Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010326.1 Corchorus capsularis cultivar CVL-1 contig10347, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 38876
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Found at i:4649 original size:17 final size:17
Alignment explanation
Indices: 4594--4652 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
4584 TATTGCTGAT
*
4594 TTATATAT-TATTTTATC
1 TTATATATATA-TATATC
4611 TTATATATATATA-AT-
1 TTATATATATATATATC
*
4626 ATATATATATATATATC
1 TTATATATATATATATC
*
4643 TTTTATATAT
1 TTATATATAT
4653 TTTATAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 12 0.34
16 4 0.11
17 17 0.49
18 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATATATATATATATC
Found at i:4652 original size:2 final size:2
Alignment explanation
Indices: 4612--4641 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4602 TATTTTATCT
4612 TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4642 CTTTTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4784 original size:32 final size:31
Alignment explanation
Indices: 4741--4800 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
4731 ATAAGTATTC
4741 TTTTTAGTGATTCAACTTTTTTT-TTAAATT
1 TTTTTAGTGATTCAACTTTTTTTATTAAATT
4771 TTTTTCAGATGATTCAACTTTTTTTATTAA
1 TTTTT-AG-TGATTCAACTTTTTTTATTAA
4801 TTCTGGCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 5 0.19
31 2 0.07
32 16 0.59
33 4 0.15
ACGTcount: A:0.25, C:0.08, G:0.07, T:0.60
Consensus pattern (31 bp):
TTTTTAGTGATTCAACTTTTTTTATTAAATT
Found at i:6437 original size:329 final size:320
Alignment explanation
Indices: 5674--6603 Score: 1105
Period size: 329 Copynumber: 2.9 Consensus size: 320
5664 ACATGTACTA
* * * * * * *
5674 ACTAACCATCACGGTTTTCAGCTGAAAACGCGTTCTAGGGACCCGCCTCAATTTGCATGATTATT
1 ACTAACCCTCACGGTTTTTAGCTAAAAACGCGTT-TAGGGACCTGACTCATTTTGCATGATTTTT
**** * * * * *
5739 GGCTCCGAGACTACTTGAAATATCTATATTCATCTAATCAAATCTCAGCCTCATTTGATTTAAGG
65 GGCAGAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCCACATTGGATTTAAGG
* * * * *
5804 GTTTGTTTTTACGAGCATCTGAATCTTGATTCGATTTAATTAGAAATCAATTTAGGAAAAAATTG
130 ATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA-TTCGGAAAAATTTG
* * * * * *
5869 AAACACGATATTAGAAGCATGAAAAACCCATCAATTATTTTGGTGTTGACTTATATATTTTTTAA
194 AAAAACGATATTAGAAGCAAGAAAAATCCATCAATT-TTTTGGCGTTGAATTATATATTTTTTAT
* * *
5934 GATG-ATTGTGG-CAAAAAGTTGAGAAAAAAATTTTTCAAGTTAGTTTTTAGCTGAAATCGTGT
258 GA-GCATTGTGGCCAAAAAGTTGAGAAAAAAATTTTTCAAGTCAGTTTTTAGCTAAAATCGTAT
* * * * * *
5996 ACTAACCCACATGGTTTTTTTGATAAAAACGCGTTTAAGGG-CCTCGACTAACTTTTGAATGATT
1 ACTAACCCTCACGG-TTTTTAGCTAAAAACGCGTTT-AGGGACCT-GACTCA-TTTTGCATGATT
* *
6060 TTTGGCAGAAAGACTCCTTGAAATATATATATTCATCAAACTAAATCTCAGCCACATTGGATTTA
62 TTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCCACATTGGATTTA
*
6125 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAACTCGGAATTTTT
127 AGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAA-----
*** * * * * * *
6190 TTTTTTAAAAAACGGTATTAGAAGC-GGGAAAATCCTTCAATATTTTTGGCGCTGAATTATATAT
187 AAATTTGAAAAACGATATTAGAAGCAAGAAAAATCCATCAAT-TTTTTGGCGTTGAATTATATAT
* ** *
6254 TTTTTATGAGCACTGTGGCCAAAAA-TTGAGAAAATATTTTTTTTTCAGGTCAGTTTTTAGCTAA
251 TTTTTATGAGCATTGTGGCCAAAAAGTTGAGAAAA-A--AATTTTTCAAGTCAGTTTTTAGCTAA
6318 AATCGTAT
313 AATCGTAT
* *
6326 ACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTCGGGACACTAACTCAGTTTTGCATGATTTT
1 ACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTAGGGAC-CTGACTCA-TTTTGCATGATTTT
* *
6391 TGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATTTCAG
64 TGGCAGAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCCACATTGGATTTAAG
6456 GATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATT
129 GATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG--AAAAATT
*
6521 TGAAAAACGATATTGGAAGCAAGAAAAATCCATCAATCTTTTTGGCGTTGAATTATATATTATTT
192 TGAAAAACGATATTAGAAGCAAGAAAAATCCATCAAT-TTTTTGGCGTTGAATTATATATT-TTT
6586 TATGAGCATTGTGGCCAA
255 TATGAGCATTGTGGCCAA
6604 CTTTTAGCTG
Statistics
Matches: 510, Mismatches: 77, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
322 14 0.03
323 29 0.06
324 113 0.22
326 20 0.04
327 88 0.17
328 49 0.10
329 153 0.30
330 42 0.08
331 2 0.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (320 bp):
ACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTAGGGACCTGACTCATTTTGCATGATTTTTG
GCAGAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCCACATTGGATTTAAGGA
TTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAATTTGAA
AAACGATATTAGAAGCAAGAAAAATCCATCAATTTTTTGGCGTTGAATTATATATTTTTTATGAG
CATTGTGGCCAAAAAGTTGAGAAAAAAATTTTTCAAGTCAGTTTTTAGCTAAAATCGTAT
Found at i:6842 original size:297 final size:296
Alignment explanation
Indices: 6308--6896 Score: 982
Period size: 297 Copynumber: 2.0 Consensus size: 296
6298 TCAGGTCAGT
* *
6308 TTTTAGCTAAAATCGTATACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTCGGGACACTAAC
1 TTTTAGCTAAAATCGTATACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGACACCAAC
* * *
6373 TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTC
66 TCAGTTTTGCATGATTTTTGGCAGAAAAAATCCGTGAAATATCTATATTCATCGAACCAAATCTC
* * *
6438 AGCCACATTGGATTTCAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
131 AACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTAAATTAGAAA
* *
6503 TTAATTCGGAAAAAAATTTGAAAAACGATATTGGAAGCAAGAAAAATCCATCAATCTTTTTGGCG
196 TTAATTCGGAAAAAAATTTGAAAAACGATATTGGAAGCAAGAAAAACCCATCAATCTTTTTGGCA
6568 TTGAATTATATATTATTTTATGAGCATTGTGGCCAAC
261 TTGAATTATATATT-TTTTATGAGCATTGTGGCCAAC
* * * * * * *
6605 TTTTAGCTGAATTCGTGTACTAGCCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGTCCCCGAC
1 TTTTAGCTAAAATCGTATACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGACACCAAC
6670 TCAGTTTTGCATGATTTTTGGCAGAAAAAATCCGTGAAATATCTATATTCATCGAACCAAATCTC
66 TCAGTTTTGCATGATTTTTGGCAGAAAAAATCCGTGAAATATCTATATTCATCGAACCAAATCTC
6735 AACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTAAATTAGAAA
131 AACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTAAATTAGAAA
*
6800 TTAATTCGGAAAATAAA-TTGAAAAACGATATTGGAAGCAAGAAAAACCCTTCAATCTTTTTGGC
196 TTAATTCGGAAAA-AAATTTGAAAAACGATATTGGAAGCAAGAAAAACCCATCAATCTTTTTGGC
*
6864 ATTGAATTATATATTTTTTATGAGTATTGTGGC
260 ATTGAATTATATATTTTTTATGAGCATTGTGGC
6897 AAAAAATTGA
Statistics
Matches: 272, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
296 17 0.06
297 252 0.93
298 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (296 bp):
TTTTAGCTAAAATCGTATACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGACACCAAC
TCAGTTTTGCATGATTTTTGGCAGAAAAAATCCGTGAAATATCTATATTCATCGAACCAAATCTC
AACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTAAATTAGAAA
TTAATTCGGAAAAAAATTTGAAAAACGATATTGGAAGCAAGAAAAACCCATCAATCTTTTTGGCA
TTGAATTATATATTTTTTATGAGCATTGTGGCCAAC
Found at i:8312 original size:323 final size:323
Alignment explanation
Indices: 6605--9349 Score: 3784
Period size: 321 Copynumber: 8.5 Consensus size: 323
6595 TGTGGCCAAC
* * *
6605 TTTTAGCTGAATTCGTGTACTAGCCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGTCCCCGAC
1 TTTTAGCTGAAATCGTGTACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGAC
* * *
6670 TCAGTTTTGCATGATTTTTGGCAGAAAAAATCCGTGAAATATCTATATTCATCGAACCAAATCTC
66 TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTC
* *
6735 AACCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTAAATTAGAAA
131 AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
* * * *
6800 TTAATTCGGAAAATAAATTGAAAAACGATATTGGAAGCAAGAAAAACCCTTCAATCTTTTTGGCA
196 TTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCAAGAAAAACCCTTCAATATTTTTGGGA
* *
6865 TTGAATTATATATTTTTTATGAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTTCAGGTCAGT
261 TTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAAA-TTTCAGGTCAGT
* * * * * *
6929 TTTTAGCTGAAATCGTGTA--ATCCCT-ACGGGTTTTAGCTAAAAACGCGTTTCGGTGACCCGGC
1 TTTTAGCTGAAATCGTGTACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGAC
* * * *
6991 TTAGTTTTGAATGATTTTTGGCAGAAAGTCTCCTTGAAATATCTATATTCAACGAACCAAATCTC
66 TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTC
*
7056 AGCCACATTGGATTTAAGGATTTGTTTTTACGAG-ATTCTGAATCTTGTTTCGATTTAATTAGTA
131 AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCA-TCTGAATCTTGTTTCGATTTAATTAGAA
* * * * **
7120 ATTAATTCGGAAAAAAATTTGAAAAAGGATATTAGAAGCGAGAAAAAGCCTTCAATATTTTTGAA
195 ATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCAAGAAAAACCCTTCAATATTTTTGGG
* * *
7185 ATTAAATTATGA-ATTTTTTATGAGCATTGTGGCAAAAAATTGAGGAAAAAAATTTCAGGTCAGT
260 ATTGAATTAT-ATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAAATTTCAGGTCAGT
* *
7249 TTTTAGCTGAAATCGTGTACTAACCCTCAAAGTTTTTAGCTAAAAACGCGTTTCGGGCCCCCGAC
1 TTTTAGCTGAAATCGTGTACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGAC
* *
7314 TCAGTTTTGTATGTTTTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATC-AAGCCAAATC
66 TCAGTTTTGCATG-ATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAA-CCAAATC
* * *
7378 TCTA-CCACATTGGATTTCAGGATTTGTTTCTACGAGCATCTGAATCATGTTTCGATTTAATTAG
129 TC-AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAG
* * * *
7442 AAATTAATTCGGAAAAAAAATTGATAAACGATATTGGAATCAAGAAAAACCCTTCAATCTTTTTG
193 AAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCAAGAAAAACCCTTCAATATTTTTG
* * *
7507 GCATTGAATTATATATTTTTTATGAGTA-T-T-G---AGAA---A-AAAAAAAATTTCAGGTCAG
258 GGATTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAAATTTCAGGTCAG
7562 T
323 T
* * * *
7563 TTTTAGCTGAAATCGTGTACTAACCCCTTACGGGTTTTAGCTAAAAACGTGTTTCGGGGCCCCGA
1 TTTTAGCTGAAATCGTGTACTAA-CCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGA
** * *
7628 CTCAGTTTTTAATGATATTTGGCAGAAATACTCCTTGAAATATCTATATTCATCGAACCAAATCT
65 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
*
7693 CAGCCACATTGGATTTAAGGATTTGTTTTTACGTA-CATCTGAATCTTGTTTCGATTTAATTAGT
130 CAGCCACATTGGATTTAAGGATTTGTTTTTACG-AGCATCTGAATCTTGTTTCGATTTAATTAGA
* * * *
7757 AATTAGTTCGGAAAAAAAAATTGAAAAACGATATAAGAAGCAAGAAAAATCCTTCAATCTTTTTG
194 AATTAATTCGG-AAAAAAAATTGAAAAACGATATTAGAAGCAAGAAAAACCCTTCAATATTTTTG
* * *
7822 GCG-TTGAATTATATATTTTTTATGAGCACTGTGGCCAAAAATTGATAAAAAAAAATTTCAGGTT
258 G-GATTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGA-GAAAAAAAATTTCAGGTC
7886 AGT
321 AGT
* * ** * **
7889 TTTTAGCTAAAATCGTATACTAACAATCACGGTTTTTAGCTAAAAACGCGTTTCGGGATCCCGAC
1 TTTTAGCTGAAATCGTGTACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGAC
* *
7954 TCAGTTTT-CATTGATTTTTGGCAGAAAGGCTCCTTGAAATATCTATATTCATCGAAGCAAATCT
66 TCAGTTTTGCA-TGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
* **
8018 CAGCCACATTGGATTTCAGGATTTGTTTTTACGAG-ATTCTGAATCTTGTTTCGATTTAATTATT
130 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCA-TCTGAATCTTGTTTCGATTTAATTAGA
* * *
8082 AATTAATTCGGAAAAGAAATTGAAAAAGGATATTAGAAGCGAGAAAAACCCTTCAATATTTTTGG
194 AATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCAAGAAAAACCCTTCAATATTTTTGG
* *
8147 GATTGAATTATATATTGTTTATGAGCATTGT-GCCAAAAATTGAGGAAAAAAAATTTCGGGTCAG
259 GATTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGA-GAAAAAAAATTTCAGGTCAG
8211 T
323 T
* *
8212 TTTTAGCTGAAATCGTGTACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGAGACCCCGAC
1 TTTTAGCTGAAATCGTGTACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGAC
8277 TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTC
66 TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTC
* * *
8342 AGCCACATTGGATTGAAGGATCTGTTTTTACGAGCAACTGAATCTTGTTTCGATTTAATTAGAAA
131 AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
* * * * *
8407 TTAATTCGGAAGATAAATTGAAAAAGGTTATTAGAAGCAAGAAAAACCCTTCAATATTTTTGAGA
196 TTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCAAGAAAAACCCTTCAATATTTTTGGGA
* * * *
8472 TCGAATTATATATTTTTAATGAGCATTGTGGTCGAAAATTGAGAAAAAAAA-TTCAGGTCAGT
261 TTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAAATTTCAGGTCAGT
* ** * * * ** *
8534 TTTTAACCAAAATCGTGTACTAACCCCCTAC-G-GTTTAGCTAGAAACGCGTTTTTGGGCTCCGA
1 TTTTAGCTGAAATCGTGTACTAACCCTC-ACAGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGA
* * * **
8597 CTCCGTTTTGCATGATTTTTGGCGGAAAGACTCCTTGAAATATCTATATTCATGGAATTAAATCT
65 CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCT
*
8662 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAA
130 CAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAA
* * *
8727 ATTAATTC-GAATAAAAATTTGAAAAACGATATTAGAAGCGAGAAAAACCCTTCAATAGTTTTGG
195 ATTAATTCGGAA-AAAAAATTGAAAAACGATATTAGAAGCAAGAAAAACCCTTCAATATTTTTGG
* *
8791 GATTGAATTATATATTGTTTATGAGCACTGTGGCCAAAAATTGAGAAAAAAAATTTTCAGGTCAG
259 GATTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAAA-TTTCAGGTCAG
8856 T
323 T
* * * *
8857 TTTTAGCTAAAAATCGTGTACTAACCCCTTACGGTTTTTAGCTAAAAACGCGTTTTGGGGCCCCG
1 TTTTAGCT-GAAATCGTGTACTAA-CCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGGCCCC-
* * *
8922 GA-TCAGTTTTGAATGCTTTTTGGCAGAAAGACTCCTTAAAATATCTATATTCATCGAACCAAAT
63 GACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAAT
* *
8986 CTCAGTCACATTGGATTTAAGGACTTTGTTTTTACGAG-ATTCTGAATACTTGTTTCAATTTAAT
128 CTCAGCCACATTGGATTTAAGGA-TTTGTTTTTACGAGCA-TCTGAAT-CTTGTTTCGATTTAAT
* * *
9050 TAGTAATTAATTCGGAAAAAAAAAAATTGAAAAAGGATATTAGAAGCGAGAAAAACCCTTCAATA
190 TAGAAATTAATTCGG---AAAAAAAATTGAAAAACGATATTAGAAGCAAGAAAAACCCTTCAATA
* * * *
9115 TTTTTGTGATTGAATTATATATTGTTTATGAGCATTGTGGCCAAAAATTGAGGAAAAAAA-TTCG
252 TTTTTGGGATTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAAATTTCA
*
9179 GGTAAGT
317 GGTCAGT
* *
9186 TTTTAGCTGAAATCCTGTACTAACCCTCACAGTTTTTAGCCAAAAACGCGTTTCGGGGCCCCGAC
1 TTTTAGCTGAAATCGTGTACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGAC
* * * * *
9251 TCAATTTTGTATGTTTTTTAGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATGTC
66 TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTC
* *
9316 AACCACATTGGATTGAAGGATTTGTTTTTACGAG
131 AGCCACATTGGATTTAAGGATTTGTTTTTACGAG
9350 TATCAATCTT
Statistics
Matches: 2152, Mismatches: 218, Indels: 100
0.87 0.09 0.04
Matches are distributed among these distances:
313 1 0.00
314 153 0.07
315 124 0.06
316 1 0.00
317 1 0.00
318 4 0.00
320 35 0.02
321 499 0.23
322 47 0.02
323 365 0.17
324 306 0.14
325 166 0.08
326 158 0.07
327 134 0.06
328 39 0.02
329 18 0.01
331 99 0.05
332 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (323 bp):
TTTTAGCTGAAATCGTGTACTAACCCTCACAGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGAC
TCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTC
AGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAA
TTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCAAGAAAAACCCTTCAATATTTTTGGGA
TTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAAATTTCAGGTCAGT
Found at i:9556 original size:247 final size:243
Alignment explanation
Indices: 9124--9596 Score: 707
Period size: 247 Copynumber: 1.9 Consensus size: 243
9114 ATTTTTGTGA
*
9124 TTGAATTATATATTGTTTATGAGCATTGTGGCCAAAAATTGAGGAAAAAAATTCGGGTAAGTTTT
1 TTGAATTATATATTGTTTATGAGCATTGTGGCCAAAAATTGAGGAAAAAAATTCAGGTAAGTTTT
9189 TAGCTGAAATCCTGTACTAACCCTCACAGTTTTTAGCCAAAAACGCGTTTCGGGGCCCCGACTCA
66 TAGCTGAAATCCTGTACTAACCCTCACAGTTTTTAGCCAAAAACGCGTTTCGGGGCCCCGACTCA
** * *
9254 ATTTTGTATGTTTTTTAGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATGTCAAC
131 ATTTTAAATGATTTTTAGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAAC
*
9319 CACATTGGATTGAAGGATTTGTTTTTACGAGTATCAATCTTTTTGGCG
196 CACATTGGATTGAAGGATTTGTTATTACGAGTATCAATCTTTTTGGCG
* *
9367 TTGAATTATATATTGTTTATGAGTATTGTGGCCAAAAAATTGA-GAAAAAAGATTTTCAGGTCAG
1 TTGAATTATATATTGTTTATGAGCATTGTGGCC-AAAAATTGAGGAAAAAA-A--TTCAGGTAAG
* * * * *
9431 TTTTTAGCTGAAATCGTGTACTAACCCCTTACGGTTTTTAGCTAAAAACGCGTTTCGGGGTCCCG
62 TTTTTAGCTGAAATCCTGTACTAA-CCCTCACAGTTTTTAGCCAAAAACGCGTTTCGGGG-CCCC
* * *
9496 GA-TCAGTTTTAAATGATTTTTGGCAGAAAGACTCCTTGAAATATCTTTATTCATCGAACCAAAT
125 GACTCAATTTTAAATGATTTTTAGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAAT
* * *
9560 CTCAGCCACATTTGATTTAAGGATTTGTTATTACGAG
190 CTCAACCACATTGGATTGAAGGATTTGTTATTACGAG
9597 ATTCTGAATA
Statistics
Matches: 205, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
243 39 0.19
244 10 0.05
246 31 0.15
247 120 0.59
248 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (243 bp):
TTGAATTATATATTGTTTATGAGCATTGTGGCCAAAAATTGAGGAAAAAAATTCAGGTAAGTTTT
TAGCTGAAATCCTGTACTAACCCTCACAGTTTTTAGCCAAAAACGCGTTTCGGGGCCCCGACTCA
ATTTTAAATGATTTTTAGCAGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAAC
CACATTGGATTGAAGGATTTGTTATTACGAGTATCAATCTTTTTGGCG
Found at i:10219 original size:325 final size:323
Alignment explanation
Indices: 9352--11845 Score: 3529
Period size: 324 Copynumber: 7.7 Consensus size: 323
9342 TTTACGAGTA
* * *
9352 TCAATCTTTTTGGCGTTGAATTATATATTGTTTATGAGTATTGTGGCCAAAAAATTGAGAAAAAA
1 TCAATATTTTTGGCGTTGAATTATATATTTTTTATGAGCATTGTGGCC-AAAAATTGAGAAAAAA
* * *
9417 GATTTTCAGGTCAGTTTTTAGCTGAAATCGTGTACTAACCCCTTACGGTTTTTAGCTAAAAACGC
65 AATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAA-CCCTCACGGTTTTTAGCTAAAAACGC
* * ** *
9482 GTTTCGGGGTCCCGGA-TCAGTTTTAAATGATTTTTGGCAGAAAGACTCCTTGAAATATCTTTAT
129 GTTTC-GGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATAT
* * *
9546 TCATCGAACCAAATCTCAGCCACATTTGATTTAAGGATTTGTTATTACGAG-ATTCTGAATATTG
193 TCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCA-TCTGAATCTTG
* * *
9610 TTTCGATTTAATTAGTAATTAATTCGGAAAAAAAATTGAAAAATGATATTAGAAGCGAGAAAAAC
257 TTTCGATTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCGAG-AAAAT
9675 CCT
321 CCT
* *
9678 TCAATATTTTTGG-GATTGAATTATATATTGTTTATGAGCACTGTGGCCAAAAATTGAGAAAAAA
1 TCAATATTTTTGGCG-TTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAA
*
9742 AATTTTCAGGTCAGTTTTTAGCTAAAATCGTATACTAACCCTCACGGTTTTTAGCTAAAAACGCG
65 AATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAACCCTCACGGTTTTTAGCTAAAAACGCG
* *
9807 TTTCGGGATCCCGACTCATTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTC
130 TTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTC
*
9872 ATCGAACCAAATCTCAGCCACATTGGATTTCAGGATTTGTTTTTACGAGCATCTGAATCTTGTTT
195 ATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTT
* *
9937 CGATTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTGGAAGCAAGAAAAATCCT
260 CGATTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCGAG-AAAATCCT
* * *
10002 TCAATCTTTTTGACGTTGAATTATATATTTTTTATGAGCACTGTGGCCAAAAATTGAGGAAAAAA
1 TCAATATTTTTGGCGTTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGA-GAAAAAA
* *
10067 AATTTTCAGGTCAGTTTTTAGCTAAAATCGTATACTAACCCTCACGGTTTTTAGCTTAAAACGCG
65 AATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAACCCTCACGGTTTTTAGCTAAAAACGCG
* *
10132 TTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAACACTCCTTGAAATATCTATTTTC
130 TTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTC
*
10197 ATCGAACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTT
195 ATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTT
* *
10262 CGATTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTGGAAGCAAGAAAAATCCT
260 CGATTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCGAG-AAAATCCT
* *
10327 TCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGCACTGTGGCCAAAAATTGAGAAAAAAA
1 TCAATATTTTTGGCGTTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAA
* *
10392 AATTTCAGGTCAGTTTTTAGCTAAAATCGTATACTAACCCTCACGGTTTTTAGCTAAAAACGCGT
66 ATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAACCCTCACGGTTTTTAGCTAAAAACGCGT
10457 TTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCA
131 TTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCA
* *
10522 TCGAACCAAATCTCAGCCACATTGGATTTCAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTC
196 TCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* * * *
10587 GATTTAATTAGAAATT-ATCTCGGAAAATAAATTGAAAAAGGATATTAGAAGCGGGGAAATCCT
261 GATTTAATTAGAAATTAAT-TCGGAAAAAAAATTGAAAAACGATATTAGAAGCGAGAAAATCCT
* * *
10650 TCAATATTTTTGG-GAATCGTAAGTTATATATTGTTTATGAGCATTGTGGCCAAAAATTGAGGAA
1 TCAATATTTTTGGCG--TTG-AA-TTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAA
* * * * *
10714 AACAATTTACAGGTCAAAGTTTTTTAAGCTGAAATTCGTGTAACTATAACCCTCACAGTATATTA
62 AAAAATTTTCAGGTC--AG-TTTTT-AGCT-AAAATCGTGT-AC--TAACCCTCACGGT-TTTTA
10779 GCTAAAAACGCGTTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAA
118 GCTAAAAACGCGTTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAA
** * *
10844 ATATCTATATTCATCGAATAAAATCTCAGCGACATTGGATTTAAGGATTTGTTTTTACGTGCATC
183 ATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATC
* * *
10909 TGAATCTTGTTTCGATTTAGTTAGTAATTAATTCGG-AAAAAAA-TGAAAAAAGATATTAGAAGC
248 TGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGC
10972 GAGAAAATCCCT
313 GAGAAAAT-CCT
* *
10984 TCAATATTCTTGGCATTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAA
1 TCAATATTTTTGGCGTTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAA
** * * * * *
11049 A--TTCAAATTAGTTTTTAGCCAAAAT-G-GT-GT-ACCCTCACGGTTTTTATCTAAAAACACGT
66 ATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAACCCTCACGGTTTTTAGCTAAAAACGCGT
* * * *
11108 TTCGAGTCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAAACTCCTTGAAATATCTATATTCA
131 TTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCA
* * * *
11173 TGGAACCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTAAATTTTGTTTC
196 TCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
* * * *
11238 GATTTAATTTGAAATTAATTCGGAAAAAAAAATTGAAAAACGATATTGGAAGCGAGAAAACCCA
261 GATTTAATTAGAAATTAATTCGG-AAAAAAAATTGAAAAACGATATTAGAAGCGAGAAAATCCT
* * * * * *
11302 TCTATCTTTTTTGCGTTGAATTATAAATTTTTTATGTGCATTGGGGCCAAAAATTGAGAAAAAAA
1 TCAATATTTTTGGCGTTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAA
* * ** * * *
11367 AATTTCAGGTCAGTTTTTAACTGTAATGGTGTACTAACCCCTTACGG--TTTAGCTAAAAACGCA
66 ATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAA-CCCTCACGGTTTTTAGCTAAAAACGCG
* * *
11430 TTTTGGTG-CTCC-AGCTCAGTTTTGCATGGTTTTTGGCAGAAATG-CTCCTTGAAATATCTATA
130 TTTCGG-GACCCCGA-CTCAGTTTTGCATGATTTTTGGCAGAAA-GACTCCTTGAAATATCTATA
11492 TTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
192 TTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTG
* *
11557 TTTCGATTTAATTATG-AATTAATTCGG-AAAAAAATTGAAAAATGATATTAGAAGCGAGAAAAC
257 TTTCGATTTAATTA-GAAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCGAGAAAAT
11620 CCT
321 CCT
* * *
11623 TCAATATTCTTGGCATTGAATTATATATTTTTTATGAACATTGTGGCCAAAAATTGAGAAAAAAA
1 TCAATATTTTTGGCGTTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAA
* * * * * * *
11688 A-ATTCAGATAAGCTTTTAGCCAAAATGGTGTACTAACCCTCACGGTTTTTATCTAAAAACGCGT
66 ATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAACCCTCACGGTTTTTAGCTAAAAACGCGT
* * * *
11752 TTCGAGATCCC-AGCTCAGTTTTGCATGATTTTTGGCAGAAAAACTCCTTGAAATATCTACATTC
131 TTCGGGACCCCGA-CTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTC
*
11816 ATAGAACCAAATCTCAGCCACATTGGATTT
195 ATCGAACCAAATCTCAGCCACATTGGATTT
11846 TGATGTCGAA
Statistics
Matches: 1959, Mismatches: 169, Indels: 85
0.89 0.08 0.04
Matches are distributed among these distances:
316 153 0.08
317 10 0.01
318 68 0.03
319 33 0.02
320 45 0.02
321 192 0.10
322 5 0.00
323 180 0.09
324 499 0.25
325 383 0.20
326 98 0.05
327 2 0.00
328 2 0.00
329 9 0.00
330 4 0.00
331 51 0.03
332 4 0.00
333 27 0.01
334 33 0.02
335 159 0.08
336 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (323 bp):
TCAATATTTTTGGCGTTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAA
ATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAACCCTCACGGTTTTTAGCTAAAAACGCGT
TTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTCA
TCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTTC
GATTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTAGAAGCGAGAAAATCCT
Found at i:10590 original size:649 final size:644
Alignment explanation
Indices: 9352--11845 Score: 3597
Period size: 649 Copynumber: 3.8 Consensus size: 644
9342 TTTACGAGTA
* *
9352 TCAATCTTTTTGGCGTTGAATTATATATTGTTTATGAGTATTGTGGCCAAAAAATTGAGAAAAAA
1 TCAATCTTTTTGACGTTGAATTATATATTGTTTATGAGCATTGTGGCC-AAAAATTGAGAAAAAA
* * *
9417 GATTTTCAGGTCAGTTTTTAGCTGAAATCGTGTACTAACCCCTTACGGTTTTTAGCTAAAAACGC
65 AATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAACCCCTCACGGTTTTTAGCTAAAAACGC
* * ** *
9482 GTTTCGGGGTCCCGGA-TCAGTTTTAAATGATTTTTGGCAGAAAGACTCCTTGAAATATCTTTAT
130 GTTTC-GGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATAT
* * *
9546 TCATCGAACCAAATCTCAGCCACATTTGATTTAAGGATTTGTTATTACGAG-ATTCTGAATATTG
194 TCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCA-TCTGAATCTTG
9610 TTTCGATTTAATTAGTAATTAATTCGGAAAAAAAATTGAAAAATGATATTAGAAGCGAGAAAAAC
258 TTTCGATTTAATTAGTAATTAATTCGG-AAAAAAATTGAAAAATGATATTAGAAGCGAG-AAAAC
* * *
9675 CCTTCAATATTTTTGGGATTGAATTATATATTGTTTATGAGCACTGTGGCCAAAAATTGAGAAAA
321 CCTTCAATATTCTTGGCATTGAATTATATATTTTTTATGAGCACTGTGGCCAAAAATTGAGAAAA
* * *
9740 AAAATTTTCAGGTCAGTTTTTAGCTAAAATCGTATACTAACCCTCACGGTTTTTAGCTAAAAACG
386 AAAA-ATTCAGATCAGTTTTTAGCCAAAATCGTATACTAACCCTCACGGTTTTTAGCTAAAAACG
* * * *
9805 CGTTTCGGGATCCCGACTCATTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATAT
450 CGTTTCGAGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAAACTCCTTGAAATATCTATAT
*
9870 TCATCGAACCAAATCTCAGCCACATTGGATTTCAGGATTTGTTTTTACGAGCATCTGAATCTTGT
515 TCATCGAACCAAATCTCAGCCACATTGGATTTCAGGATTTGTTTTTACGAGCATCTAAATCTTGT
9935 TTCGATTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTGGAAGCAAGAAAAATC
580 TTCGATTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTGGAAGC-AG-AAAATC
10000 CT
643 CT
* *
10002 TCAATCTTTTTGACGTTGAATTATATATTTTTTATGAGCACTGTGGCCAAAAATTGAGGAAAAAA
1 TCAATCTTTTTGACGTTGAATTATATATTGTTTATGAGCATTGTGGCCAAAAATTGA-GAAAAAA
* *
10067 AATTTTCAGGTCAGTTTTTAGCTAAAATCGTATACTAA-CCCTCACGGTTTTTAGCTTAAAACGC
65 AATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAACCCCTCACGGTTTTTAGCTAAAAACGC
* *
10131 GTTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAACACTCCTTGAAATATCTATTTT
130 GTTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATT
*
10196 CATCGAACCAATTCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTT
195 CATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTT
* * * * *
10261 TCGATTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTGGAAGCAAGAAAAATCC
260 TCGATTTAATTAGTAATTAATTCGG-AAAAAAATTGAAAAATGATATTAGAAGCGAG-AAAACCC
* * *
10326 TTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGCACTGTGGCCAAAAATTGAGAAAAAA
323 TTCAATATTCTTGGCATTGAATTATATATTTTTTATGAGCACTGTGGCCAAAAATTGAGAAAAAA
* *
10391 AAATTTCAGGTCAGTTTTTAGCTAAAATCGTATACTAACCCTCACGGTTTTTAGCTAAAAACGCG
388 AAA-TTCAGATCAGTTTTTAGCCAAAATCGTATACTAACCCTCACGGTTTTTAGCTAAAAACGCG
* *
10456 TTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTC
452 TTTCGAGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAAACTCCTTGAAATATCTATATTC
10521 ATCGAACCAAATCTCAGCCACATTGGATTTCAGGATTTGTTTTTACGAGCATCTAAATCTTGTTT
517 ATCGAACCAAATCTCAGCCACATTGGATTTCAGGATTTGTTTTTACGAGCATCTAAATCTTGTTT
* * * * *
10586 CGATTTAATTAGAAATT-ATCTCGGAAAATAAATTGAAAAAGGATATTAGAAGCGGGGAAATCCT
582 CGATTTAATTAGAAATTAAT-TCGGAAAAAAAATTGAAAAACGATATTGGAAGC-AGAAAATCCT
* *
10650 TCAATATTTTTGGGAATCG-T-AAGTTATATATTGTTTATGAGCATTGTGGCCAAAAATTGAGGA
1 TCAATCTTTTT--G-A-CGTTGAA-TTATATATTGTTTATGAGCATTGTGGCCAAAAATTGAGAA
* * * * * *
10713 AAACAATTTACAGGTCAAAGTTTTTTAAGCTGAAATTCGTGTAACTATAACCCTCACAGTATATT
61 AAAAAATTTTCAGGTC--AG-TTTTT-AGCT-AAAATCGTGT-ACTA-ACCCCTCACGGT-TTTT
10778 AGCTAAAAACGCGTTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGA
118 AGCTAAAAACGCGTTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGA
** * *
10843 AATATCTATATTCATCGAATAAAATCTCAGCGACATTGGATTTAAGGATTTGTTTTTACGTGCAT
183 AATATCTATATTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCAT
* *
10908 CTGAATCTTGTTTCGATTTAGTTAGTAATTAATTCGGAAAAAAA-TGAAAAAAGATATTAGAAGC
248 CTGAATCTTGTTTCGATTTAATTAGTAATTAATTCGGAAAAAAATTGAAAAATGATATTAGAAGC
*
10972 GAGAAAATCCCTTCAATATTCTTGGCATTGAATTATATATTTTTTATGAGCATTGTGGCCAAAAA
313 GAGAAAA-CCCTTCAATATTCTTGGCATTGAATTATATATTTTTTATGAGCACTGTGGCCAAAAA
* * * * *
11037 TTGAG-AAAAAAAATTCAAATTAGTTTTTAGCCAAAAT-G-GT-GT-ACCCTCACGGTTTTTATC
377 TTGAGAAAAAAAAATTCAGATCAGTTTTTAGCCAAAATCGTATACTAACCCTCACGGTTTTTAGC
* * *
11097 TAAAAACACGTTTCGAGTCCCCGGCTCAGTTTTGCATGATTTTTGGCAGAAAAACTCCTTGAAAT
442 TAAAAACGCGTTTCGAGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAAACTCCTTGAAAT
* * *
11162 ATCTATATTCATGGAACCAAATCTCAGGCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTA
507 ATCTATATTCATCGAACCAAATCTCAGCCACATTGGATTTCAGGATTTGTTTTTACGAGCATCTA
* *
11227 AATTTTGTTTCGATTTAATTTGAAATTAATTCGGAAAAAAAAATTGAAAAACGATATTGGAAGCG
572 AATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAAAAATTGAAAAACGATATTGGAAGC-
* *
11292 AGAAAACCCA
635 AGAAAATCCT
* * * * *
11302 TCTATCTTTTTTG-CGTTGAATTATAAATTTTTTATGTGCATTGGGGCCAAAAATTGAGAAAAAA
1 TCAATC-TTTTTGACGTTGAATTATATATTGTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAA
* * ** * *
11366 AAATTTCAGGTCAGTTTTTAACTGTAATGGTGTACTAACCCCTTACGG--TTTAGCTAAAAACGC
65 AATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAACCCCTCACGGTTTTTAGCTAAAAACGC
* * * *
11429 ATTTTGGTG-CTCC-AGCTCAGTTTTGCATGGTTTTTGGCAGAAATG-CTCCTTGAAATATCTAT
130 GTTTCGG-GACCCCGA-CTCAGTTTTGCATGATTTTTGGCAGAAA-GACTCCTTGAAATATCTAT
11491 ATTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTT
192 ATTCATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTT
11556 GTTTCGATTTAATTA-TGAATTAATTCGGAAAAAAATTGAAAAATGATATTAGAAGCGAGAAAAC
257 GTTTCGATTTAATTAGT-AATTAATTCGGAAAAAAATTGAAAAATGATATTAGAAGCGAGAAAAC
* *
11620 CCTTCAATATTCTTGGCATTGAATTATATATTTTTTATGAACATTGTGGCCAAAAATTGAGAAAA
321 CCTTCAATATTCTTGGCATTGAATTATATATTTTTTATGAGCACTGTGGCCAAAAATTGAGAAAA
* * * * *
11685 AAAAATTCAGATAAGCTTTTAGCCAAAATGGTGTACTAACCCTCACGGTTTTTATCTAAAAACGC
386 AAAAATTCAGATCAGTTTTTAGCCAAAATCGTATACTAACCCTCACGGTTTTTAGCTAAAAACGC
* *
11750 GTTTCGAGATCCC-AGCTCAGTTTTGCATGATTTTTGGCAGAAAAACTCCTTGAAATATCTACAT
451 GTTTCGAGACCCCGA-CTCAGTTTTGCATGATTTTTGGCAGAAAAACTCCTTGAAATATCTATAT
*
11814 TCATAGAACCAAATCTCAGCCACATTGGATTT
515 TCATCGAACCAAATCTCAGCCACATTGGATTT
11846 TGATGTCGAA
Statistics
Matches: 1676, Mismatches: 132, Indels: 78
0.89 0.07 0.04
Matches are distributed among these distances:
638 2 0.00
639 220 0.13
640 57 0.03
641 1 0.00
642 10 0.01
643 5 0.00
644 121 0.07
645 3 0.00
646 5 0.00
647 2 0.00
648 29 0.02
649 549 0.33
650 108 0.06
651 206 0.12
652 44 0.03
653 11 0.01
654 5 0.00
655 28 0.02
656 16 0.01
657 78 0.05
658 16 0.01
659 160 0.10
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (644 bp):
TCAATCTTTTTGACGTTGAATTATATATTGTTTATGAGCATTGTGGCCAAAAATTGAGAAAAAAA
ATTTTCAGGTCAGTTTTTAGCTAAAATCGTGTACTAACCCCTCACGGTTTTTAGCTAAAAACGCG
TTTCGGGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAGACTCCTTGAAATATCTATATTC
ATCGAACCAAATCTCAGCCACATTGGATTTAAGGATTTGTTTTTACGAGCATCTGAATCTTGTTT
CGATTTAATTAGTAATTAATTCGGAAAAAAATTGAAAAATGATATTAGAAGCGAGAAAACCCTTC
AATATTCTTGGCATTGAATTATATATTTTTTATGAGCACTGTGGCCAAAAATTGAGAAAAAAAAA
TTCAGATCAGTTTTTAGCCAAAATCGTATACTAACCCTCACGGTTTTTAGCTAAAAACGCGTTTC
GAGACCCCGACTCAGTTTTGCATGATTTTTGGCAGAAAAACTCCTTGAAATATCTATATTCATCG
AACCAAATCTCAGCCACATTGGATTTCAGGATTTGTTTTTACGAGCATCTAAATCTTGTTTCGAT
TTAATTAGAAATTAATTCGGAAAAAAAATTGAAAAACGATATTGGAAGCAGAAAATCCT
Found at i:12519 original size:38 final size:38
Alignment explanation
Indices: 12476--12553 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
12466 ATAATTTTAA
*
12476 AAAATTTAGAGATATTTAATCTTTTCAAAATTAACATT
1 AAAATTTAGAGAAATTTAATCTTTTCAAAATTAACATT
* * *
12514 AAAATTTAGAGAAATTTAATCTTTTCGAGATTAATATT
1 AAAATTTAGAGAAATTTAATCTTTTCAAAATTAACATT
12552 AA
1 AA
12554 CATTATATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (38 bp):
AAAATTTAGAGAAATTTAATCTTTTCAAAATTAACATT
Found at i:19208 original size:111 final size:111
Alignment explanation
Indices: 19026--19236 Score: 255
Period size: 111 Copynumber: 1.9 Consensus size: 111
19016 TCGATTGCAA
** *
19026 TCTCTGCCTGGTTAGAATTAGTCCTGACTTCAGTTTCTCCCCCTTCACAAGCAGCAGGCAGTTCC
1 TCTCTGCCTGGTTAGAATTAGTCCTGACTTCAGTTTCTCCCCCTTCACAAGCAGCAACCACTTCC
19091 ACTCTACAATTTGATTGC-CGTGCAATGAGCTCATTTTTAAGTGCTG
66 ACTCTACAATTTGATT-CTCGTGCAATGAGCTCATTTTTAAGTGCTG
* * * * * * *
19137 TCTCTGCCTGGTTA-ATTGTAGTCCTGGCTTCTGTTTCTCTCTCTTCAGAAGCAGGAACCACTTC
1 TCTCTGCCTGGTTAGAAT-TAGTCCTGACTTCAGTTTCTCCCCCTTCACAAGCAGCAACCACTTC
*** * *
19201 TGTTCTACAATTTGATTCTTGTGCTATGAGCTCATT
65 CACTCTACAATTTGATTCTCGTGCAATGAGCTCATT
19237 CTCCATTGCC
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
110 3 0.04
111 80 0.96
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (111 bp):
TCTCTGCCTGGTTAGAATTAGTCCTGACTTCAGTTTCTCCCCCTTCACAAGCAGCAACCACTTCC
ACTCTACAATTTGATTCTCGTGCAATGAGCTCATTTTTAAGTGCTG
Found at i:22613 original size:24 final size:25
Alignment explanation
Indices: 22581--22627 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
22571 ATAAATTATT
22581 ATTGGCATCATC-ATTTTTGATATA
1 ATTGGCATCATCTATTTTTGATATA
*
22605 ATTGGCATCATCTTTTTTTGATA
1 ATTGGCATCATCTATTTTTGATA
22628 GGAAACAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.49
Consensus pattern (25 bp):
ATTGGCATCATCTATTTTTGATATA
Found at i:37238 original size:3 final size:3
Alignment explanation
Indices: 37230--37258 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
37220 ATCAATGGCA
37230 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
37259 AGGTTCAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:38847 original size:2 final size:2
Alignment explanation
Indices: 38840--38876 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
38830 TAGCTCCTAA
38840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.