Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168327.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_550, 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: 23206
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Found at i:58 original size:41 final size:41
Alignment explanation
Indices: 1--441 Score: 730
Period size: 41 Copynumber: 10.8 Consensus size: 41
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
42 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
83 TCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 T-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
125 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
166 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
207 TCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTT
1 TCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
* *
247 TCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
*
288 TCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTT
1 T-CAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
*
330 TCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTT
1 TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
*
371 CCAAAGTCCGT--TGCCTCTGTTTAGAGGAGCAATTTAC-TT
1 TCAAAGT-CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
* * *
410 TCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 TC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
442 TTCGGCCAAA
Statistics
Matches: 381, Mismatches: 10, Indels: 18
0.93 0.02 0.04
Matches are distributed among these distances:
39 10 0.03
40 65 0.17
41 218 0.57
42 88 0.23
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
Found at i:475 original size:17 final size:17
Alignment explanation
Indices: 448--565 Score: 87
Period size: 18 Copynumber: 6.6 Consensus size: 17
438 GAGCTTCGGC
448 CAAAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAAAA
465 -AAAAAACAAAAACAAAAA
1 CAAAAAA-AAAAA-AAAAA
* *
483 CAAAAAAATCAAAAAAAT
1 CAAAAAAA-AAAAAAAAA
** *
501 CAAAAAATCAAAAAAAT
1 CAAAAAAAAAAAAAAAA
518 CAAAAAATCAAAAAAATAAA
1 CAAAAAA--AAAAAAA-AAA
* *
538 -AACAAAAATAAAAAAAT
1 CAA-AAAAAAAAAAAAAA
555 CAAAAATAAAA
1 CAAAAA-AAAA
566 TGTTGAGTTG
Statistics
Matches: 82, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
16 6 0.07
17 26 0.32
18 28 0.34
19 16 0.20
20 6 0.07
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.08
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAA
Found at i:554 original size:8 final size:8
Alignment explanation
Indices: 449--539 Score: 82
Period size: 8 Copynumber: 11.5 Consensus size: 8
439 AGCTTCGGCC
449 AAAAAA-A
1 AAAAAATA
456 AAAAAA-A
1 AAAAAATA
463 AAAAAA-A
1 AAAAAATA
*
470 ACAAAA-A
1 AAAAAATA
* *
477 CAAAAACA
1 AAAAAATA
485 AAAAAATCA
1 AAAAAAT-A
*
494 AAAAAATC
1 AAAAAATA
502 AAAAAATCA
1 AAAAAAT-A
*
511 AAAAAATC
1 AAAAAATA
519 AAAAAATCA
1 AAAAAAT-A
528 AAAAAATA
1 AAAAAATA
536 AAAA
1 AAAA
540 CAAAAATAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
7 24 0.34
8 25 0.35
9 22 0.31
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.07
Consensus pattern (8 bp):
AAAAAATA
Found at i:559 original size:8 final size:8
Alignment explanation
Indices: 485--560 Score: 88
Period size: 8 Copynumber: 9.6 Consensus size: 8
475 AACAAAAACA
485 AAAAAATC
1 AAAAAATC
493 AAAAAAATC
1 -AAAAAATC
502 AAAAAATC
1 AAAAAATC
510 AAAAAAATC
1 -AAAAAATC
519 AAAAAATC
1 AAAAAATC
527 AAAAAA--
1 AAAAAATC
533 ATAAAAA-C
1 A-AAAAATC
*
541 -AAAAATA
1 AAAAAATC
548 AAAAAATC
1 AAAAAATC
556 AAAAA
1 AAAAA
561 TAAAATGTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
6 6 0.10
7 5 0.08
8 33 0.55
9 16 0.27
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:559 original size:9 final size:9
Alignment explanation
Indices: 478--560 Score: 102
Period size: 9 Copynumber: 9.3 Consensus size: 9
468 AAACAAAAAC
478 AAAAA-CAA
1 AAAAATCAA
486 AAAAATCAA
1 AAAAATCAA
495 AAAAATC-A
1 AAAAATCAA
503 AAAAATCAA
1 AAAAATCAA
512 AAAAATC-A
1 AAAAATCAA
520 AAAAATCAA
1 AAAAATCAA
*
529 AAAAATAAAAA
1 AAAAAT--CAA
540 CAAAAAT-AA
1 -AAAAATCAA
549 AAAAATCAA
1 AAAAATCAA
558 AAA
1 AAA
561 TAAAATGTTG
Statistics
Matches: 67, Mismatches: 1, Indels: 13
0.83 0.01 0.16
Matches are distributed among these distances:
8 27 0.40
9 32 0.48
11 2 0.03
12 6 0.09
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAATCAA
Found at i:560 original size:1 final size:1
Alignment explanation
Indices: 449--553 Score: 66
Period size: 1 Copynumber: 105.0 Consensus size: 1
439 AGCTTCGGCC
* * * ** ** **
449 AAAAAAAAAAAAAAAAAAAAAACAAAAACAAAAACAAAAAAATCAAAAAAATCAAAAAATCAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** ** * * *
514 AAATCAAAAAATCAAAAAAATAAAAACAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
554 TCAAAAATAA
Statistics
Matches: 77, Mismatches: 27, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:784 original size:37 final size:37
Alignment explanation
Indices: 743--846 Score: 97
Period size: 37 Copynumber: 2.8 Consensus size: 37
733 TCTTCTTTTG
*
743 TATTTTATGTATTTTATTATTATTA-TTATTATGTATA
1 TATTTTATATATTTTATTATTATTATTTA-TATGTATA
* * *
780 TATTTAATTTATTTTTTTATTAGATTAGATTTATATGTATA
1 TATTTTATATATTTTATTATT--ATT--ATTTATATGTATA
*
821 TA-GTTATATA-TTTATTATTATTATTT
1 TATTTTATATATTTTATTATTATTATTT
847 TTTTTTTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
35 4 0.07
37 21 0.38
39 11 0.20
40 5 0.09
41 11 0.20
42 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (37 bp):
TATTTTATATATTTTATTATTATTATTTATATGTATA
Found at i:1381 original size:31 final size:30
Alignment explanation
Indices: 1313--1385 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
1303 GAATTTCAGA
*
1313 TTCCGGCGAAAATTCCGACGACTTTTGAAT
1 TTCCGGCGACAATTCCGACGACTTTTGAAT
*
1343 TTTCGGCGACAATTCCTG-CGAAC-TTTGAAGT
1 TTCCGGCGACAATTCC-GACG-ACTTTTGAA-T
1374 TTCCGGCGACAA
1 TTCCGGCGACAA
1386 GACCCAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 22 0.59
31 15 0.41
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (30 bp):
TTCCGGCGACAATTCCGACGACTTTTGAAT
Found at i:1476 original size:19 final size:19
Alignment explanation
Indices: 1452--1489 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1442 AATTTCCGGC
*
1452 GAAATTCCCAGATTTCGGT
1 GAAATTCCCAGAATTCGGT
*
1471 GAAATTTCCAGAATTCGGT
1 GAAATTCCCAGAATTCGGT
1490 ACCGGCGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (19 bp):
GAAATTCCCAGAATTCGGT
Found at i:1707 original size:5 final size:5
Alignment explanation
Indices: 1697--1734 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
1687 TTCAGCCCCT
*
1697 CCGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
1735 CGATCCGAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 1 0.03
5 27 0.93
6 1 0.03
ACGTcount: A:0.21, C:0.45, G:0.34, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:1776 original size:9 final size:9
Alignment explanation
Indices: 1776--1808 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
1766 TTTTGAATTT
1776 TTTTTTGAA
1 TTTTTTGAA
1785 TTTTTTGAA
1 TTTTTTGAA
1794 TTTTTTGAA
1 TTTTTTGAA
1803 TTTTTT
1 TTTTTT
1809 TTTATTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (9 bp):
TTTTTTGAA
Found at i:1811 original size:12 final size:12
Alignment explanation
Indices: 1761--1790 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1751 AGGTTTTTTT
1761 TTTTTTTTTGAA
1 TTTTTTTTTGAA
1773 TTTTTTTTTGAA
1 TTTTTTTTTGAA
1785 TTTTTT
1 TTTTTT
1791 GAATTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:2265 original size:156 final size:157
Alignment explanation
Indices: 1844--2308 Score: 781
Period size: 156 Copynumber: 2.9 Consensus size: 157
1834 GATTTTTTTC
* *
1844 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
*
1909 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTT
* *
1974 CGATAATTAATTACTTGGCTGATTTTGA
130 CGATAATTAATTACTTGGTTGATCTTGA
2002 TTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
1 ---TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCAT
2067 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
63 ACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATT
*
2132 TTCGATAATTAATTAATTGGTTGATCTTGA
128 TTCGATAATTAATTACTTGGTTGATCTTGA
*
2162 -TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
* *
2226 CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAA-AAGTTTC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
*
2290 TAATAATTAATTACTTGGT
131 -GATAATTAATTACTTGGT
2309 AAAATTTTAA
Statistics
Matches: 292, Mismatches: 11, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
155 6 0.02
156 135 0.46
160 112 0.38
161 39 0.13
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (157 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
GATAATTAATTACTTGGTTGATCTTGA
Found at i:4956 original size:29 final size:29
Alignment explanation
Indices: 4905--4961 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
4895 TTTTACGAAT
* *
4905 CAAATATAAAAGTCTTATATTCTGTAAAC
1 CAAACATAAAAGTCTTACATTCTGTAAAC
* * *
4934 CAAACATAAAATTCTTACCTTCTTTAAA
1 CAAACATAAAAGTCTTACATTCTGTAAA
4962 GTCAACAGGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.35
Consensus pattern (29 bp):
CAAACATAAAAGTCTTACATTCTGTAAAC
Found at i:6593 original size:23 final size:23
Alignment explanation
Indices: 6561--6707 Score: 108
Period size: 23 Copynumber: 6.3 Consensus size: 23
6551 TTTACTTATA
*
6561 AATA-ATATTATATTAATA-AAT
1 AATATATAATATATTAATATAAT
* *
6582 AATATACAAT-TAATATAATATATT
1 AATATATAATAT-AT-TAATATAAT
* *
6606 AATAAATAATATATTAATATATT
1 AATATATAATATATTAATATAAT
*
6629 AATAAATAACATACTATTAATATAAT
1 AATATAT-A-ATA-TATTAATATAAT
*
6655 -ATATTATTAAATATTTTAATA-AAT
1 AATA-TA-T-AATATATTAATATAAT
6679 AATATTATAATATATTAATA-AAT
1 AATA-TATAATATATTAATATAAT
6702 AATATA
1 AATATA
6708 GAGAATAAGA
Statistics
Matches: 106, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
21 5 0.05
22 7 0.07
23 39 0.37
24 17 0.16
25 20 0.19
26 15 0.14
27 3 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AATATATAATATATTAATATAAT
Found at i:6677 original size:12 final size:12
Alignment explanation
Indices: 6590--6702 Score: 88
Period size: 12 Copynumber: 8.9 Consensus size: 12
6580 ATAATATACA
6590 ATTAATATAATAT
1 ATTAATA-AATAT
6603 ATTAATAAATA-
1 ATTAATAAATAT
*
6614 ATATATTAATATATT
1 AT-TAATAA-ATA-T
*
6629 AATAAATAACATACT
1 -ATTAATAA-ATA-T
6644 ATTAATATAATAT
1 ATTAATA-AATAT
*
6657 ATTATTAAATAT
1 ATTAATAAATAT
*
6669 TTTAATAAATAAT
1 ATTAATAAAT-AT
6682 ATT-AT-AATAT
1 ATTAATAAATAT
6692 ATTAATAAATA
1 ATTAATAAATA
6703 ATATAGAGAA
Statistics
Matches: 81, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
10 5 0.06
11 7 0.09
12 28 0.35
13 21 0.26
14 9 0.11
15 9 0.11
16 2 0.02
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTAATAAATAT
Found at i:6715 original size:35 final size:35
Alignment explanation
Indices: 6605--6707 Score: 108
Period size: 35 Copynumber: 3.1 Consensus size: 35
6595 TATAATATAT
*
6605 TAATAAATAATA-TATTAATATATTAATAAATAACA
1 TAATAAATAATATTA-TAATATATTAATAAATAATA
* * * * *
6640 TACT--AT--TAATATAATATATTATTAAATATTT
1 TAATAAATAATATTATAATATATTAATAAATAATA
6671 TAATAAATAATATTATAATATATTAATAAATAATA
1 TAATAAATAATATTATAATATATTAATAAATAATA
6706 TA
1 TA
6708 GAGAATAAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
31 21 0.40
32 2 0.04
33 4 0.08
35 26 0.49
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (35 bp):
TAATAAATAATATTATAATATATTAATAAATAATA
Found at i:6848 original size:27 final size:27
Alignment explanation
Indices: 6802--6869 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
6792 TTTTTTAAAG
*
6802 TTAATA-ATTTT-ATTAATAAATAA-T
1 TTAATATATTTTAATAAATAAATAACT
6826 TTAAATATATTTTAATAAATAAATAACT
1 TT-AATATATTTTAATAAATAAATAACT
*
6854 TTGA-ATATTTTAATAA
1 TTAATATATTTTAATAA
6870 TTATATTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 2 0.05
25 4 0.11
26 17 0.45
27 12 0.32
28 3 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
TTAATATATTTTAATAAATAAATAACT
Found at i:9247 original size:162 final size:160
Alignment explanation
Indices: 9050--9670 Score: 642
Period size: 163 Copynumber: 3.8 Consensus size: 160
9040 CATTTTGGCC
* * * *
9050 TTTCACACATATCAA-TCATGAAAACTAAATTCAATCATTTGAATAAGTTTAATATCATGTATTA
1 TTTCACATATATCAACT-ATGAAAACCAAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTA
* * * * *
9114 AAGCTATCCAAACTATTAAAATATGGCGAATAATAGCAACTTTGTATTTTTTCCTTTAAATAGCA
65 AAGCTATCCAAACTATTAAAATA-GAC-AATAATAGCAAATTTGTATTTTTACCTTTTAATGGCA
* *
9179 AAAAAAGTCATAAACAAAGGTAAACAACAACTT
128 AAAAAAGTCATAAACAGAGGTAAATAACAACTT
* * * *
9212 TGTCACATTTATCAATTATGAAAACCAAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTGA
1 TTTCACATATATCAACTATGAAAACCAAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTAA
** * * * *
9277 AGCTATCCAAACTGCTAAAACAAAACAATAACT-GTAAATATGTATTTTTACCTTTTAATGGCCC
66 AGCTATCCAAACTATTAAAA-TAGACAATAA-TAGCAAATTTGTATTTTTACCTTTTAATGG--C
* * *
9341 GAAAAAA-TCCTAAACAGAGGTAAATACCAACTTT
127 AAAAAAAGTCATAAACAGAGGTAAATAACAAC-TT
* ** * *
9375 TTTCACATATATCAACTATGAAAACTAAGTTCAATCATTCAAAAAAGTTTAATATTATGTATTGA
1 TTTCACATATATCAACTATGAAAACCAAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTAA
* * * * * *
9440 AGCCATCCAAACTGTTAAAATAGAATAATAATAGCAAATTTGTATTTTTACATTTTAACGGTAAA
66 AGCTATCCAAACTATTAAAATAG-ACAATAATAGCAAATTTGTATTTTTACCTTTTAATGGCAAA
* * * * * *
9505 AATAGTCATAAATAGATGTAAATGATAATTT
130 AAAAGTCATAAACAGAGGTAAATAACAACTT
* * * *
9536 TTTCACATATATCAACTGTGAAAATCAAGTTCAATCATTT-AGACAAGTTTAATATTATGTATTA
1 TTTCACATATATCAACTATGAAAACCAAGTTCAATCATTTGA-AAAAGTTTAATATCATGTATTA
* * * *
9600 GAGCTATCCAAACTATTAAAATA-A-AATAATAACAGTAATTTGTATTATTACCTATTAATGGCA
65 AAGCTATCCAAACTATTAAAATAGACAATAATAGCA--AATTTGTATTTTTACCTTTTAATGGCA
*
9663 TAAAAAGT
128 AAAAAAGT
9671 TCTAACTTTG
Statistics
Matches: 381, Mismatches: 66, Indels: 26
0.81 0.14 0.05
Matches are distributed among these distances:
158 9 0.02
159 1 0.00
160 29 0.08
161 110 0.29
162 115 0.30
163 117 0.31
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (160 bp):
TTTCACATATATCAACTATGAAAACCAAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTAA
AGCTATCCAAACTATTAAAATAGACAATAATAGCAAATTTGTATTTTTACCTTTTAATGGCAAAA
AAAGTCATAAACAGAGGTAAATAACAACTT
Found at i:9592 original size:161 final size:158
Alignment explanation
Indices: 9050--9814 Score: 651
Period size: 161 Copynumber: 4.8 Consensus size: 158
9040 CATTTTGGCC
* * * *
9050 TTTCACACATATCAA-TCATGAAAACTAAATTCAATCATTTGAATAAGTTTAATATCATGTATTA
1 TTTCACATATATCAACT-ATGAAAAC-AAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTG
**** * * * *
9114 AAGCTATCCAAACTATTAAAATATGGCGAATAATAGCAACTTTGTATTTTTTCCTTTAAATAGCA
64 AAGCTATCCAAACTATTAAAATA-AAATAATAATAGCAAATTTGTATTTTTACCTTTTAATGGC-
* * *
9179 AAAAAAGTCATAAACAAAGGTAAACAACAACTT
127 AAAAAAGTCATAAACAGAGGTAAA-TACAATTT
* * *
9212 TGTCACATTTATCAATTATGAAAACCAAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTGA
1 TTTCACATATATCAACTATGAAAA-CAAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTGA
** * * * *
9277 AGCTATCCAAACTGCTAAAACAAAACAATAACT-GTAAATATGTATTTTTACCTTTTAATGGCCC
65 AGCTATCCAAACTATTAAAATAAAATAATAA-TAGCAAATTTGTATTTTTACCTTTTAATGG--C
*
9341 GAAAAAA-TCCTAAACAGAGGTAAATACCAACTTT
127 -AAAAAAGTCATAAACAGAGGTAAATA-CAA-TTT
** *
9375 TTTCACATATATCAACTATGAAAACTAAGTTCAATCATTCAAAAAAGTTTAATATTATGTATTGA
1 TTTCACATATATCAACTATGAAAAC-AAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTGA
* * * * * *
9440 AGCCATCCAAACTGTTAAAATAGAATAATAATAGCAAATTTGTATTTTTACATTTTAACGGTAAA
65 AGCTATCCAAACTATTAAAATAAAATAATAATAGCAAATTTGTATTTTTACCTTTTAATGGCAAA
* * *
9505 AATAGTCATAAATAGATGTAAATGATAATTT
130 AA-AGTCATAAACAGAGGTAAAT-ACAATTT
* * *
9536 TTTCACATATATCAACTGTGAAAATCAAGTTCAATCATTT-AGACAAGTTTAATATTATGTATT-
1 TTTCACATATATCAACTATGAAAA-CAAGTTCAATCATTTGA-AAAAGTTTAATATCATGTATTG
* * * *
9599 AGAGCTATCCAAACTATTAAAATAAAATAATAACAG-TAATTTGTATTATTACCTATTAATGGCA
64 A-AGCTATCCAAACTATTAAAATAAAATAATAATAGCAAATTTGTATTTTTACCTTTTAATGGCA
9663 TAAAAAGT--T---C-----T--A-AC---TT
128 -AAAAAGTCATAAACAGAGGTAAATACAATTT
* ** * * *
9679 TGTC-CTATATATCAACCGTGAAAACAAAGTTCAATAATTTGGATAAGTTTAATATCATGTATTG
1 TTTCAC-ATATATCAACTATGAAAAC-AAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTG
* * * * * *
9743 AAACTATCAAAACTATTAAAATAAAATAACAACTA-TAAATTTGTATTTTTACCTTGTAAAGGCA
64 AAGCTATCCAAACTATTAAAATAAAATAATAA-TAGCAAATTTGTATTTTTACCTTTTAATGGCA
9807 TAAAAAGT
128 -AAAAAGT
9815 TGTAAACAAA
Statistics
Matches: 507, Mismatches: 74, Indels: 62
0.79 0.12 0.10
Matches are distributed among these distances:
142 2 0.00
143 82 0.16
144 33 0.07
146 1 0.00
148 1 0.00
150 1 0.00
158 1 0.00
160 32 0.06
161 122 0.24
162 113 0.22
163 119 0.23
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (158 bp):
TTTCACATATATCAACTATGAAAACAAGTTCAATCATTTGAAAAAGTTTAATATCATGTATTGAA
GCTATCCAAACTATTAAAATAAAATAATAATAGCAAATTTGTATTTTTACCTTTTAATGGCAAAA
AAGTCATAAACAGAGGTAAATACAATTT
Found at i:9607 original size:324 final size:324
Alignment explanation
Indices: 9050--9661 Score: 782
Period size: 324 Copynumber: 1.9 Consensus size: 324
9040 CATTTTGGCC
** *
9050 TTTCACACATATCAATCATGAAAACTAAATTCAATCATTTGAATAAGTTTAATATCATGTATTAA
1 TTTCACACATATCAATCATGAAAACTAAATTCAATCATTCAAAAAAGTTTAATATCATGTATTAA
* ** * * * *
9115 AGCTATCCAAACTATTAAAATATGGCGAATAATAGCAACTTTGTATTTTTTCCTTTAAATAGCAA
66 AGCCATCCAAACTATTAAAATATGAAGAATAATAGCAAATTTGTATTTTTACATTTAAACAGCAA
* *
9180 AAAAAGTCATAAACAAAGGTAAACAACAACTTTGTCACATTTATCAATTATGAAAACCAAGTTCA
131 AAAAAGTCATAAACAAAGGTAAACAACAACTTTGTCACATATATCAACTATGAAAACCAAGTTCA
* *
9245 ATCATTTGAAAAAGTTTAATATCATGTATTGAAGCTATCCAAACTGCTAAAACAAAACAATAACT
196 ATCATTTGAAAAAGTTTAATATCATGTATTGAAGCTATCCAAACTACTAAAACAAAACAATAACA
* *
9310 GTAAATATGTATTTTTACCTTTTAATGGCCCGAAAAAATCCTAAACAGAGGTAAATACCAACTTT
261 GT-AATATGTATTATTACCTATTAATGGCCCGAAAAAATCCTAAACAGAGGTAAATACCAACTTT
* * * *
9375 TTTCACATATATCAA-CTATGAAAACTAAGTTCAATCATTCAAAAAAGTTTAATATTATGTATTG
1 TTTCACACATATCAATC-ATGAAAACTAAATTCAATCATTCAAAAAAGTTTAATATCATGTATTA
* * * * *
9439 AAGCCATCCAAACTGTTAAAATA-GAATAATAATAGCAAATTTGTATTTTTACATTTTAACGGTA
65 AAGCCATCCAAACTATTAAAATATGAAGAATAATAGCAAATTTGTATTTTTACATTTAAACAGCA
* * * * ** * * * * *
9503 AAAATAGTCATAAATAGATGTAAATGATAATTTTTTCACATATATCAACTGTGAAAATCAAGTTC
130 AAAAAAGTCATAAACAAAGGTAAACAACAACTTTGTCACATATATCAACTATGAAAACCAAGTTC
* * * * *
9568 AATCATTT-AGACAAGTTTAATATTATGTATT-AGAGCTATCCAAACTATTAAAATAAAATAATA
195 AATCATTTGA-AAAAGTTTAATATCATGTATTGA-AGCTATCCAAACTACTAAAACAAAACAATA
*
9631 ACAGTAATTTGTATTATTACCTATTAATGGC
258 ACAGTAATATGTATTATTACCTATTAATGGC
9662 ATAAAAAGTT
Statistics
Matches: 242, Mismatches: 42, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
323 25 0.10
324 141 0.58
325 76 0.31
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.34
Consensus pattern (324 bp):
TTTCACACATATCAATCATGAAAACTAAATTCAATCATTCAAAAAAGTTTAATATCATGTATTAA
AGCCATCCAAACTATTAAAATATGAAGAATAATAGCAAATTTGTATTTTTACATTTAAACAGCAA
AAAAAGTCATAAACAAAGGTAAACAACAACTTTGTCACATATATCAACTATGAAAACCAAGTTCA
ATCATTTGAAAAAGTTTAATATCATGTATTGAAGCTATCCAAACTACTAAAACAAAACAATAACA
GTAATATGTATTATTACCTATTAATGGCCCGAAAAAATCCTAAACAGAGGTAAATACCAACTTT
Found at i:11009 original size:13 final size:13
Alignment explanation
Indices: 10973--11010 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
10963 TATAAAAGCG
*
10973 CATATATAAAAAA
1 CATATATAAAGAA
*
10986 CATATGTAAAGAA
1 CATATATAAAGAA
10999 CATATATAAAGA
1 CATATATAAAGA
11011 CATTAAGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
CATATATAAAGAA
Found at i:15053 original size:39 final size:39
Alignment explanation
Indices: 14994--15073 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
14984 ATATAAATAA
14994 ATTACATGAAAATGAACATGTCAAATACTTAATTATACT
1 ATTACATGAAAATGAACATGTCAAATACTTAATTATACT
*
15033 ATTATATGAAAATGAACATGTCAAATACTTAATTATACT
1 ATTACATGAAAATGAACATGTCAAATACTTAATTATACT
15072 AT
1 AT
15074 GTATTAAACC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (39 bp):
ATTACATGAAAATGAACATGTCAAATACTTAATTATACT
Found at i:15894 original size:62 final size:62
Alignment explanation
Indices: 15725--16528 Score: 350
Period size: 62 Copynumber: 12.9 Consensus size: 62
15715 TTATTTAATG
* ** *
15725 AAAAATGCATTCAATAATC-CCATCTAATTTTTTAAAA-AATATTATTGAAAATATTTTT-TTA
1 AAAAATGCCTTCAATAATCTCC-TCTAATTTTTTAAAAGAA-ATTATTGAAGGTATTTTTGATA
* * * * * * * * * * *
15786 CAGAAAAAGCCTTCAATAATC-CTTTTAAATTTTGATGAGGAGATTATTAAATGTATTTTTGATT
1 -A-AAAATGCCTTCAATAATCTCCTCTAATTTTTTA-AAAGAAATTATTGAAGGTATTTTTGATA
* *
15850 AAAAATGCCATT-AATAATCTCCTCTAATTTTTTAAAAGAAATTATTAAAGGTATTTTTTGCAGA
1 AAAAATGCC-TTCAATAATCTCCTCTAATTTTTTAAAAGAAATTATTGAAGGTA-TTTTTG-ATA
* * * *
15914 AAACA--CATTCAATAATCTCCT-TCAAATTTTTAAAAGAAATTATTGAATGTGTTTTTTTTG-T
1 AAAAATGCCTTCAATAATCTCCTCT-AATTTTTTAAAAGAAATTATTGAA-G-G-TATTTTTGAT
15975 A
62 A
* * * * *
15976 AAAAATGTCTTCAATAATTCTCTTC-AATTTTTT-AAAGAAAAATATTCAATGTGTTTTTTTTG-
1 AAAAATGCCTTCAATAA-TCTCCTCTAATTTTTTAAAAG-AAATTATTGAA-G-G-TATTTTTGA
*
16038 CA
61 TA
** * * * *
16040 GCAAATGCCTTTAATAAT-TCTTTTAAATTTTTT-AAAGAAAATTATTGAAGGTATTTTTTTGGT
1 AAAAATGCCTTCAATAATCTCCTCT-AATTTTTTAAAAG-AAATTATTGAAGGTA--TTTTTGAT
16103 A
62 A
* * * * * * * *
16104 AAAAATGACTTCAATAA--TCCTCTAAAATTTTGACGAGGAGATTATTAAAAGTATTTTTGACT-
1 AAAAATGCCTTCAATAATCTCCTCT-AATTTTTTA-AAAGAAATTATTGAAGGTATTTTTGA-TA
* * * * * *
16166 AAAAATACATTTAATAATATCCT-TCAATTTTTTAAAAAAAAATTATTGAAGGCATTTTTCTGCA
1 AAAAATGCCTTCAATAATCTCCTCT-AATTTTTT-AAAAGAAATTATTGAAGGTA-TTTT-TG-A
*
16230 AA
61 TA
* * * * * * *
16232 AAAAAAGCCTTCAATATTTTTCTCTAATTTTTT-AAAGAAAATTATTAAAGGTATTTTTTACA
1 AAAAATGCCTTCAATAATCTCCTCTAATTTTTTAAAAG-AAATTATTGAAGGTATTTTTGATA
* * * * * * * *
16294 AAAAATACCTTCAATAATCCCCT-TAAATTTTGATGAGGATATTATTGAAGGCATTTTT-AGTA
1 AAAAATGCCTTCAATAATCTCCTCTAATTTTTTA-AAAGAAATTATTGAAGGTATTTTTGA-TA
** *
16356 AAAAATGTATTCAATAATCTCCTCTAATTTTTT-AAAGAAAATTATTGAAGGTATTTTATGCGTA
1 AAAAATGCCTTCAATAATCTCCTCTAATTTTTTAAAAG-AAATTATTGAAGGTATTTT-TG-ATA
* * * *
16420 AAACA--CCTTCAATAATCTCCT-T-A------AATAG--ATTATTGAAAGTATTTTT-TTA
1 AAAAATGCCTTCAATAATCTCCTCTAATTTTTTAAAAGAAATTATTGAAGGTATTTTTGATA
* *
16469 CTAAAAATGCC-TCTAATAATC-CCTTTTAATTTTTTAAAAGAAATTATTGAAGATATTTTT
1 --AAAAATGCCTTC-AATAATCTCC-TCTAATTTTTTAAAAGAAATTATTGAAGGTATTTTT
16529 AATTTTTTTT
Statistics
Matches: 558, Mismatches: 124, Indels: 119
0.70 0.15 0.15
Matches are distributed among these distances:
49 2 0.00
51 5 0.01
52 20 0.04
53 10 0.02
54 1 0.00
55 4 0.01
60 1 0.00
61 19 0.03
62 189 0.34
63 123 0.22
64 135 0.24
65 23 0.04
66 25 0.04
67 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (62 bp):
AAAAATGCCTTCAATAATCTCCTCTAATTTTTTAAAAGAAATTATTGAAGGTATTTTTGATA
Found at i:16008 original size:64 final size:64
Alignment explanation
Indices: 15862--16404 Score: 270
Period size: 64 Copynumber: 8.6 Consensus size: 64
15852 AAATGCCATT
* * * * *
15862 AATAA-TCTCCTCTAATTTTTTAAA-AGAAATTATT-AAAG-GTATTTTTTGCAGAAAA-CACAT
1 AATAATTCTCTTC-AATTTTTTAAAGA-AAATTATTGAATGTGTTTTTTTTGCAAAAAATGAC-T
15922 TC
63 TC
* * *
15924 AATAA-TCTCCTTCAAATTTTTAAA-AGAAATTATTGAATGTGTTTTTTTTGTAAAAAATGTCTT
1 AATAATTCT-CTTCAATTTTTTAAAGA-AAATTATTGAATGTGTTTTTTTTGCAAAAAATGACTT
15987 C
64 C
* * ** * *
15988 AATAATTCTCTTCAATTTTTTAAAGAAAAATATTCAATGTGTTTTTTTTGCAGCAAATGCCTTT
1 AATAATTCTCTTCAATTTTTTAAAGAAAATTATTGAATGTGTTTTTTTTGCAAAAAATGACTTC
* * * * * *
16052 AATAATTCTTTTAAATTTTTTAAAGAAAATTATTGAAGGTATTTTTTTGGTAAAAAATGACTTC
1 AATAATTCTCTTCAATTTTTTAAAGAAAATTATTGAATGTGTTTTTTTTGCAAAAAATGACTTC
* * * * * * * ** * *
16116 AATAATCCTC-TAAAATTTTGACGAGGAGATTATT-AA-AAG-TATTTTTGACTAAAAAT-ACAT
1 AATAATTCTCTTCAATTTTTTA-AAGAAAATTATTGAATGTGTTTTTTTTG-CAAAAAATGAC-T
*
16176 TT
63 TC
* * * * *
16178 AATAATATC-CTTCAATTTTTTAAAAAAAAATTATTGAA-G-GCATTTTTCTGCAAAAAAAAAGC
1 AATAAT-TCTCTTCAATTTTTT-AAAGAAAATTATTGAATGTG-TTTTTTTTGC--AAAAAATGA
16240 CTTC
61 CTTC
* * * * *
16244 AATATTTTTC-TCTAATTTTTTAAAGAAAATTATT-AAAG-GTATTTTTTACAAAAAAT-ACCTT
1 AATAATTCTCTTC-AATTTTTTAAAGAAAATTATTGAATGTGTTTTTTTTGCAAAAAATGA-CTT
16305 C
64 C
* * * * * * * ** * *
16306 AATAATCCCCTT-AAATTTTGATGAGGATATTATTGAA-G-GCATTTTTAGTAAAAAATGTA-TT
1 AATAATTCTCTTCAATTTTTTA-AAGAAAATTATTGAATGTGTTTTTTTTGCAAAAAATG-ACTT
16367 C
64 C
*
16368 AATAA-TCTCCTCTAATTTTTTAAAGAAAATTATTGAA
1 AATAATTCTCTTC-AATTTTTTAAAGAAAATTATTGAA
16405 GGTATTTTAT
Statistics
Matches: 364, Mismatches: 88, Indels: 58
0.71 0.17 0.11
Matches are distributed among these distances:
61 18 0.05
62 103 0.28
63 44 0.12
64 149 0.41
65 28 0.08
66 21 0.06
67 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.41
Consensus pattern (64 bp):
AATAATTCTCTTCAATTTTTTAAAGAAAATTATTGAATGTGTTTTTTTTGCAAAAAATGACTTC
Found at i:16193 original size:190 final size:187
Alignment explanation
Indices: 15875--16412 Score: 448
Period size: 190 Copynumber: 2.8 Consensus size: 187
15865 AATCTCCTCT
* * * * * *
15875 AATTTTTTAAA-AGAAATTATTAAAGGTATTTTTTGCAGAAAACACATTCAATAATCTCCTTCAA
1 AATTTTTTAAAGA-AAATTATTAAAGGTATTTTTTACAAAAAATACCTTCAATAATC-CCCTAAA
* * * * ** ** ** *
15939 ATTTTTA-AAAGAAATTATTGAATGTGTTTTTTTTGTAAAAAATGTC-TTCAATAATTCTCTTCA
64 ATTTTGACGAGGAGATTATT-AA-AAGCATTTTTACTAAAAAAT-ACATTCAATAATTC-CTTCA
* * ** * *
16002 ATTTTTTAAAGAAAAATATTCAATGTG-TTTTTTTTGC-AGCAAATGCCTTTAATAATTCTTT-T
125 ATTTTTTAAAGAAAAATATTCAA-G-GCATTTTTCTGCAAAAAAAAGCCTTCAAT-ATT-TTTCT
16064 -A
186 CA
* ** *
16065 AATTTTTTAAAGAAAATTATTGAAGGTATTTTTTTGGTAAAAAATGA-CTTCAATAATCCTCTAA
1 AATTTTTTAAAGAAAATTATTAAAGGTA-TTTTTT-ACAAAAAAT-ACCTTCAATAATCCCCTAA
* *
16129 AATTTTGACGAGGAGATTATTAAAAGTATTTTTGACT-AAAAATACATTTAATAATATCCTTCAA
63 AATTTTGACGAGGAGATTATTAAAAGCATTTTT-ACTAAAAAATACATTCAATAAT-TCCTTCAA
* * *
16193 TTTTTTAAAAAAAAATTATTGAAGGCATTTTTCTGCAAAAAAAAAGCCTTCAATATTTTTCTCT
126 TTTTTTAAAGAAAAA-TATTCAAGGCATTTTTCTGC-AAAAAAAAGCCTTCAATATTTTTCTCA
*
16257 AATTTTTTAAAGAAAATTATTAAAGGTATTTTTTACAAAAAATACCTTCAATAATCCCCTTAAAT
1 AATTTTTTAAAGAAAATTATTAAAGGTATTTTTTACAAAAAATACCTTCAATAATCCCCTAAAAT
* * * * * **
16322 TTTGATGAGGATATTATTGAAGGCATTTTTAGTAAAAAATGTATTCAATAATCTCC-TCTAATTT
66 TTTGACGAGGAGATTATTAAAAGCATTTTTACTAAAAAATACATTCAATAAT-TCCTTC-AATTT
* * *
16386 TTTAAAGAAAATTATTGAAGGTATTTT
129 TTTAAAGAAAAATATTCAAGGCATTTT
16413 ATGCGTAAAA
Statistics
Matches: 285, Mismatches: 46, Indels: 35
0.78 0.13 0.10
Matches are distributed among these distances:
189 21 0.07
190 161 0.56
191 38 0.13
192 64 0.22
193 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (187 bp):
AATTTTTTAAAGAAAATTATTAAAGGTATTTTTTACAAAAAATACCTTCAATAATCCCCTAAAAT
TTTGACGAGGAGATTATTAAAAGCATTTTTACTAAAAAATACATTCAATAATTCCTTCAATTTTT
TAAAGAAAAATATTCAAGGCATTTTTCTGCAAAAAAAAGCCTTCAATATTTTTCTCA
Found at i:16286 original size:128 final size:124
Alignment explanation
Indices: 15862--16445 Score: 479
Period size: 128 Copynumber: 4.6 Consensus size: 124
15852 AAATGCCATT
* *
15862 AATAATCTCCTCTAATTTTTTAAA-AGAAATTATTAAAGGTATTTTTTGCAGAAAACACATTCAA
1 AATAATTTCCTCTAATTTTTTAAAGA-AAATTATTAAAGGTA-TTTTTGCAGAAAATACATTCAA
* *
15926 TAATCTCCTTCAAATTTTTAAAAGAAATTATTGAATGTG-TTTTTTTTGTAAAAAATGTCTTC
64 TAATCTCCTTCAAATTTTTAAAAAAAATTATTGAA-G-GCATTTTTTTGTAAAAAATGTCTTC
* * * * * * * *
15988 AATAATTCTCTTC-AATTTTTTAAAGAAAAATATTCAATGTGTTTTTTTTGCAGCAAATGCCTTT
1 AATAATT-TCCTCTAATTTTTTAAAGAAAATTATT-AAAG-G-TATTTTTGCAGAAAATACATTC
* * * * *
16052 AATAAT-TCTTTTAAATTTTTTAAAGAAAATTATTGAAGGTATTTTTTTGGTAAAAAATGACTTC
62 AATAATCTCCTTCAAA-TTTTTAAAAAAAATTATTGAAGGCATTTTTTT-GTAAAAAATGTCTTC
* * * * * * *
16116 AATAA--TCCTCTAAAATTTTGACGAGGAGATTATTAAAAGTATTTTTGACTA-AAAATACATTT
1 AATAATTTCCTCT-AATTTTTTA-AAGAAAATTATTAAAGGTATTTTTG-C-AGAAAATACATTC
* * * * * *
16178 AATAATATCCTTCAATTTTTTAAAAAAAAATTATTGAAGGCATTTTTCTGCAAAAAAAAAGCCTT
62 AATAATCTCCTTCAAATTTTT-AAAAAAAATTATTGAAGGCATTTTTTTG--TAAAAAATGTCTT
16243 C
124 C
* * * * *
16244 AATATTTTTCTCTAATTTTTTAAAGAAAATTATTAAAGGTATTTTTTACAAAAAATACCTTCAAT
1 AATAATTTCCTCTAATTTTTTAAAGAAAATTATTAAAGGTA-TTTTTGCAGAAAATACATTCAAT
* * * ** * * *
16309 AATCCCCTT-AAATTTTGATGAGGATATTATTGAAGGCA-TTTTTAGTAAAAAATGTATTC
65 AATCTCCTTCAAATTTTTA-AAAAAAATTATTGAAGGCATTTTTTTGTAAAAAATGTCTTC
* * * *
16368 AATAATCTCCTCTAATTTTTTAAAGAAAATTATTGAAGGTATTTTATGC-GTAAAACACCTTCAA
1 AATAATTTCCTCTAATTTTTTAAAGAAAATTATTAAAGGTATTTT-TGCAG-AAAATACATTCAA
16432 TAATCTCCTT-AAAT
64 TAATCTCCTTCAAAT
16446 AGATTATTGA
Statistics
Matches: 363, Mismatches: 71, Indels: 50
0.75 0.15 0.10
Matches are distributed among these distances:
123 4 0.01
124 74 0.20
125 11 0.03
126 53 0.15
127 85 0.23
128 118 0.33
129 13 0.04
130 5 0.01
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (124 bp):
AATAATTTCCTCTAATTTTTTAAAGAAAATTATTAAAGGTATTTTTGCAGAAAATACATTCAATA
ATCTCCTTCAAATTTTTAAAAAAAATTATTGAAGGCATTTTTTTGTAAAAAATGTCTTC
Found at i:22510 original size:18 final size:16
Alignment explanation
Indices: 22487--22644 Score: 84
Period size: 16 Copynumber: 9.9 Consensus size: 16
22477 GTAATTTTAC
22487 TTATAAACTAATATTATA
1 TTATAAA-TAATA-TATA
22505 TTATAAATAATATATA
1 TTATAAATAATATATA
22521 TTAGT-AATAATATA-A
1 TTA-TAAATAATATATA
* *
22536 -TA-ATATTAT-TA-A
1 TTATAAATAATATATA
* *
22548 TT-TAACTAATAAATA
1 TTATAAATAATATATA
22563 TTAT-AATAATATAT-
1 TTATAAATAATATATA
* *
22577 TTACAAATAACATACTA
1 TTATAAATAATATA-TA
*
22594 TTA-ATATAATATATTA
1 TTATAAATAATATA-TA
*
22610 TTAAATAATATTATAATATA
1 TT--ATAA-ATAAT-ATATA
22630 TTAATAAATAATATA
1 TT-ATAAATAATATA
22645 AAGAATAAGA
Statistics
Matches: 109, Mismatches: 16, Indels: 31
0.70 0.10 0.20
Matches are distributed among these distances:
12 3 0.03
13 9 0.08
14 6 0.06
15 20 0.18
16 30 0.28
17 12 0.11
18 12 0.11
19 6 0.06
20 8 0.07
21 3 0.03
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (16 bp):
TTATAAATAATATATA
Found at i:22616 original size:31 final size:33
Alignment explanation
Indices: 22528--22639 Score: 81
Period size: 31 Copynumber: 3.3 Consensus size: 33
22518 ATATTAGTAA
*
22528 TAATATAATAATATTATTAATTTAACTAATAAATAT
1 TAATATAAT-ATATTATTAA-ATAAC-AATAAATAT
* *
22564 T-ATAATAATATATT-TACAAATAAC-AT-ACTAT
1 TAAT-ATAATATATTAT-TAAATAACAATAAATAT
*
22595 TAATATAATATATTATTAAATAATATTATAATATAT
1 TAATATAATATATTATTAAATAACA--ATAA-ATAT
22631 TAATA-AATA
1 TAATATAATA
22640 ATATAAAGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
31 21 0.34
32 5 0.08
34 7 0.11
35 14 0.23
36 14 0.23
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (33 bp):
TAATATAATATATTATTAAATAACAATAAATAT
Found at i:22627 original size:23 final size:23
Alignment explanation
Indices: 22501--22643 Score: 92
Period size: 23 Copynumber: 5.8 Consensus size: 23
22491 AAACTAATAT
*
22501 TATATT-ATAAATAATA-TATAT
1 TATATTAATAAATAATATTATAA
*
22522 TAGTAATAATATAATAATATTATTAA
1 TA-TATTAATA-AATAATATTA-TAA
* * * *
22548 TTTAACTAATAAATATTATAATAA
1 TAT-ATTAATAAATAATATTATAA
*
22572 TATATTTACAAATAACATACTATTAATATAA
1 TATA-TT---AATAA-ATAATATT-ATA--A
*
22603 TATATTATTAAATAATATTATAA
1 TATATTAATAAATAATATTATAA
22626 TATATTAATAAATAATAT
1 TATATTAATAAATAATAT
22644 AAAGAATAAG
Statistics
Matches: 95, Mismatches: 13, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
21 2 0.02
22 3 0.03
23 22 0.23
24 13 0.14
25 14 0.15
26 16 0.17
27 9 0.09
28 6 0.06
29 3 0.03
30 2 0.02
31 5 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (23 bp):
TATATTAATAAATAATATTATAA
Found at i:22717 original size:19 final size:19
Alignment explanation
Indices: 22672--22717 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
22662 TTATTTTAAG
*
22672 TATTTTTATATTAACATAA
1 TATTTTAATATTAACATAA
*
22691 TATTTTAATATTAA-ATAT
1 TATTTTAATATTAACATAA
22709 TATTATTAA
1 TATT-TTAA
22718 AATATGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTTAATATTAACATAA
Found at i:22760 original size:25 final size:24
Alignment explanation
Indices: 22732--22802 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 24
22722 TGTTATTTTT
22732 TAATGTTAATAATTTTAATAATAAA
1 TAAT-TTAATAATTTTAATAATAAA
*
22757 TAATTTTAATATATCTTAATAATAAA
1 TAA-TTTAATA-ATTTTAATAATAAA
22783 TAACTTTGAAT-ATTTTAATA
1 TAA-TTT-AATAATTTTAATA
22803 GTTATATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 17 0.43
26 20 0.50
27 3 0.08
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (24 bp):
TAATTTAATAATTTTAATAATAAA
Done.