Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015465.1 Corchorus olitorius cultivar O-4 contig15498, 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: 24419
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:7348 original size:99 final size:99
Alignment explanation
Indices: 7177--7376 Score: 400
Period size: 99 Copynumber: 2.0 Consensus size: 99
7167 TCTATCCACA
7177 ATACTCGAGTTCAAAACCTTATCCTATATATGCATTTATATTTTTTGGTACAAAATCCCGACATC
1 ATACTCGAGTTCAAAACCTTATCCTATATATGCATTTATATTTTTTGGTACAAAATCCCGACATC
7242 TGAATCTGATTCATCTTAGATTGAGTCATGTCAG
66 TGAATCTGATTCATCTTAGATTGAGTCATGTCAG
7276 ATACTCGAGTTCAAAACCTTATCCTATATATGCATTTATATTTTTTGGTACAAAATCCCGACATC
1 ATACTCGAGTTCAAAACCTTATCCTATATATGCATTTATATTTTTTGGTACAAAATCCCGACATC
7341 TGAATCTGATTCATCTTAGATTGAGTCATGTCAG
66 TGAATCTGATTCATCTTAGATTGAGTCATGTCAG
7375 AT
1 AT
7377 TCCAAATGAG
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (99 bp):
ATACTCGAGTTCAAAACCTTATCCTATATATGCATTTATATTTTTTGGTACAAAATCCCGACATC
TGAATCTGATTCATCTTAGATTGAGTCATGTCAG
Found at i:14309 original size:655 final size:652
Alignment explanation
Indices: 10689--15494 Score: 7047
Period size: 655 Copynumber: 7.4 Consensus size: 652
10679 CAATATTGCT
** * * *
10689 AAAAAA-ATATAATTCAACGA-CAGCAATATTGAAGGATTTTTCATGCTTCTAATATCGTTTTCC
1 AAAAAATATATAATTCAAC-ACCAAAAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTC
10752 CATTTTTTTTAGAATTAATTT-TGAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAAACAAA
65 CA-TTTTTTTAGAATTAATTTCT-AATTAAATCGAAACAAGATTTAGATGCTCGC-AAAAACAAA
*
10816 TCCTTAAATCCATTATGGCTTCGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCC
127 TCCTTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCC
* *
10881 AAAAAATCATGCGAAACTGAGACGGGGCCCCCAAACGTGTTTTTAGCCCCAAAACCGTGATAGTT
192 AAAAAATCATGCGAAACTGAGTCGGGG-CCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTT
* *
10946 AGTACACAATTTCAGTCAAAAACTGACCCGAAAAATTTTTCCAGAAATTTTTGCCACAATACTCA
256 AGTACACAATTTCAGCCAAAAACTGACCCG-AAAATTTTTCCTGAAATTTTTGCCACAATACTCA
11011 GAAAAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACCATTTTTC
320 GAAAAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACCATTTTTC
11076 CATTTTTGTTTCTAATTAATTTCTAATTAAATTGAATCAAGATTCAGATACTCGTAAAAAACAAA
385 CATTTTT-TTTCTAATTAATTTCTAATTAAATTGAATCAAGATTCAGATACTCGTAAAAAACAAA
* *
11141 TCCTTATAAACAATGCGGTTGAAAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCGCGC
449 TCCTTATAAACAATGCGGTTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCACGC
* *
11206 CAAAGATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTCAGCCAAAAACAGTGAT-G--G
514 CAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACAGTGATGGTAG
*
11268 TACATGATTTCGGCTGCAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCAC
579 TACATGATTTCGGCTACAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCAC
11333 AATACTCAG
644 AATACTCAG
* * * *
11342 AAAAAAATATATAATTCAAC-GCAAAAAAATTGAAGGGGTTTTCACGCTTCTAATATTGTTTTTC
1 -AAAAAATATATAATTCAACACCAAAAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTC
* * * **
11406 CATTTTTTTTAAAAATTAATTTCTAATTAAATCGAAACAAGATTCAGATTCTCAAAAAAACAAAT
65 CA-TTTTTTT-AGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAACAAAT
* *
11471 CCTTAAATCCATTATGGCTTAGATTCGGTTAGATGAATATAGAAATTTTAAGGGTTCTTTTTCCA
128 CCTTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCA
* * **
11536 AAAAATCTTGCGAAACTGAGTCGGGGTCCCCAAACAG-GTTTTTAGCCCCAAAACTGTGATAAAT
193 AAAAATCATGCGAAACTGAGTCGGGG-CCCCAAAC-GCGTTTTTAGCCCCAAAACCGTGATAGTT
* *
11600 AGTACACAATCTCAGCCAAAAACTGACCCGAAAAACTTTTTCCTGAAACTTTTGCCACAATACTC
256 AGTACACAATTTCAGCCAAAAACTGACCCG-AAAA-TTTTTCCTGAAATTTTTGCCACAATACTC
* *
11665 AGATAAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGTTTCTAATACCATTTTT
319 AGAAAAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACCATTTTT
* *
11730 CCATTTCTTTTCTAATTAATTTCTAATTAAATTGAATCAAGATTCAGATACTCGTAAAAAAGAAA
384 CCATTTTTTTTCTAATTAATTTCTAATTAAATTGAATCAAGATTCAGATACTCGTAAAAAACAAA
* ** * *
11795 TCCTTATAACCAATATGGTTGAGAGTTGGTTAGATGAATATAAATATTTCAAGGAGTCTTCGCGC
449 TCCTTATAAACAATGCGGTTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCACGC
* * * * *
11860 CAAAAATCAAGCAAAATTGAGTCGGGGATCGGGAACGCTTTTTTAGCCAAAAACCGTGATGGTTA
514 CAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACAGTGATGG-TA
* * * * * * * *
11925 GTACACGATTTTC-GC--C-----T--AAAAAATGACGCGATAATTTTTTTCTCAATTTTCTGGC
578 GTACATGA-TTTCGGCTACAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCC
*
11980 ACAATACTC-T
642 ACAATACTCAG
** * *
11990 AAAAAA-ATATAATTCAATGCCAAAAATATTGAAGGGTTTTTCACACTTCTAATATCGTTTTTCA
1 AAAAAATATATAATTCAACACCAAAAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC
* * *
12054 ATTTTTTTAGAAATAATTTCAAATTAAATCGAAACAAGATTTAGATACTCGCAAAAACAAATCCT
66 ATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAACAAATCCT
* *
12119 TAAATCCATTATGGCTTAGATTAGGTTAGATGAATATA-AATATTTTAAGGGGTCTTTTTCCCAA
131 TAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAA-ATTTTAAGGGGTCTTTTTCCAAA
* * * *
12183 AAATCATGCGAAACTAAGTCGGGGTCCCCAGACGCGTTTTTAGCCTCAAAATCGTGATAGTTAGT
195 AAATCATGCGAAACTGAGTCGGGG-CCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGT
* * *
12248 ACACAATTTCAGCAAAAAACTGAACCGAAAGATTTTTTCTAGAAA-TTTTGCCACAATACTCAGA
259 ACACAATTTCAGCCAAAAACTGACCCGAAA-ATTTTTCCT-GAAATTTTTGCCACAATACTCAGA
*
12312 AAAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACCGTTTTTCCA
322 AAAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACCATTTTTCCA
*
12377 --TTTTTTCTAATTAATTTCTAATTAAATTGAATTAAGATTCAGATACTCGTAAAAAACAAATCC
387 TTTTTTTTCTAATTAATTTCTAATTAAATTGAATCAAGATTCAGATACTCGTAAAAAACAAATCC
* **
12440 TTATAAACAATGCGGTTGAGAGTTGATTAGATGAATATAAATATTTCAAAGAGTCTTCGTGCCAA
452 TTATAAACAATGCGGTTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCACGCCAA
* *
12505 AAATCATGCAAAATTGAGTTGTGGCTCCGGAACGCGTTTTTAGCCAAAAACAGTGATGGTTAGTA
517 AAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACAGTGATGG-TAGTA
12570 CATGATTTCGGCTACAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTTGCCACA
581 CATGATTTCGGCTACAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAA-TTTTTTGCCACA
12635 ATACTCAG
645 ATACTCAG
* *
12643 -AAAAATGTATAATTCAACGCCAAAAA-ATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC
1 AAAAAATATATAATTCAACACCAAAAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC
* * ** * *
12706 ATTTTTTTAAAAATTAATTTTTAATTAAATCGAAACAAGATTCGGATTCTCTCAAAAACAAATCC
66 ATTTTTTT-AGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGC---AA-AAA--C
*
12771 TTAAATCCTTAAATCCATTATGGCTTCGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTT
124 --AAATCCTTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTT
* * *
12836 TTTACAAAAAATCATGCGAAACTGAGTCGGGGCCCCCAAACACGTTTTTAG-CCCAAAACTGTGA
187 TTTCCAAAAAATCATGCGAAACTGAGTCGGGG-CCCCAAACGCGTTTTTAGCCCCAAAACCGTGA
* * *
12900 TAG--AGTACACAATTTCAGCCAAAAACTGACCCGAAAAATTTTTTCTTGAAATTTTTGTCATAA
251 TAGTTAGTACACAATTTCAGCCAAAAACTGACCCG-AAAA-TTTTTCCTGAAATTTTTGCCACAA
* *
12963 TACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATAGCG
314 TACTCAGAAAAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACCA
* * * *
13028 TTTGTCCATTTTTTTTCTAATTAGTTTCTAATTAAATAGAATCAAGATTTAGATACTCGT-AAAA
379 TTTTTCCATTTTTTTTCTAATTAATTTCTAATTAAATTGAATCAAGATTCAGATACTCGTAAAAA
** * * * *
13092 ACAAATCCTTATATCCAATGCGGTTGAGAGTCGGTTAGATGAATATAAATATTTCATGGAGTTTT
444 ACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTT
* * * * * *
13157 CACGCCAAAAATCATGTAAAATTGAGTCGAGGAC-CCGAAACGCTTTTTTAGCAAAAAACCGTGA
509 CACGCCAAAAATCATGCAAAATTGAGTCG-GGGCTCCGGAACGCGTTTTTAGCCAAAAACAGTGA
** * * *
13221 TGGTTAGTACACAATTTTC-GC--C-----T--AAAAAATGACCCGATAA-TTTTGTTCTCAATT
573 TGG-TAGTACATGA-TTTCGGCTACAATTTTGCAAAAACTGACCCGAAAAGTTTT-TCCTCAATT
* *
13275 TTTTGGCACAGTACTCA-
635 TTTTGCCACAATACTCAG
* ** * *
13292 AAAAAA-ATATAATTTAATGCCATAAATATTGAAGGGTTTTTCACGCTTCTAATATCG-TTTTCA
1 AAAAAATATATAATTCAACACCAAAAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC
* *
13355 ATTTTTTTTAGAAATAATTTCTAATTAAATCGAAACAAGATTTAGATGCTTGCAAAAACAAATCC
66 A-TTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAACAAATCC
* * * * *
13420 TTAAACCCATTATGGCTTAGATTAGGTTAGACGAATATAGATATTTTAAGGGGTATTTTTCTCAA
130 TTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTC-CAA
*
13485 AAAA-CATGTGAAACTGAGTCGGGGTCCCCAAACGC-TTTTGTAG-CCCAAAACCGTGATAGTTA
194 AAAATCATGCGAAACTGAGTCGGGG-CCCCAAACGCGTTTT-TAGCCCCAAAACCGTGATAGTTA
*
13547 GTACACAATTTCAGCCAAAAACTGACCCGAAAATTTTTTTCCTGAAATTTTTGCTACAATACT-A
257 GTACACAATTTCAGCCAAAAACTGACCCGAAAA--TTTTTCCTGAAATTTTTGCCACAATACTCA
* *
13611 TGAAAATATATATAATTAAACACCAAAAAGATT-ATCCGGCTTTTCACGCTTCTAATACCATTTT
320 -GAAAAAATATATAATTCAACACCAAAAAGATTGA-CCGGCTTTTCACGCTTCTAATACCATTTT
*
13675 TCCATTTTTTTTCTAATTAATTTCTAATTAAATTGAATCAAAATTCAGATACTCGTAAAAAACAA
383 TCCATTTTTTTTCTAATTAATTTCTAATTAAATTGAATCAAGATTCAGATACTCGTAAAAAACAA
*
13740 ATCCTTATAAACAATGCGGTTGAGAGTTGATTAGATGAATATATATATTTCAAGGAGTCTTCACG
448 ATCCTTATAAACAATGCGGTTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCACG
* *
13805 CCAAAAATCATGCGAAATTGAGTCGGGGCTCCAGAACGCGTTTTTAGCCAAAAACAGTGATGGTA
513 CCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACAGTGATGGTA
13870 GTACATGATTTCGGCTACAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCA
578 GTACATGATTTCGGCTACAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCA
13935 CAATACTCAG
643 CAATACTCAG
*
13945 AAAAAATATATAATTCAACACCAAAAATACTGAAGGGTTTTTTCACGCTTCTAATATCGTTTTTC
1 AAAAAATATATAATTCAACACCAAAAATATTGAAGGG-TTTTTCACGCTTCTAATATCGTTTTTC
* * *
14010 CA-TTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGGTTTAGATGCACGCAAAAATAAATCC
65 CATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAACAAATCC
* *
14074 TTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTTAGTGGTCTTTTTCCAAA
130 TTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCAAA
*
14139 AAATCATGCGAAACTGAGTCGGGGCCCTTAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGT
195 AAATCATGCGAAACTGAGTCGGGGCCC-CAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGT
14204 ACACAATTTCAGCCAAAAACTGACCCGAATAATTTTATCCTGAAATTTTTGCCACAATACTCAGA
259 ACACAATTTCAGCCAAAAACTGACCCGAA-AATTTT-TCCTGAAATTTTTGCCACAATACTCAGA
*
14269 AAAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACCGTTTTTCCA
322 AAAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACCATTTTTCCA
*
14334 -TTTTTTTCTAATTAATTTCTAATTAAATTGAATCAAAATTCAGATACTCGTAAAAAACAAATCC
387 TTTTTTTTCTAATTAATTTCTAATTAAATTGAATCAAGATTCAGATACTCGTAAAAAACAAATCC
* * * * * *
14398 ATACAAACAATGCGATTGAGATTTGATTAGATGAATATAAATATTTCAACGAGACTTCACGCCAA
452 TTATAAACAATGCGGTTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCACGCCAA
* * * * *
14463 AAATCATGCAAAATTGAGACGGGGCTCCGGAACGCGTTTTAAGCCAAGAACAGTGATTGTTAATA
517 AAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACAGTGA-TGGTAGTA
*
14528 CATGATTTCGGCTACAATTTTGCAAAAACTGACCCGAAATGTTTTTCCTCAATTTTTTGCCACAA
581 CATGATTTCGGCTACAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAA
14593 TACTCAG
646 TACTCAG
* * *
14600 AAAAAATATATAATTCAACACCAAAAATACTGAAGGGATTTTCACGCTTCTAATATCGGTTTTCC
1 AAAAAATATATAATTCAACACCAAAAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC
*
14665 ATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCT
66 ATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAACAAATCCT
14730 TAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCAAAA
131 TAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCAAAA
*
14795 AATCAAGCGAAACTGAGTCGGGGCCCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGTA
196 AATCATGCGAAACTGAGTCGGGG-CCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGTA
*
14860 CACAATTTCAGGCAAAAACTGACCCGAAATATTTTTTCCTGAAATTTTTGCCACAATACTCAGAA
260 CACAATTTCAGCCAAAAACTGACCCGAAA-A-TTTTTCCTGAAATTTTTGCCACAATACTCAGAA
* * *
14925 AAAATATATTATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACC-GTTTTCCAA
323 AAAATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACCATTTTTCCAT
* * *
14989 TTTTTTTCTAATTAATTTCTAATTAAATTGAATCAAAATTAAGATACTCGTAAAGAACAAATCCT
388 TTTTTTTCTAATTAATTTCTAATTAAATTGAATCAAGATTCAGATACTCGTAAAAAACAAATCCT
*
15054 TATAAACAATGCGGTTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTTACGCCAAA
453 TATAAACAATGCGGTTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCACGCCAAA
* * * * * *
15119 AATCATGCGAAATTGAGTCGGGGCTCCAGAACGCGTTTTTAGCCTAAAACCGTGCTTGTTAGTAC
518 AATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACAGTG-ATGGTAGTAC
* *
15184 ATGATTTCGGCTACAATTTTGCAAAAACTGACCCGAAAATGTTTTTCTTCAATTTTTTGCAACAA
582 ATGATTTCGGCTACAATTTTGCAAAAACTGACCCGAAAA-GTTTTTCCTCAATTTTTTGCCACAA
15249 TACTCAG
646 TACTCAG
* *
15256 AAAAGATATATAATTCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC
1 AAAAAATATATAATTCAACACCAAAAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC
* *
15321 ATTTTTTTCGAATTAATTTCTAATTAAATCG-AACAAAGATTTAGATGCTCGCAAAAATAAATCC
66 ATTTTTTTAGAATTAATTTCTAATTAAATCGAAAC-AAGATTTAGATGCTCGCAAAAACAAATCC
*
15385 TTAAATCCATTATGACTTAGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCAAA
130 TTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCAAA
*
15450 AAATCATGCGAAACTGAGTCTGGGCCCCAAACGCGTTTTTAGCCC
195 AAATCATGCGAAACTGAGTCGGGGCCCCAAACGCGTTTTTAGCCC
15495 AATAATTTTT
Statistics
Matches: 3757, Mismatches: 304, Indels: 181
0.89 0.07 0.04
Matches are distributed among these distances:
640 4 0.00
641 110 0.03
642 200 0.05
643 177 0.05
644 212 0.06
645 196 0.05
646 20 0.01
647 46 0.01
649 99 0.03
650 64 0.02
651 46 0.01
652 102 0.03
653 75 0.02
654 757 0.20
655 954 0.25
656 258 0.07
657 3 0.00
658 43 0.01
659 94 0.03
660 140 0.04
661 155 0.04
662 2 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (652 bp):
AAAAAATATATAATTCAACACCAAAAATATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC
ATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAACAAATCCT
TAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCAAAA
AATCATGCGAAACTGAGTCGGGGCCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGTAC
ACAATTTCAGCCAAAAACTGACCCGAAAATTTTTCCTGAAATTTTTGCCACAATACTCAGAAAAA
ATATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACGCTTCTAATACCATTTTTCCATTTT
TTTTCTAATTAATTTCTAATTAAATTGAATCAAGATTCAGATACTCGTAAAAAACAAATCCTTAT
AAACAATGCGGTTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCACGCCAAAAAT
CATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACAGTGATGGTAGTACATGA
TTTCGGCTACAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTC
AG
Found at i:15761 original size:276 final size:274
Alignment explanation
Indices: 15237--15769 Score: 643
Period size: 276 Copynumber: 1.9 Consensus size: 274
15227 TTTCTTCAAT
* * ** * * *
15237 TTTTTGCAACAATACTCAGAAAAGATATATAATTCAACACCAAAAATACTGAAGGGTTTTTCACG
1 TTTTTGCAACAATACTCAGAAAAAATACATAATAAAACACCAAAAAGACTGAACGGCTTTTCACG
* *
15302 CTTCTAATATCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATCGAACAAAGATTTAGAT
66 CTTCTAATACCGTTTTTCCATTTTTTTC-AATTAATTTCTAATTAAATCGAACAAAGATTCAGAT
* * * * * *
15367 GCTCGCAAAAATAAATCCTTAAATCCATTATGACTTAGATTGGGTTAGATGAATATAGAAATTTT
130 ACTCGAAAAAACAAATCCTTAAATACA-TATGACTTAGATTGGATTAGATGAATATAGAAATTTC
* * * *
15432 AAGGGGTCTTTTTCCAAAAAATCATGCGAAACTGAGTCTGGGCCCCAAACGCGTTTTTAGCCCAA
194 AAGGGATCTTTTACCAAAAAATCATGCAAAACTGAGTCGGGGCCCCAAACGCGTTTTTAGCCCAA
15497 TAATTTTTTCCTGAAA
259 TAATTTTTTCCTGAAA
* * *
15513 TTTTTGCCACAATACTCAGAAAAAATACATAATAAAACACCAAAAAGATTGACCGGCTTTTCACG
1 TTTTTGCAACAATACTCAGAAAAAATACATAATAAAACACCAAAAAGACTGAACGGCTTTTCACG
*
15578 CTTCTAATACCGTTTTTCCATTTTTTT-AATTAATTTCTAATTAAATTGAATCAAA-ATTCAGAT
66 CTTCTAATACCGTTTTTCCATTTTTTTCAATTAATTTCTAATTAAATCGAA-CAAAGATTCAGAT
15641 ACTCGTAAAAAACAAATCCTTATAA-ACA-ATG-CGGTTGAGAGTT-GATTAGATGAATATA-AA
130 ACTCG-AAAAAACAAATCCTTA-AATACATATGAC--TT-AGA-TTGGATTAGATGAATATAGAA
* * **
15701 TATTTCAA-GGAT-TTTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTT
189 -ATTTCAAGGGATCTTTT-AC-CAAAAAATCATGCAAAACTGAGTCGGGGC-CCCAAACGCGTTT
15764 TTAGCC
250 TTAGCC
15770 AAAAACAGTG
Statistics
Matches: 219, Mismatches: 27, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
272 1 0.00
273 7 0.03
274 41 0.19
275 68 0.31
276 102 0.47
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (274 bp):
TTTTTGCAACAATACTCAGAAAAAATACATAATAAAACACCAAAAAGACTGAACGGCTTTTCACG
CTTCTAATACCGTTTTTCCATTTTTTTCAATTAATTTCTAATTAAATCGAACAAAGATTCAGATA
CTCGAAAAAACAAATCCTTAAATACATATGACTTAGATTGGATTAGATGAATATAGAAATTTCAA
GGGATCTTTTACCAAAAAATCATGCAAAACTGAGTCGGGGCCCCAAACGCGTTTTTAGCCCAATA
ATTTTTTCCTGAAA
Found at i:16901 original size:323 final size:320
Alignment explanation
Indices: 15498--18372 Score: 2574
Period size: 323 Copynumber: 8.9 Consensus size: 320
15488 TTAGCCCAAT
* * * ** *
15498 AATTTTTTCCTGAAATTTTTGCCACAATACTCAGAAAAAATACATAATAAAACACCAAAAAGATT
1 AATTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACC-AAAATATT
15563 GACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTTT--AATTAATTTCTAATTAAATTG
65 GACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATTG
* *
15626 AATCAAA-ATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAG
130 AATCAAAGATTTAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGCTTGAGAGTTGATTAG
* * * * * * * *
15690 ATGAATAT-AAATATTTCAAGGATTTTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCG
195 ATGAATATAAAAT-TTTAAAGGGTCTTT--CTCCAAAAATCATGCGAAACTGAGTCGGGGCCCCC
* * * * ** *
15754 GAACGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACATGATTTCGGCTACAATTTTGCAAAAAC
257 AAACGCGTTTTTAGCCCAAAACCGTGATAGTTAGTACACAATTTCAG---C-------CAAAAAC
15819 TGACCCGAA
312 TGACCCGAA
* * **
15828 AAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCCACACCAAAAATACC
1 AATTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACC-AAAATATT
** * * * * * *
15893 GAAGGGTTTTTCATGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTTCTATTTAAATCG
65 GACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATTG
* * * * * * *
15958 AAAC-AAGATTTAGATGCTCG-CAAAAATAAATCCTTA-AATCCTTTATG-GCTT-AGA-TTGGG
130 AATCAAAGATTTAGATACTCGTAAAAAACAAATCCTTATAA-AC--AATGCGCTTGAGAGTT-GA
* * * *
16017 TTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCAAAAAATCAAGCGAAACTGAG-CTGGGTC
191 TTAGATGAATATA-AAATTTTAAAGGGTCTTTCTCC-AAAAATCATGCGAAACTGAGTC-GGGGC
*
16081 CCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTAAGTACACAATTTCAGCCAAAAACTGACC
253 CCCCAAACGCGTTTTTAG-CCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGACC
**
16146 TTAAA
317 -CGAA
* * * * *
16151 AATTTTTTCCTAAAATTTTTGCCACAATACTCAGAAAAAATATATAGTTGAACACCAAAAAGATT
1 AATTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACC-AAAATATT
*
16216 GACCGGCCTTTCACGCTTCTAATACCG-TTTTCCA-----TT----TT--TTTCTAATTAAATTG
65 GACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATTG
* * *
16269 AATCAAA-ATTAAAATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAG
130 AATCAAAGATTTAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGCTTGAGAGTTGATTAG
* * * * * * *
16333 ATGAGTAT-AAATATTTCAAGGAGTCTTCACGCCAAAAATCATGCGAAATTGAGTC-GGGTCTCC
195 ATGAATATAAAAT-TTTAAAGG-GTCTT-TCTCCAAAAATCATGCGAAACTGAGTCGGGGCCCCC
* * * * * * *
16396 AGAACGCGTTTTTAGCCAAAAACAGTGATGGTTAATACATGATTTCGGCTACAATTTTGCAAAAA
257 A-AACGCGTTTTTAGCCCAAAACCGTGATAGTTAGTACA-CAATT----T-C-A----GCCAAAA
16461 ACTGACCCGAA
310 ACTGACCCGAA
* * * *
16472 AAGTTTTTCTTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAAAAATACT
1 AATTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACC-AAAATATT
** * * *
16537 GAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATCG
65 GACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATTG
* * * * *
16602 AA-CAAAGATTTAGATGCTCG-CAAAAATAAATCCTTA-AATCCATTATG-GCTT-AGA-TTGGG
130 AATCAAAGATTTAGATACTCGTAAAAAACAAATCCTTATAA-ACA--ATGCGCTTGAGAGTT-GA
* *
16661 TTAGATGAATATAGAAATTTTAAAGGTTCTTTTTCCAAAAATTCATGCGAAACTGAGTCGGGGCC
191 TTAGATGAATATA-AAATTTTAAAGGGTCTTTCTCCAAAAA-TCATGCGAAACTGAGTCGGGGCC
*
16726 CCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGACCG
254 CCCAAACGCGTTTTTAG-CCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGACCC
16791 GAAA
318 G-AA
* * *
16795 AATTTTTTCCTGAAGTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAATGGTT
1 AATTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAT--AT
* * *
16860 TGACCGGCCTTTCACGCTTCTAATACCGTTTTTCCTTTTTTTTTCTAATTAATTTCTAATTAAAT
64 TGACCGGCTTTTCACGCTTCTAATACCGTTTTTCC-ATTTTTTTCGAATTAATTTCTAATTAAAT
* *
16925 TGAATC-AAGATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATT
128 TGAATCAAAGATTTAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGCTTGAGAGTTGATT
* * * * *
16989 AGATGAATAT-AAATATTTCAAGGAGT-TTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCT
193 AGATGAATATAAAAT-TTTAAAGG-GTCTTT--CTCCAAAAATCATGCGAAACTGAGTCGGGGCC
** * * * * * ** *
17052 CCGGAACCCGTTCTTAGCCAAAAACAGTGATGGTTGTTAGTACATGATTTCGGCTACAATTTTGC
254 CCCAAACGCGTTTTTAGCCCAAAACCGTGA---TAGTTAGTACACAATTTCAG---C-------C
17117 AAAAACTGACCCGAA
306 AAAAACTGACCCGAA
* *
17132 AAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAATACT
1 AATTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACC-AAAATATT
** * * * * *
17197 GAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTTCTATTTAAATCG
65 GACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATTG
* * * * *
17262 AAAC-AAGATTTAGATGCTC--ACAAAAATAAATCCTTA-AATCCTTTATG-GCTT-AGA-TTGG
130 AATCAAAGATTTAGATACTCGTA-AAAAACAAATCCTTATAA-AC--AATGCGCTTGAGAGTT-G
* * *
17320 GTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCAAAAAATCATGCGAAACTGAGTCGGGGC
190 ATTAGATGAATATA-AAATTTTAAAGGGTCTTTCTCC-AAAAATCATGCGAAACTGAGTCGGGGC
* *
17385 CCCCAAACGCGTTTTTAGCCCCAAAACC-TCGATAGTTATTACACAATTTCAGCCAAAAACTAAC
253 CCCCAAACGCGTTTTTAG-CCCAAAACCGT-GATAGTTAGTACACAATTTCAGCCAAAAACTGAC
17449 CCGAAA
316 CCG-AA
* * * * *
17455 AATTTTCTCCTGAAATTTTTGCCACAATACTCAGAAAAAATATATAATTAAACACCAAAAAGATT
1 AATTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACC-AAAATATT
* *** *
17520 GACCGGCTATTCATATTTCTAATACCGTTTTTCCATTTTTTTCTAATTAATTTCTAATTAAATTG
65 GACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATTG
* * *
17585 AATCAAA-ATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAAAGTTGATTAG
130 AATCAAAGATTTAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGCTTGAGAGTTGATTAG
* * * * * * *
17649 ATGAATGT-AAATATTTCAAGGAT-TCTTCACGCTAAAAATCATGCAAAATTGAGTCGGGGCTCC
195 ATGAATATAAAAT-TTTAAAGGGTCT-TTCTC-C-AAAAATCATGCGAAACTGAGTCGGGGCCCC
** *
17712 GGAACGCGTTTTTAG-CC-AAA-----A-A---AG----C-AGTT--G-CAAAAACTGACCCGAA
256 CAAACGCGTTTTTAGCCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGACCCGAA
* * *
17758 AAGTTTTTCCTCAATTTTTTGCCACAATACTCA-AAAAAATTATATAATTCGACACCAAATATAC
1 AATTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAA-TATATAATTCAACACCAAA-ATAT
** * * * *
17822 TGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTAGAATTAATTTCTAATTAAATC
64 TGACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATT
* * * * * * *
17886 GAAAC-AAGATTTAGATGCTCG-CAAAAATAAATCCTTA-AATCCATTATG-GCTT-AGATTTGG
129 GAATCAAAGATTTAGATACTCGTAAAAAACAAATCCTTATAA-ACA--ATGCGCTTGAGAGTTGA
* * *
17946 TTAAATGAATATAGAAATTTTAAAGGGTCTTTTTCCAAAAAAATCATGCGAAACTGAGTCGCGG-
191 TTAGATGAATATA-AAATTTTAAAGGGTCTTTCTCC--AAAAATCATGCGAAACTGAGTCGGGGC
*
18010 CCCTAAACGCGTTTTTAGTCCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGACC
253 CCCCAAACGCGTTTTTAG-CCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGACC
18075 CGAA
317 CGAA
* *
18079 AATTTTTTTCCT-GATGTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGA
1 AA-TTTTTTCCTCAAT-TTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACC-AAAATA
* *
18143 TTTGACCGGCCTTTCACGCTTCTAATACCGTTTTT-CATTTTTTTCTAATTAATTTCTAATTAAA
63 -TTGACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAA
*
18207 TTGAATC-AAGATTTAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGAT
127 TTGAATCAAAGATTTAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGCTTGAGAGTTGAT
* * * * * * * *
18271 TAGATGAATAT-AAATATTTCAAGGAGTCTTCACGCCAATAATTATGCAAAATTGAGTCGGGGCT
192 TAGATGAATATAAAAT-TTTAAAGG-GTCTT-TCTCCAAAAATCATGCGAAACTGAGTCGGGGCC
** * * *
18335 CCGGAACGCGTTTTTAGCCAAAAACAGTGATGGTTAGT
254 CCCAAACGCGTTTTTAGCCCAAAACCGTGATAGTTAGT
18373 GTGTTGAATT
Statistics
Matches: 2053, Mismatches: 341, Indels: 309
0.76 0.13 0.11
Matches are distributed among these distances:
300 2 0.00
301 49 0.02
302 86 0.04
303 85 0.04
304 16 0.01
305 1 0.00
307 3 0.00
308 1 0.00
309 1 0.00
310 8 0.00
311 60 0.03
312 72 0.04
313 11 0.01
315 1 0.00
316 2 0.00
317 4 0.00
318 4 0.00
320 1 0.00
321 103 0.05
322 133 0.06
323 401 0.20
324 162 0.08
325 77 0.04
326 68 0.03
327 14 0.01
328 17 0.01
329 2 0.00
330 99 0.05
331 83 0.04
332 158 0.08
333 77 0.04
334 79 0.04
335 63 0.03
336 37 0.02
337 55 0.03
338 18 0.01
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (320 bp):
AATTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAATATTG
ACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTTTCGAATTAATTTCTAATTAAATTGA
ATCAAAGATTTAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGCTTGAGAGTTGATTAGA
TGAATATAAAATTTTAAAGGGTCTTTCTCCAAAAATCATGCGAAACTGAGTCGGGGCCCCCAAAC
GCGTTTTTAGCCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGACCCGAA
Found at i:17310 original size:660 final size:654
Alignment explanation
Indices: 15498--18372 Score: 4624
Period size: 625 Copynumber: 4.4 Consensus size: 654
15488 TTAGCCCAAT
* *
15498 AATTTTTTCCTGAAATTTTTGCCACAATACTCAGAAAAAATACATAATAAAACACCAAAAAGATT
1 AATTTTTTCCTGAAATTTTTGCCACAATACTCAGAAAAAATATATAATTAAACACCAAAAAGATT
* *
15563 GACCGGCTTTTCACGCTTCTAATACCGTTTTTCCATTTTTT-TAATTAATTTCTAATTAAATTGA
66 GACCGGCCTTTCACGCTTCTAATACCGTTTTTCCTTTTTTTCTAATTAATTTCTAATTAAATTGA
15627 ATCAAAATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAGAT
131 ATCAAAATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAGAT
*
15692 GAATATAAATATTTCAAGGATTTTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAA
196 GAATATAAATATTTCAAGGAGTTTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAA
15757 CGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACATGATTTCGGCTACAATTTTGCAAAAACTGA
261 CGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACATGATTTCGGCTACAATTTTGCAAAAACTGA
*
15822 CCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCCACACCAAA
326 CCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAA
* * *
15887 AATACCGAAGGGTTTTTCATGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTTCTATTT
391 AATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTTCTAATT
*
15952 AAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCTTTATGGCTTAGATTGGG
456 AAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGCTTAGATTGGG
* * *
16017 TTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCAAAAAATCAAGCGAAACTGAG-CTGGGTC
521 TTAGATGAATATAGAAATTTTAAAGGGTCTTTTTCCAAAAAATCATGCGAAACTGAGTC-GGGGC
*
16081 CCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTAAGTACACAATTTCAGCCAAAAACTGACC
585 CCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGACC
**
16146 TTAAA
650 CGAAA
* * *
16151 AATTTTTTCCTAAAATTTTTGCCACAATACTCAGAAAAAATATATAGTTGAACACCAAAAAGATT
1 AATTTTTTCCTGAAATTTTTGCCACAATACTCAGAAAAAATATATAATTAAACACCAAAAAGATT
*
16216 GACCGGCCTTTCACGCTTCTAATACCG-TTTTCC-----AT-T--TT--TTTCTAATTAAATTGA
66 GACCGGCCTTTCACGCTTCTAATACCGTTTTTCCTTTTTTTCTAATTAATTTCTAATTAAATTGA
* *
16270 ATCAAAATTAAAATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAGAT
131 ATCAAAATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAGAT
* * * * *
16335 GAGTATAAATATTTCAAGGAGTCTTCACGCCAAAAATCATGCGAAATTGAGTCGGGTCTCCAGAA
196 GAATATAAATATTTCAAGGAGTTTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAA
*
16400 CGCGTTTTTAGCCAAAAACAGTGATGGTTAATACATGATTTCGGCTACAATTTTGCAAAAAACTG
261 CGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACATGATTTCGGCTACAATTTTGC-AAAAACTG
* *
16465 ACCCGAAAAGTTTTTCTTCAATTTTTTGCAACAATACTCAGAAAAAATATATAATTCAACACCAA
325 ACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAA
*
16530 AAATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTCGAATTAATTTCTAAT
390 AAATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTTCTAAT
16595 TAAATCG-AACAAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGCTTAGATTG
455 TAAATCGAAAC-AAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGCTTAGATTG
* *
16659 GGTTAGATGAATATAGAAATTTTAAAGGTTCTTTTTCCAAAAATTCATGCGAAACTGAGTCGGGG
519 GGTTAGATGAATATAGAAATTTTAAAGGGTCTTTTTCCAAAAAATCATGCGAAACTGAGTCGGGG
16724 CCCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGAC
584 CCCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGAC
*
16789 CGGAAA
649 CCGAAA
* * * *
16795 AATTTTTTCCTGAAGTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAATGGTT
1 AATTTTTTCCTGAAATTTTTGCCACAATACTCAGAAAAAATATATAATTAAACACCAAAA-AGAT
16860 TGACCGGCCTTTCACGCTTCTAATACCGTTTTTCCTTTTTTTTTCTAATTAATTTCTAATTAAAT
65 TGACCGGCCTTTCACGCTTCTAATACCGTTTTTCC--TTTTTTTCTAATTAATTTCTAATTAAAT
*
16925 TGAATCAAGATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTA
128 TGAATCAAAATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTA
16990 GATGAATATAAATATTTCAAGGAGTTTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCG
193 GATGAATATAAATATTTCAAGGAGTTTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCG
* *
17055 GAACCCGTTCTTAGCCAAAAACAGTGATGGTTGTTAGTACATGATTTCGGCTACAATTTTGCAAA
258 GAACGCGTTTTTAGCCAAAAACAGTGAT-G--GTTAGTACATGATTTCGGCTACAATTTTGCAAA
17120 AACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAAC
320 AACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAAC
17185 ACCAAAAATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTT
385 ACCAAAAATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTT
* * *
17250 CTATTTAAATCGAAACAAGATTTAGATGCTCACAAAAATAAATCCTTAAATCCTTTATGGCTTAG
450 CTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGCTTAG
*
17315 ATTGGGTTAGATGAATATAGAAATTTTAAGGGGTCTTTTTCCAAAAAATCATGCGAAACTGAGTC
515 ATTGGGTTAGATGAATATAGAAATTTTAAAGGGTCTTTTTCCAAAAAATCATGCGAAACTGAGTC
*
17380 GGGGCCCCCAAACGCGTTTTTAGCCCCAAAACC-TCGATAGTTATTACACAATTTCAGCCAAAAA
580 GGGGCCCCCAAACGCGTTTTTAGCCCCAAAACCGT-GATAGTTAGTACACAATTTCAGCCAAAAA
*
17444 CTAACCCGAAA
644 CTGACCCGAAA
*
17455 AATTTTCTCCTGAAATTTTTGCCACAATACTCAGAAAAAATATATAATTAAACACCAAAAAGATT
1 AATTTTTTCCTGAAATTTTTGCCACAATACTCAGAAAAAATATATAATTAAACACCAAAAAGATT
***
17520 GACCGG-CTATTCATATTTCTAATACCGTTTTTCCATTTTTTTCTAATTAATTTCTAATTAAATT
66 GACCGGCCT-TTCACGCTTCTAATACCGTTTTTCC-TTTTTTTCTAATTAATTTCTAATTAAATT
*
17584 GAATCAAAATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAAAGTTGATTAG
129 GAATCAAAATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAG
* *
17649 ATGAATGTAAATATTTCAAGGA-TTCTTCACGCTAAAAATCATGCAAAATTGAGTCGGGGCTCCG
194 ATGAATATAAATATTTCAAGGAGTT-TTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCG
17713 GAACGCGTTTTTAGCC--AAA-A---A-----AG--C---A-----G--------TTGCAAAAAC
258 GAACGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACATGATTTCGGCTACAATTTTGCAAAAAC
*
17749 TGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCA-AAAAAATTATATAATTCGACAC
323 TGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAA-TATATAATTCAACAC
*
17813 CAAATATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTAGAATTAATTTCT
387 CAAAAATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTTCT
17877 AATTAAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGCTTAGAT
452 AATTAAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGCTTAGAT
* *
17942 TTGGTTAAATGAATATAGAAATTTTAAAGGGTCTTTTTCCAAAAAAATCATGCGAAACTGAGTCG
517 TGGGTTAGATGAATATAGAAATTTTAAAGGGTCTTTTTCC-AAAAAATCATGCGAAACTGAGTCG
* * *
18007 CGG-CCCTAAACGCGTTTTTAGTCCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACT
581 GGGCCCCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACT
18071 GACCCGAAA
646 GACCCGAAA
* ** *
18080 ATTTTTTTCCTGATGTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAAGATT
1 AATTTTTTCCTGAAATTTTTGCCACAATACTCAGAAAAAATATATAATTAAACACCAAAAAGA-T
*
18145 TGACCGGCCTTTCACGCTTCTAATACCGTTTTTCATTTTTTTCTAATTAATTTCTAATTAAATTG
65 TGACCGGCCTTTCACGCTTCTAATACCGTTTTTCCTTTTTTTCTAATTAATTTCTAATTAAATTG
* *
18210 AATCAAGATTTAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAGA
130 AATCAAAATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAGA
* * *
18275 TGAATATAAATATTTCAAGGAGTCTTCACGCCAATAATTATGCAAAATTGAGTCGGGGCTCCGGA
195 TGAATATAAATATTTCAAGGAGTTTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGA
18340 ACGCGTTTTTAGCCAAAAACAGTGATGGTTAGT
260 ACGCGTTTTTAGCCAAAAACAGTGATGGTTAGT
18373 GTGTTGAATT
Statistics
Matches: 2073, Mismatches: 107, Indels: 100
0.91 0.05 0.04
Matches are distributed among these distances:
625 410 0.20
626 167 0.08
627 5 0.00
628 1 0.00
631 1 0.00
634 1 0.00
636 2 0.00
639 1 0.00
642 1 0.00
643 196 0.09
644 374 0.18
645 33 0.02
646 6 0.00
647 2 0.00
652 7 0.00
653 87 0.04
654 1 0.00
655 1 0.00
656 5 0.00
657 2 0.00
658 328 0.16
659 33 0.02
660 377 0.18
661 32 0.02
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (654 bp):
AATTTTTTCCTGAAATTTTTGCCACAATACTCAGAAAAAATATATAATTAAACACCAAAAAGATT
GACCGGCCTTTCACGCTTCTAATACCGTTTTTCCTTTTTTTCTAATTAATTTCTAATTAAATTGA
ATCAAAATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGAGTTGATTAGAT
GAATATAAATATTTCAAGGAGTTTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAA
CGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACATGATTTCGGCTACAATTTTGCAAAAACTGA
CCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAATTCAACACCAAA
AATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTTCTAATT
AAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGCTTAGATTGGG
TTAGATGAATATAGAAATTTTAAAGGGTCTTTTTCCAAAAAATCATGCGAAACTGAGTCGGGGCC
CCCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTAGTACACAATTTCAGCCAAAAACTGACCC
GAAA
Found at i:18982 original size:31 final size:30
Alignment explanation
Indices: 18893--19052 Score: 145
Period size: 31 Copynumber: 5.3 Consensus size: 30
18883 TGCATGGGTT
* *
18893 TATCATTATAGCATACAGTTCATTTTAGGTC
1 TATCGTTATAGCATATAGTTCA-TTTAGGTC
*
18924 T-TCGTTTACATGTCATATAG--C-TTTAGGTC
1 TATCG-TTATA-G-CATATAGTTCATTTAGGTC
18953 TATCGTTATAGCATATAGTTCAATTTAGGTC
1 TATCGTTATAGCATATAGTTC-ATTTAGGTC
* *
18984 TATCATTAACATGACATATAG--C-TTTAGGTC
1 TATCGTT-ATA-G-CATATAGTTCATTTAGGTC
19014 TATCGTTATAGCATATAGTTCAATTTAGGTC
1 TATCGTTATAGCATATAGTTC-ATTTAGGTC
19045 TATCGTTA
1 TATCGTTA
19053 ACGTGGCATA
Statistics
Matches: 106, Mismatches: 8, Indels: 30
0.74 0.06 0.21
Matches are distributed among these distances:
27 14 0.13
28 2 0.02
29 17 0.16
30 19 0.18
31 36 0.34
32 4 0.04
33 7 0.07
34 7 0.07
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (30 bp):
TATCGTTATAGCATATAGTTCATTTAGGTC
Found at i:19012 original size:30 final size:29
Alignment explanation
Indices: 18916--19232 Score: 257
Period size: 30 Copynumber: 10.3 Consensus size: 29
18906 TACAGTTCAT
*
18916 TTTAGGTCT-TCGTTTACATGTCATATAGC
1 TTTAGGTCTATCGTTAACATG-CATATAGC
*
18945 TTTAGGTCTATCGTT-ATA-GCATATAGTTC
1 TTTAGGTCTATCGTTAACATGCATATAG--C
*
18974 AATTTAGGTCTATCATTAACATGACATATAGC
1 --TTTAGGTCTATCGTTAACATG-CATATAGC
*
19006 TTTAGGTCTATCGTT-ATA-GCATATAGTTC
1 TTTAGGTCTATCGTTAACATGCATATAG--C
*
19035 AATTTAGGTCTATCGTTAACGTGGCATATAGCTTTAGC
1 --TTTAGGTCTATCGTTAACAT-GC--ATA----TAGC
* *
19073 TTTAGGTCTATTGTTAACGTGGCATATAGC
1 TTTAGGTCTATCGTTAACAT-GCATATAGC
* *
19103 TTTTGGTCTAGCGTTAACATGGCATATAGC
1 TTTAGGTCTATCGTTAACAT-GCATATAGC
* * * *
19133 TTTAGGTCTATAGTTTTAGATTGCATATAGA
1 TTTAGGTCTATCG-TTAACA-TGCATATAGC
* *
19164 TTTAGGTCTATCGTTAACATAGCATATTGA
1 TTTAGGTCTATCGTTAACAT-GCATATAGC
19194 TTTAGGTCTATCGTTAACATGGCATATAGC
1 TTTAGGTCTATCGTTAACAT-GCATATAGC
19224 TTTAGGTCT
1 TTTAGGTCT
19233 CGTTCACATG
Statistics
Matches: 239, Mismatches: 25, Indels: 47
0.77 0.08 0.15
Matches are distributed among these distances:
27 14 0.06
28 2 0.01
29 16 0.07
30 107 0.45
31 53 0.22
32 5 0.02
33 1 0.00
34 12 0.05
36 25 0.10
38 1 0.00
40 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (29 bp):
TTTAGGTCTATCGTTAACATGCATATAGC
Found at i:19017 original size:61 final size:61
Alignment explanation
Indices: 18893--19209 Score: 285
Period size: 61 Copynumber: 5.1 Consensus size: 61
18883 TGCATGGGTT
* * * * *
18893 TATCATTATAGCATACAGTTCATTTTAGGTCT-TCGTTTACATGTCATATAGCTTTAGGTC
1 TATCGTTATAGCATATAGTTCAATTTAGGTCTATCGTTAACATGACATATAGCTTTAGGTC
*
18953 TATCGTTATAGCATATAGTTCAATTTAGGTCTATCATTAACATGACATATAGCTTTAGGTC
1 TATCGTTATAGCATATAGTTCAATTTAGGTCTATCGTTAACATGACATATAGCTTTAGGTC
* *
19014 TATCGTTATAGCATATAGTTCAATTTAGGTCTATCGTTAACGTGGCATATAGCTTTAGCTTTAGG
1 TATCGTTATAGCATATAGTTCAATTTAGGTCTATCGTTAACAT-G-ACATA----TAGCTTTAGG
19079 TC
60 TC
* * * * *
19081 TATTGTTAACGTGGCATATAG--C--TTTTGGTCTAGCGTTAACATGGCATATAGCTTTAGGTC
1 TATCGTT-A--TAGCATATAGTTCAATTTAGGTCTATCGTTAACATGACATATAGCTTTAGGTC
* * * *
19141 TATAGTTTTAG-AT-T-GCATAT-AGATTTAGGTCTATCGTTAACAT-AGCATATTGATTTAGGT
1 TATCGTTATAGCATATAG--T-TCA-ATTTAGGTCTATCGTTAACATGA-CATATAGCTTTAGGT
19201 C
61 C
19202 TATCGTTA
1 TATCGTTA
19210 ACATGGCATA
Statistics
Matches: 212, Mismatches: 26, Indels: 37
0.77 0.09 0.13
Matches are distributed among these distances:
54 1 0.00
55 1 0.00
56 2 0.01
57 2 0.01
60 47 0.22
61 104 0.49
62 1 0.00
63 4 0.02
64 3 0.01
65 1 0.00
66 17 0.08
67 18 0.08
68 2 0.01
70 9 0.04
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (61 bp):
TATCGTTATAGCATATAGTTCAATTTAGGTCTATCGTTAACATGACATATAGCTTTAGGTC
Found at i:19080 original size:36 final size:36
Alignment explanation
Indices: 19002--19137 Score: 141
Period size: 36 Copynumber: 4.1 Consensus size: 36
18992 ACATGACATA
*
19002 TAGCTTTAGGTCTATCGTT-A--TAGCATATAG-TT
1 TAGCTTTAGGTCTATCGTTAACGTGGCATATAGCTT
* *
19034 CA-ATTTAGGTCTATCGTTAACGTGGCATATAGCTT
1 TAGCTTTAGGTCTATCGTTAACGTGGCATATAGCTT
*
19069 TAGCTTTAGGTCTATTGTTAACGTGGCATATAGC--
1 TAGCTTTAGGTCTATCGTTAACGTGGCATATAGCTT
* *
19103 T---TTT-GGTCTAGCGTTAACATGGCATATAGCTT
1 TAGCTTTAGGTCTATCGTTAACGTGGCATATAGCTT
19135 TAG
1 TAG
19138 GTCTATAGTT
Statistics
Matches: 86, Mismatches: 9, Indels: 16
0.77 0.08 0.14
Matches are distributed among these distances:
30 23 0.27
31 18 0.21
32 3 0.03
34 10 0.12
35 3 0.03
36 29 0.34
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (36 bp):
TAGCTTTAGGTCTATCGTTAACGTGGCATATAGCTT
Found at i:19135 original size:127 final size:119
Alignment explanation
Indices: 18916--19246 Score: 302
Period size: 127 Copynumber: 2.7 Consensus size: 119
18906 TACAGTTCAT
* * * *
18916 TTTAGGTCT-TCGTTTACAT-GTCATATAGCTTTAGGTCTATCGTT---ATAGCATATAGTTCAA
1 TTTAGGTCTATCGTTAACATAG-CATATTGATTTAGGTCTATCGTTAACATGGCATATAG--C--
* * *
18976 TTTAGGTCTATCATTAACATGACATATAGCTTTAGGTCTATCGTTATAGCA-T-ATAGTTCA-A
61 TTTAGGTCTA-CGTTAACATGGCATATAGCTTTAGGTCTATAGTTATAG-ATTGATA--T-AGA
* * * * *
19037 TTTAGGTCTATCGTTAACGTGGCATATAGCTTTAGCTTTAGGTCTATTGTTAACGTGGCATATAG
1 TTTAGGTCTATCGTTAACATAGC--ATA---TT-GATTTAGGTCTATCGTTAACATGGCATATAG
* *
19102 CTTTTGGTCTAGCGTTAACATGGCATATAGCTTTAGGTCTATAGTTTTAGATTGCATATAGA
60 CTTTAGGTCTA-CGTTAACATGGCATATAGCTTTAGGTCTATAGTTATAGATTG-ATATAGA
19164 TTTAGGTCTATCGTTAACATAGCATATTGATTTAGGTCTATCGTTAACATGGCATATAGCTTTAG
1 TTTAGGTCTATCGTTAACATAGCATATTGATTTAGGTCTATCGTTAACATGGCATATAGCTTTAG
*
19229 GTCT-CGTTCACATGGCAT
66 GTCTACGTTAACATGGCAT
19247 TTAAATGACC
Statistics
Matches: 176, Mismatches: 19, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
119 13 0.07
121 46 0.26
122 11 0.06
123 1 0.01
124 3 0.02
125 3 0.02
126 2 0.01
127 68 0.39
128 16 0.09
129 4 0.02
131 9 0.05
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (119 bp):
TTTAGGTCTATCGTTAACATAGCATATTGATTTAGGTCTATCGTTAACATGGCATATAGCTTTAG
GTCTACGTTAACATGGCATATAGCTTTAGGTCTATAGTTATAGATTGATATAGA
Found at i:19428 original size:2 final size:2
Alignment explanation
Indices: 19423--19449 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19413 TGAGTGTGTG
19423 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19450 TGCTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20377 original size:95 final size:94
Alignment explanation
Indices: 20177--20353 Score: 219
Period size: 95 Copynumber: 1.9 Consensus size: 94
20167 GTCAGGTTTT
* * ** * * * * *
20177 TATAATACTTTCATTTAGTACACTAAATTTTGATTAGTTTGAATATTCTACACTTATTTGTAAGA
1 TATAATATTTTCATTTAGCACACTAAATCATAATTAATTTGAATACTCTACACTTACTTGTAAAA
** **
20242 ATTTGGGACATGTCATCATTTCCCTTAAC
66 ATCCGGGACACATCATCATTTCCCTTAAC
*
20271 TATAATAATTTTCATTTAGCACACTACATCATAATTAATTTGAATACTCTACACTTACTTGTAAA
1 TATAAT-ATTTTCATTTAGCACACTAAATCATAATTAATTTGAATACTCTACACTTACTTGTAAA
20336 AATCCGGGACACATCATC
65 AATCCGGGACACATCATC
20354 GTTTTGCCCT
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
94 6 0.09
95 62 0.91
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.40
Consensus pattern (94 bp):
TATAATATTTTCATTTAGCACACTAAATCATAATTAATTTGAATACTCTACACTTACTTGTAAAA
ATCCGGGACACATCATCATTTCCCTTAAC
Found at i:22154 original size:330 final size:330
Alignment explanation
Indices: 21554--23730 Score: 1728
Period size: 330 Copynumber: 6.6 Consensus size: 330
21544 TGCCACCATA
* * * *
21554 TTAGTACACGATTTCGGTTAAAATTTTACAAAAATTGACCCGAAACATATTTCCTCAGTTATTTG
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACATTTTTCCTCAGTT-TTTG
* ** ** *
21619 CTAAAATACTCA-AAAAAAAATATAATTTGACATCAAAAAGATTGAAG-GTTTTTAACGCTTCTA
65 CGAAAATACTCATAAAAAAAATATAATTCAATGTCAAAAAGATTGAAGAGTTTTTCACGCTTCTA
* * *
21682 ATAT-TTCTTTTCCTATTTTTAC--AAATTAATTTCTAATTAAATCAAAACAAGATTCAGATGCT
130 ATATCGT-TTTTCATATTTTT-CTGAAA-TAATTTCTAATTAAATCGAAACAAGATTCAGATGCT
* * * *
21744 CGT-AAAA-AAATCCTTAAATTTAATATTCCTGAGATTT-AGTAAGATGAATATAA-ATATTTCA
192 CGTAAAAACAAATCCTTAAATCTAATGTGCCTGAGATTTGA-TTAGATGAATA-AAGATATTTCA
* * * * *
21805 AGGAGTCTTGACACCAAAAATCAAGCAAAACTGAGCCG-GGCCCTGGAACGCGGTTTTAGTCGAA
255 AGGAGTCTCGGCACCAAAAATCAAGCAAAACAGAGCCGTGGCCCTGGAACGCGGTTTTAGCCAAA
* *
21869 AACTGCGATGG
320 AACCGTGATGG
* * * * * *
21880 TTAGTACATAATTTCAGCTAAAATTTTGCAAAAATTGAACCGAAATATTTTTCCTCGAGTTCTAG
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACATTTTTCCTC-AGTTTTTG
* * ** *
21945 CGAAAATACTCATAAAAAAAATATAATTCAATGTCAAAAGGATTGGAGAACTTTTCACGCTTTTA
65 CGAAAATACTCATAAAAAAAATATAATTCAATGTCAAAAAGATTGAAGAGTTTTTCACGCTTCTA
* * * * *
22010 ATATCGTTTTTCATATTTTTCTGAAATAATTTCTAATTTAATCGAATCAAGATTCAGATTCACAT
130 ATATCGTTTTTCATATTTTTCTGAAATAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGT
* *
22075 AAAAACAAATCCTTAAATCTAATGCGGCTGAGATTTGATTAGATGAATAAAGATATTTCAAGGAG
195 AAAAACAAATCCTTAAATCTAATGTGCCTGAGATTTGATTAGATGAATAAAGATATTTCAAGGAG
** * ** * *
22140 TCTCGGTGCCAAAAATCATGCAAAACAGAGTTGTGGACCTGGAACGCGTTTTTAGCCAAAAACCG
260 TCTCGGCACCAAAAATCAAGCAAAACAGAGCCGTGGCCCTGGAACGCGGTTTTAGCCAAAAACCG
22205 TGATGG
325 TGATGG
* * * ** * *
22211 TTAGTACACGATTTCGGTTAAAATTTTGCAAAAATTGACCAGAAACACATTTGCTCA-TTTTTGG
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACATTTTTCCTCAGTTTTTGC
* * * * *
22275 GTAAAATACTCATTAAAAATATATGATTCGACATG--AAAAAGATTGAAGGGTTTTTAACGCTTC
66 G-AAAATACTCATAAAAAAAATATAATTC-A-ATGTCAAAAAGATTGAAGAGTTTTTCACGCTTC
* * * *
22338 TAATATTGTTTTTCCA-ATTTTT-TCAAATTAATTTCTAATTAAATCGAAAAAAGATTCAGGTGC
128 TAATATCGTTTTT-CATATTTTTCTGAAA-TAATTTCTAATTAAATCGAAACAAGATTCAGATGC
* * * * *
22401 TCGTAAAAACAAATCCTTAAATTTAATGTG-ATCGAGATTTGGTTAGACGAATATAGATATTTCA
191 TCGTAAAAACAAATCCTTAAATCTAATGTGCCT-GAGATTTGATTAGATGAATAAAGATATTTCA
* * * * * *
22465 AGGAGTCTTGGCACCAAAAATCAAGCAAAACTGAGCCG-GTCCCTGTAACGCGGTTCTAGCCGAA
255 AGGAGTCTCGGCACCAAAAATCAAGCAAAACAGAGCCGTGGCCCTGGAACGCGGTTTTAGCCAAA
22529 AACCGTGATGG
320 AACCGTGATGG
* * ** *
22540 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCAAAATATTTTTAATC-GATTTCTA
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACATTTTTCCTCAG-TTT-TT
* * * ** *
22604 GCGAAAATACTCAT--AAAAACTATAATTCAATGTCAAAAGGATTGGAGAACTTTTCACGCTTTT
64 GCGAAAATACTCATAAAAAAAATATAATTCAATGTCAAAAAGATTGAAGAGTTTTTCACGCTTCT
* * * * * * *
22667 AATATCGTTTTTCATATTTTTTCAGAATTAATTTATAATTGAATCAAAACAAGATTCAGATTCAC
129 AATATCGTTTTTCATA-TTTTTCTGAAATAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
* * *
22732 ATAAAAACAAATCCTTAAATCCAATGTGCCTGAGATTTGATTAGATGAATAAAGATATTTCAAGA
193 GTAAAAACAAATCCTTAAATCTAATGTGCCTGAGATTTGATTAGATGAATAAAGATATTTCAAGG
*** * * * *
22797 AGTCTCGGTGTCAAAAATCATGCAAAACAGAGCTGTGGCCCTGGAACGCGTTTTTAACCAAAAAA
258 AGTCTCGGCACCAAAAATCAAGCAAAACAGAGCCGTGGCCCTGGAACGCGGTTTTAGCC-AAAAA
22862 CCGTGATGG
322 CCGTGATGG
* * * ** *
22871 -TAGTACATGATTTCGGCTACAATTTTTCAAAAACTGACCCGAAAGGTTTTTCCTCAATTTTTTG
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACATTTTTCCTC-AGTTTTTG
* * * * *** * * *
22935 CCACAATACTCAGAAAAAATATATAATTCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCTA
65 CGAAAATACTCATAAAAAAAATATAATTCAATGTCAAAAAGATTGAAGAGTTTTTCACGCTTCTA
* *
23000 ATATCGTTTTTCCAT-TTTTT-TAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTC
130 ATATCGTTTTT-CATATTTTTCT-GAAATAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
* * * * * * * * * * * **
23063 GCAAAAATAAATCCTTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTTAGT
193 GTAAAAACAAATCCTTAAATCTAATGTGCCTGAGATTTGATTAGATGAATAAAGATATTTCAAG-
*** * * * * * * * *
23128 G-GTCTTTTTC-CAAAAAATCATA-CGAAACTGAGTCGGGGCCCTGAAACGCGTTTTTAGCCCCA
257 GAGTC-TCGGCACCAAAAATCA-AGCAAAACAGAGCCGTGGCCCTGGAACGCGGTTTTAG-CCAA
**
23190 AAACCGTGACAG
319 AAACCGTGATGG
* ** * * * * *
23202 TTAATACACAATTTCAGC----------CAAAAACTGACCCGAAAAATTTTTTCCTGAAATTTTT
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACA-TTTTTCCT-CAGTTTTT
* * * * ** *** * *
23257 GCCACATTACTCAGAAAAATTATATAATTCAACACCAAAAAGATTGACCG-GCTTTTCACG-TTC
64 GCGAAAATACTCATAAAAAAAATATAATTCAATGTCAAAAAGATTGA-AGAGTTTTTCACGCTTC
* * * * * * * *
23320 TAATACCGTTTTTC-CATTTAT-T----T--TTTCTAATTAAATTGAATCAAAATACAGATACTC
128 TAATATCGTTTTTCATATTTTTCTGAAATAATTTCTAATTAAATCGAAACAAGATTCAGATGCTC
* * ** ** *
23377 GTAAAAAACAAATCCTTATAAAC-AATGCGGTTGAGGGTTGATTAGATGAATATAA-ATATTTTA
193 GT-AAAAACAAATCCTTA-AATCTAATGTGCCTGAGATTTGATTAGATGAATA-AAGATATTTCA
* * * ** * * *
23440 AGGATTCTTC-ACGCCAAAAATCAAGCAAAATTGAGTCGGGGCTCC-GGAACGCGTTTTTAGCCA
255 AGGAGTC-TCGGCACCAAAAATCAAGCAAAACAGAGCCGTGGC-CCTGGAACGCGGTTTTAGCC-
*
23503 AAAAAACAGTGATGG
317 -AAAAACCGTGATGG
* * * * * *
23518 TTAGTACATGATTTCGGCTACAATATTGCAAAAACTGACCCGAAA-AGTTTTCTTCAATTTTTGC
1 TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACATTTTTCCTCAGTTTTTGC
* * *** * * *
23582 -AACAATACTCA-GAAAAATATATAATTCAACACCAAAAATACTGAAG-GTCTTTTTCACGTTTC
66 GAA-AATACTCATAAAAAAAATATAATTCAATGTCAAAAAGATTGAAGAG--TTTTTCACGCTTC
* * *
23644 TAATATCGTTTTTCCAT-TTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGC
128 TAATATCGTTTTT-CATATTTTTCT-GAAATAATTTCTAATTAAATCGAAACAAGATTCAGATGC
* *
23708 TCGCAAAAATAAATCCTTAAATC
191 TCGTAAAAACAAATCCTTAAATC
23731 CATTATGGCT
Statistics
Matches: 1482, Mismatches: 293, Indels: 147
0.77 0.15 0.08
Matches are distributed among these distances:
314 34 0.02
315 84 0.06
316 31 0.02
321 8 0.01
322 62 0.04
323 90 0.06
324 22 0.01
325 6 0.00
326 82 0.06
327 37 0.02
328 106 0.07
329 216 0.15
330 346 0.23
331 245 0.17
332 81 0.05
333 32 0.02
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (330 bp):
TTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCCGAAACATTTTTCCTCAGTTTTTGC
GAAAATACTCATAAAAAAAATATAATTCAATGTCAAAAAGATTGAAGAGTTTTTCACGCTTCTAA
TATCGTTTTTCATATTTTTCTGAAATAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTA
AAAACAAATCCTTAAATCTAATGTGCCTGAGATTTGATTAGATGAATAAAGATATTTCAAGGAGT
CTCGGCACCAAAAATCAAGCAAAACAGAGCCGTGGCCCTGGAACGCGGTTTTAGCCAAAAACCGT
GATGG
Found at i:23107 original size:660 final size:640
Alignment explanation
Indices: 21554--24419 Score: 2558
Period size: 660 Copynumber: 4.5 Consensus size: 640
21544 TGCCACCATA
* * * * * *
21554 TTAGTACACGATTTCGGTTAAAATTTTACAAAAATTGACCCGAAACA-TATTTCCTCAGTTATTT
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAA-AGTTTTTCCTCAATTTTTT
* * * ** * * * *
21618 GCTAAAATACTCA-AAAAAAAATATAATTTGACATCAAAAAGATTGAA-GGTTTTTAACGCTTCT
65 GCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCT
* * * * *
21681 AATAT-TTCTTTTCC-TATTTTTACAAATTAATTTCTAATTAAATCAAAACAAGATTCAGATGCT
130 AATATCGT-TTTTCCATTTTTTTA-GAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCT
* ** * ** * ** *
21744 CG-TAAAA-AAATCCTTAAATTTAATATTCCTGAGATTTAGTAAGATGAATATA-AATATTTCAA
193 CGCAAAAACAAATCCTTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAA-ATTTCAA
* * * * *
21806 G-GAGTC-TTGACACCAAAAATCAAGCAAAACTGAGCCGGGCCCTGGAACGCGGTTTTAG-TCGA
257 GTG-GTCTTTGTC-CAAAAAATCAAGCAAAACTGAGCCGGGCCCTGAAACGCGGTTTTAGCCCCA
* * * * *
21868 AAACTGCGATGGTTAGTACATAATTTCAGCTAAAATTTTGCAAAAATTGAACCG-AAATATTTTT
320 AAACCGTGATAGTTAGTACATAATTTCAGC----------CAAAAACTGACCCGAAAATATTTTT
* * * * *** *
21932 CCTCGAGTTCTAGCGAAAATACTCATAAAAAAAATATAATTCAATGTCAAAAGGATTGGA-GAAC
375 CATCGAATTTTAGCCAAAATACTCAT--AAAAAATATAATTCAACACCAAAAAGATT-GACG-AC
* * * *
21996 TTTTCACGCTTTTAATATCGTTTTTCATATTTTTCTGAAATAATTTCTAATTTAATCGAATCAAG
436 TTTTCACGCTTCTAATATCGTTTTTCATA----T-T----T--TTTCTAATTAAATTGAATCAAA
* * *
22061 ATTCAGATTCACAT-AAAAACAAATCCTTA-AATCTAATGCGGCTGAGATTTGATTAGATGAATA
490 ATTCAGATACACATAAAAAACAAATCCTTATAAAC-AATGCGGCTGAGAGTTGATTAGATGAATA
** * * *
22124 -AAGATATTTCAAGGAGTC-TCGGTGCCAAAAATCATGCAAAACAGAGTTGTGGAC-CTGGAACG
554 TAA-ATATTTCAAGGAGTCTTC-ACGCCAAAAATCATGCAAAACAGAGTCG-GGGCTCCGGAACG
22186 CGTTTTTAGCCAAAAACCGTGATGG
616 CGTTTTTAGCCAAAAACCGTGATGG
* * * ** * *
22211 TTAGTACACGATTTCGGTTAAAATTTTGCAAAAATTGACCAGAAACA-CATTTGCTC-ATTTTTG
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAA-AGTTTTTCCTCAATTTTTT
** * ** * * ** * * *
22274 GGTAAAATACTCATTAAAAATATATGATTCGACATGAAAAAGATTGAAGGGTTTTTAACGCTTCT
65 GCCACAATACTCAGAAAAAATATATAATTCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCT
* * * * *
22339 AATATTGTTTTTCCAATTTTTTCA-AATTAATTTCTAATTAAATCGAAAAAAGATTCAGGTGCTC
130 AATATCGTTTTTCC-ATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTC
* * * * * *
22403 GTAAAAACAAATCCTTAAAT---TTAATGTGATCGAGATTTGGTTAGACGAATATAGATATTTCA
194 GCAAAAACAAATCCTTAAATCCATT-ATG-GCT-TAGATTGGGTTAGATGAATATAGAAATTTCA
* * * * * *
22465 AG-GAGTC-TTGGCACCAAAAATCAAGCAAAACTGAGCCGGTCCCTGTAACGCGGTTCTAG-CCG
256 AGTG-GTCTTTGTC-CAAAAAATCAAGCAAAACTGAGCCGGGCCCTGAAACGCGGTTTTAGCCCC
* * * *
22527 AAAACCGTGATGGTTAGTACATGATTTCGGCTAAAATTTTGCAAAAATTGACCC-AAAATATTTT
319 AAAACCGTGATAGTTAGTACATAATTTCAGC----------CAAAAACTGACCCGAAAATATTTT
* * * *** *
22591 TAATCG-ATTTCTAGCGAAAATACTCATAAAAACTATAATTCAATGTCAAAAGGATTGGA-GAAC
374 TCATCGAATTT-TAGCCAAAATACTCATAAAAAATATAATTCAACACCAAAAAGATT-GACG-AC
*
22654 TTTTCACGCTTTTAATATCGTTTTTCATATTTTTTCAGAATTAATTTATAATTGAATCAAAACAA
436 TTTTCACGCTTCTAATATCGTTTTTCATATTTTTTC-----TAA-TTA-AATTGAATC---A-AA
* * * * *
22719 GATTCAGATTCACAT-AAAAACAAATCCTTA-AATCCAATGTGCCTGAGATTTGATTAGATGAAT
490 -ATTCAGATACACATAAAAAACAAATCCTTATAA-ACAATGCGGCTGAGAGTTGATTAGATGAAT
* ** * *
22782 A-AAGATATTTCAAGAAGTC-TCGGTGTCAAAAATCATGCAAAACAGAG-CTGTGGC-CCTGGAA
553 ATAA-ATATTTCAAGGAGTCTTC-ACGCCAAAAATCATGCAAAACAGAGTC-GGGGCTCC-GGAA
*
22843 CGCGTTTTTAACCAAAAAACCGTGATGG
614 CGCGTTTTTAGCC-AAAAACCGTGATGG
* * * *
22871 -TAGTACATGATTTCGGCTACAATTTTTCAAAAACTGACCCGAAAGGTTTTTCCTCAATTTTTTG
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTG
22935 CCACAATACTCAGAAAAAATATATAATTCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCTA
66 CCACAATACTCAGAAAAAATATATAATTCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCTA
23000 ATATCGTTTTTCCATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGC
131 ATATCGTTTTTCCATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGC
* **
23065 AAAAATAAATCCTTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTTTAGTGG
196 AAAAACAAATCCTTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTCAAGTGG
* * * *
23130 TCTTTTTCCAAAAAATCATA-CGAAACTGAGTCGGGGCCCTGAAACGCGTTTTTAGCCCCAAAAC
261 TCTTTGTCCAAAAAATCA-AGCAAAACTGAG-CCGGGCCCTGAAACGCGGTTTTAGCCCCAAAAC
* * * * *
23194 CGTGACAGTTAATACACAATTTCAGCCAAAAACTGACCCGAAAA-ATTTTTTCCT-GAAATTTTT
324 CGTGATAGTTAGTACATAATTTCAGCCAAAAACTGACCCGAAAATA-TTTTTCATCG-AATTTTA
* * * *
23257 GCCACATTACTCAGAAAAATTATATAATTCAACACCAAAAAGATTGACCGGCTTTTCACG-TTCT
387 GCCAAAATACTCATAAAAA--ATATAATTCAACACCAAAAAGATTGA-CGACTTTTCACGCTTCT
* * * *
23321 AATACCGTTTTTCCATTTATTTTTTCTAATTAAATTGAATCAAAATACAGATACTCGTAAAAAAC
449 AATATCGTTTTT-CA--TATTTTTTCTAATTAAATTGAATCAAAATTCAGATACACATAAAAAAC
* * * *
23386 AAATCCTTATAAACAATGCGGTTGAGGGTTGATTAGATGAATATAAATATTTTAAGGATTCTTCA
511 AAATCCTTATAAACAATGCGGCTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCA
* ** *
23451 CGCCAAAAATCAAGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAAAACAGTGAT
576 CGCCAAAAATCATGCAAAACAGAGTCGGGGCTCCGGAACGCGTTTTTAGCC--AAAAACCGTGAT
23516 GG
639 GG
* * * *
23518 TTAGTACATGATTTCGGCTACAATATTGCAAAAACTGACCCGAAAAG-TTTTCTTCAA-TTTTTG
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTG
* * *
23581 CAACAATACTCAG-AAAAATATATAATTCAACACCAAAAATACTGAAGGTCTTTTTCACGTTTCT
66 CCACAATACTCAGAAAAAATATATAATTCAACACCAAAAATACTGAAGG-GTTTTTCACGCTTCT
23645 AATATCGTTTTTCCATTTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTC
130 AATATCGTTTTTCCA-TTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTC
* * *
23710 GCAAAAATAAATCCTTAAATCCATTATGGCTTAGATTGGGTTAGATAAATATAGAAATTTTAAGT
194 GCAAAAACAAATCCTTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTCAAGT
* * * ** * ** * * *
23775 GGTCTTTTTCCAAAAAACCATGTGAAACTCAATCGGGGCCTCAAACGCGTTTTTAGCCCCAAAAC
259 GGTCTTTGTCCAAAAAATCAAGCAAAACTGAGCCGGGCCCTGAAACGCGGTTTTAGCCCCAAAAC
* * * * *
23840 CGTGATAGTTGGTACAGAATTTCAGCCAAAAACTGACCCGAAAAAAATTTTCAT-GAAATTTTTG
324 CGTGATAGTTAGTACATAATTTCAGCCAAAAACTGACCCGAAAATATTTTTCATCG-AATTTTAG
* * * * *
23904 CCACAATACTCAGAAAACATATAAAATTCAACACCAAAAAAATTGACCGGCTTTTCACGCTTCTA
388 CCAAAATACTCATAAAA-A-ATATAATTCAACACCAAAAAGATTGA-CGACTTTTCACGCTTCTA
* * *
23969 ATA-CAGTTTTGCCAT-TTTTTTCTAATTAAATTGAATCAAAATTCAGATACTCGTAAAAAACAA
450 ATATC-GTTTT-TCATATTTTTTCTAATTAAATTGAATCAAAATTCAGATACACATAAAAAACAA
* * *
24032 ATCCTTATAAACAATGCGGTTGAAAGTTAATTAGATGAATATAAATATTTCAAGGAGTCTTCACG
513 ATCCTTATAAACAATGCGGCTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCACG
**
24097 CCAAAAATCATGCAAAATTGAGTCGGGGCTCCGGAACGCGTTTTTAGCC---AA-----A---
578 CCAAAAATCATGCAAAACAGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGG
24149 --A--A-AC-A-----G--------TTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTG
1 TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTG
* *
24195 CCACAATACTCAAAAAAAATATATAATTCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCTT
66 CCACAATACTCAGAAAAAATATATAATTCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCTA
24260 ATATCGTTTTTCCATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGC
131 ATATCGTTTTTCCATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGC
* *
24325 AAAAACAAATCCTTAAATCCATTATGGCTTAGATTGGGTTAGAAGAATATAGAAATTTTAA-TGG
196 AAAAACAAATCCTTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTCAAGT-G
* * *
24389 GTCTTTTTTCCAAAAAATCATGCGAAACTGA
260 GTC-TTTGTCCAAAAAATCAAGCAAAACTGA
Statistics
Matches: 1942, Mismatches: 195, Indels: 187
0.84 0.08 0.08
Matches are distributed among these distances:
612 23 0.01
613 122 0.06
614 68 0.04
615 35 0.02
620 1 0.00
625 1 0.00
626 1 0.00
627 1 0.00
629 1 0.00
634 1 0.00
639 2 0.00
644 155 0.08
645 46 0.02
646 279 0.14
647 192 0.10
648 43 0.02
649 1 0.00
650 9 0.00
651 3 0.00
652 20 0.01
653 29 0.01
654 29 0.01
655 30 0.02
656 17 0.01
657 92 0.05
658 135 0.07
659 179 0.09
660 368 0.19
661 27 0.01
662 30 0.02
663 2 0.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (640 bp):
TTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTG
CCACAATACTCAGAAAAAATATATAATTCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCTA
ATATCGTTTTTCCATTTTTTTAGAATTAATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGC
AAAAACAAATCCTTAAATCCATTATGGCTTAGATTGGGTTAGATGAATATAGAAATTTCAAGTGG
TCTTTGTCCAAAAAATCAAGCAAAACTGAGCCGGGCCCTGAAACGCGGTTTTAGCCCCAAAACCG
TGATAGTTAGTACATAATTTCAGCCAAAAACTGACCCGAAAATATTTTTCATCGAATTTTAGCCA
AAATACTCATAAAAAATATAATTCAACACCAAAAAGATTGACGACTTTTCACGCTTCTAATATCG
TTTTTCATATTTTTTCTAATTAAATTGAATCAAAATTCAGATACACATAAAAAACAAATCCTTAT
AAACAATGCGGCTGAGAGTTGATTAGATGAATATAAATATTTCAAGGAGTCTTCACGCCAAAAAT
CATGCAAAACAGAGTCGGGGCTCCGGAACGCGTTTTTAGCCAAAAACCGTGATGG
Found at i:23649 original size:646 final size:641
Alignment explanation
Indices: 22771--24419 Score: 2429
Period size: 646 Copynumber: 2.6 Consensus size: 641
22761 CTGAGATTTG
* ** * * ** *
22771 ATTAGATGAATA-AAGATATTTCAAGAAGTC-TCGGTGTCAAAAATCATGCAAAACAGAG-CTGT
1 ATTAGATGAATATAA-ATATTTCAAGGAGTCTTC-ACGCCAAAAATCAAGCAAAATTGAGTC-GG
* *
22833 GGC-CCTGGAACGCGTTTTTAACCAAAAAACCGTGATGGTAGTACATGATTTCGGCTACAATTTT
63 GGCTCC-GGAACGCGTTTTTAGCCAAAAAACAGTGATGGTAGTACATGATTTCGGCTACAA-TTT
* *
22897 TCAAAAACTGACCCGAAAGGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAAATATATAAT
126 GCAAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAG-AAAAATATATAAT
22962 TCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATT
190 TCAACACCAAAAATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATT
23027 AATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGG
255 AATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGG
*
23092 CTTAGATTGGGTTAGATGAATATAGAAATTTTTAGTGGTCTTTTTCCAAAAAATCATACGAAACT
320 CTTAGATTGGGTTAGATGAATATAGAAATTTTTAGTGGTCTTTTTCCAAAAAATCATGCGAAACT
* *
23157 GAGTCGGGGCCCTGAAACGCGTTTTTAGCCCCAAAACCGTGACAGTTAATACACAATTTCAGCCA
385 GAATCGGGG-CCTCAAACGCGTTTTTAGCCCCAAAACCGTGACAGTTAATACACAATTTCAGCCA
** * * *
23222 AAAACTGACCCGAAAAATTTTTTCCTGAAATTTTTGCCACATTACTCAGAAAA-ATTATATAATT
449 AAAACTGACCCGAAAAAAATTTTCATGAAATTTTTGCCACAATACTCAGAAAACA-TATAAAATT
* * *
23286 CAACACCAAAAAGATTGACCGGCTTTTCACG-TTCTAATACCGTTTTTCCATTTATTTTTTCTAA
513 CAACACCAAAAAAATTGACCGGCTTTTCACGCTTCTAATACAGTTTTGCCA--T-TTTTTTCTAA
**
23350 TTAAATTGAATCAAAATACAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAGGGT
575 TTAAATTGAATCAAAATACAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAAAGT
*
23415 TG
640 TA
* *
23417 ATTAGATGAATATAAATATTTTAAGGATTCTTCACGCCAAAAATCAAGCAAAATTGAGTCGGGGC
1 ATTAGATGAATATAAATATTTCAAGGAGTCTTCACGCCAAAAATCAAGCAAAATTGAGTCGGGGC
23482 TCCGGAACGCGTTTTTAGCCAAAAAAACAGTGATGGTTAGTACATGATTTCGGCTACAATATTGC
66 TCCGGAACGCGTTTTTAGCC-AAAAAACAGTGATGG-TAGTACATGATTTCGGCTACAAT-TTGC
* *
23547 AAAAACTGACCCGAAAAG-TTTTCTTCAA-TTTTTGCAACAATACTCAGAAAAATATATAATTCA
128 AAAAACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAATATATAATTCA
* *
23610 ACACCAAAAATACTGAAGGTCTTTTTCACGTTTCTAATATCGTTTTTCCATTTTTTTTAGAATTA
193 ACACCAAAAATACTGAAGG-GTTTTTCACGCTTCTAATATCGTTTTTCCA-TTTTTTTAGAATTA
23675 ATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGC
256 ATTTCTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGC
* * * * *
23740 TTAGATTGGGTTAGATAAATATAGAAATTTTAAGTGGTCTTTTTCCAAAAAACCATGTGAAACTC
321 TTAGATTGGGTTAGATGAATATAGAAATTTTTAGTGGTCTTTTTCCAAAAAATCATGCGAAACTG
* ** *
23805 AATCGGGGCCTCAAACGCGTTTTTAGCCCCAAAACCGTGATAGTTGGTACAGAATTTCAGCCAAA
386 AATCGGGGCCTCAAACGCGTTTTTAGCCCCAAAACCGTGACAGTTAATACACAATTTCAGCCAAA
23870 AACTGACCCGAAAAAAATTTTCATGAAATTTTTGCCACAATACTCAGAAAACATATAAAATTCAA
451 AACTGACCCGAAAAAAATTTTCATGAAATTTTTGCCACAATACTCAGAAAACATATAAAATTCAA
23935 CACCAAAAAAATTGACCGGCTTTTCACGCTTCTAATACAGTTTTGCCATTTTTTTCTAATTAAAT
516 CACCAAAAAAATTGACCGGCTTTTCACGCTTCTAATACAGTTTTGCCATTTTTTTCTAATTAAAT
*
24000 TGAATCAAAATTCAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAAAGTTA
581 TGAATCAAAATACAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAAAGTTA
*
24061 ATTAGATGAATATAAATATTTCAAGGAGTCTTCACGCCAAAAATCATGCAAAATTGAGTCGGGGC
1 ATTAGATGAATATAAATATTTCAAGGAGTCTTCACGCCAAAAATCAAGCAAAATTGAGTCGGGGC
24126 TCCGGAACGCGTTTTTAGCC----AA-A---A----A--AC---A-----G-------TTGCAAA
66 TCCGGAACGCGTTTTTAGCCAAAAAACAGTGATGGTAGTACATGATTTCGGCTACAATTTGCAAA
*
24162 AACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAAAAAAAATATATAATTCAAC
131 AACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTC-AGAAAAATATATAATTCAAC
*
24227 ACCAAAAATACTGAAGGGTTTTTCACGCTTCTTATATCGTTTTTCCATTTTTTTAGAATTAATTT
195 ACCAAAAATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTT
*
24292 CTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAACAAATCCTTAAATCCATTATGGCTTAG
260 CTAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGCTTAG
* *
24357 ATTGGGTTAGAAGAATATAGAAA-TTTTAATGGGTCTTTTTTCCAAAAAATCATGCGAAACTGA
325 ATTGGGTTAGATGAATATAGAAATTTTTAGT-GGTC-TTTTTCCAAAAAATCATGCGAAACTGA
Statistics
Matches: 928, Mismatches: 59, Indels: 64
0.88 0.06 0.06
Matches are distributed among these distances:
612 27 0.03
613 116 0.12
614 67 0.07
615 36 0.04
620 1 0.00
625 1 0.00
628 2 0.00
630 1 0.00
635 1 0.00
638 1 0.00
639 2 0.00
644 155 0.17
645 36 0.04
646 246 0.27
647 194 0.21
648 42 0.05
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (641 bp):
ATTAGATGAATATAAATATTTCAAGGAGTCTTCACGCCAAAAATCAAGCAAAATTGAGTCGGGGC
TCCGGAACGCGTTTTTAGCCAAAAAACAGTGATGGTAGTACATGATTTCGGCTACAATTTGCAAA
AACTGACCCGAAAAGTTTTTCCTCAATTTTTTGCCACAATACTCAGAAAAATATATAATTCAACA
CCAAAAATACTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCCATTTTTTTAGAATTAATTTC
TAATTAAATCGAAACAAGATTTAGATGCTCGCAAAAATAAATCCTTAAATCCATTATGGCTTAGA
TTGGGTTAGATGAATATAGAAATTTTTAGTGGTCTTTTTCCAAAAAATCATGCGAAACTGAATCG
GGGCCTCAAACGCGTTTTTAGCCCCAAAACCGTGACAGTTAATACACAATTTCAGCCAAAAACTG
ACCCGAAAAAAATTTTCATGAAATTTTTGCCACAATACTCAGAAAACATATAAAATTCAACACCA
AAAAAATTGACCGGCTTTTCACGCTTCTAATACAGTTTTGCCATTTTTTTCTAATTAAATTGAAT
CAAAATACAGATACTCGTAAAAAACAAATCCTTATAAACAATGCGGTTGAAAGTTA
Done.