCATAAAAGG
*** * *
207762 AAACTTAATGACAACCTAGGACTCTA
130 --ACTCGGTGACAACCTAAGACTCGA
* * * * *
207788 TTCTGGAAAAATTATAAAAATG-CTTCAAAGGTATACCTTCGACTTAGAAGTGCCTGATATCCCT
1 TTCTGGAAAAATTATAAAAATGCCTT-TAGGGGATACCTTCGACTTAGAAGTGCCCGATACCCCT
* *
207852 AAAGGATTTAAAAAGGATTATAGATGGGATAAACCTATCCTAAATACCTACCTTCAGCATAAAAG
65 AAAGGATTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATA-CTACCTTCGGCATAAAA-
207917 CGGACTCGGTGACAAC
128 -GGACTCGGTGACAAC
207933 GTTCTTTACT
Statistics
Matches: 257, Mismatches: 33, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
153 2 0.01
154 7 0.03
155 123 0.48
156 123 0.48
158 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (153 bp):
TTCTGGAAAAATTATAAAAATGCCTTTAGGGGATACCTTCGACTTAGAAGTGCCCGATACCCCTA
AAGGATTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACTACCTTCGGCATAAAAGGA
CTCGGTGACAACCTAAGACTCGA
Found at i:207930 original size:156 final size:152
Alignment explanation
Indices: 207396--207932 Score: 546
Period size: 155 Copynumber: 3.5 Consensus size: 152
207386 AGACGACTTG
* * * * ** * *
207396 AAAATGATTATAGATAGGA-AGAACCTATCCTAAATACCCACATTCAGTGTAAAAGCAGATTCAA
1 AAAAGGATTATAGATGGGATA-AACCTATCCTAAATACCTACCTTCAGCATAAAAGCGGACTCAA
* * * **
207460 TGACAACTTAGGATTCAGTTCTGG-AAAATTATGAGAATACCCTTAGGGGATACCTTCGACTTAG
65 TGACAACCTAGGACTCA-TTCTGGAAAAATTAT-A-AAAATGCTTAGGGGATACCTTCGACTTAG
* * *
207524 AAGTGCCCGATACCGTGAGAGGATTTG
127 AAGTGCCCGATACCCT-AAAGGATTTA
* * * ** * **
207551 AAAAGGATTATCGATGGGATGAACCTATCCTAAATACTTACCTTTGGCATTAAAA-TGGACTCGG
1 AAAAGGATTATAGATGGGATAAACCTATCCTAAATACCTACCTTCAGCA-TAAAAGCGGACTCAA
* * * * *
207615 TGACAATCTAAGACTCGATT-TTGAAAAATTATAAAAATGCCTTTAGGGGATACGTTTGACTTAG
65 TGACAACCTAGGACTC-ATTCTGGAAAAATTATAAAAATG-C-TTAGGGGATACCTTCGACTTAG
207679 AAGTGCCCGATACCCCTAAAGGATTTA
127 AAGTGCCCGATA-CCCTAAAGGATTTA
* * * *
207706 AAAAGGATTATAGATGGGATGAACCTATCCTAAATAACC-ACCTTCGGCATAAAAG-GAAACTTA
1 AAAAGGATTATAGATGGGATAAACCTATCCTAAAT-ACCTACCTTCAGCATAAAAGCG-GACTCA
* *
207769 ATGACAACCTAGGACTCTATTCTGGAAAAATTATAAAAATGCTTCAAAGGTATACCTTCGACTTA
64 ATGACAACCTAGGACTC-ATTCTGGAAAAATTATAAAAATGCTT--AGGGGATACCTTCGACTTA
*
207834 GAAGTGCCTGATATCCCTAAAGGATTTA
126 GAAGTGCCCGATA-CCCTAAAGGATTTA
**
207862 AAAAGGATTATAGATGGGATAAACCTATCCTAAATACCTACCTTCAGCATAAAAGCGGACTCGGT
1 AAAAGGATTATAGATGGGATAAACCTATCCTAAATACCTACCTTCAGCATAAAAGCGGACTCAAT
207927 GACAAC
66 GACAAC
207933 GTTCTTTACT
Statistics
Matches: 315, Mismatches: 52, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
153 3 0.01
154 12 0.04
155 170 0.54
156 129 0.41
157 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (152 bp):
AAAAGGATTATAGATGGGATAAACCTATCCTAAATACCTACCTTCAGCATAAAAGCGGACTCAAT
GACAACCTAGGACTCATTCTGGAAAAATTATAAAAATGCTTAGGGGATACCTTCGACTTAGAAGT
GCCCGATACCCTAAAGGATTTA
Found at i:212486 original size:134 final size:134
Alignment explanation
Indices: 212231--212543 Score: 321
Period size: 134 Copynumber: 2.3 Consensus size: 134
212221 TTGTTTTGTA
* * * * * * *
212231 TATAACTTTTTTTTGACATTATATTAATTTTATCTATGCTCCCATTTGCATATAGGAATATATAC
1 TATACCTTTTTTTTGACATTACATTAATTTCATCTTTGCACTCATTTGCATATAGGAATACATAC
* * *
212296 ATGCATTTATTCATAACTTACATTTTTAAAGCCCTTGTTTCCAAACCTTCTATGTATATTTACTT
66 ATGCATTCATTCATAACATACATTTTTAAAGCCCTTGTTTCCAAACCTTCTATGTATATTCACTT
*
212361 -CGT
131 ACAT
* *
212364 TATACCTTTTTCTTTGACATTACATTAATTTCATCTTTGCGCTCATTTGCATATATGAATACATA
1 TATACCTTTTT-TTTGACATTACATTAATTTCATCTTTGCACTCATTTGCATATAGGAATACATA
* * ** ** **** *
212429 TATGCATTCGTTCATGTCATACATTTTTCGAAAGCTTTTGTTTTTGGATCTT-T-TGTATATTCA
65 CATGCATTCATTCATAACATACATTTTT--AAAGCCCTTGTTTCCAAACCTTCTATGTATATTCA
* *
212492 TTTATAT
128 CTTACAT
212499 TATAACC-TTTTTTTGACATTACATTAATTTCAT-TTTGCACTCATT
1 TAT-ACCTTTTTTTTGACATTACATTAATTTCATCTTTGCACTCATT
212544 CATGCATTCT
Statistics
Matches: 149, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
133 21 0.14
134 101 0.68
135 9 0.06
136 18 0.12
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.49
Consensus pattern (134 bp):
TATACCTTTTTTTTGACATTACATTAATTTCATCTTTGCACTCATTTGCATATAGGAATACATAC
ATGCATTCATTCATAACATACATTTTTAAAGCCCTTGTTTCCAAACCTTCTATGTATATTCACTT
ACAT
Found at i:213485 original size:10 final size:10
Alignment explanation
Indices: 213470--213494 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
213460 TCAAAAAACA
213470 AAAAAGGAAG
1 AAAAAGGAAG
213480 AAAAAGGAAG
1 AAAAAGGAAG
213490 AAAAA
1 AAAAA
213495 AGAAAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAAAGGAAG
Found at i:214602 original size:33 final size:33
Alignment explanation
Indices: 214552--214618 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
214542 ATTTTCACAT
* *
214552 AATGTATCGATATATTGCAAGGTGTATCAATAC
1 AATGTATCGATAAATTGCAAGATGTATCAATAC
* * *
214585 AATGTATTGATAAATTGCAATATGTATCGATAC
1 AATGTATCGATAAATTGCAAGATGTATCAATAC
214618 A
1 A
214619 TTTTCATGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.34
Consensus pattern (33 bp):
AATGTATCGATAAATTGCAAGATGTATCAATAC
Found at i:221529 original size:3 final size:3
Alignment explanation
Indices: 221521--221545 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
221511 TAACCTCTTG
221521 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
221546 CTTTGAGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:222663 original size:140 final size:140
Alignment explanation
Indices: 222411--222691 Score: 553
Period size: 140 Copynumber: 2.0 Consensus size: 140
222401 GTTAGCTCAT
222411 AGTAAGGATTGAACCAACATGGGGCTGAATTGATTCTTTTGGAAATTTAAAAACTTTGATTGGAA
1 AGTAAGGATTGAACCAACATGGGGCTGAATTGATTCTTTTGGAAATTTAAAAACTTTGATTGGAA
222476 CAATGGATAAATGAAGAAAGGTAAAGGAAGGAAAGATCAAACACCAAATTTATAAAGGTTTGATC
66 CAATGGATAAATGAAGAAAGGTAAAGGAAGGAAAGATCAAACACCAAATTTATAAAGGTTTGATC
222541 CTTAAACACG
131 CTTAAACACG
*
222551 AGTAAGGATTGAACCAACATGGGGGTGAATTGATTCTTTTGGAAATTTAAAAACTTTGATTGGAA
1 AGTAAGGATTGAACCAACATGGGGCTGAATTGATTCTTTTGGAAATTTAAAAACTTTGATTGGAA
222616 CAATGGATAAATGAAGAAAGGTAAAGGAAGGAAAGATCAAACACCAAATTTATAAAGGTTTGATC
66 CAATGGATAAATGAAGAAAGGTAAAGGAAGGAAAGATCAAACACCAAATTTATAAAGGTTTGATC
222681 CTTAAACACG
131 CTTAAACACG
222691 A
1 A
222692 CACCTACATT
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (140 bp):
AGTAAGGATTGAACCAACATGGGGCTGAATTGATTCTTTTGGAAATTTAAAAACTTTGATTGGAA
CAATGGATAAATGAAGAAAGGTAAAGGAAGGAAAGATCAAACACCAAATTTATAAAGGTTTGATC
CTTAAACACG
Found at i:223398 original size:20 final size:20
Alignment explanation
Indices: 223350--223424 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
223340 CAATGACTTG
*
223350 TGTATCGATACTTTCGCATA-A
1 TGTATCGATACATT-GCA-AGA
* * *
223371 TATATCGATATATTGCAAGG
1 TGTATCGATACATTGCAAGA
*
223391 TGTATCGATACATTGCAATA
1 TGTATCGATACATTGCAAGA
223411 TGTATCGATACATT
1 TGTATCGATACATT
223425 TTCTTGTGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 1 0.02
20 33 0.73
21 11 0.24
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTGCAAGA
Found at i:223855 original size:5 final size:5
Alignment explanation
Indices: 223856--223883 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
223846 AAAAAGAAAA
223856 AAATG AAATG AAATG AAATG AAATG AAA
1 AAATG AAATG AAATG AAATG AAATG AAA
223884 AGTGTAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.18, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:228451 original size:13 final size:13
Alignment explanation
Indices: 228411--228463 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
228401 CCGTTAAAAG
228411 CAATGTATCGATA
1 CAATGTATCGATA
228424 CAA--T-TC-AT-
1 CAATGTATCGATA
228432 C-ATGTATCGATA
1 CAATGTATCGATA
228444 CAATGTATCGATA
1 CAATGTATCGATA
228457 CAATGTA
1 CAATGTA
228464 CCATGTATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 21 0.62
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:228453 original size:33 final size:33
Alignment explanation
Indices: 228411--228479 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
228401 CCGTTAAAAG
*
228411 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCGATA
228444 CAATGTATCGATACAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATGTATCGATA
228477 CAA
1 CAA
228480 ACAGTGGTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCGATA
Found at i:228533 original size:20 final size:21
Alignment explanation
Indices: 228508--228548 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
228498 CTGCCAGTTT
228508 CATGTATCGATACAAT-TATC
1 CATGTATCGATACAATGTATC
228528 CATGTATCGATACAATGTATC
1 CATGTATCGATACAATGTATC
228549 GATACAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATGTATC
Found at i:228547 original size:13 final size:13
Alignment explanation
Indices: 228529--228568 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
228519 ACAATTATCC
228529 ATGTATCGATACA
1 ATGTATCGATACA
228542 ATGTATCGATACA
1 ATGTATCGATACA
228555 ATGTATCGATACA
1 ATGTATCGATACA
228568 A
1 A
228569 AGCATAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:231389 original size:25 final size:25
Alignment explanation
Indices: 231361--231414 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
231351 AAATCACTAG
*
231361 ATCACATATTTTAACCAAATTAAAC
1 ATCACATATTTTAACCAAATAAAAC
231386 ATCACATATTTTAACCAAATAAAAC
1 ATCACATATTTTAACCAAATAAAAC
231411 ATCA
1 ATCA
231415 AAAGTGCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (25 bp):
ATCACATATTTTAACCAAATAAAAC
Found at i:233330 original size:13 final size:13
Alignment explanation
Indices: 233312--233337 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
233302 CAATTTTTTG
233312 TGTATCGATACAT
1 TGTATCGATACAT
233325 TGTATCGATACAT
1 TGTATCGATACAT
233338 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:233352 original size:32 final size:33
Alignment explanation
Indices: 233292--233355 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
233282 TACAAGCAAA
** *
233292 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
233325 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
233356 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:234059 original size:21 final size:21
Alignment explanation
Indices: 234018--234061 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
234008 CTCCCCTTTA
* *
234018 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
234039 TCTCCCCC-TTAATCAACTAAT
1 TCTCCCCCGTTAATCAA-TAAT
234060 TC
1 TC
234062 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.34, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:237871 original size:13 final size:13
Alignment explanation
Indices: 237853--237878 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
237843 CAATTTTTTG
237853 TGTATCGATACAT
1 TGTATCGATACAT
237866 TGTATCGATACAT
1 TGTATCGATACAT
237879 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:237893 original size:32 final size:33
Alignment explanation
Indices: 237833--237896 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
237823 TACAAGCCAA
** *
237833 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
237866 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
237897 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:241409 original size:9 final size:9
Alignment explanation
Indices: 241395--241428 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
241385 TTTGAGTCAC
241395 CATCATTAT
1 CATCATTAT
241404 CATCATTAT
1 CATCATTAT
241413 CATC-TTCAT
1 CATCATT-AT
241422 CATCATT
1 CATCATT
241429 GATGGTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (9 bp):
CATCATTAT
Found at i:241815 original size:32 final size:32
Alignment explanation
Indices: 241766--241861 Score: 117
Period size: 36 Copynumber: 2.9 Consensus size: 32
241756 CCTTACAACA
241766 CTATC-TTTCAAGGCTAAGATAGAAACCTC-C-
1 CTATCTTTTCAAGGCTAAGATAG-AACCTCTCT
241796 CTATCTTTTCATAGGCTAAGATAGAACCTTTCTCT
1 CTATCTTTTCA-AGGCTAAGATAGAACC--TCTCT
241831 CTATCTTTTTCAAAGGCTAAGATAGAACCTC
1 CTATC-TTTTC-AAGGCTAAGATAGAACCTC
241862 ACAATCACTT
Statistics
Matches: 58, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
30 5 0.09
31 9 0.16
32 12 0.21
33 2 0.03
34 3 0.05
35 5 0.09
36 21 0.36
37 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (32 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCTCT
Found at i:242339 original size:13 final size:13
Alignment explanation
Indices: 242321--242358 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
242311 ACTATTATAA
242321 TGTATCGATACAC
1 TGTATCGATACAC
*
242334 TGTATCGATATAC
1 TGTATCGATACAC
242347 TGTATCGATACA
1 TGTATCGATACA
242359 TGAATAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:244300 original size:33 final size:33
Alignment explanation
Indices: 244253--244354 Score: 161
Period size: 33 Copynumber: 3.1 Consensus size: 33
244243 TCGTTAGAAG
* *
244253 CAATGTATTGATACAAT-TCATCATGTATCGATA
1 CAATCTATTGATACAATGT-ACCATGTATCGATA
*
244286 TAATCTATTGATACAATGTACCATGTATCGATA
1 CAATCTATTGATACAATGTACCATGTATCGATA
244319 CAATCTATTGATACAATGTACCATGTATCGATA
1 CAATCTATTGATACAATGTACCATGTATCGATA
244352 CAA
1 CAA
244355 ACAGTGGTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
33 63 0.98
34 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (33 bp):
CAATCTATTGATACAATGTACCATGTATCGATA
Found at i:244320 original size:20 final size:20
Alignment explanation
Indices: 244295--244354 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
244285 ATAATCTATT
244295 GATACAATGTACCATGTATC
1 GATACAATGTACCATGTATC
*
244315 GATACAA--T--C---TATT
1 GATACAATGTACCATGTATC
244328 GATACAATGTACCATGTATC
1 GATACAATGTACCATGTATC
244348 GATACAA
1 GATACAA
244355 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
13 10 0.32
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
20 17 0.55
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (20 bp):
GATACAATGTACCATGTATC
Found at i:244427 original size:19 final size:19
Alignment explanation
Indices: 244387--244438 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
244377 TAGTTTCATT
**
244387 TATCGATACAATTGTCCATG
1 TATCGATACAA-TGAACATG
244407 TATCGATACAATGAACATG
1 TATCGATACAATGAACATG
*
244426 TATCGATAAAATG
1 TATCGATACAATG
244439 TATCAATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:246403 original size:3 final size:3
Alignment explanation
Indices: 246395--246429 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
246385 ATAGTGGCCT
246395 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
246430 GTTGTTGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:249044 original size:34 final size:34
Alignment explanation
Indices: 249001--249065 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
248991 TTGAGTACCT
249001 TCATGCTGTTCTTCTAGTGATCCTATCCAAGTAA
1 TCATGCTGTTCTTCTAGTGATCCTATCCAAGTAA
249035 TCATGCTGTTCTTCTAGTGATCCTATCCAAG
1 TCATGCTGTTCTTCTAGTGATCCTATCCAAG
249066 ATTACTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (34 bp):
TCATGCTGTTCTTCTAGTGATCCTATCCAAGTAA
Found at i:250568 original size:165 final size:167
Alignment explanation
Indices: 250379--250705 Score: 434
Period size: 165 Copynumber: 2.0 Consensus size: 167
250369 GGTTTATAAT
* *
250379 TTTTAAAATTGATCAAATATCATCATTTAATTCATA-CTAAATTAGTTTT-AAAAATTTTATTTA
1 TTTTAAAATTGATCAAATATCATCATTTAATTCATATC-AAATCAGTTTTGAAAAA-TTCATTTA
* * * * * *
250442 TTTTCATGAGTTTTTCTTTTTTTTC-TTAAAATTCCCTTGTTTCTGAAAAA-TCGAGTTTTCTAT
64 TTTTCACGAGTTTTTCATTTTTTTCTTTAAAATGCCCTTATTTCTGAAAAACT-AAATTTTCTAT
*
250505 TCCATAAAGGTTTTCATGGGGGT-TTTTC-TCAGTTTGAGAC
128 CCCATAAAGGTTTTC--GGGGGTATTTTCTTCAGTTTGAGAC
* *
250545 TTTT-AAATTTATCAAATATCATCATTTTATTCATATCAAATCAGTTTTGAAAAATTCATTTATT
1 TTTTAAAATTGATCAAATATCATCATTTAATTCATATCAAATCAGTTTTGAAAAATTCATTTATT
* *
250609 TTCACGAGTTTTTCATTTTTTTCTTTGAAATGCCCTTATTTTTGAAAAACTAAATTTTCTATCCC
66 TTCACGAGTTTTTCATTTTTTTCTTTAAAATGCCCTTATTTCTGAAAAACTAAATTTTCTATCCC
*
250674 ATAAATGTTTTCGGGGGTATTTTCTTCAGTTT
131 ATAAAGGTTTTCGGGGGTATTTTCTTCAGTTT
250706 AAAATTTTTA
Statistics
Matches: 141, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
164 6 0.04
165 74 0.52
166 60 0.43
167 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.10, T:0.49
Consensus pattern (167 bp):
TTTTAAAATTGATCAAATATCATCATTTAATTCATATCAAATCAGTTTTGAAAAATTCATTTATT
TTCACGAGTTTTTCATTTTTTTCTTTAAAATGCCCTTATTTCTGAAAAACTAAATTTTCTATCCC
ATAAAGGTTTTCGGGGGTATTTTCTTCAGTTTGAGAC
Found at i:252522 original size:140 final size:141
Alignment explanation
Indices: 252235--252609 Score: 484
Period size: 140 Copynumber: 2.7 Consensus size: 141
252225 TTATCACCTC
* * * * * * * * *
252235 AATTTTTCAAAATTTTTAATATTTCTATGGGTATCTGTGGGGGCAT-GAAAATTTTTCAAATTTT
1 AATTTTTCAAGATTTCTAATATTCCTATGGTTATCTATAGGGGTATAGAAAA--TTTGAAACTTT
* * * * * *
252299 TCGTATTTTTTCAGTTCTCCATTAAGGTACGAAATGGATTTTTTTAGAAATTAAGAATTAAATAA
64 TCGTATCTTTTCGGTTCTCCATTAAGGTACAAAATGGAATTTTTTAGAAATGAAAAATTAAATAA
*
252364 AAATTATTATCTT
129 AAATTATTAGCTT
*
252377 AATTTTTCAAGATTTCTAATATTCCTATGGTTATCCATAGGGGTATAGAAAATTTGAAACTTTTC
1 AATTTTTCAAGATTTCTAATATTCCTATGGTTATCTATAGGGGTATAGAAAATTTGAAACTTTTC
* *
252442 ATATCTTTTCGGTTCTCCATTAAGGTACAAAAT-GAATTTTTTGGAAATGAAAAATTAAATAAAA
66 GTATCTTTTCGGTTCTCCATTAAGGTACAAAATGGAATTTTTTAGAAATGAAAAATTAAATAAAA
252506 ATTATTAGCTT
131 ATTATTAGCTT
* * * * *
252517 AATTTTTCAAGATTTCTAATATTCCTACGATTTTCTATAGGGGTATAGAAACCTTCGAAACTTTT
1 AATTTTTCAAGATTTCTAATATTCCTATGGTTATCTATAGGGGTATAGAAA-ATTTGAAACTTTT
*
252582 CGTATCTTTTTGGTTCTCCATTAAGGTA
65 CGTATCTTTTCGGTTCTCCATTAAGGTA
252610 TGAAGTGAGA
Statistics
Matches: 204, Mismatches: 27, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
140 84 0.41
141 77 0.38
142 38 0.19
143 5 0.02
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (141 bp):
AATTTTTCAAGATTTCTAATATTCCTATGGTTATCTATAGGGGTATAGAAAATTTGAAACTTTTC
GTATCTTTTCGGTTCTCCATTAAGGTACAAAATGGAATTTTTTAGAAATGAAAAATTAAATAAAA
ATTATTAGCTT
Found at i:258471 original size:15 final size:13
Alignment explanation
Indices: 258444--258468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
258434 CAATTTTTTC
258444 TAAAAAAAGAAAT
1 TAAAAAAAGAAAT
258457 TAAAAAAAGAAA
1 TAAAAAAAGAAA
258469 AATAAGAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
TAAAAAAAGAAAT
Found at i:258852 original size:18 final size:19
Alignment explanation
Indices: 258821--258871 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
258811 GCAAAAAAAG
258821 AAAAATAGAGAAAAGC-AGAA
1 AAAAAT-GA-AAAAGCAAGAA
*
258841 AAAGAAT-AAAAATCAAGAA
1 AAA-AATGAAAAAGCAAGAA
258860 AAAAATGAAAAA
1 AAAAATGAAAAA
258872 ATGAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 8 0.30
19 13 0.48
20 3 0.11
21 3 0.11
ACGTcount: A:0.75, C:0.04, G:0.14, T:0.08
Consensus pattern (19 bp):
AAAAATGAAAAAGCAAGAA
Found at i:261203 original size:79 final size:77
Alignment explanation
Indices: 261120--261369 Score: 279
Period size: 79 Copynumber: 3.1 Consensus size: 77
261110 ATTATATTTA
** *
261120 ATATTTTGGAAGTAAAAATGAGGTTATAGTATCCCCTCACAAATTATGGGGTTGGAGTATCCTTG
1 ATATTTTGGAAGTAAAAATGAGGTTGGAGTATCCCCTCA-AAATAATGGGGTTGGAGTATCC-TG
261185 ATGGTGAAAAATTG
64 ATGGTGAAAAATTG
* * * * * * *
261199 ATATTTTGGAAGAAAAAACGAGATTGGAGTATCTCCTCGAAAATAATGGAGTTGAAGTATCTCAG
1 ATATTTTGGAAGTAAAAATGAGGTTGGAGTATCCCCTC-AAAATAATGGGGTTGGAGTATC-CTG
*
261264 ATGGTGAAAAATCG
64 ATGGTGAAAAATTG
*
261278 ATATTTTGGAAGTAAAAATCG-GGTTGGAGTATCCCCTTAGAAATAATGGGGTTGGAGTATGTCC
1 ATATTTTGGAAGTAAAAAT-GAGGTTGGAGTATCCCCTCA-AAATAATGGGGTTGGAGTA--TCC
261342 -GATGGTGAAAAATTCG
62 TGATGGTGAAAAATT-G
*
261358 ATGCTTTTGGAA
1 AT-ATTTTGGAA
261370 TGAGAAATTT
Statistics
Matches: 143, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 125 0.87
80 7 0.05
81 10 0.07
ACGTcount: A:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (77 bp):
ATATTTTGGAAGTAAAAATGAGGTTGGAGTATCCCCTCAAAATAATGGGGTTGGAGTATCCTGAT
GGTGAAAAATTG
Found at i:264467 original size:71 final size:72
Alignment explanation
Indices: 264338--264519 Score: 273
Period size: 72 Copynumber: 2.5 Consensus size: 72
264328 AGTAGATAGG
* *
264338 TGCCATCAACTTGTGTGGGCTTTGAGAAAGAAAAGGA-ATCTTGCTCTTTAAGGACT-AAAA-GA
1 TGCCACCAACTTGTGTGGGCTTT-AGAAA-AAAA-AACATCTTGCTCTTTAAGGACTAAAAAGGA
264400 TTAAAAAGGTA
63 -TAAAAAGGTA
264411 TGCCACCAACTTGTGTGGGCTTTAGAAAAAAAAACATCTTGCTCTTTAAGGACTAAAAAGGATAA
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAAAAACATCTTGCTCTTTAAGGACTAAAAAGGATAA
264476 AAAGGTA
66 AAAGGTA
*
264483 TGCCACCAACTTGTGTGGGCTTTA-AAAAAAAATCATC
1 TGCCACCAACTTGTGTGGGCTTTAGAAAAAAAAACATC
264520 CTACTTTTTG
Statistics
Matches: 103, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
70 1 0.01
71 35 0.34
72 43 0.42
73 24 0.23
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (72 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAAAAAAAACATCTTGCTCTTTAAGGACTAAAAAGGATAA
AAAGGTA
Found at i:264632 original size:73 final size:69
Alignment explanation
Indices: 264533--264704 Score: 211
Period size: 73 Copynumber: 2.4 Consensus size: 69
264523 CTTTTTGAGG
* ** *
264533 CACCATCTTATGTGGAATTTAAAAAGAAAAAGGCGTTCTGCTCTTTGAGGACTAAAAGGATA-AA
1 CACCAACTTATGTGGGCTTT-AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGATAGAA
264597 AAGGTGTGC
65 AA----TGC
* *
264606 CACCAACTTATGTGGGCTTTAGAAAGAAAATGGCGTCCTGCTCTTTGAGGACTAATAGGATAGAA
1 CACCAACTTATGTGGGCTTTA-AAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGATAGAA
264671 AATGC
65 AATGC
* *
264676 CACCAGCTTTTGTGGGCTTTAAAAGAAAA
1 CACCAACTTATGTGGGCTTTAAAAGAAAA
264705 GGAAAAAGCA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
69 8 0.09
70 22 0.25
72 1 0.01
73 54 0.61
74 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (69 bp):
CACCAACTTATGTGGGCTTTAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGATAGAAA
ATGC
Found at i:265119 original size:13 final size:13
Alignment explanation
Indices: 265101--265130 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
265091 ATACATTGTT
265101 CATTGTATCGATA
1 CATTGTATCGATA
265114 CATTGTATCGATA
1 CATTGTATCGATA
265127 CATT
1 CATT
265131 CTGGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:265171 original size:20 final size:19
Alignment explanation
Indices: 265146--265200 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
265136 TTTACCTAGA
265146 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
265166 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
265186 TGTATCGATACATTT
1 TGTATCGATACATTT
265201 AATCGATACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:265211 original size:33 final size:33
Alignment explanation
Indices: 265169--265232 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
265159 TTTGCATTGT
*
265169 ATCGATACATTGCTCATTGTATCGATACATTTA
1 ATCGATACATTGCTCATTATATCGATACATTTA
265202 ATCGATACATTGCTCATTATATCGATACATT
1 ATCGATACATTGCTCATTATATCGATACATT
265233 GTAAATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (33 bp):
ATCGATACATTGCTCATTATATCGATACATTTA
Found at i:265225 original size:20 final size:20
Alignment explanation
Indices: 265148--265233 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
265138 TACCTAGATG
* *
265148 TATCGATACATT-TTGCATTG
1 TATCGATACATTGCT-CATTA
*
265168 TATCGATACATTGCTCATTG
1 TATCGATACATTGCTCATTA
265188 TATCGATACA----T--TTA
1 TATCGATACATTGCTCATTA
265202 -ATCGATACATTGCTCATTA
1 TATCGATACATTGCTCATTA
265221 TATCGATACATTG
1 TATCGATACATTG
265234 TAAATTTTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
13 9 0.16
14 2 0.04
16 1 0.02
17 1 0.02
19 3 0.05
20 39 0.70
21 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
TATCGATACATTGCTCATTA
Found at i:267622 original size:51 final size:50
Alignment explanation
Indices: 267555--267733 Score: 171
Period size: 51 Copynumber: 3.5 Consensus size: 50
267545 AAATTTCTAG
* * ** *
267555 ATTTTTCAT-CTCGGGGATACTCCAACCTCGGTTCCATTTCCAAAACGTCA
1 ATTTTTCATAATCGGGGATACTCCAA-CTCGATTTTATTTCCAAAACATCA
* * * * *
267605 ATTTTTCTTAATCGGGGATACTTCAACTCTGATTTTATTTCTAAAGCATCG
1 ATTTTTCATAATCGGGGATACTCCAACTC-GATTTTATTTCCAAAACATCA
* * * *
267656 ATTTATCGTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAATACCA
1 ATTTTTCATAATCGGGGATACTCCAACT-CGATTTTATTTCCAAAACATCA
* **
267707 ATTTTTCATAATTGAAGATACTCCAAC
1 ATTTTTCATAATCGGGGATACTCCAAC
267734 CTCGTGATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
50 11 0.11
51 91 0.88
52 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (50 bp):
ATTTTTCATAATCGGGGATACTCCAACTCGATTTTATTTCCAAAACATCA
Found at i:267754 original size:28 final size:27
Alignment explanation
Indices: 267723--267788 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
267713 CATAATTGAA
*
267723 GATACTCCAACCTCGTGATTTCATT-GGG
1 GATACTCCAACCCCGTGATTT--TTAGGG
*
267751 GATACTCCAACCCCGTTATTTTTGAGGG
1 GATACTCCAACCCCGTGATTTTT-AGGG
267779 GATACTCCAA
1 GATACTCCAA
267789 ACCCAGCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 2 0.06
28 32 0.94
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (27 bp):
GATACTCCAACCCCGTGATTTTTAGGG
Found at i:267864 original size:27 final size:26
Alignment explanation
Indices: 267827--267899 Score: 101
Period size: 28 Copynumber: 2.7 Consensus size: 26
267817 TTTTTCATAG
*
267827 TCGGGGGTACTCCAACCCGTTATTTC
1 TCGGGGATACTCCAACCCGTTATTTC
267853 ATCGGGGATACTCCAATCCCGTTATTTC
1 -TCGGGGATACTCCAA-CCCGTTATTTC
*
267881 TGAGGGGATACTCCAACCC
1 T-CGGGGATACTCCAACCC
267900 CAACTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 18 0.43
28 24 0.57
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (26 bp):
TCGGGGATACTCCAACCCGTTATTTC
Found at i:274344 original size:60 final size:59
Alignment explanation
Indices: 274164--274426 Score: 330
Period size: 61 Copynumber: 4.3 Consensus size: 59
274154 GCCCTTCTAC
* * *
274164 TCCTCAAAAAGTAGGACGCCTTTTTCTTTTCAAAGCC-CACATGAGTTGGTGGCACCTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCACACA--AGTTGGTGGCACCTTTAG
* *
274225 TCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAG
1 TCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAG-CCACACAAGTTGGTGGCACCTTTAG
* *
274287 TCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCACACAAGTTGGTGGCACCCTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCACACAAGTTGGTGGCA-CCTTTAG
* * *
274347 TCCTCAAAAAGCAGGACACCTTTTCCTTTTAAAGGCCACACAAGTTGGTGGCACGTTATAG
1 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAA-GCCACACAAGTTGGTGGCACCTT-TAG
* *
274408 TCCTTAAAGAGCAGCACGC
1 TCCTCAAAGAGCAGGACGC
274427 TCTCTCCTTT
Statistics
Matches: 179, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
59 18 0.10
60 52 0.29
61 54 0.30
62 41 0.23
63 10 0.06
64 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (59 bp):
TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCACACAAGTTGGTGGCACCTTTAG
Found at i:274421 original size:61 final size:60
Alignment explanation
Indices: 274164--274426 Score: 339
Period size: 60 Copynumber: 4.3 Consensus size: 60
274154 GCCCTTCTAC
* * * **
274164 TCCTCAAAAAGTAGGACGCCTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCACCTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTAG
* *
274225 TCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAG
1 TCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAG
* *
274287 TCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAG-CCACACAAGTTGGTGGCACCCTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTAG
* * * *
274347 TCCTCAAAAAGCAGGACACCTTTTCCTTTTAAAGGCCACACAAGTTGGTGGCACGTTATAG
1 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAG
* *
274408 TCCTTAAAGAGCAGCACGC
1 TCCTCAAAGAGCAGGACGC
274427 TCTCTCCTTT
Statistics
Matches: 179, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
59 18 0.10
60 53 0.30
61 53 0.30
62 47 0.26
63 8 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (60 bp):
TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAG
Found at i:274600 original size:61 final size:61
Alignment explanation
Indices: 274437--275140 Score: 831
Period size: 61 Copynumber: 11.5 Consensus size: 61
274427 TCTCTCCTTT
* * * * *
274437 CACCTTTTAGTCCTCAAATAGCAGGATGCCTTTTCCTTTTCAAAGCCCATACGAGTTGGATGG
1 CACC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAGTTGG-TGG
* *
274500 CACCCTTCAGTCCTCAAAGAGCAGGACACCTTTT--TTTTTAAAGCCCACACAAGTTGGTGG
1 CA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
* * *
274560 CACCTTTAGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTTAAAGCCCATACAAGTTAGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
* * * * *
274621 CACCTTTAGTCCTCAAAGAACAGGACGCCTTCTCC-TTTCAAAACCCACACGAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
* * * *
274681 CACCTTTCAGTCCTCAAAAAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACAAAAGTTAGTGG
1 CACCTTT-AGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
* *
274744 CACCTTTAGTCTTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
*
274805 CACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC-TTTTAAAGCCCACACCAGTTGGTGG
1 CACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
* * *
274865 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTTCTCC--TTCAAAGCCCACACGAGTTGGTGG
1 CA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
* * *
274925 CACCCTTCAGTCCTCAAAGAGCAGGACACCTTTTCC-TTTCAAAGCCCACACAAGTTGGTGG
1 CA-CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
** * * ** *
274986 CATTTTTCAGTCCTCAAAGAGTAGGATG-C-TTTCTCTTTGCAAAGTCCACACAAGTT-GTGG
1 CACCTTT-AGTCCTCAAAGAGCAGGACGCCTTTTC-CTTTTTAAAGCCCACACAAGTTGGTGG
* *
275046 CACCTTTCAGTCCTCAAAGAAG-AGGACGCC-TTT-CTTTTTCGAAGCCCACACGAGTTGGTGG
1 CACCTTT-AGTCCTCAAAG-AGCAGGACGCCTTTTCCTTTTT-AAAGCCCACACAAGTTGGTGG
* * *
275107 CACTTTTTACTCCTTAAAGAGCAGGACGCACTTT
1 CAC-CTTTAGTCCTCAAAGAGCAGGACGC-CTTT
275141 ATTTTCCTCT
Statistics
Matches: 558, Mismatches: 64, Indels: 38
0.85 0.10 0.06
Matches are distributed among these distances:
59 36 0.06
60 158 0.28
61 279 0.50
62 27 0.05
63 56 0.10
64 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (61 bp):
CACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGG
Found at i:274633 original size:222 final size:221
Alignment explanation
Indices: 274216--274660 Score: 621
Period size: 222 Copynumber: 2.0 Consensus size: 221
274206 GAGTTGGTGG
* *
274216 CACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCAC
* * **
274281 CTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCACACAAGTTGGTGGCACCCTTTA
66 CTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCACACAAGTTGGTGGCACCCTTTA
* * * *
274346 GTCCTCAAAAAGCAGGACACCTTTTCCTTTTAAAGGCCACACAAGTTGGTGGCACGTTATAGTCC
131 GTCCTCAAAAAGCAGAACACCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTATAGTCC
* *
274411 TTAAAGAGCAGCACG-CTCTCTCCTTT
196 TCAAAGAACAGCACGCCT-TCTCCTTT
* * *
274437 CACCTTTTAGTCCTCAAATAGCAGGATGCC-TTTTCCTTTTCAAAGCCCATACGAGTTGGATGGC
1 CACC-TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTCAAAGCCCACACAAGTTGG-TGGC
*
274501 ACCCTTCAGTCCTCAAAGAGCAGGACACCTTTT-TTTTTAAAGCCCACACAAGTTGGTGGCA-CC
64 A-CCTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAG-CCACACAAGTTGGTGGCACCC
* * *
274564 TTTAGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTTAAAGCCCATACAAGTTAGTGGCACCTT-T
127 TTTAGTCCTCAAAAAGCAGAACACCTTTTCC-TTTTAAAGCCCACACAAGTTAGTGGCACCTTAT
*
274628 AGTCCTCAAAGAACAGGACGCCTTCTCCTTT
191 AGTCCTCAAAGAACAGCACGCCTTCTCCTTT
274659 CA
1 CA
274661 AAACCCACAC
Statistics
Matches: 198, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
221 29 0.15
222 95 0.48
223 74 0.37
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (221 bp):
CACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCAC
CTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCACACAAGTTGGTGGCACCCTTTA
GTCCTCAAAAAGCAGAACACCTTTTCCTTTTAAAGCCCACACAAGTTAGTGGCACCTTATAGTCC
TCAAAGAACAGCACGCCTTCTCCTTT
Found at i:274678 original size:283 final size:282
Alignment explanation
Indices: 274164--274709 Score: 778
Period size: 283 Copynumber: 1.9 Consensus size: 282
274154 GCCCTTCTAC
* * * *
274164 TCCTCAAAAAGTAGGACGCCTTTTTCTTTTCAAAGCCCACATGAGTTGGTGGCACCTTTAGTCCT
1 TCCTCAAAAAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTCAGTCCT
**
274229 CAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAA
66 CAAAGAGCAGGACACC-TTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAA
* * * *
274294 AGAGTAGGATGCCTTTTCCTTTTAAAGCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAAAGC
130 AGAGCAGAACGCCTTTTCCTTTTAAAGCCACACAAGTTAGTGGCACCCTTTAGTCCTCAAAAAGC
* * ** * * *
274359 AGGACACCTTTTCCTTTTAAAGGCCACACAAGTTGGTGGCACGTTAT-AGTCCTTAAAGAGCAGC
195 AGGACACCTTCTCCTTTCAAAACCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAAAGCAGC
274423 ACGCTCTCTCCTTTCACCTTTTAG
259 ACGCTCTCTCCTTTCACCTTTTAG
* * *
274447 TCCTCAAATAGCAGGATGCCTTTTCCTTTTCAAAGCCCATACGAGTTGGATGGCACCCTTCAGTC
1 TCCTCAAAAAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGG-TGGCA-CCTTCAGTC
274512 CTCAAAGAGCAGGACACC-TTTT-TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCA
64 CTCAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCA
*
274575 AAGAGCAGAACGCCTTTTCCTTTTTAAAGCCCATACAAGTTAGTGGCA-CCTTTAGTCCTCAAAG
129 AAGAGCAGAACGCCTTTTCC-TTTTAAAG-CCACACAAGTTAGTGGCACCCTTTAGTCCTCAAA-
* *
274639 AA-CAGGACGCCTTCTCCTTTCAAAACCCACACGAGTTGGTGGCACCTTTCAGTCCTCAAAAAGC
191 AAGCAGGACACCTTCTCCTTTCAAAACCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGC
*
274703 AGGACGC
256 AGCACGC
274710 CTTTTTTCTT
Statistics
Matches: 233, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
282 59 0.25
283 127 0.55
284 23 0.10
285 24 0.10
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (282 bp):
TCCTCAAAAAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTCAGTCCT
CAAAGAGCAGGACACCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAA
GAGCAGAACGCCTTTTCCTTTTAAAGCCACACAAGTTAGTGGCACCCTTTAGTCCTCAAAAAGCA
GGACACCTTCTCCTTTCAAAACCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGCAC
GCTCTCTCCTTTCACCTTTTAG
Found at i:274937 original size:121 final size:120
Alignment explanation
Indices: 274445--275135 Score: 807
Period size: 121 Copynumber: 5.7 Consensus size: 120
274435 TTCACCTTTT
* * * * *
274445 AGTCCTCAAATAGCAGGATGCCTTTTCCTTTTCAAAGCCCATACGAGTTGGATGGCACCCTTCAG
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGG-TGGCA-CCTTTAG
* * ** * *
274510 TCCTCAAAGAGCAGGACACCTTTTTTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
63 TCCTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTTC
* * *
274567 AGTCCTCAAAGAGCAGAACGCCTTTTCCTTTTTAAAGCCCATACAAGTTAGTGGCACCTTTAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTC
* * * *
274632 CTCAAAGAACAGGACGCCTTCTCCTTTCAAAACCCACACGAGTTGGTGGCACCTTTC
65 CTCAAAGAGCAGGACGCCTTCTCC-TTCAAAGCCCACACAAGTTGGTGGCACCCTTC
* * * *
274689 AGTCCTCAAAAAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACAAAAGTTAGTGGCACCTTTAGT
1 AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGT
* * * * *
274754 CTTCAAAGAGCAGGATGCCTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTT
64 CCTCAAAGAGCAGGACGCCTTCTCC--TTCAAAGCCCACACAAGTTGGTGGCACCCTTC
*
274812 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACCAGTTGGTGGCACCCTTTAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTAGTC
*
274877 CTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACGAGTTGGTGGCACCCTTC
65 CTCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTTC
* * **
274933 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTC
* * * * * *
274998 CTCAAAGAGTAGGATGCTTTCTCTTTGCAAAGTCCACACAAGTT-GTGGCACCTTTC
65 CTCAAAGAGCAGGACGCCTTCTCCTT-CAAAGCCCACACAAGTTGGTGGCACCCTTC
* * * * *
275054 AGTCCTCAAAGAAG-AGGACGCC-TTTCTTTTTCGAAGCCCACACGAGTTGGTGGCACTTTTTAC
1 AGTCCTCAAAG-AGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCAC-CTTTAG
*
275117 TCCTTAAAGAGCAGGACGC
63 TCCTCAAAGAGCAGGACGC
275136 ACTTTATTTT
Statistics
Matches: 493, Mismatches: 63, Indels: 27
0.85 0.11 0.05
Matches are distributed among these distances:
120 61 0.12
121 206 0.42
122 115 0.23
123 82 0.17
124 29 0.06
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (120 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
TCAAAGAGCAGGACGCCTTCTCCTTCAAAGCCCACACAAGTTGGTGGCACCCTTC
Found at i:275276 original size:40 final size:40
Alignment explanation
Indices: 275221--275322 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
275211 AGCAAGATGT
* *
275221 ATTC-TTTTCACTTTGTCCTCAAGAAGCAGGA-C-ACTTTCC
1 ATTCTTTTTCCCTTTGTCCTCAAGAAGCAAGATCTA-TTT-C
* *
275260 TTTCTTTTTCCCTTTGTCCTCAAGGAGCAAGATCTATTTC
1 ATTCTTTTTCCCTTTGTCCTCAAGAAGCAAGATCTATTTC
*
275300 ATTCTTTTTTCCTTTGTCCTCAA
1 ATTCTTTTTCCCTTTGTCCTCAA
275323 AAAGTGGGAC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.06
40 46 0.85
41 4 0.07
42 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.11, T:0.44
Consensus pattern (40 bp):
ATTCTTTTTCCCTTTGTCCTCAAGAAGCAAGATCTATTTC
Found at i:275289 original size:74 final size:77
Alignment explanation
Indices: 275155--275297 Score: 179
Period size: 74 Copynumber: 1.9 Consensus size: 77
275145 TCCTCTTTCT
* * * *
275155 TTTGTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTTTCCTTTATCCTCGAAAAGCAAGATG
1 TTTGTCCTCAAAGAGCAGGACACATTTCGCTTTCCTTTTTCCCTTTATCCTCGAAAAGCAAGATC
275220 TATTCTTTTCAC
66 TATTCTTTTCAC
* *
275232 TTTGTCCTC-AAGAAGCAGGACAC-TTTC-CTTT-CTTTTTCCCTTTGTCCTC-AAGGAGCAAGA
1 TTTGTCCTCAAAG-AGCAGGACACATTTCGCTTTCCTTTTTCCCTTTATCCTCGAA-AAGCAAGA
275292 TCTATT
64 TCTATT
275298 TCATTCTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
73 2 0.03
74 28 0.48
75 3 0.05
76 7 0.12
77 18 0.31
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (77 bp):
TTTGTCCTCAAAGAGCAGGACACATTTCGCTTTCCTTTTTCCCTTTATCCTCGAAAAGCAAGATC
TATTCTTTTCAC
Found at i:276853 original size:15 final size:14
Alignment explanation
Indices: 276829--276858 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
276819 ACTTAAACTG
276829 GTTCTCTTTTTTTT
1 GTTCTCTTTTTTTT
276843 GTTCATCTTTTTTTT
1 GTTC-TCTTTTTTTT
276858 G
1 G
276859 GGCCGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.03, C:0.13, G:0.10, T:0.73
Consensus pattern (14 bp):
GTTCTCTTTTTTTT
Found at i:280961 original size:12 final size:12
Alignment explanation
Indices: 280944--280971 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
280934 CATCCCTTGG
280944 AAATTTACACCA
1 AAATTTACACCA
280956 AAATTTACACCA
1 AAATTTACACCA
280968 AAAT
1 AAAT
280972 ACACACACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.21, G:0.00, T:0.25
Consensus pattern (12 bp):
AAATTTACACCA
Found at i:288014 original size:15 final size:14
Alignment explanation
Indices: 287961--288011 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
287951 TAATAAATAA
287961 AATATTTTAATTTT
1 AATATTTTAATTTT
* *
287975 TATATTACTAAATTTT
1 AATATT--TTAATTTT
287991 -ATATTTTAATTTT
1 AATATTTTAATTTT
288004 AATATTTT
1 AATATTTT
288012 TAAAATTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 7 0.23
14 12 0.39
15 5 0.16
16 7 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
AATATTTTAATTTT
Found at i:290496 original size:27 final size:27
Alignment explanation
Indices: 290424--290486 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
290414 AACAGGATTG
***
290424 GAGTATCCCCTCAAAATAATGGGGTTA
1 GAGTATCCCCTTGGAATAATGGGGTTA
290451 GAGTATCCCCTTGGAATAATGGGGTTA
1 GAGTATCCCCTTGGAATAATGGGGTTA
290478 GAGTATCCC
1 GAGTATCCC
290487 TGATGAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (27 bp):
GAGTATCCCCTTGGAATAATGGGGTTA
Found at i:303857 original size:33 final size:33
Alignment explanation
Indices: 303794--303858 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
303784 TACCACTATT
* *
303794 TGTATCGATACATGGCACATTGTATTGATACAG
1 TGTATCGATACATGGCACATTGCATCGATACAG
303827 TGTATCGATACATGATG-A-ATTGCATCGATACA
1 TGTATCGATACATG--GCACATTGCATCGATACA
303859 TTGCTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGCATCGATACAG
Found at i:305147 original size:19 final size:21
Alignment explanation
Indices: 305123--305175 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
305113 GACAATTGTC
*
305123 CATGTATCGATACAATG-A-A
1 CATGTATCGATACAAAGCATA
305142 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAAAGCATA
305163 -ATGTATCGATACA
1 CATGTATCGATACA
305176 TCTGGGTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (21 bp):
CATGTATCGATACAAAGCATA
Found at i:312179 original size:9 final size:9
Alignment explanation
Indices: 312165--312198 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
312155 TCCAAGTCAC
*
312165 CATCATCAT
1 CATCATTAT
312174 CATCATTAT
1 CATCATTAT
*
312183 CATCTTTAT
1 CATCATTAT
312192 CATCATT
1 CATCATT
312199 GATGGTTGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (9 bp):
CATCATTAT
Found at i:313809 original size:33 final size:33
Alignment explanation
Indices: 313767--313835 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
313757 TCGTTAGAAG
*
313767 CAATGTATCGATACAAT-TCATCATGCATCGATA
1 CAATGTATCGATACAATGT-ATCATACATCGATA
*
313800 CAATGTATCGATACAATGTATCATATATCGATA
1 CAATGTATCGATACAATGTATCATACATCGATA
313833 CAA
1 CAA
313836 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTATCATACATCGATA
Found at i:313811 original size:13 final size:13
Alignment explanation
Indices: 313767--313821 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
313757 TCGTTAGAAG
313767 CAATGTATCGATA
1 CAATGTATCGATA
313780 CAA--T-TC-AT-
1 CAATGTATCGATA
*
313788 C-ATGCATCGATA
1 CAATGTATCGATA
313800 CAATGTATCGATA
1 CAATGTATCGATA
313813 CAATGTATC
1 CAATGTATC
313822 ATATATCGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 2 0.06
10 4 0.12
11 3 0.09
12 1 0.03
13 22 0.65
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:313889 original size:20 final size:19
Alignment explanation
Indices: 313864--313936 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
313854 CTGCCAGTTT
* **
313864 CATGTATTGATACAATTGCC
1 CATGTATCGATACAA-TGAA
*
313884 CATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
*
313903 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
313924 -ATGTATCGATACA
1 CATGTATCGATACA
313937 TCTAGGTGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.38
20 27 0.60
21 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:319815 original size:17 final size:17
Alignment explanation
Indices: 319793--319828 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
319783 AATTTTCCAA
*
319793 AATGTATCGATACATCT
1 AATGTATCGATAAATCT
319810 AATGTATCGATAAATCT
1 AATGTATCGATAAATCT
319827 AA
1 AA
319829 AAAACCCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (17 bp):
AATGTATCGATAAATCT
Found at i:319876 original size:13 final size:13
Alignment explanation
Indices: 319858--319896 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
319848 ACAATATTCT
319858 TTGTATCGATACA
1 TTGTATCGATACA
*
319871 TTGTATCGATATA
1 TTGTATCGATACA
319884 TTGTATCGATACA
1 TTGTATCGATACA
319897 AGGGTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:320030 original size:21 final size:22
Alignment explanation
Indices: 320004--320053 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
319994 ATCAAATCTT
* *
320004 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
320025 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
320047 --TCAAAAT
1 CTTCAAAAT
320054 TATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:321352 original size:13 final size:13
Alignment explanation
Indices: 321334--321360 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
321324 ACATTATGTT
321334 TTGTATCGATACA
1 TTGTATCGATACA
321347 TTGTATCGATACA
1 TTGTATCGATACA
321360 T
1 T
321361 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:321369 original size:19 final size:20
Alignment explanation
Indices: 321345--321400 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
321335 TGTATCGATA
*
321345 CATTGTATCGATACATG-TT
1 CATTGTATCGATACATGCAT
321364 CATTGTATCGATACATGCAT
1 CATTGTATCGATACATGCAT
*
321384 AATTGTATCGATACATG
1 CATTGTATCGATACATG
321401 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
CATTGTATCGATACATGCAT
Found at i:321390 original size:20 final size:19
Alignment explanation
Indices: 321341--321401 Score: 86
Period size: 20 Copynumber: 3.1 Consensus size: 19
321331 GTTTTGTATC
321341 GATACATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
* *
321361 GTTCATTGTATCGATACAT
1 GATAATTGTATCGATACAT
321380 GCATAATTGTATCGATACAT
1 G-ATAATTGTATCGATACAT
321400 GA
1 GA
321402 AACTGGCAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:321467 original size:33 final size:32
Alignment explanation
Indices: 321430--321492 Score: 74
Period size: 33 Copynumber: 1.9 Consensus size: 32
321420 TACCACTGTT
321430 TGTATCAATACATG-GCACATTGTATCGATATAA
1 TGTATCAATACATGAG-A-ATTGTATCGATATAA
**
321463 TGTATTGATACATGATGAATTGTATCGATA
1 TGTATCAATACATGA-GAATTGTATCGATA
321493 CATTACTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
33 24 0.92
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCAATACATGAGAATTGTATCGATATAA
Found at i:323304 original size:13 final size:13
Alignment explanation
Indices: 323286--323342 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
323276 ATGCTGCTTC
323286 GTATCGATACATT
1 GTATCGATACATT
323299 GTATCGATACA-T
1 GTATCGATACATT
323311 G--T---T-CATT
1 GTATCGATACATT
323318 GTATCGATACATT
1 GTATCGATACATT
323331 GTATCGATACAT
1 GTATCGATACAT
323343 GTTCATTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
6 2 0.05
7 3 0.08
9 1 0.03
10 1 0.03
12 3 0.08
13 27 0.73
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:323319 original size:19 final size:19
Alignment explanation
Indices: 323295--323383 Score: 100
Period size: 19 Copynumber: 4.9 Consensus size: 19
323285 CGTATCGATA
323295 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
323314 CATTGTATCGAT--A----
1 CATTGTATCGATACATGTT
323327 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
**
323346 CATTGTATCGATACATGGA
1 CATTGTATCGATACATGTT
323365 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
323384 AAACTGGCAG
Statistics
Matches: 60, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
13 12 0.20
15 1 0.02
17 1 0.02
19 30 0.50
21 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:323326 original size:32 final size:32
Alignment explanation
Indices: 323286--323361 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
323276 ATGCTGCTTC
323286 GTATCGATACATTGTATCGATACATGTTCATT
1 GTATCGATACATTGTATCGATACATGTTCATT
323318 GTATCGATACATTGTATCGATACATGTTCATT
1 GTATCGATACATTGTATCGATACATGTTCATT
323350 GTATCGATACAT
1 GTATCGATACAT
323362 GGACAAATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (32 bp):
GTATCGATACATTGTATCGATACATGTTCATT
Found at i:323449 original size:13 final size:13
Alignment explanation
Indices: 323428--323458 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
323418 CGATACATGG
*
323428 TACAATGTATCGA
1 TACATTGTATCGA
323441 TACATTGTATCGA
1 TACATTGTATCGA
323454 TACAT
1 TACAT
323459 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:323454 original size:33 final size:32
Alignment explanation
Indices: 323412--323478 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
323402 CTATCACTAT
323412 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
323445 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
323478 T
1 T
323479 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:325863 original size:27 final size:28
Alignment explanation
Indices: 325831--325886 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
325821 CCTTTGAGAA
*
325831 AGAAACAAAGTTT-AAAATTTTTTTGTC
1 AGAAACAAAGTTTAAAAATTTCTTTGTC
325858 AGAAACAAAGTTTAAAAATTTCTTTGTC
1 AGAAACAAAGTTTAAAAATTTCTTTGTC
325886 A
1 A
325887 AGCATAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (28 bp):
AGAAACAAAGTTTAAAAATTTCTTTGTC
Found at i:328500 original size:13 final size:13
Alignment explanation
Indices: 328482--328510 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
328472 ACAACATTCC
328482 TTGTATCGATACA
1 TTGTATCGATACA
328495 TTGTATCGATACA
1 TTGTATCGATACA
328508 TTG
1 TTG
328511 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:330791 original size:12 final size:12
Alignment explanation
Indices: 330772--330807 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
330762 AACACTCTAA
330772 AAAT-ATGTTCT
1 AAATGATGTTCT
330783 AAATGATGTTCT
1 AAATGATGTTCT
*
330795 AAATGATTTTCT
1 AAATGATGTTCT
330807 A
1 A
330808 TCAATAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (12 bp):
AAATGATGTTCT
Found at i:331052 original size:21 final size:19
Alignment explanation
Indices: 331006--331062 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
330996 TGTATCGATG
**
331006 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGGA
331025 CATTGTATCGATACATGGA
1 CATTGTATCGATACATGGA
331044 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
331063 AAACTGGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGGA
Found at i:332983 original size:2 final size:2
Alignment explanation
Indices: 332976--333010 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
332966 TCACACCATA
332976 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
333011 ATTCTCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:334481 original size:8 final size:8
Alignment explanation
Indices: 334468--334510 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
334458 TTATTATATC
334468 TATATCTA
1 TATATCTA
334476 TATATCTA
1 TATATCTA
334484 TATATCTA
1 TATATCTA
334492 TATATC--
1 TATATCTA
334498 TATATCTA
1 TATATCTA
334506 TATAT
1 TATAT
334511 TTATTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.18
8 27 0.82
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (8 bp):
TATATCTA
Found at i:334489 original size:16 final size:14
Alignment explanation
Indices: 334462--334510 Score: 80
Period size: 14 Copynumber: 3.4 Consensus size: 14
334452 CGTTTATTAT
334462 TATATCTATATCTA
1 TATATCTATATCTA
334476 TATATCTATATATCTA
1 TATATC--TATATCTA
334492 TATATCTATATCTA
1 TATATCTATATCTA
334506 TATAT
1 TATAT
334511 TTATTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 19 0.58
16 14 0.42
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (14 bp):
TATATCTATATCTA
Found at i:336543 original size:18 final size:19
Alignment explanation
Indices: 336516--336565 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
336506 TTAAATAATG
*
336516 ATTTTCTATTT-TTTAAAT
1 ATTTTATATTTATTTAAAT
*
336534 ATTTTATATTTTATTTATAT
1 ATTTTATA-TTTATTTAAAT
*
336554 ATTTGATATTTA
1 ATTTTATATTTA
336566 AAAATTTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 7 0.26
19 7 0.26
20 13 0.48
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTATATTTATTTAAAT
Found at i:336555 original size:20 final size:20
Alignment explanation
Indices: 336527--336564 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
336517 TTTTCTATTT
*
336527 TTTAAATATTTTATATTTTA
1 TTTAAATATTTGATATTTTA
*
336547 TTTATATATTTGATATTT
1 TTTAAATATTTGATATTT
336565 AAAAATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTAAATATTTGATATTTTA
Found at i:336626 original size:20 final size:20
Alignment explanation
Indices: 336584--336625 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
336574 AGATATTAAA
*
336584 ATATTTATAATATAAAATTT
1 ATATTTATAATATAAAATAT
336604 ATATTTAT-ATAT-AAATAT
1 ATATTTATAATATAAAATAT
336622 ATAT
1 ATAT
336626 AATAGAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 4 0.19
20 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTTATAATATAAAATAT
Found at i:337048 original size:13 final size:13
Alignment explanation
Indices: 337030--337054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
337020 ATTTTGCTTA
337030 GTATCGATACATT
1 GTATCGATACATT
337043 GTATCGATACAT
1 GTATCGATACAT
337055 AAAACTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:337644 original size:32 final size:34
Alignment explanation
Indices: 337603--337666 Score: 105
Period size: 32 Copynumber: 1.9 Consensus size: 34
337593 CAAGTGATTG
337603 AGAGGTTCTATCTTAG-CTTTG-AAAGATAGTGT
1 AGAGGTTCTATCTTAGCCTTTGAAAAGATAGTGT
337635 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAG
1 AGAGGTTCTATCTTAGCCTTTG-AAAAGATAG
337667 GGGTGTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 16 0.55
33 5 0.17
35 8 0.28
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTTGAAAAGATAGTGT
Found at i:339276 original size:21 final size:21
Alignment explanation
Indices: 339225--339268 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
339215 TAATATTCTT
* *
339225 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
339246 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
339267 GA
1 GA
339269 GGAGAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:343927 original size:16 final size:17
Alignment explanation
Indices: 343894--343942 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
343884 AATTAAAAAT
343894 TATTAAAATAATATTTA
1 TATTAAAATAATATTTA
343911 TATTAAATATAA-A-TTA
1 TATTAAA-ATAATATTTA
* *
343927 T-TAAAAATTATATTTA
1 TATTAAAATAATATTTA
343943 CTAAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 3 0.11
15 5 0.19
16 7 0.26
17 8 0.30
18 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTAAAATAATATTTA
Found at i:343956 original size:30 final size:31
Alignment explanation
Indices: 343890--343949 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
343880 AAATAATTAA
*
343890 AAATTATTAAAATAATATTTATATTAAATAT
1 AAATTATTAAAATAATATTTATACTAAATAT
*
343921 AAATTATTAAAA-ATTATATT-TACTAAATA
1 AAATTATTAAAATAATAT-TTATACTAAATA
343950 ATAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (31 bp):
AAATTATTAAAATAATATTTATACTAAATAT
Found at i:346387 original size:4 final size:4
Alignment explanation
Indices: 346374--346403 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
346364 TAAATTTTAA
346374 CTTT -TTT CTTT CTTT CTTT CTTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT
346404 ATTTCTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
CTTT
Found at i:347265 original size:21 final size:21
Alignment explanation
Indices: 347239--347278 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
347229 AGCTAGTTAA
**
347239 TATATTATTTATAATAATATT
1 TATATTAAATATAATAATATT
347260 TATATTAAATATAATAATA
1 TATATTAAATATAATAATA
347279 AATAGTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATATTAAATATAATAATATT
Found at i:348607 original size:22 final size:22
Alignment explanation
Indices: 348562--348607 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
348552 ATTATATTTG
*
348562 TATAAATAAACATCTATTTGTT
1 TATAAATAAACACCTATTTGTT
*
348584 TATAAATAAA-ACCTCTTTGATT
1 TATAAATAAACACCTATTTG-TT
348606 TA
1 TA
348608 AGAAAACATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.43
Consensus pattern (22 bp):
TATAAATAAACACCTATTTGTT
Found at i:352765 original size:52 final size:52
Alignment explanation
Indices: 352687--352793 Score: 178
Period size: 52 Copynumber: 2.1 Consensus size: 52
352677 CGAAATATGA
*
352687 AAATTTACCTACATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTACCTACATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* * *
352739 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTACCTACATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
352791 AAA
1 AAA
352794 AAAAAATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTACCTACATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:352838 original size:13 final size:13
Alignment explanation
Indices: 352820--352844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
352810 CAAAGATCAG
352820 TGTATCGATACAA
1 TGTATCGATACAA
352833 TGTATCGATACA
1 TGTATCGATACA
352845 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:352928 original size:13 final size:13
Alignment explanation
Indices: 352910--352934 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
352900 CAAAAAAATA
352910 TGTATCGATACAT
1 TGTATCGATACAT
352923 TGTATCGATACA
1 TGTATCGATACA
352935 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:352930 original size:33 final size:33
Alignment explanation
Indices: 352888--352954 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
352878 AGTAGCTTAA
352888 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
352921 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
352954 A
1 A
352955 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:358055 original size:17 final size:17
Alignment explanation
Indices: 358033--358066 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
358023 GATAAAGTGT
358033 TTGAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
358050 TTGAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
358067 AATTTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
TTGAAAAAAAAAAAAAA
Found at i:358097 original size:21 final size:21
Alignment explanation
Indices: 358073--358129 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
358063 AAAAAATTTA
358073 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
358094 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
358115 AATGTATCGATACAT
1 AATGTATCGATACAT
358130 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:358209 original size:19 final size:19
Alignment explanation
Indices: 358185--358252 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
358175 AATTCAACAA
358185 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
358204 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
358219 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
358236 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
358253 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:358224 original size:13 final size:13
Alignment explanation
Indices: 358206--358230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
358196 ACATAAGTTT
358206 TGTATCGATACAA
1 TGTATCGATACAA
358219 TGTATCGATACA
1 TGTATCGATACA
358231 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:358228 original size:32 final size:32
Alignment explanation
Indices: 358187--358249 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
358177 TTCAACAATT
*
358187 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
358219 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
358250 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:358310 original size:13 final size:13
Alignment explanation
Indices: 358292--358317 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
358282 CATTTTTCTG
358292 TGTATCGATACAT
1 TGTATCGATACAT
358305 TGTATCGATACAT
1 TGTATCGATACAT
358318 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:358314 original size:33 final size:33
Alignment explanation
Indices: 358272--358338 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
358262 GCCAAGGAAA
***
358272 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
358305 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
358338 T
1 T
358339 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:360940 original size:102 final size:102
Alignment explanation
Indices: 360680--360961 Score: 365
Period size: 102 Copynumber: 2.8 Consensus size: 102
360670 CAAGTTTTCT
* * * * *
360680 CAATTTTGCATAATCGGGGATACTCCAACCCCGGTTTTACTTCTAAAACATTAATTTTCCACAAT
1 CAATTTTCCATCATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTCTATAAT
* * *
360745 CGGGGACACTCCAACTCCGATTTTATTCTCAGAACAC
66 CGGGGATACTCCAACTCCGATTGTATTCTCAAAACAC
**
360782 CAATTTTCCA-CAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCTATA
1 CAATTTTCCATC-ATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACATTAATTTTCTATA
*
360845 ATCGGGGATACTCCAACTCCGATTGTATT-TCCAAAATAC
64 ATCGGGGATACTCCAACTCCGATTGTATTCT-CAAAACAC
* * * *
360884 TAATTTTTCATCATCGGGGATACTCCAACCCCGTTTTTATTTCTAAAATATTAA-TTTCTCATAA
1 CAATTTTCCATCATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTCT-ATAA
360948 TCGGGGATACTCCA
65 TCGGGGATACTCCA
360962 TCCCCGTTAT
Statistics
Matches: 157, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
101 7 0.04
102 148 0.94
103 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (102 bp):
CAATTTTCCATCATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTCTATAAT
CGGGGATACTCCAACTCCGATTGTATTCTCAAAACAC
Found at i:360958 original size:153 final size:153
Alignment explanation
Indices: 360680--360967 Score: 359
Period size: 153 Copynumber: 1.9 Consensus size: 153
360670 CAAGTTTTCT
* * * *
360680 CAATTTTGCATAATCGGGGATACTCCAACCCCGGTTTTACTTCTAAAACATTAATTTTCCACAAT
1 CAATTTTGCATAATCGGGGATACTCCAACCCCGATTGTACTTCCAAAACACTAATTTTCCACAAT
* *
360745 CGGGGACACTCCAACTCCGATTTTATTCTCAGAACACCAATTTTCCACAATCGGGGATACTCCAA
66 CGGGGACACTCCAACCCCGATTTTATTCTCAAAACACCAATTTTCCACAATCGGGGATACTCCAA
360810 CCCCGGTTTTATTTTCAAAACAC
131 CCCCGGTTTTATTTTCAAAACAC
* * * *
360833 CAATTTT-CTATAATCGGGGATACTCCAACTCCGATTGTATTTCCAAAATACTAATTTTTCATC-
1 CAATTTTGC-ATAATCGGGGATACTCCAACCCCGATTGTACTTCCAAAACACTAATTTTCCA-CA
* * * ** *
360896 ATCGGGGATACTCCAACCCCGTTTTTATT-TCTAAAATATTAA-TTTCTCATAATCGGGGATACT
64 ATCGGGGACACTCCAACCCCGATTTTATTCTC-AAAACACCAATTTTC-CACAATCGGGGATACT
*
360959 CCATCCCCG
127 CCAACCCCG
360968 TTATTTTCGA
Statistics
Matches: 114, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
152 7 0.06
153 106 0.93
154 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (153 bp):
CAATTTTGCATAATCGGGGATACTCCAACCCCGATTGTACTTCCAAAACACTAATTTTCCACAAT
CGGGGACACTCCAACCCCGATTTTATTCTCAAAACACCAATTTTCCACAATCGGGGATACTCCAA
CCCCGGTTTTATTTTCAAAACAC
Found at i:360969 original size:51 final size:50
Alignment explanation
Indices: 360681--360967 Score: 308
Period size: 51 Copynumber: 5.6 Consensus size: 50
360671 AAGTTTTCTC
* * *
360681 AATTTTGCATAATCGGGGATACTCCAACCCCGGTTTTACTTCTAAAACATT
1 AATTTT-CATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT
* * * * *
360732 AATTTTCCACAATCGGGGACACTCCAACTCCGATTTTA-TTCTCAGAACACC
1 AATTTT-CATAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACT
* * *
360783 AATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACC
1 AATTTT-CATAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACT
* * * *
360834 AATTTTCTATAATCGGGGATACTCCAACTCCGATTGTATTTCCAAAATACT
1 AATTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT
* * * *
360885 AATTTTTCATCATCGGGGATACTCCAACCCCGTTTTTATTTCTAAAATATT
1 AA-TTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT
*
360936 AATTTCTCATAATCGGGGATACTCCATCCCCG
1 AATTT-TCATAATCGGGGATACTCCAACCCCG
360968 TTATTTTCGA
Statistics
Matches: 203, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
50 8 0.04
51 188 0.93
52 7 0.03
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (50 bp):
AATTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACACT
Found at i:373548 original size:1 final size:1
Alignment explanation
Indices: 373542--373590 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
373532 CCTTCTCTTC
* * * * *
373542 AAAAAAAAAAACAAAAAAAAAAAAAACAAAAAAACAAAACAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
373591 GAGCGAGAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:373559 original size:8 final size:8
Alignment explanation
Indices: 373542--373580 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
373532 CCTTCTCTTC
373542 AAAA-AAA
1 AAAACAAA
373549 AAAACAAA
1 AAAACAAA
373557 AAAA-AAA
1 AAAACAAA
373564 AAAACAAA
1 AAAACAAA
373572 AAAACAAA
1 AAAACAAA
373580 A
1 A
373581 CAAAAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAACAAA
Done.