Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01019410.1 Corchorus olitorius cultivar O-4 contig19443, 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: 5409
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:1534 original size:324 final size:322
Alignment explanation
Indices: 674--2593 Score: 2893
Period size: 324 Copynumber: 6.0 Consensus size: 322
664 TTATTTGGTT
* * * *
674 AAAGGTTAAAGGTTTATTCACGCTTCTAAATATCATTTTTCCAACTTTTTCCCGAATAAATTTCT
1 AAAGATTAAAGGTTTTTTCACGCTTCT-AATATCA-TTTTCCAACTTTTTTCCGAATTAATTTCT
* * * *
739 AATTAAATCAAAACAAGATTCAGATGCTCGTAGAAACAAATCCTTAAATCCAACGAGGCAGAGAT
64 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGGCTGAGAT
*
804 TTGGTTAGATAAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCCGG
129 TTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCCGG
* *
869 GCTCCGGAACGCGTTTTTTTGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTAA
194 GCTCCGGAACGCG-TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGA
934 CCCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAA
258 CCCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAA
*
999 AAAGATTAAAGGATTTTTCACGCTTCTAATATCATTTTCCAACTTTTTTCCGAATTAATTTCTAA
1 AAAGATTAAAGGTTTTTTCACGCTTCTAATATCATTTTCCAACTTTTTTCCGAATTAATTTCTAA
1064 TTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGGCTGAGATTT
66 TTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGGCTGAGATTT
* * * * *
1129 TGTTTGATGAATATAGATATTTCAAGAAGTCTTTGCGCACAAAATCATGTAAAACTAAGCCGGGC
131 GGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCCGGGC
*
1194 TCCGGAACGGGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCC
196 TCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCC
1259 GAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAA
261 GAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAA
1321 AAAGATTAAAGGTTTTTTCACGCTTCTAATATCATTTTTCCAACTTTTTTTCCGAATTAATTTCT
1 AAAGATTAAAGGTTTTTTCACGCTTCTAATATCA-TTTTCCAAC-TTTTTTCCGAATTAATTTCT
*
1386 AATTAAATCGAAACAAGATTCAGATGCTCGTAAGAACAAATCCTTAAATCCAACGTGGCTGAGAT
64 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGGCTGAGAT
* * * * *
1451 TTGGTTTGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGCAAAATTGAGCCGG
129 TTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCCGG
** * * *
1516 GCTCTAGAACGCGTTTTTAACCAAAAACCGTGATGATTAGTACATGATTTCGGCTAAAAACT-AT
194 GCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGA-
* ** * * *
1580 CCCGAAAAGTTTTT-CTAAATTTT-TTGTAACAATACTTAGAAAAAATATATAATTCAACACCGA
258 CCCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAA
1643 AAAGATTAAAGGTTTTTTCACGCTTCTAAATATCATTTTTCCAACTTTTTT-CGAATTAATTTCT
1 AAAGATTAAAGGTTTTTTCACGCTTCT-AATATCA-TTTTCCAACTTTTTTCCGAATTAATTTCT
** * * *
1707 AATTAAATCGAAACAAGATTCAGATGCTTTTAAAAACAAATCCTTAAATTCAATGTGTCTGAGAT
64 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGGCTGAGAT
* * * *
1772 TTGGTTAGATGAATACAGATGTTTCAAGGATTCTTTTCGCCCAAAATCATGTAAAACTAACCCGG
129 TTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCCGG
*
1837 GCTCCGGAACGCGTTTTTAGCCAAAAACCGTGAT-G---GTACACGATTTCGGCTAAAAACTGGC
194 GCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGAC
*
1898 CCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATAAATAATTCAACGCCAA
259 CCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAA
*
1962 AAAGATTAAAGG-ATTTTCACGCTTCTAATATCATTTTCCAACTTTTTTCCG---------CTAA
1 AAAGATTAAAGGTTTTTTCACGCTTCTAATATCATTTTCCAACTTTTTTCCGAATTAATTTCTAA
* *
2017 TTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCTATGTGGCTGAGATAT
66 TTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGGCTGAGAT-T
* * * * * *
2082 T-GTTTGATGAATACAGATATTTCAA-GAGGTCTTTCCGCACAAAATCATGTAAAACTAAGCCGA
130 TGGTTAGATGAATATAGATATTTCAAGGA-GTCTTTGCGCCCAAAATCATGTAAAACTAACCCGG
* *
2145 GCTCCGGAACACGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTCAAAACTGAC
194 GCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGAC
* * *
2210 CCGTAAAAATTTTTCCTCAATTTTCTAGCCACAATACTTATAAAAAATATATAGTTCAACGCCAA
259 CCG-AAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAA
*
2275 AAAGATTAAAGGATTTTTTCACGCTTCTATTATCATTTTCCAACTTTTTTTCCGAATT-ATTTCT
1 AAAGATTAAAGG-TTTTTTCACGCTTCTAATATCATTTTCCAAC-TTTTTTCCGAATTAATTTCT
*
2339 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAATGTGGCTGAGAT
64 AATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGGCTGAGAT
* *
2404 TTGGTTAGATGAATATAGATATTTCAAGGATTCTTTGCGCCCAAAATCAT-TTAAACTAACCCGG
129 TTGGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCCGG
** * ** **
2468 GCTCTAGAACGCATTTTTAGCCAAAAATTGTGAT-G---GTACACGATTTCGGAAAAAAACTGAC
194 GCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGAC
*
2529 CCGAAAAATTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAA
259 CCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAA
2593 A
1 A
2594 CAGTCTTTGC
Statistics
Matches: 1459, Mismatches: 108, Indels: 63
0.90 0.07 0.04
Matches are distributed among these distances:
307 2 0.00
308 147 0.10
309 3 0.00
312 27 0.02
313 69 0.05
315 28 0.02
316 24 0.02
317 45 0.03
318 81 0.06
319 72 0.05
321 159 0.11
322 216 0.15
323 235 0.16
324 325 0.22
325 26 0.02
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (322 bp):
AAAGATTAAAGGTTTTTTCACGCTTCTAATATCATTTTCCAACTTTTTTCCGAATTAATTTCTAA
TTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGGCTGAGATTT
GGTTAGATGAATATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCCGGGC
TCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCC
GAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAA
Found at i:2718 original size:167 final size:162
Alignment explanation
Indices: 2435--2760 Score: 456
Period size: 167 Copynumber: 2.0 Consensus size: 162
2425 TTTCAAGGAT
* * * * **
2435 TCTTTGCGCCCAAAATCATTTAAACTAACCCGGGCTCTAGAACGCATTTTTAGCCAAAAATTGTG
1 TCTTTGCGCACAAAATCATTAAAACTAACCCGGGCTCCAGAACACATTTTTAGCCAAAAACCGTG
2500 ATGGTACACGATTTCGGAAAAAAACTGACCCGAAAAATTTTTCCTCAATTTTCTTGCCAC-AATA
66 ATGGTACACGATTTCGGAAAAAAACTGACCCGAAAAATTTTTCCTCAATTTTCTTGCC-CTAATA
2564 CTTATAAAAAATATATAATTCAACGCCAAACAG
130 CTTATAAAAAATATATAATTCAACGCCAAACAG
* * *
2597 TCTTTGCGCACAAAATCATGTAAAACTAAGCCGGGCTCCGGAACACGTTTTTAGCCAAAAACCGT
1 TCTTTGCGCACAAAATCAT-TAAAACTAACCCGGGCTCCAGAACACATTTTTAGCCAAAAACCGT
*** ** *
2662 GATGGTTAATACACGATTTCGGCTCAAAACTGACCCGAAACGTTTTTTCTCAATTTTCTTGCCCT
65 GATGG----TACACGATTTCGGAAAAAAACTGACCCGAAAAATTTTTCCTCAATTTTCTTGCCCT
2727 AATACTTATAAAAAATATATAATTCAACGCCAAA
126 AATACTTATAAAAAATATATAATTCAACGCCAAA
2761 AAGATTAAAG
Statistics
Matches: 143, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
162 18 0.13
163 42 0.29
166 1 0.01
167 82 0.57
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.29
Consensus pattern (162 bp):
TCTTTGCGCACAAAATCATTAAAACTAACCCGGGCTCCAGAACACATTTTTAGCCAAAAACCGTG
ATGGTACACGATTTCGGAAAAAAACTGACCCGAAAAATTTTTCCTCAATTTTCTTGCCCTAATAC
TTATAAAAAATATATAATTCAACGCCAAACAG
Found at i:3067 original size:485 final size:486
Alignment explanation
Indices: 2110--3074 Score: 1623
Period size: 485 Copynumber: 2.0 Consensus size: 486
2100 ATTTCAAGAG
2110 GTCTTTCCGCACAAAATCATGTAAAACTAAGCCGAGCTCCGGAACACGTTTTTAGCCAAAAACCG
1 GTCTTTCCGCACAAAATCATGTAAAACTAAGCCGAGCTCCGGAACACGTTTTTAGCCAAAAACCG
*
2175 TGATGGTTAGTACACGATTTCGGCTCAAAACTGACCCGTAAAAATTTTTCCTCAATTTTCTAGCC
66 TGATGGTTAATACACGATTTCGGCTCAAAACTGACCCGTAAAAATTTTTCCTCAATTTTCTAGCC
* *
2240 ACAATACTTATAAAAAATATATAGTTCAACGCCAAAAAGATTAAAGGATTTTTTCACGCTTCTAT
131 ACAATACTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGATTTTTTCACGCTTCTAA
2305 TATCATTTTCCAACTTTTTTTCCGAATTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT
196 TATCATTTTCCAACTTTTTTTCCGAATTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT
* **
2370 AAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAT
261 AAAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGAAAAATATAGATATTTCAAGGAT
* * **
2435 TCTTTGCGCCCAAAATCATTTAAACTAACCCGGGCTCTAGAACGCATTTTTAGCCAAAAATTGTG
326 TCTTTGCGCCCAAAATCATTAAAACTAACCCGGGCTCCAGAACGCATTTTTAGCCAAAAACCGTG
* *
2500 ATGGTACACGATTTCGGAAAAAAACTGACCCGAAAAATTTTTCCTCAATTTTCTTGCCACAATAC
391 ATGGTACACGAGTTCGGAAAAAAACTGACCCGAAAAATTCTTCCTCAATTTTCTTGCCACAATAC
2565 TTATAAAAAATATATAATTCAACGCCAAACA
456 TTATAAAAAATATATAATTCAACGCCAAACA
* *
2596 GTCTTTGCGCACAAAATCATGTAAAACTAAGCCGGGCTCCGGAACACGTTTTTAGCCAAAAACCG
1 GTCTTTCCGCACAAAATCATGTAAAACTAAGCCGAGCTCCGGAACACGTTTTTAGCCAAAAACCG
** * *
2661 TGATGGTTAATACACGATTTCGGCTCAAAACTGACCCG-AAACGTTTTTTCTCAATTTTCTTGCC
66 TGATGGTTAATACACGATTTCGGCTCAAAACTGACCCGTAAAAATTTTTCCTCAATTTTCTAGCC
2725 -CTAATACTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGG-TTTTTTCACGCTTCTA
131 AC-AATACTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGATTTTTTCACGCTTCTA
*
2788 ATATCATTTTCCAAC-TTTTTTCCGAATTAATTTCTGATTAAATCGAAACAAGATTCAGATGCTC
195 ATATCATTTTCCAACTTTTTTTCCGAATT-ATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
2852 GTAAAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGAAAAATATAGATATTTCAAGG
259 GTAAAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGAAAAATATAGATATTTCAAGG
* *
2917 ATTCTTTGCGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACC
324 ATTCTTTGCGCCCAAAATCAT-TAAAACTAACCCGGGCTCCAGAACGCATTTTTAGCCAAAAACC
** * * *
2982 GTGATGGTACACGAGTTCGGCTAAAAACTGGCCCGAAAAGTTCTTCTTCAATTTTCTTGCCACAA
388 GTGATGGTACACGAGTTCGGAAAAAAACTGACCCGAAAAATTCTTCCTCAATTTTCTTGCCACAA
* *
3047 TATTTATAGAAAATATATAATTCAACGC
453 TACTTATAAAAAATATATAATTCAACGC
3075 AAAAAAGATT
Statistics
Matches: 448, Mismatches: 28, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
483 13 0.03
484 148 0.33
485 187 0.42
486 100 0.22
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (486 bp):
GTCTTTCCGCACAAAATCATGTAAAACTAAGCCGAGCTCCGGAACACGTTTTTAGCCAAAAACCG
TGATGGTTAATACACGATTTCGGCTCAAAACTGACCCGTAAAAATTTTTCCTCAATTTTCTAGCC
ACAATACTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGATTTTTTCACGCTTCTAA
TATCATTTTCCAACTTTTTTTCCGAATTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT
AAAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGAAAAATATAGATATTTCAAGGAT
TCTTTGCGCCCAAAATCATTAAAACTAACCCGGGCTCCAGAACGCATTTTTAGCCAAAAACCGTG
ATGGTACACGAGTTCGGAAAAAAACTGACCCGAAAAATTCTTCCTCAATTTTCTTGCCACAATAC
TTATAAAAAATATATAATTCAACGCCAAACA
Found at i:3348 original size:798 final size:792
Alignment explanation
Indices: 1803--3387 Score: 2354
Period size: 798 Copynumber: 2.0 Consensus size: 792
1793 TTTCAAGGAT
* * *
1803 TCTTTTCGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGT
1 TCTTTGCGCACAAAATCATGTAAAACTAACCCGGGCTCCGGAACACGTTTTTAGCCAAAAACCGT
*
1868 GATGGTACACGATTTCGGCTAAAAACTGGCCCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATA
66 GATGGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATA
1933 CTTATAAAAAATAAATAATTCAACGCCAAAAAGATTAAAGGATTTTCACGCTTCTAATATCATTT
131 CTTATAAAAAATAAATAATTCAACGCCAAAAAGATTAAAGGATTTTCACGCTTCTAATATCATTT
1998 TCCAACTTTTTTCCGCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAA
196 TCCAACTTTTTTCCGCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAA
* * * **
2063 TCCTATGTGGCTGAGATATTGTTTGATGAATACAGATATTTCAAGAGGTCTTTCCGCACAAAATC
261 TCCAACGTGGCTGAGATATTGTTAGAAAAATACAGATATTTCAAGAGGTCTTTCCGCACAAAATC
* *
2128 ATGTAAAACTAAGCCGAGCTCCGGAACACGTTTTTAGCCAAAAACCGTGATGGTTAGTACACGAT
326 ATGTAAAACTAACCCGAGCTCCGGAACACGTTTTTAGCCAAAAACCGTGATGG-T-GTACACGAG
* *
2193 TTCGGCTCAAAACTGACCCGTAAAAATTTTTCCTCAATTTTCTAGCCACAATACTTATAAAAAAT
389 TTCGGCTAAAAACTGACCCGTAAAAATTCTTCCTCAATTTTCTAGCCACAATACTTATAAAAAAT
* * *
2258 ATATAGTTCAACGCCAAAAAGATTAAAGGATTTTTTCACGCTTCTATTATCATTTTCCAACTTTT
454 ATATAATTCAACGCAAAAAAGATTAAAGGATTTTTTCACGCTTCTAATATCATTTTCCAACTTTT
*
2323 TTTCCGAATTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAAT
519 TTTCCGAATTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAAATCCTTAAAT
*
2388 CCAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGATTCTTTGCGCCCAAAATCA
584 CCAACGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGATTCTTTGCGCCCAAAATCA
* * ** *
2453 TTTAAACTAACCCGGGCTCTAGAACGCATTTTTAGCCAAAAATTGTGATGGTACACGATTTCGGA
649 TTAAAACTAACCCGGGCTCCAGAACGCATTTTTAGCCAAAAACCGTGATGGTACACGAGTTCGGA
2518 AAAAAACTGACCCGAAAAATTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAAT
714 AAAAAACTGACCCGAAAAATTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAAT
2583 TCAACGCCAAACAG
779 TCAACGCCAAACAG
*
2597 TCTTTGCGCACAAAATCATGTAAAACTAAGCCGGGCTCCGGAACACGTTTTTAGCCAAAAACCGT
1 TCTTTGCGCACAAAATCATGTAAAACTAACCCGGGCTCCGGAACACGTTTTTAGCCAAAAACCGT
* * *
2662 GATGGTTAATACACGATTTCGGCTCAAAACTGACCCGAAACGTTTTTTCTCAATTTTCTTGCC-C
66 GATGG----TACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTCTTGCCAC
* *
2726 TAATACTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGTTTTTTCACGCTTCTAATA
127 -AATACTTATAAAAAATAAATAATTCAACGCCAAAAAGATTAAAGG-ATTTTCACGCTTCTAATA
*
2791 TCATTTTCCAACTTTTTTCCGAATTAATTTCTGATTAAATCGAAACAAGATTCAGATGCTCGTAA
190 TCATTTTCCAACTTTTTTCCG---------CTAATTAAATCGAAACAAGATTCAGATGCTCGTAA
* *
2856 AAACAAATCCTTAAATCCAACGTGGCTGAGAT-TTGGTTAGAAAAATATAGATATTTCAAG-GAT
246 AAACAAATCCTTAAATCCAACGTGGCTGAGATATT-GTTAGAAAAATACAGATATTTCAAGAG-G
* * * *
2919 TCTTTGCGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGT
309 TCTTTCCGCACAAAATCATGTAAAACTAACCCGAGCTCCGGAACACGTTTTTAGCCAAAAACCGT
* * * *
2984 GAT-G-GTACACGAGTTCGGCTAAAAACTGGCCCG-AAAAGTTCTTCTTCAATTTTCTTGCCACA
374 GATGGTGTACACGAGTTCGGCTAAAAACTGACCCGTAAAAATTCTTCCTCAATTTTCTAGCCACA
* * *
3046 ATATTTATAGAAAATATATAATTCAACGCAAAAAAGATTAAAGG-TTTTTTCAGGCTTCTAATAT
439 ATACTTATAAAAAATATATAATTCAACGCAAAAAAGATTAAAGGATTTTTTCACGCTTCTAATAT
3110 CATTTTTCCAAC-TTTTTT-CG-ATTATTTGCT-A-TAAATCGAAACAAGAGTTCAGATGCTCCT
504 CA-TTTTCCAACTTTTTTTCCGAATTATTT-CTAATTAAATCGAAACAAGA-TTCAGATGCTCCT
* * *
3170 AAAAACAAATCCTTAAAT-TAACGTGGCTGAGATTTGGTTAGATG-ATTTAGATATTTCACGGAT
566 AAAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGAT
* * *
3233 TCTTTGTGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCC-AAAACCGT
631 TCTTTGCGCCCAAAATCAT-TAAAACTAACCCGGGCTCCAGAACGCATTTTTAGCCAAAAACCGT
** * * *
3297 GATGGTACACGAGTTCGGCTAAAAACTGGCCCGAAAAGTTTTTCTTCAATTTTCTTGCCACAATA
695 GATGGTACACGAGTTCGGAAAAAAACTGACCCGAAAAATTTTTCCTCAATTTTCTTGCCACAATA
* *
3362 TTTATATAAAATATATAATTCAACGC
760 CTTATAAAAAATATATAATTCAACGC
3388 AAAAAAGATT
Statistics
Matches: 714, Mismatches: 56, Indels: 38
0.88 0.07 0.05
Matches are distributed among these distances:
794 66 0.09
797 1 0.00
798 218 0.31
799 109 0.15
800 38 0.05
801 4 0.01
802 26 0.04
803 74 0.10
804 26 0.04
807 4 0.01
808 148 0.21
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (792 bp):
TCTTTGCGCACAAAATCATGTAAAACTAACCCGGGCTCCGGAACACGTTTTTAGCCAAAAACCGT
GATGGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATA
CTTATAAAAAATAAATAATTCAACGCCAAAAAGATTAAAGGATTTTCACGCTTCTAATATCATTT
TCCAACTTTTTTCCGCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAAA
TCCAACGTGGCTGAGATATTGTTAGAAAAATACAGATATTTCAAGAGGTCTTTCCGCACAAAATC
ATGTAAAACTAACCCGAGCTCCGGAACACGTTTTTAGCCAAAAACCGTGATGGTGTACACGAGTT
CGGCTAAAAACTGACCCGTAAAAATTCTTCCTCAATTTTCTAGCCACAATACTTATAAAAAATAT
ATAATTCAACGCAAAAAAGATTAAAGGATTTTTTCACGCTTCTAATATCATTTTCCAACTTTTTT
TCCGAATTATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAAATCCTTAAATCC
AACGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAAGGATTCTTTGCGCCCAAAATCATT
AAAACTAACCCGGGCTCCAGAACGCATTTTTAGCCAAAAACCGTGATGGTACACGAGTTCGGAAA
AAAACTGACCCGAAAAATTTTTCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTC
AACGCCAAACAG
Found at i:3542 original size:630 final size:637
Alignment explanation
Indices: 2595--5409 Score: 2446
Period size: 715 Copynumber: 4.3 Consensus size: 637
2585 AACGCCAAAC
* * * *
2595 AGTCTTTGCGCACAAAATCATGTAAAACTAAGCCGGGCTCCGGAACACGTTTTTAGCCAAAAACC
1 AGTCTTTGTGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCC-AAAACC
* * *
2660 GTGATGGTTAATACACGATTTCGGCTCAAAACTGACCCGAAACGTTTTTTCTCAATTTTCTTGCC
65 GTGATGG----TACACGAGTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATTTTCTTGCC
*
2725 CTAATACTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGTTTTTTCACGCTTCTAAT
126 CTAATACTTATAAAAAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTTTCACGCTTCTAAT
*
2790 ATCATTTTCCAACTTTTTTCCGAATTAATTTCTGATTAAATCGAAACAAGATTCAGATGCTCGTA
191 ATCATTTTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTA
2855 AAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGAAAAATATAGATATTTCAAGGA-T
256 AAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGAAAAATATAGATATTTCAAGGAGT
* *
2919 TCTTTGCGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGT
321 T-TTTGCACCCAAAATCATCTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGT
* * * *
2984 GAT-G-GTACACGAGTTCGGCTAAAAACTGGCCCGAAAAGTTCTTCTTCAATTTTCTTGCCACAA
385 GATGGAGTACACGAGTTCGGCTAAAAACTGACCCGAAAAATTCTTCCTCAACTTTCTTGCCACAA
* * *
3047 TATTTATAGAAAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTTTCAGGCTTCT-AATATC
450 TACTTATAAAAAATATATAATTCAACGCAAAAAAGATTAAAGG--TTTTCACGCTTCTAAATATC
3111 ATTTTTCCAACTTTTTT-CG-ATT-ATTTGCT-A-TAAATCGAAACAAGAGTTCAGATGCTCCTA
513 ATTTTTCCAACTTTTTTCCGAATTAATTT-CTAATTAAATCGAAACAAGA-TTCAGATGCTCCTA
* * * *
3171 AAAACAAATCCTTAAAT-TAACGTGGCTGAGATTTGGTTAGA-TGATTTAGATATTTCACGG
576 AAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGG
*
3231 ATTCTTTGTGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAACCG
1 AGTCTTTGTGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAACCG
*
3296 TGATGGTACACGAGTTCGGCTAAAAACTGGCCCGAAAAG-TTTTTCTTCAATTTTCTTGCCAC-A
66 TGATGGTACACGAGTTCGGCTAAAAACTGACCCGAAAAGTTTTTTC-TCAATTTTCTTGCC-CTA
* * *
3359 ATATTTATATAAAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTTTCAGGCTTCTAATATC
129 ATACTTATAAAAAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTTTCACGCTTCTAATATC
3424 ATTTTCCAAC-TTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
194 ATTTTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAA
* **
3488 ACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTTGATGAATATAGATATTTCAAGGAGTTTT
259 ACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGAAAAATATAGATATTTCAAGGAGTTTT
* * * *
3553 TGCATCCAAAATCATCTAATACTAAGCCGGGCTCCGGAACGCGTTTTTAGTCAAAAACCGTGATG
324 TGCACCCAAAATCATCTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATG
* * *
3618 GTAAGTACACGATTTCGGTTAAAAACTGACCCGAAAAATTTTTCCTCAACTTTCTTGCCACAATA
389 G--AGTACACGAGTTCGGCTAAAAACTGACCCGAAAAATTCTTCCTCAACTTTCTTGCCACAATA
*
3683 CTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGTTTTCACGCTTCTAAATATCATTT
452 CTTATAAAAAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTCACGCTTCTAAATATCATTT
* * *
3748 TTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAGAAACG
517 TTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACA
3813 AATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGG
582 AATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGG
* **
3869 AGTCTTTGCT-CCTAAAATCATGTAAAACTAACTTGGGCTCCGGAACGCGTTTTTAGGCCAAAAC
1 AGTCTTTG-TGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTA-GCCAAAAC
* * * * *
3933 CGTGATGGTTTGTA-ATGGATTTCGCCTAAAAACTGACCCGAAAAGTTTTTAGGGT-TTAGGGTT
64 CGTGAT-G---GTACA-CGAGTTCGGCTAAAAACTGACCCGAAAAGTTTTT----TCTCA---AT
* *** * ** ** ** * ** ***** * * * *
3996 TTATGGTTTAGGGTTTATGGTTTAGGGTTTAAGGT-T-TAGTGTTTA-GTGTTTAGGGTTTAGGG
117 TT-T--CTT-GCCCTAAT-ACTTA---TAAAAAATATATAAT-TCAACGCAAAAAAGATTAAAGG
* * * *** * * ** * * **
4058 TTATTGGTTTAGGGTT-TAGGGTTATTGGTT-TAGGGTTTAGGGTTT-AGGATTAGGGGTT-TAG
173 TT-TT--TTCACGCTTCTAATATCATT--TTCCA-ACTTT----TTTCCGAATTA--ATTTCTA-
* ** * **** * * * * * * ****** ** **
4119 GGTTAGGGTTTAGGGTTTAGGGGTTTAGGGTTTAATGTTTAAGGTTTAGGGTTTATGGTTTATGT
225 -ATTA---AAT-CGAAACA-AGATTCA--G----ATG-CT--CG-TAAAAACAAAT-CCTTAAAT
** ** * * * **** * *
4184 TTAGGGTTAGGGTTTAGGGTTTAAGGTTTAG-GGTTTATAGTTAGGGTTT-AGGGTTTAGGGTTA
273 CCAACG-T--GGCTGA-GATTT--GG-TTAGAAAAATATAGATA---TTTCAAGG---A--GTT-
***** *** * * *** * *** * ** ***
4247 GGGTTTAGGGTTTAGTGTTTAGGGT-TTAGGGTTAGGGGTTTATGGTTTAGGGTTTAGAACAAAT
322 ---TTT-GCACCCA-AAATCA---TCTAAAACTAACCCG-----GG-CT-CCG----GAACGCGT
* *
4311 TTTTAGCCAATAACCGGGATGGTTAGTACACGA-TATCGGCTAAAAACTGACCCG-AAAATT-TA
368 TTTTAGCCAAAAACCGTGATGG--AGTACACGAGT-TCGGCTAAAAACTGACCCGAAAAATTCT-
* * *
4373 TCCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACACCAAAAAGATTAAAGGT
429 TCCTCAACTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCAAAAAAGATTAAAGG-
*
4438 TTTTTCACGCTTCTAAATATCATTTTTCCAACTTTTTTCCAAATTAATTTCTAATTAAATCGAAA
493 -TTTTCACGCTTCTAAATATCATTTTTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAA
* * * * *
4503 CAAGATTCAGATGCTCGTAGAAACGAATCCTTAAATCCAACATGGCTGAGATTTGGTTAGATGAA
557 CAAGATTCAGATGCTCCTAAAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGATTAA
4568 TATAGATATTTCAAGG
622 TATAGATATTTCAAGG
* * *
4584 AGTCTTTGCT-CCAAAAATCATGTAAAACTAACCCGGGCTCCGGAATGCGTTTTTAGGCAAAAAC
1 AGTCTTTG-TGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTA-GCCAAAAC
* * *
4648 CATGATGGTTTGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATATTCTTGC
64 CGTGAT-G---GTACACGAGTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATTTTCTTGC
* * *
4713 CAC-AATTCTTATAAATAATATATAATTCAACGCCAAAAAGATTAAAGGTTTTTTCACGCTTCTA
125 C-CTAATACTTATAAAAAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTTTCACGCTTCTA
4777 ATATCATTTTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCG
189 ATATCATTTTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCG
* * ** * *
4842 TAAAAACAAATCCTTAAATCCAACGTGTCTGAGATTTTGTTAGATGAATAGAGATATTTCAAGAA
254 TAAAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGAAAAATATAGATATTTCAAGGA
* * * **
4907 GTCTTTGCGCCCAAAATCATGTAAAACTAACCTTGGCTCCGGAACGCGTTTTTAGCCAAAAACCG
319 GTTTTTGCACCCAAAATCATCTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCG
* * *
4972 TGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTTCCTCAATTTTCTTGCCA
384 TGATGG--AGTACACGAGTTCGGCTAAAAACTGACCCGAAAAATTCTTCCTCAACTTTCTTGCCA
* *
5037 CAATACTTATAAAAAATATATAGTTCAACGCCAAAAAGATTAAAGGTTTTTCACGCTTCT-AATA
447 CAATACTTATAAAAAATATATAATTCAACGCAAAAAAGATTAAAGG-TTTTCACGCTTCTAAATA
**
5101 TCATTTTTCCAACTCTTTTT-CGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTTGT
511 TCATTTTTCCAACT-TTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCT
* * * *
5165 AGAAACGAATCCTTAAATCCAACGTGTCTGAGATTTGGTTAGATGAATATAGATATTTCAAGG
575 AAAAACAAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGG
* * * *
5228 AGTCTTTGCGCCCAAAATCATGTAAAACTAAGCTGGGTTCCGGAACGCG-TTTTAGCCAAAAACC
1 AGTCTTTGTGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCC-AAAACC
* * * *
5292 GTGAAGGTTAGTACACGATTTCGACTAAAAACTGACCTGAAAAGTTTTTTCTCAATTTTCTTGCC
65 GTG-A---TGGTACACGAGTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATTTTCTTGCC
* *
5357 AC-AATACTT-TAAAAATAATATATAATTCAACGCCAAAAAGATTAAAGGATTTT
126 -CTAATACTTAT-AAAA-AATATATAATTCAACGCAAAAAAGATTAAAGGTTTTT
Statistics
Matches: 1755, Mismatches: 289, Indels: 262
0.76 0.13 0.11
Matches are distributed among these distances:
630 176 0.10
631 118 0.07
632 13 0.01
633 23 0.01
634 94 0.05
635 18 0.01
636 86 0.05
637 38 0.02
638 65 0.04
639 15 0.01
640 1 0.00
642 4 0.00
643 104 0.06
644 204 0.12
645 74 0.04
646 71 0.04
647 2 0.00
648 1 0.00
649 4 0.00
650 2 0.00
651 2 0.00
652 2 0.00
653 3 0.00
654 4 0.00
655 14 0.01
656 9 0.01
657 11 0.01
658 10 0.01
659 5 0.00
660 5 0.00
663 5 0.00
664 7 0.00
665 2 0.00
666 4 0.00
668 3 0.00
669 3 0.00
670 6 0.00
671 12 0.01
673 5 0.00
674 3 0.00
676 1 0.00
677 9 0.01
678 5 0.00
679 1 0.00
680 1 0.00
681 5 0.00
682 9 0.01
683 1 0.00
685 4 0.00
686 5 0.00
688 14 0.01
689 5 0.00
690 4 0.00
691 3 0.00
693 4 0.00
694 2 0.00
695 8 0.00
696 5 0.00
699 8 0.00
700 10 0.01
701 11 0.01
702 5 0.00
703 19 0.01
704 4 0.00
705 3 0.00
706 2 0.00
708 3 0.00
709 3 0.00
710 1 0.00
711 1 0.00
712 3 0.00
713 69 0.04
714 52 0.03
715 246 0.14
716 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (637 bp):
AGTCTTTGTGCCCAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAACCG
TGATGGTACACGAGTTCGGCTAAAAACTGACCCGAAAAGTTTTTTCTCAATTTTCTTGCCCTAAT
ACTTATAAAAAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTTTCACGCTTCTAATATCAT
TTTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAC
AAATCCTTAAATCCAACGTGGCTGAGATTTGGTTAGAAAAATATAGATATTTCAAGGAGTTTTTG
CACCCAAAATCATCTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGA
GTACACGAGTTCGGCTAAAAACTGACCCGAAAAATTCTTCCTCAACTTTCTTGCCACAATACTTA
TAAAAAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTCACGCTTCTAAATATCATTTTTCC
AACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCCTAAAAACAAATC
CTTAAATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGG
Found at i:3857 original size:322 final size:318
Alignment explanation
Indices: 2607--3982 Score: 1989
Period size: 322 Copynumber: 4.3 Consensus size: 318
2597 TCTTTGCGCA
* * *
2607 CAAAATCATGTAAAACTAAGCCGGGCTCCGGAACACGTTTTTAGCCAAAAACCGTGATGGTTAAT
1 CAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGG-T-GT
* * *
2672 ACACGATTTCGGCTCAAAACTGACCCGAAACGTTTTTTCTCAATTTTCTTGCC-CTAATACTTAT
64 ACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTCTTGCCAC-AATACTTAT
*
2736 AAAAAATATATAATTCAACGCCAAAAAGATTAAAGGTTTTTTCACGCTTCTAATATCATTTTCCA
128 AAAAAATATATAATTCAACGCAAAAAAGATTAAAGG-TTTTTCACGCTTCTAATATCATTTTCCA
*
2801 ACTTTTTTCCGAATTAATTTCTGATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC
192 ACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC
** *
2866 TTAAATCCAACGTGGCTGAGATTTGGTTAGAAAAATATAGATATTTCAAGGA-TTCTTTGCGCC
257 TTAAATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGGAGTT-TTTGC-TC
2929 CAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGAT-G-GTAC
1 CAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTGTAC
* * * * * *
2992 ACGAGTTCGGCTAAAAACTGGCCCGAAAAGTTCTTCTTCAATTTTCTTGCCACAATATTTATAGA
66 ACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAA
*
3057 AAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTTTCAGGCTTCTAATATCATTTTTCCAAC
131 AAATATATAATTCAACGCAAAAAAGATTAAAGG-TTTTTCACGCTTCTAATATCA-TTTTCCAAC
*
3122 TTTTTT-CG-ATT-ATTTGCT-A-TAAATCGAAACAAGAGTTCAGATGCTCCTAAAAACAAATCC
194 TTTTTTCCGAATTAATTT-CTAATTAAATCGAAACAAGA-TTCAGATGCTCGTAAAAACAAATCC
* * * * *
3182 TTAAAT-TAACGTGGCTGAGATTTGGTTAGA-TGATTTAGATATTTCACGGATTCTTTGTGC-C
257 TTAAATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGGAGT-TTT-TGCTC
3243 CAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCC-AAAACCGTGAT-G-GTAC
1 CAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTGTAC
* * * * *
3305 ACGAGTTCGGCTAAAAACTGGCCCGAAAAGTTTTTCTTCAATTTTCTTGCCACAATATTTATATA
66 ACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAA
*
3370 AAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTTTCAGGCTTCTAATATCATTTTCCAAC-
131 AAATATATAATTCAACGCAAAAAAGATTAAAGG-TTTTTCACGCTTCTAATATCATTTTCCAACT
3434 TTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
195 TTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTA
* *
3499 AATCCAACGTGGCTGAGATTTGGTTTGATGAATATAGATATTTCAAGGAGTTTTTGCATC
260 AATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGGAGTTTTTGC-TC
* * * *
3559 CAAAATCATCTAATACTAAGCCGGGCTCCGGAACGCGTTTTTAGTCAAAAACCGTGATGGTAAGT
1 CAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGT--GT
* * *
3624 ACACGATTTCGGTTAAAAACTGACCCGAAAAATTTTTCCTCAACTTTCTTGCCACAATACTTATA
64 ACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATA
*
3689 AAAAATATATAATTCAACGCCAAAAAGATTAAAGG-TTTTCACGCTTCTAAATATCATTTTTCCA
129 AAAAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTTCACGCTTCT-AATATCA-TTTTCCA
* *
3753 ACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAGAAACGAATCC
192 ACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCC
*
3818 TTAAATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGGAGTCTTTGCTC
257 TTAAATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGGAGTTTTTGCTC
**
3880 CTAAAATCATGTAAAACTAACTTGGGCTCCGGAACGCGTTTTTAGGCC-AAAACCGTGATGGTTT
1 C-AAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTA-GCCAAAAACCGTGATGG--T
* *
3944 GTA-ATGGATTTCGCCTAAAAACTGACCCGAAAAGTTTTT
62 GTACA-CGATTTCGGCTAAAAACTGACCCGAAAAGTTTTT
3983 AGGGTTTAGG
Statistics
Matches: 966, Mismatches: 59, Indels: 58
0.89 0.05 0.05
Matches are distributed among these distances:
311 5 0.01
312 11 0.01
313 139 0.14
314 101 0.10
315 81 0.08
316 99 0.10
317 16 0.02
318 113 0.12
319 28 0.03
320 7 0.01
321 107 0.11
322 256 0.27
323 2 0.00
324 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (318 bp):
CAAAATCATGTAAAACTAACCCGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGGTGTAC
ACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTCTTGCCACAATACTTATAAA
AAATATATAATTCAACGCAAAAAAGATTAAAGGTTTTTCACGCTTCTAATATCATTTTCCAACTT
TTTTCCGAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAACAAATCCTTAA
ATCCAACGTGGCTGAGATTTGGTTAGATTAATATAGATATTTCAAGGAGTTTTTGCTC
Found at i:3992 original size:7 final size:7
Alignment explanation
Indices: 3980--4303 Score: 369
Period size: 7 Copynumber: 46.7 Consensus size: 7
3970 CCGAAAAGTT
3980 TTTAGGG
1 TTTAGGG
3987 TTTAGGG
1 TTTAGGG
*
3994 TTTTATGG
1 -TTTAGGG
4002 TTTAGGG
1 TTTAGGG
*
4009 TTTATGG
1 TTTAGGG
4016 TTTAGGG
1 TTTAGGG
*
4023 TTTAAGG
1 TTTAGGG
*
4030 TTTAGTG
1 TTTAGGG
*
4037 TTTAGTG
1 TTTAGGG
4044 TTTAGGG
1 TTTAGGG
4051 TTTAGGG
1 TTTAGGG
*
4058 -TTATTGG
1 TTTA-GGG
4065 TTTAGGG
1 TTTAGGG
4072 TTTAGGG
1 TTTAGGG
*
4079 -TTATTGG
1 TTTA-GGG
4086 TTTAGGG
1 TTTAGGG
4093 TTTAGGG
1 TTTAGGG
4100 TTTA-GG
1 TTTAGGG
*
4106 ATTAGGGG
1 TTTA-GGG
4114 TTTAGGG
1 TTTAGGG
4121 -TTAGGG
1 TTTAGGG
4127 TTTAGGG
1 TTTAGGG
4134 TTTAGGGG
1 TTTA-GGG
4142 TTTAGGG
1 TTTAGGG
**
4149 TTTAATG
1 TTTAGGG
*
4156 TTTAAGG
1 TTTAGGG
4163 TTTAGGG
1 TTTAGGG
*
4170 TTTATGG
1 TTTAGGG
*
4177 TTTA-TG
1 TTTAGGG
4183 TTTAGGG
1 TTTAGGG
4190 -TTAGGG
1 TTTAGGG
4196 TTTAGGG
1 TTTAGGG
*
4203 TTTAAGG
1 TTTAGGG
4210 TTTAGGG
1 TTTAGGG
**
4217 TTTATAG
1 TTTAGGG
4224 -TTAGGG
1 TTTAGGG
4230 TTTAGGG
1 TTTAGGG
4237 TTTAGGG
1 TTTAGGG
4244 -TTAGGG
1 TTTAGGG
4250 TTTAGGG
1 TTTAGGG
*
4257 TTTAGTG
1 TTTAGGG
4264 TTTAGGG
1 TTTAGGG
4271 TTTAGGG
1 TTTAGGG
4278 -TTAGGGG
1 TTTA-GGG
*
4285 TTTATGG
1 TTTAGGG
4292 TTTAGGG
1 TTTAGGG
4299 TTTAG
1 TTTAG
4304 AACAAATTTT
Statistics
Matches: 271, Mismatches: 31, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
6 41 0.15
7 203 0.75
8 27 0.10
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:4899 original size:322 final size:323
Alignment explanation
Indices: 4310--5409 Score: 1807
Period size: 322 Copynumber: 3.4 Consensus size: 323
4300 TTAGAACAAA
* * * *
4310 TTTTTAGCCAATAACCGGGATGGTTAGTACACGATATCGGCTAAAAACTGACCCGAAAA-TTTAT
1 TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTT
*
4374 CCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACACCAAAAAGATTAAAGGTT
66 CCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGTT
*
4439 TTTTCACGCTTCTAAATATCATTTTTCCAACTTTTTTCCAAATTAATTTCTAATTAAATCGAAAC
131 TTTTCACGCTTCT-AATATCATTTTTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAAC
* *
4504 AAGATTCAGATGCTCGTAGAAACGAATCCTTAAATCCAACATGGCTGAGATTTGGTTAGATGAAT
195 AAGATTCAGATGCTCGTAGAAACGAATCCTTAAATCCAACGTGTCTGAGATTTGGTTAGATGAAT
* * * *
4569 ATAGATATTTCAAGGAGTCTTTGCTCCAAAAATCATGTAAAACTAACCCGGGCTCCGGAATGCG
260 ATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCTGGGCTCCGGAACGCG
* * *
4633 TTTTTAGGCAAAAACCATGATGGTTTGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTT
1 TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTT
* * * *
4698 TCTCAATATTCTTGCCACAATTCTTATAAATAATATATAATTCAACGCCAAAAAGATTAAAGGTT
66 CCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGTT
4763 TTTTCACGCTTCTAATATCA-TTTTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
131 TTTTCACGCTTCTAATATCATTTTTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
* * *
4827 AGATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAACGTGTCTGAGATTTTGTTAGATGAATA
196 AGATTCAGATGCTCGTAGAAACGAATCCTTAAATCCAACGTGTCTGAGATTTGGTTAGATGAATA
* * *
4892 GAGATATTTCAAGAAGTCTTTGCGCCCAAAATCATGTAAAACTAACCTTGGCTCCGGAACGCG
261 TAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCTGGGCTCCGGAACGCG
*
4955 TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAATTTTT
1 TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTT
*
5020 CCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAGTTCAACGCCAAAAAGATTAAAGG-T
66 CCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGTT
5084 TTTTCACGCTTCTAATATCATTTTTCCAACTCTTTTT-CGAATTAATTTCTAATTAAATCGAAAC
131 TTTTCACGCTTCTAATATCATTTTTCCAACT-TTTTTCCGAATTAATTTCTAATTAAATCGAAAC
*
5148 AAGATTCAGATGCTTGTAGAAACGAATCCTTAAATCCAACGTGTCTGAGATTTGGTTAGATGAAT
195 AAGATTCAGATGCTCGTAGAAACGAATCCTTAAATCCAACGTGTCTGAGATTTGGTTAGATGAAT
* *
5213 ATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAAGCTGGGTTCCGGAACGCG
260 ATAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCTGGGCTCCGGAACGCG
* * *
5277 -TTTTAGCCAAAAACCGTGAAGGTTAGTACACGATTTCGACTAAAAACTGACCTGAAAAGTTTTT
1 TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTT
*
5341 TCTCAATTTTCTTGCCACAATACTT-TAAAAATAATATATAATTCAACGCCAAAAAGATTAAAGG
66 CCTCAATTTTCTTGCCACAATACTTAT-AAAA-AATATATAATTCAACGCCAAAAAGATTAAAGG
*
5405 ATTTT
129 TTTTT
Statistics
Matches: 722, Mismatches: 49, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
320 1 0.00
321 109 0.15
322 466 0.65
323 69 0.10
324 77 0.11
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (323 bp):
TTTTTAGCCAAAAACCGTGATGGTTAGTACACGATTTCGGCTAAAAACTGACCCGAAAAGTTTTT
CCTCAATTTTCTTGCCACAATACTTATAAAAAATATATAATTCAACGCCAAAAAGATTAAAGGTT
TTTTCACGCTTCTAATATCATTTTTCCAACTTTTTTCCGAATTAATTTCTAATTAAATCGAAACA
AGATTCAGATGCTCGTAGAAACGAATCCTTAAATCCAACGTGTCTGAGATTTGGTTAGATGAATA
TAGATATTTCAAGGAGTCTTTGCGCCCAAAATCATGTAAAACTAACCTGGGCTCCGGAACGCG
Done.