Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000001.1 Hibiscus syriacus cultivar Beakdansim tig00000002_pilon, 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: 2159989
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:776 original size:40 final size:41
Alignment explanation
Indices: 721--807 Score: 133
Period size: 40 Copynumber: 2.1 Consensus size: 41
711 CACTTTGTCA
721 GAAAATACACTTGAATTTTCTAGAGAAAGTAAACTAGAAA-G
1 GAAAATACACTTGAATTTTCTAGAGAAAGTAAACTA-AAAGG
* *
762 GAAAATA-GCTTGAATTTTCTCGAGAAAGTAAACTAAAAGG
1 GAAAATACACTTGAATTTTCTAGAGAAAGTAAACTAAAAGG
802 GAAAAT
1 GAAAAT
808 CTAAAAGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 3 0.07
40 33 0.77
41 7 0.16
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.24
Consensus pattern (41 bp):
GAAAATACACTTGAATTTTCTAGAGAAAGTAAACTAAAAGG
Found at i:1348 original size:22 final size:21
Alignment explanation
Indices: 1310--1363 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
1300 AACCTAAAAT
* *
1310 AATAAAGAATATTATTTTATTC
1 AATAAA-AATATGATTTAATTC
*
1332 AATAAAAATAGTGATTTAATTG
1 AATAAAAATA-TGATTTAATTC
*
1354 AAAAAAAATA
1 AATAAAAATA
1364 ATAATAGAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (21 bp):
AATAAAAATATGATTTAATTC
Found at i:2395 original size:19 final size:19
Alignment explanation
Indices: 2371--2420 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
2361 ATGAAATTAA
2371 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
*
2390 TGCATCGATACATAAGGAG
1 TGCATCGATGCATAAGGAG
2409 TGCATCGATGCA
1 TGCATCGATGCA
2421 CATGTTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (19 bp):
TGCATCGATGCATAAGGAG
Found at i:3539 original size:2 final size:2
Alignment explanation
Indices: 3532--3664 Score: 250
Period size: 2 Copynumber: 66.5 Consensus size: 2
3522 AGGAAAAATG
3532 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3574 AT AT AT AT AT AT AT AT AT ACT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
3617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3658 AT AT AT A
1 AT AT AT A
3665 GGAAGATGAA
Statistics
Matches: 129, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 126 0.98
3 2 0.02
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4116 original size:23 final size:23
Alignment explanation
Indices: 4083--4150 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
4073 AACCTTATAT
4083 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* * * **
4106 GGCACTACGGTACAATTCTACAT
1 GGCACTTCGGTGCATTTCTACGC
* *
4129 GGCATTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
4151 AGCTGTGGTG
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:14266 original size:31 final size:31
Alignment explanation
Indices: 14192--14267 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
14182 TGAGGCCTAC
* * * *
14192 GAGCCTACACAAGAAAATTCTCGGGGTCACA
1 GAGCCTACCCAAGAAAAATCTCAGGGCCACA
* *
14223 GAGGACTACCCAAGAAAAATCTCAGGGCCGCA
1 GA-GCCTACCCAAGAAAAATCTCAGGGCCACA
14255 GAGCCTACCCAAG
1 GAGCCTACCCAAG
14268 GGTCACGTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
31 12 0.32
32 25 0.68
ACGTcount: A:0.36, C:0.29, G:0.24, T:0.12
Consensus pattern (31 bp):
GAGCCTACCCAAGAAAAATCTCAGGGCCACA
Found at i:14431 original size:19 final size:19
Alignment explanation
Indices: 14404--14464 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
14394 TCACAGAGAT
* * *
14404 ATCAGAAATCATAATATAG
1 ATCAAAAATCATAACAGAG
14423 ATCAAAAATCATAACAGAG
1 ATCAAAAATCATAACAGAG
* * *
14442 ATCGAAAATCAGAACTGAG
1 ATCAAAAATCATAACAGAG
14461 ATCA
1 ATCA
14465 GAACAGAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.20
Consensus pattern (19 bp):
ATCAAAAATCATAACAGAG
Found at i:16314 original size:32 final size:31
Alignment explanation
Indices: 16276--16351 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 31
16266 TGGGGCCTGC
*
16276 GAGCCTACCTAAGAAAATTCTCAGGGCCACA
1 GAGCCTACCTAAGAAAAATCTCAGGGCCACA
* * *
16307 GAGGCCTACCAAAGAAAAATCTCAGGGTCGCA
1 GA-GCCTACCTAAGAAAAATCTCAGGGCCACA
*
16339 GAGCCTAGCTAAG
1 GAGCCTACCTAAG
16352 GGTCGCCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 11 0.29
32 27 0.71
ACGTcount: A:0.36, C:0.26, G:0.24, T:0.14
Consensus pattern (31 bp):
GAGCCTACCTAAGAAAAATCTCAGGGCCACA
Found at i:16550 original size:19 final size:19
Alignment explanation
Indices: 16497--16551 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
16487 AGAGATATCA
*
16497 GAAATCAGAACAGAGATCG
1 GAAATCAGAACAGAGATAG
* * *
16516 AAAATTATAACAGAGATAG
1 GAAATCAGAACAGAGATAG
*
16535 GAAATCAGAACTGAGAT
1 GAAATCAGAACAGAGAT
16552 CAGAACAGAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.51, C:0.11, G:0.22, T:0.16
Consensus pattern (19 bp):
GAAATCAGAACAGAGATAG
Found at i:16555 original size:12 final size:12
Alignment explanation
Indices: 16535--16568 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16525 ACAGAGATAG
*
16535 GAAATCAGAACT
1 GAAATCAGAACA
*
16547 GAGATCAGAACA
1 GAAATCAGAACA
16559 GAAATCAGAA
1 GAAATCAGAA
16569 AAACATCCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.15, G:0.21, T:0.12
Consensus pattern (12 bp):
GAAATCAGAACA
Found at i:19726 original size:31 final size:31
Alignment explanation
Indices: 19691--19778 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 31
19681 AAGGAAGTAC
*
19691 CTTGGGGCC-TACGAGCCTACCCAAGAAAATT
1 CTTGGGGCCATA-GAGCCTACCCAAGAAAAAT
* *
19722 CTTGGGGCCATAGAGGCATATCCAAGAAAAAT
1 CTTGGGGCCATAGA-GCCTACCCAAGAAAAAT
** *
19754 CTCAGGGCCGTAGAGCCTACCCAAG
1 CTTGGGGCCATAGAGCCTACCCAAG
19779 GTTCGCCTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
31 20 0.43
32 27 0.57
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.17
Consensus pattern (31 bp):
CTTGGGGCCATAGAGCCTACCCAAGAAAAAT
Found at i:19938 original size:21 final size:21
Alignment explanation
Indices: 19914--19962 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
19904 TTCAGTAAAT
*
19914 AGAGATATCATAAATCAAAAC
1 AGAGATATCAGAAATCAAAAC
*
19935 AGAGATATCAGAAATCAGAAC
1 AGAGATATCAGAAATCAAAAC
19956 AGAGATA
1 AGAGATA
19963 AAAAATCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.12, G:0.16, T:0.16
Consensus pattern (21 bp):
AGAGATATCAGAAATCAAAAC
Found at i:19970 original size:19 final size:19
Alignment explanation
Indices: 19925--20004 Score: 70
Period size: 19 Copynumber: 4.1 Consensus size: 19
19915 GAGATATCAT
*
19925 AAATCAAAACAGAGATATCAG
1 AAATCAGAACAGAGATA--AG
*
19946 AAATCAGAACAGAGATAAA
1 AAATCAGAACAGAGATAAG
* * **
19965 AAATCATAATAGAGATCGG
1 AAATCAGAACAGAGATAAG
* *
19984 AAATCAGAACTGAGATCAG
1 AAATCAGAACAGAGATAAG
20003 AA
1 AA
20005 CAGCAATCAG
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
19 32 0.67
21 16 0.33
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.15
Consensus pattern (19 bp):
AAATCAGAACAGAGATAAG
Found at i:24504 original size:30 final size:30
Alignment explanation
Indices: 24465--24533 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
24455 TTTGATCTCC
24465 CGGCGTCTTTGCATGGAAGCTTGGAGCTCT
1 CGGCGTCTTTGCATGGAAGCTTGGAGCTCT
* * *
24495 TGGCTTCTTTGCATGGAAGGTTGGAGCTCT
1 CGGCGTCTTTGCATGGAAGCTTGGAGCTCT
24525 CGGCGTCTT
1 CGGCGTCTT
24534 CAACACAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.12, C:0.22, G:0.33, T:0.33
Consensus pattern (30 bp):
CGGCGTCTTTGCATGGAAGCTTGGAGCTCT
Found at i:26424 original size:22 final size:23
Alignment explanation
Indices: 26391--26435 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
26381 ATCACCTTAT
*
26391 TAATCGATTAAA-ACTAATTAAA
1 TAATCGATTAAATAATAATTAAA
26413 TAATC-ATATAAATAATAATTAAA
1 TAATCGAT-TAAATAATAATTAAA
26436 AATATCACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 9 0.45
23 9 0.45
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
TAATCGATTAAATAATAATTAAA
Found at i:26756 original size:78 final size:78
Alignment explanation
Indices: 26632--26780 Score: 280
Period size: 78 Copynumber: 1.9 Consensus size: 78
26622 TGTAAATTGG
* *
26632 GGTTCATGGATTTTGGTGTGACATTACTGATTCGAGTTCGATTTTTGAACCAGGTTAAAGATATT
1 GGTTCATGGATTGTGGTGTGACATTACTGATTCGAGTTCGACTTTTGAACCAGGTTAAAGATATT
26697 ATAGATAAATCGA
66 ATAGATAAATCGA
26710 GGTTCATGGATTGTGGTGTGACATTACTGATTCGAGTTCGACTTTTGAACCAGGTTAAAGATATT
1 GGTTCATGGATTGTGGTGTGACATTACTGATTCGAGTTCGACTTTTGAACCAGGTTAAAGATATT
26775 ATAGAT
66 ATAGAT
26781 TTAAGGTTTA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 69 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (78 bp):
GGTTCATGGATTGTGGTGTGACATTACTGATTCGAGTTCGACTTTTGAACCAGGTTAAAGATATT
ATAGATAAATCGA
Found at i:27599 original size:2 final size:2
Alignment explanation
Indices: 27592--27616 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27582 TATTTAAATA
27592 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
27617 ATTACTTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:28664 original size:60 final size:60
Alignment explanation
Indices: 28600--28731 Score: 176
Period size: 60 Copynumber: 2.2 Consensus size: 60
28590 TTAAATTGGT
*
28600 CCTTAAACTTTTGAATATACCAATTCCATCCCTAAACTATAACCCTC-ATTCTAAATTAAA
1 CCTTAAACTTTTGAAAATACCAATTCCATCCCTAAACTATAACCCTCTA-TCTAAATTAAA
* ** * **
28660 CCTTAAAATTTTGAAAATTTCAATTTCATCCCTAAACTATAACCCTCTATCTAAATTAGT
1 CCTTAAACTTTTGAAAATACCAATTCCATCCCTAAACTATAACCCTCTATCTAAATTAAA
*
28720 CCCTAAACTTTT
1 CCTTAAACTTTT
28732 TGGGCATTCC
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 61 0.98
61 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (60 bp):
CCTTAAACTTTTGAAAATACCAATTCCATCCCTAAACTATAACCCTCTATCTAAATTAAA
Found at i:29998 original size:5 final size:5
Alignment explanation
Indices: 29988--30018 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
29978 TGACTTAGAA
29988 ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG A
30019 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:30719 original size:20 final size:20
Alignment explanation
Indices: 30675--30847 Score: 163
Period size: 20 Copynumber: 8.6 Consensus size: 20
30665 GATTCTGACT
* *
30675 ATCGCAACGAGTATTCGTAAA
1 ATCGCAACGCGTATACGT-AA
* *
30696 ATCGAAACGCGTATCCGTAA
1 ATCGCAACGCGTATACGTAA
*
30716 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATACGT-AA
*
30737 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATACGTAA
* * *
30757 ATTGCAACGAGAATACGTAA
1 ATCGCAACGCGTATACGTAA
*
30777 ATCGCAACGCGTATATGTAA
1 ATCGCAACGCGTATACGTAA
* *
30797 ATCGCAACGAGAATACGTAAA
1 ATCGCAACGCGTATACGT-AA
30818 ATCGCAACGCG-AT-CGATAA
1 ATCGCAACGCGTATACG-TAA
*
30837 TTCGCAACGCG
1 ATCGCAACGCG
30848 ATCCCCGGTA
Statistics
Matches: 126, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
19 14 0.11
20 68 0.54
21 44 0.35
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGTATACGTAA
Found at i:30719 original size:81 final size:81
Alignment explanation
Indices: 30633--30830 Score: 224
Period size: 81 Copynumber: 2.4 Consensus size: 81
30623 GCAAATATGA
* * * * *
30633 AAATCGCAACGCGA-ACATATAAATCGCAACGCGAT-TCTG-ACTATCGCAACGAGTATTCGTAA
1 AAATCGCAACGCGATACGTA-AAATCGCAACGCGATATCCGTA-AATCGCAACGAGAATACGT-A
*
30695 AATCGAAACGCGTATCCGT
63 AATCGAAACGCGTATACGT
* *
30714 AAATCGCAACGACAATACGTAAAATCGCAACGCG-TATCCGTAAATTGCAACGAGAATACGTAAA
1 AAATCGCAACG-CGATACGTAAAATCGCAACGCGATATCCGTAAATCGCAACGAGAATACGTAAA
* *
30778 TCGCAACGCGTATATGT
65 TCGAAACGCGTATACGT
*
30795 AAATCGCAACGAGAATACGTAAAATCGCAACGCGAT
1 AAATCGCAACGCG-ATACGTAAAATCGCAACGCGAT
30831 CGATAATTCG
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
81 60 0.61
82 34 0.34
83 5 0.05
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (81 bp):
AAATCGCAACGCGATACGTAAAATCGCAACGCGATATCCGTAAATCGCAACGAGAATACGTAAAT
CGAAACGCGTATACGT
Found at i:30842 original size:40 final size:41
Alignment explanation
Indices: 30675--30845 Score: 240
Period size: 41 Copynumber: 4.2 Consensus size: 41
30665 GATTCTGACT
* * *
30675 ATCGCAACGAGTATTCGTAAAATCGAAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
30716 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* **
30757 ATTGCAACGAGAATACGT-AAATCGCAACGCGTATATGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
30797 ATCGCAACGAGAATACGTAAAATCGCAACGCG-AT-CGATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCG-TAA
*
30837 TTCGCAACG
1 ATCGCAACG
30846 CGATCCCCGG
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 50 0.43
41 66 0.56
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:30929 original size:21 final size:21
Alignment explanation
Indices: 30903--30942 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30893 GACTATCGCA
30903 TTGCGATTTCCCAAATTCGTG
1 TTGCGATTTCCCAAATTCGTG
* *
30924 TTGCGATTTTCCTAATTCG
1 TTGCGATTTCCCAAATTCG
30943 CAACGCGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGTG
Found at i:31878 original size:24 final size:24
Alignment explanation
Indices: 31821--31880 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
31811 TAGTCAGTAT
31821 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* *
31845 -CCAGACTTTGATCTTGGTCAATAC
1 TCGA-AATTTGATCTTGGTCAATAC
*
31869 TCGAATTTTGAT
1 TCGAAATTTGAT
31881 GATTTTTCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 2 0.07
24 26 0.87
25 2 0.07
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:33704 original size:19 final size:19
Alignment explanation
Indices: 33677--33721 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
33667 GAACATTGGA
*
33677 AACCAGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
*
33696 AACCGGTTTTGACCTGTTT
1 AACCGGTTTTGACCGGTTT
*
33715 GACCGGT
1 AACCGGT
33722 CACGACCCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:33748 original size:21 final size:20
Alignment explanation
Indices: 33724--33764 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
33714 TGACCGGTCA
*
33724 CGACCCGTTTACCCGTTGACC
1 CGACCCGTTGA-CCGTTGACC
33745 CGACCCGTTGACCGTTGACC
1 CGACCCGTTGACCGTTGACC
33765 GGTGCTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.15, C:0.41, G:0.22, T:0.22
Consensus pattern (20 bp):
CGACCCGTTGACCGTTGACC
Found at i:33826 original size:29 final size:29
Alignment explanation
Indices: 33765--33829 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
33755 ACCGTTGACC
* *** *
33765 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTATGGGAATTAATTCGAAATG
33794 GGTGCTATTATGGGAATTAATTCGAAATG
1 GGTGCTATTATGGGAATTAATTCGAAATG
33823 GGTGCTA
1 GGTGCTA
33830 ATTTGGTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.09, G:0.29, T:0.38
Consensus pattern (29 bp):
GGTGCTATTATGGGAATTAATTCGAAATG
Found at i:40896 original size:10 final size:10
Alignment explanation
Indices: 40881--40924 Score: 65
Period size: 9 Copynumber: 4.6 Consensus size: 10
40871 AACGCTGGAA
40881 ACCGGTTTTG
1 ACCGGTTTTG
*
40891 ACCGG-TTTA
1 ACCGGTTTTG
40900 ACCGGTTTTG
1 ACCGGTTTTG
40910 ACCGG-TTTG
1 ACCGGTTTTG
40919 ACCGGT
1 ACCGGT
40925 CACGACCCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 17 0.57
10 13 0.43
ACGTcount: A:0.14, C:0.23, G:0.30, T:0.34
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:40904 original size:19 final size:19
Alignment explanation
Indices: 40880--40924 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
40870 GAACGCTGGA
40880 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
40899 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
*
40918 GACCGGT
1 AACCGGT
40925 CACGACCCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:40931 original size:19 final size:19
Alignment explanation
Indices: 40890--40937 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
40880 AACCGGTTTT
***
40890 GACCGGTTTAACCGGTTTT
1 GACCGGTTTAACCGGTCAC
*
40909 GACCGGTTTGACCGGTCAC
1 GACCGGTTTAACCGGTCAC
*
40928 GACCCGTTTA
1 GACCGGTTTA
40938 CCCGTTTACC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (19 bp):
GACCGGTTTAACCGGTCAC
Found at i:40983 original size:13 final size:13
Alignment explanation
Indices: 40937--40983 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
40927 CGACCCGTTT
*
40937 ACCCGTTTACCCG
1 ACCCGTTGACCCG
40950 ACCCGTTGACCCG
1 ACCCGTTGACCCG
40963 ACCC---GACCCG
1 ACCCGTTGACCCG
40973 ACCCGTTGACC
1 ACCCGTTGACC
40984 GTTGACCGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 10 0.33
13 20 0.67
ACGTcount: A:0.17, C:0.49, G:0.19, T:0.15
Consensus pattern (13 bp):
ACCCGTTGACCCG
Found at i:41052 original size:29 final size:29
Alignment explanation
Indices: 40991--41066 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
40981 ACCGTTGACC
*** *
40991 GGTGCTATTCTGGGAATTAATTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGAAATG
41020 GGTGCTATTCTGGGAATTAATTCGAAATG
1 GGTGCTATTCTGGGAATTAATTCGAAATG
* *
41049 GGTGCTATTTTGGTAATT
1 GGTGCTATTCTGGGAATT
41067 TTTTTAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.42
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAATG
Found at i:45694 original size:2 final size:2
Alignment explanation
Indices: 45687--45760 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
45677 TTCCCCAACA
45687 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45729 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45761 GGGTTATGAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48985 original size:6 final size:6
Alignment explanation
Indices: 48974--49003 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
48964 AGAAGAGGAG
48974 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA
1 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA
49004 GGGCTCGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
AAGGGA
Found at i:49737 original size:20 final size:20
Alignment explanation
Indices: 49713--49752 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
49703 TATGATCGTT
*
49713 TTTTTTTGTTAGTGATGACAA
1 TTTTGTTGTTA-TGATGACAA
*
49734 TTTTGTTTTTATGATGACA
1 TTTTGTTGTTATGATGACA
49753 GATCCAGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.05, G:0.17, T:0.55
Consensus pattern (20 bp):
TTTTGTTGTTATGATGACAA
Found at i:59375 original size:14 final size:14
Alignment explanation
Indices: 59358--59384 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59348 ATATTAAAAA
59358 ATAAATATAATTAT
1 ATAAATATAATTAT
59372 ATAAATATAATTA
1 ATAAATATAATTA
59385 AAAAAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAATATAATTAT
Found at i:61283 original size:3 final size:3
Alignment explanation
Indices: 61275--61325 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
61265 AATTTTAGAT
61275 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61322 ATA A
1 ATA A
61326 CGCTATGGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:71003 original size:28 final size:28
Alignment explanation
Indices: 70961--71017 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
70951 TTCTCCGTTT
* *
70961 ACATTATGTCATCGAGTCAATGCTTGAA
1 ACATTATATCATCGAGTCAATACTTGAA
* *
70989 ACATTATATCCTCGAGTCAGTACTTGAA
1 ACATTATATCATCGAGTCAATACTTGAA
71017 A
1 A
71018 GCAACGACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (28 bp):
ACATTATATCATCGAGTCAATACTTGAA
Found at i:71491 original size:2 final size:2
Alignment explanation
Indices: 71484--71545 Score: 81
Period size: 2 Copynumber: 30.5 Consensus size: 2
71474 GTTAAATAGG
* *
71484 TA TA TA TA CA TA TA TA TT TGA T- TCA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A TA T-A TA TA TA TA TA TA TA TA TA
71527 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
71546 TAAAATATCT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
1 1 0.02
2 50 0.94
3 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72065 original size:35 final size:35
Alignment explanation
Indices: 72019--72114 Score: 156
Period size: 35 Copynumber: 2.7 Consensus size: 35
72009 AACACAATCA
*
72019 TCAATTACATTCTAAACCCCAAATTCCAAAATATT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
*
72054 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
* *
72089 TCAATTACATGCTCAACCCCAAATTC
1 TCAATTACATTCTAAACCCCAAATTC
72115 ATAATCCATT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.41, C:0.28, G:0.01, T:0.30
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATACT
Found at i:73316 original size:5 final size:5
Alignment explanation
Indices: 73308--73335 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
73298 TGATGTTTTA
73308 TTTGT TTTGT TTTGT TTTGT TTTGT TTT
1 TTTGT TTTGT TTTGT TTTGT TTTGT TTT
73336 AGTCGATTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (5 bp):
TTTGT
Found at i:91548 original size:2 final size:2
Alignment explanation
Indices: 91541--91591 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
91531 GTATTAATTA
91541 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91583 AT AT AT AT A
1 AT AT AT AT A
91592 ATAAAAGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:97158 original size:27 final size:27
Alignment explanation
Indices: 97128--97188 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
97118 AAAACAGTGA
* *
97128 TGAATGACTAAGCACATAAGTATATTC
1 TGAATAACTAAGCACATAAGTACATTC
* *
97155 TGAATAATTTAGCACATAAGTACATTC
1 TGAATAACTAAGCACATAAGTACATTC
97182 TGAATAA
1 TGAATAA
97189 TTTAGAGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (27 bp):
TGAATAACTAAGCACATAAGTACATTC
Found at i:97189 original size:27 final size:27
Alignment explanation
Indices: 97138--97193 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
97128 TGAATGACTA
*
97138 AGCACATAAGTATATTCTGAATAATTT
1 AGCACATAAGTACATTCTGAATAATTT
97165 AGCACATAAGTACATTCTGAATAATTT
1 AGCACATAAGTACATTCTGAATAATTT
97192 AG
1 AG
97194 AGTATTATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (27 bp):
AGCACATAAGTACATTCTGAATAATTT
Found at i:97267 original size:40 final size:40
Alignment explanation
Indices: 97223--97303 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
97213 TCACATTCAG
* *
97223 AGTTAATTCATACATAGCTTTTGAATCATTCAATATTTGA
1 AGTTAATTCATACAGAGCTTTTGAATCATTCAACATTTGA
*
97263 AGTTAATTCATACAGAGCTTTTGAATTATTCAACATTTGA
1 AGTTAATTCATACAGAGCTTTTGAATCATTCAACATTTGA
97303 A
1 A
97304 TCATTCAACG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (40 bp):
AGTTAATTCATACAGAGCTTTTGAATCATTCAACATTTGA
Found at i:97303 original size:16 final size:16
Alignment explanation
Indices: 97282--97312 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
97272 ATACAGAGCT
*
97282 TTTGAATTATTCAACA
1 TTTGAATCATTCAACA
97298 TTTGAATCATTCAAC
1 TTTGAATCATTCAAC
97313 GCTTAATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.42
Consensus pattern (16 bp):
TTTGAATCATTCAACA
Found at i:108536 original size:2 final size:2
Alignment explanation
Indices: 108529--108582 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
108519 AAAAATGTGT
108529 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108571 TA TA TA TA TA TA
1 TA TA TA TA TA TA
108583 CTCTTGAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:108808 original size:20 final size:21
Alignment explanation
Indices: 108783--108823 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
108773 TTGATAAATG
108783 GTATATTAA-TAATAT-ATATT
1 GTATA-TAATTAATATAATATT
108803 GTATATAATTAATATAATATT
1 GTATATAATTAATATAATATT
108824 TTAGTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 11 0.58
21 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
GTATATAATTAATATAATATT
Found at i:108822 original size:23 final size:24
Alignment explanation
Indices: 108787--108832 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
108777 TAAATGGTAT
108787 ATTAATAATATATATT-GTATATA
1 ATTAATAATATATATTAGTATATA
*
108810 ATTAAT-ATAATATTTTAGTATAT
1 ATTAATAAT-ATATATTAGTATAT
108833 TTAACATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 12 0.60
24 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
ATTAATAATATATATTAGTATATA
Found at i:108836 original size:22 final size:23
Alignment explanation
Indices: 108783--108833 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
108773 TTGATAAATG
108783 GTATATTAATAATATATATTGTA
1 GTATATTAATAATATATATTGTA
*
108806 -TATAATTAAT-ATA-ATATTTTA
1 GTAT-ATTAATAATATATATTGTA
108827 GTATATT
1 GTATATT
108834 TAACATATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (23 bp):
GTATATTAATAATATATATTGTA
Found at i:109258 original size:81 final size:82
Alignment explanation
Indices: 109136--109300 Score: 296
Period size: 81 Copynumber: 2.0 Consensus size: 82
109126 ATTTTACTCA
*
109136 TTGCACTTTCATTTTTTTTAATTTATTCACTGAACTTTCAAATTGCTCCTATTTTGATCACTATA
1 TTGCACTTTCATTTTTTTTAATTTACTCACTGAACTTTCAAATTGCTCCTATTTTGATCACTATA
109201 AATTATTTTATTATTAT
66 AATTATTTTATTATTAT
*
109218 TTGCACTTTCA-TTTTTTTAATTTACTCACTGAACTTTCAAATTGCTCCTATTTTGATCACTATG
1 TTGCACTTTCATTTTTTTTAATTTACTCACTGAACTTTCAAATTGCTCCTATTTTGATCACTATA
*
109282 AATTGTTTTATTATTAT
66 AATTATTTTATTATTAT
109299 TT
1 TT
109301 ATGTATGGCG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 69 0.86
82 11 0.14
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.53
Consensus pattern (82 bp):
TTGCACTTTCATTTTTTTTAATTTACTCACTGAACTTTCAAATTGCTCCTATTTTGATCACTATA
AATTATTTTATTATTAT
Found at i:109349 original size:9 final size:9
Alignment explanation
Indices: 109335--109366 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
109325 TATTTAACTA
109335 AAAATAATT
1 AAAATAATT
109344 AAAATAATT
1 AAAATAATT
109353 AAAAT-A-T
1 AAAATAATT
109360 AAAATAA
1 AAAATAA
109367 AAACAGAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 6 0.27
8 2 0.09
9 14 0.64
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAATAATT
Found at i:110358 original size:496 final size:492
Alignment explanation
Indices: 109412--110399 Score: 1473
Period size: 496 Copynumber: 2.0 Consensus size: 492
109402 GTCGATCGCC
109412 GTAAATGGTGGTCGTTCGATCCCAAATTTCATGGGTCTTGTTCGTCTCAACACCTTGAGTTCGAA
1 GTAAATGGTGGTCGTTCGATCCCAAATTTCATGGGTCTTGTTCGTCTCAACACCTTGAGTTCGAA
* * * * *
109477 TCCGCCCTTTATTTATCGAAACTTGTTCCGAAGTCCACGAATTGGATATCGAAGTGAGTAAGCTG
66 TCCACCCTCTATTTACCGAAACTTGCTCCGAAGTCCACGAATTGGATATCGAAGTGAGGAAGCTG
* *
109542 AAAAATTTCAGTCGAGATTCATGAGTTTTAGGACTTTTTTGGTGAAACAACCATCAAATTCGGAT
131 AAAAATTCCAGTCGAGATTCATGAGTTTTAGGACTTTTTTGGTGAAACAACCACCAAATTCGGAT
* * * **
109607 TCAGGGAGTCGAAACGAACAATACCAATGAAATTTGGGACCGAACGGTCACCATCTACAACGGTC
196 TCAGGAAGTCGAAACGAACAATACCAATGAAATTTGAGACCAAACGACCACCATCTACAACGGTC
* * *
109672 GACGGTGGTCAGCGGTGGCGTTCTACCACCTTCTGTTTTTATTTTATATTTTCAATTGTTTTAAA
261 GACGGTGGTCAGCGGTGGCGTCCTACCACCTTATGTTTTCATTTTATATTTTCAATTGTTTTAAA
*
109737 TTAAATAATAATAAAAATTTCATGTTATACAGAAATAATAATAAAATAATTTAGAGCGATCAAAA
326 TTAAATAATAATAAAAATTTCATGTCATACAGAAATAATAATAAAATAATTTAGAGCGATCAAAA
109802 CATGACCAATTCAAAAGTTCAGTGAGTAAATTAAAAAAATTAAAAGTACGAAAAGTAAAATAAGA
391 CATGACCAATTCAAAAGTTCAGTGAGTAAATTAAAAAAATTAAAAGTACGAAAAGTAAAATAAGA
*
109867 GAGAGAGTATAACTCAATGAGAAAC-AGTGTATTTTATCT
456 GA-A-AATATAACTCAATGAGAAACGA-TGTATTTTATCT
*
109906 GTAAATGGTGGTCGTTCGATCCCAAATTTCATGGGTCTTGTTCGTCTCAACATCTTGAG-TCTGA
1 GTAAATGGTGGTCGTTCGATCCCAAATTTCATGGGTCTTGTTCGTCTCAACACCTTGAGTTC-GA
* *
109970 ATCCACCCTCTATTTGCCGAAACTTGCTCTGAAGTCCACGAATTGGATATCGAAAGTGAGGAAGC
65 ATCCACCCTCTATTTACCGAAACTTGCTCCGAAGTCCACGAATTGGATATCG-AAGTGAGGAAGC
* * *
110035 TGAAAAATTCCAGTCGATATTCATGAGTTTTAGGACATTTTTTTTGTGAAACAGCCACCAAATTC
129 TGAAAAATTCCAGTCGAGATTCATGAGTTTTAGGAC--TTTTTTGGTGAAACAACCACCAAATTC
* *
110100 GGATTCAGGAAGTCGAAACGAACAATACCAATGAAATTTGAGATCAAACGACCACTC-TCTACGA
192 GGATTCAGGAAGTCGAAACGAACAATACCAATGAAATTTGAGACCAAACGACCAC-CATCTACAA
* * * *
110164 CGGTTGATGGTGGTCAGCGGTGGTGTCCTGA-CACCTTAT-TTTTCATTTTATATTTTTAATTGT
256 CGGTCGACGGTGGTCAGCGGTGGCGTCCT-ACCACCTTATGTTTTCATTTTATATTTTCAATTGT
* *
110227 TTTAAATTAAATAATAATAAAAATTTCATGTCATGCATAAATAATAATAAAATAATTTAGAGCGA
320 TTTAAATTAAATAATAATAAAAATTTCATGTCATACAGAAATAATAATAAAATAATTTAGAGCGA
* * * * * * ***
110292 TCAAAACATGAGCAATTCGAAAGTTCAGTTAGTAAATTAGAAAAATTGAAAGTAGGACGGGTAAA
385 TCAAAACATGACCAATTCAAAAGTTCAGTGAGTAAATTAAAAAAATTAAAAGTACGAAAAGTAAA
** *
110357 ATAAGAGAAAATATAGTTTAATGAGAAACGATGTATTTTATCT
450 ATAAGAGAAAATATAACTCAATGAGAAACGATGTATTTTATCT
110400 TATAAATATT
Statistics
Matches: 444, Mismatches: 43, Indels: 14
0.89 0.09 0.03
Matches are distributed among these distances:
493 2 0.00
494 134 0.30
495 47 0.11
496 148 0.33
497 111 0.25
498 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (492 bp):
GTAAATGGTGGTCGTTCGATCCCAAATTTCATGGGTCTTGTTCGTCTCAACACCTTGAGTTCGAA
TCCACCCTCTATTTACCGAAACTTGCTCCGAAGTCCACGAATTGGATATCGAAGTGAGGAAGCTG
AAAAATTCCAGTCGAGATTCATGAGTTTTAGGACTTTTTTGGTGAAACAACCACCAAATTCGGAT
TCAGGAAGTCGAAACGAACAATACCAATGAAATTTGAGACCAAACGACCACCATCTACAACGGTC
GACGGTGGTCAGCGGTGGCGTCCTACCACCTTATGTTTTCATTTTATATTTTCAATTGTTTTAAA
TTAAATAATAATAAAAATTTCATGTCATACAGAAATAATAATAAAATAATTTAGAGCGATCAAAA
CATGACCAATTCAAAAGTTCAGTGAGTAAATTAAAAAAATTAAAAGTACGAAAAGTAAAATAAGA
GAAAATATAACTCAATGAGAAACGATGTATTTTATCT
Found at i:113953 original size:5 final size:5
Alignment explanation
Indices: 113943--113968 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
113933 AGTGTGATAT
113943 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
113969 TTAGGGTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:115229 original size:20 final size:20
Alignment explanation
Indices: 115204--115246 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
115194 ACGGTCCGAT
*
115204 CCGGTTCAAATAGTTCAAAG
1 CCGGTTCAAACAGTTCAAAG
*
115224 CCGGTTCAAGCAGTTCAAAG
1 CCGGTTCAAACAGTTCAAAG
115244 CCG
1 CCG
115247 ATTCGAACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (20 bp):
CCGGTTCAAACAGTTCAAAG
Found at i:121473 original size:23 final size:23
Alignment explanation
Indices: 121433--121477 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
121423 AATTATATTT
*
121433 TTTTAGAATTATAATTTTATTAA
1 TTTTAGAATAATAATTTTATTAA
121456 TTTTA-AATAATAACTTTTATTA
1 TTTTAGAATAATAA-TTTTATTA
121478 TATAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTAGAATAATAATTTTATTAA
Found at i:122090 original size:156 final size:156
Alignment explanation
Indices: 121806--122114 Score: 618
Period size: 156 Copynumber: 2.0 Consensus size: 156
121796 GATAACTCAA
121806 CCTCTCTTGCAGAGTTAATCTACACCATTTATCTTCTCCTATACGTCATTTCTCTTCTTCCTCAT
1 CCTCTCTTGCAGAGTTAATCTACACCATTTATCTTCTCCTATACGTCATTTCTCTTCTTCCTCAT
121871 TGGAAAAATATTGGTTAACAACTGTTCTCTATCGACTGCAACTCTCAGTCCAAGTTAGAAAAGGT
66 TGGAAAAATATTGGTTAACAACTGTTCTCTATCGACTGCAACTCTCAGTCCAAGTTAGAAAAGGT
121936 GAATTACCAACGATCGACAAGGAACT
131 GAATTACCAACGATCGACAAGGAACT
121962 CCTCTCTTGCAGAGTTAATCTACACCATTTATCTTCTCCTATACGTCATTTCTCTTCTTCCTCAT
1 CCTCTCTTGCAGAGTTAATCTACACCATTTATCTTCTCCTATACGTCATTTCTCTTCTTCCTCAT
122027 TGGAAAAATATTGGTTAACAACTGTTCTCTATCGACTGCAACTCTCAGTCCAAGTTAGAAAAGGT
66 TGGAAAAATATTGGTTAACAACTGTTCTCTATCGACTGCAACTCTCAGTCCAAGTTAGAAAAGGT
122092 GAATTACCAACGATCGACAAGGA
131 GAATTACCAACGATCGACAAGGA
122115 TAATTTGTTT
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 153 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (156 bp):
CCTCTCTTGCAGAGTTAATCTACACCATTTATCTTCTCCTATACGTCATTTCTCTTCTTCCTCAT
TGGAAAAATATTGGTTAACAACTGTTCTCTATCGACTGCAACTCTCAGTCCAAGTTAGAAAAGGT
GAATTACCAACGATCGACAAGGAACT
Found at i:122774 original size:33 final size:33
Alignment explanation
Indices: 122737--122802 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
122727 ACCTCTTGAA
* * *
122737 TATTTTCCTTTGTGAAAATTTCATCCGTTTTTT
1 TATTTTCCTCTGTAAAAATTTCATCCATTTTTT
122770 TATTTTCCTCTGTAAAAATTTCATCCATTTTTT
1 TATTTTCCTCTGTAAAAATTTCATCCATTTTTT
122803 AAGGTTTTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.56
Consensus pattern (33 bp):
TATTTTCCTCTGTAAAAATTTCATCCATTTTTT
Found at i:125335 original size:45 final size:46
Alignment explanation
Indices: 125264--125359 Score: 133
Period size: 46 Copynumber: 2.1 Consensus size: 46
125254 TTCAGTGTGT
* * *
125264 ATCGATGCACAGGAAGTGCATCGATGCA-CCCCTTAAAATGGAAAC
1 ATCGATGCAAAGGAAGTGAATCGATGCATCCCCTTAAAATGAAAAC
*
125309 ATCGATGCATAAGG-AGTGAATTGATGCATCCCCTTAAAATGAAAAC
1 ATCGATGCA-AAGGAAGTGAATCGATGCATCCCCTTAAAATGAAAAC
125355 ATCGA
1 ATCGA
125360 AGGTAATTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
45 21 0.47
46 24 0.53
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (46 bp):
ATCGATGCAAAGGAAGTGAATCGATGCATCCCCTTAAAATGAAAAC
Found at i:125929 original size:21 final size:22
Alignment explanation
Indices: 125903--125947 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
125893 GTTTATGAAG
125903 AGTCATATGAGAA-CAAATATA
1 AGTCATATGAGAATCAAATATA
* *
125924 AGTCATATGATAATGAAATATA
1 AGTCATATGAGAATCAAATATA
125946 AG
1 AG
125948 ACTATGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.27
Consensus pattern (22 bp):
AGTCATATGAGAATCAAATATA
Found at i:127044 original size:23 final size:23
Alignment explanation
Indices: 126987--127044 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
126977 TTTTATATGT
*
126987 CACTTCGGTGCAATTCTACGCGG
1 CACTTCGGTGTAATTCTACGCGG
*
127010 CACTTCGGTGTAATTCTACGTGG
1 CACTTCGGTGTAATTCTACGCGG
*
127033 CACTTCGATGTA
1 CACTTCGGTGTA
127045 TTTATACGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (23 bp):
CACTTCGGTGTAATTCTACGCGG
Found at i:127052 original size:23 final size:23
Alignment explanation
Indices: 126987--127052 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
126977 TTTTATATGT
* * *
126987 CACTTCGGTGCAATTCTACGCGG
1 CACTTCGATGTAATTATACGCGG
* * *
127010 CACTTCGGTGTAATTCTACGTGG
1 CACTTCGATGTAATTATACGCGG
*
127033 CACTTCGATGTATTTATACG
1 CACTTCGATGTAATTATACG
127053 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (23 bp):
CACTTCGATGTAATTATACGCGG
Found at i:128823 original size:25 final size:28
Alignment explanation
Indices: 128772--128827 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
128762 TTAAGTATAA
128772 ATATAAAAGATAAATAAATAAATTATTAT
1 ATATAAAAGAT-AATAAATAAATTATTAT
128801 ATATAAAAGAT-AT-AATAAA-TATTAT
1 ATATAAAAGATAATAAATAAATTATTAT
128826 AT
1 AT
128828 CTTAGATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 8 0.30
26 6 0.22
27 2 0.07
29 11 0.41
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (28 bp):
ATATAAAAGATAATAAATAAATTATTAT
Found at i:129134 original size:15 final size:15
Alignment explanation
Indices: 129114--129144 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
129104 CAACAGATAG
129114 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
129129 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
129144 A
1 A
129145 TTTAGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:129318 original size:18 final size:19
Alignment explanation
Indices: 129295--129331 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
129285 CTAGTAATTA
129295 TATTCCC-TGGTAATCTTT
1 TATTCCCATGGTAATCTTT
129313 TATTCCCATTGGTAATCTT
1 TATTCCCA-TGGTAATCTT
129332 ACATTCCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.49
Consensus pattern (19 bp):
TATTCCCATGGTAATCTTT
Found at i:129915 original size:24 final size:22
Alignment explanation
Indices: 129886--129938 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
129876 TTATTGATTA
129886 TTTAATTT-CATACTTCTAAAATT
1 TTTAATTTCCAT-C-TCTAAAATT
129909 TTATAATTTTCCATCTCTAAAATT
1 TT-TAA-TTTCCATCTCTAAAATT
129933 TTTAAT
1 TTTAAT
129939 ATAAGATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 1 0.04
23 5 0.19
24 14 0.52
25 4 0.15
26 3 0.11
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTAATTTCCATCTCTAAAATT
Found at i:140932 original size:42 final size:42
Alignment explanation
Indices: 140873--140957 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
140863 CTCTCTTCCC
140873 ATGCCGACAATGATTCTTTCTTTTACGTTAACATACCTCAAA
1 ATGCCGACAATGATTCTTTCTTTTACGTTAACATACCTCAAA
140915 ATGCCGACAATGATTCTTTCTTTTACGTTAACATACCTCAAA
1 ATGCCGACAATGATTCTTTCTTTTACGTTAACATACCTCAAA
140957 A
1 A
140958 GTTATTTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (42 bp):
ATGCCGACAATGATTCTTTCTTTTACGTTAACATACCTCAAA
Found at i:141268 original size:54 final size:55
Alignment explanation
Indices: 141209--141313 Score: 194
Period size: 55 Copynumber: 1.9 Consensus size: 55
141199 TCAGTCGTCA
141209 TCGAAAACCATCA-TTTTTGACATCTTTTTTGGTCATCTAAACATTGATGGGTCG
1 TCGAAAACCATCATTTTTTGACATCTTTTTTGGTCATCTAAACATTGATGGGTCG
*
141263 TCGAAAACCATCATTTTTTGACGTCTTTTTTGGTCATCTAAACATTGATGG
1 TCGAAAACCATCATTTTTTGACATCTTTTTTGGTCATCTAAACATTGATGG
141314 AATCATATCA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
54 13 0.27
55 36 0.73
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (55 bp):
TCGAAAACCATCATTTTTTGACATCTTTTTTGGTCATCTAAACATTGATGGGTCG
Found at i:143007 original size:20 final size:21
Alignment explanation
Indices: 142984--143030 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
142974 AATTTGTAAA
142984 TCGCAACACAGAA-GTCAAAT
1 TCGCAACACAGAATGTCAAAT
* *
143004 TCGCAACACGGAATTTCAAAT
1 TCGCAACACAGAATGTCAAAT
143025 TCGCAA
1 TCGCAA
143031 TGCGAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.40, C:0.26, G:0.15, T:0.19
Consensus pattern (21 bp):
TCGCAACACAGAATGTCAAAT
Found at i:143211 original size:20 final size:20
Alignment explanation
Indices: 143186--143245 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
143176 ACCGATATAG
*
143186 GTAAACAATACTATCTCAAT
1 GTAAACAATACTATCGCAAT
143206 GTAAACAATACTATCGCAAT
1 GTAAACAATACTATCGCAAT
*
143226 GTAAACAGTACTATCGCAAT
1 GTAAACAATACTATCGCAAT
143246 ACGATTTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (20 bp):
GTAAACAATACTATCGCAAT
Found at i:143224 original size:57 final size:56
Alignment explanation
Indices: 143104--143213 Score: 143
Period size: 57 Copynumber: 2.0 Consensus size: 56
143094 GGTTTTTTAT
*** *
143104 TTCGCAACGATAATTACCGATATAGGTAAACAATACTATCGCAATGCGATTTTCAAG
1 TTCGCAACGATAATTACCGATATAGGTAAACAATACTATCGCAAT-CGATAAACAAC
* *
143161 TTCGCAACGCTAATTACCGATATAGGTAAACAATACTATCTCAAT-G-TAAACAA
1 TTCGCAACGATAATTACCGATATAGGTAAACAATACTATCGCAATCGATAAACAA
143214 TACTATCGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 4 0.08
55 1 0.02
57 43 0.90
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (56 bp):
TTCGCAACGATAATTACCGATATAGGTAAACAATACTATCGCAATCGATAAACAAC
Found at i:143251 original size:97 final size:97
Alignment explanation
Indices: 143129--143342 Score: 356
Period size: 97 Copynumber: 2.2 Consensus size: 97
143119 ACCGATATAG
* * *
143129 GTAAACAATACTATCGCAATGCGATTTTCAAGTTCGCAACGCTAATTACCGATATAGGTAAACAA
1 GTAAACAGTACTATCGCAATACGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAA
*
143194 TACTATCTCAATGTAAACAATACTATCGCAAT
66 TACTATCGCAATGTAAACAATACTATCGCAAT
* * *
143226 GTAAACAGTACTATCGCAATACGATTTTCAAATTCGCGACGCTAATTACCGATATAGGTAAATAG
1 GTAAACAGTACTATCGCAATACGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAA
*
143291 TACTATCGCAATGTAAACAATATTATCGCAAT
66 TACTATCGCAATGTAAACAATACTATCGCAAT
143323 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
143343 GTAAACAGTA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 109 1.00
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.28
Consensus pattern (97 bp):
GTAAACAGTACTATCGCAATACGATTTTCAAATTCGCAACGCTAATTACCGATATAGGTAAACAA
TACTATCGCAATGTAAACAATACTATCGCAAT
Found at i:143317 original size:20 final size:20
Alignment explanation
Indices: 143283--143363 Score: 135
Period size: 20 Copynumber: 4.0 Consensus size: 20
143273 ACCGATATAG
*
143283 GTAAATAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
* *
143303 GTAAACAATATTATCGCAAT
1 GTAAACAGTACTATCGCAAT
143323 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
143343 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
143363 G
1 G
143364 CGATTTATTC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (20 bp):
GTAAACAGTACTATCGCAAT
Found at i:143501 original size:20 final size:21
Alignment explanation
Indices: 143474--143520 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
143464 TTTAGAAACT
143474 GTATTTATAAATTCGCGTTGC
1 GTATTTATAAATTCGCGTTGC
*
143495 G-ATTTATATATTCGCGTTGC
1 GTATTTATAAATTCGCGTTGC
143515 GTATTT
1 GTATTT
143521 GAAAACTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (21 bp):
GTATTTATAAATTCGCGTTGC
Found at i:143688 original size:74 final size:74
Alignment explanation
Indices: 143579--143726 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
143569 TTTTCACAAA
143579 TCCAAAAAATTTTAATTAAAATCGTATATTATAAGACATTTTCGATCACTAAAGTTATTTTATCA
1 TCCAAAAAATTTTAATTAAAATCGTATATTATAAGACATTTTCGATCACTAAAGTTATTTTATCA
143644 TTAAATTTT
66 TTAAATTTT
143653 TCCAAAAAATTTTAATTAAAATCGTATATTATAAGACATTTTCGATCACTAAAGTTATTTTATCA
1 TCCAAAAAATTTTAATTAAAATCGTATATTATAAGACATTTTCGATCACTAAAGTTATTTTATCA
143718 TTAAATTTT
66 TTAAATTTT
143727 AGTGATTGTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (74 bp):
TCCAAAAAATTTTAATTAAAATCGTATATTATAAGACATTTTCGATCACTAAAGTTATTTTATCA
TTAAATTTT
Found at i:153391 original size:2 final size:2
Alignment explanation
Indices: 153384--153422 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
153374 CTCAAACAGT
* *
153384 TA TA TA TA TA TA TA TA TA CA TA TA CA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
153423 GGTATGTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:156477 original size:23 final size:24
Alignment explanation
Indices: 156451--156500 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
156441 TAATGTCAAA
156451 AAAAATAAATCAATAAATTTT-TT
1 AAAAATAAATCAATAAATTTTATT
* * * *
156474 AAAATTAGATGAATTAATTTTATT
1 AAAAATAAATCAATAAATTTTATT
156498 AAA
1 AAA
156501 CTATTTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (24 bp):
AAAAATAAATCAATAAATTTTATT
Found at i:158757 original size:35 final size:35
Alignment explanation
Indices: 158718--158823 Score: 212
Period size: 35 Copynumber: 3.0 Consensus size: 35
158708 GATTTTGGTT
158718 TTGCTTGTGGGTTTGTCCTTTGTATACTTGAGCTC
1 TTGCTTGTGGGTTTGTCCTTTGTATACTTGAGCTC
158753 TTGCTTGTGGGTTTGTCCTTTGTATACTTGAGCTC
1 TTGCTTGTGGGTTTGTCCTTTGTATACTTGAGCTC
158788 TTGCTTGTGGGTTTGTCCTTTGTATACTTGAGCTC
1 TTGCTTGTGGGTTTGTCCTTTGTATACTTGAGCTC
158823 T
1 T
158824 ACTAAAAAAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 71 1.00
ACGTcount: A:0.08, C:0.17, G:0.25, T:0.49
Consensus pattern (35 bp):
TTGCTTGTGGGTTTGTCCTTTGTATACTTGAGCTC
Found at i:168718 original size:8 final size:8
Alignment explanation
Indices: 168705--168745 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
168695 CTCATTTTCA
168705 GAGAATTT
1 GAGAATTT
168713 GAGAATTT
1 GAGAATTT
*
168721 -AGAGTTT
1 GAGAATTT
*
168728 GGGAATTT
1 GAGAATTT
168736 GAGAATTT
1 GAGAATTT
168744 GA
1 GA
168746 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:169051 original size:128 final size:128
Alignment explanation
Indices: 168816--169572 Score: 1302
Period size: 128 Copynumber: 5.9 Consensus size: 128
168806 TAATCGGAGT
168816 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
* *
168881 CATTGCCCTATTATGTCACTGATGTCCCTCGGGGACACTAGATATATCATTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *** * *
168944 TC-AGGGGACATGAAGGCGAGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
*
169008 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTGTTATTTC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
169072 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
*
169137 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCATTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *** * *
169200 TC-AGGGGACATGAAGGCGCGTTCCCGGGGGCGTGCCTTCCATTATTTTGTCAGAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
169264 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
169328 ACTATTCACATGAAGGCGCGTTCCCGAGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
169393 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
* *
169456 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTTCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
169521 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
169573 AATCAGGTAA
Statistics
Matches: 591, Mismatches: 34, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
127 2 0.00
128 587 0.99
129 2 0.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:170034 original size:33 final size:34
Alignment explanation
Indices: 169973--170071 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
169963 AAATTTAATG
*
169973 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * *
170007 TTAAATTT-GAATAATATTATTTTTATTTT-ATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
170039 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
170072 AACATTTATC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 10 0.18
33 37 0.66
34 9 0.16
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:170621 original size:21 final size:20
Alignment explanation
Indices: 170594--170663 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
170584 GGTATAAAAC
*
170594 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
170614 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
170635 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
170656 CCCTGCGG
1 -CCTGCGG
170664 AGATGGCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:170693 original size:21 final size:21
Alignment explanation
Indices: 170667--170714 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
170657 CCTGCGGAGA
*
170667 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
170688 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
170709 GGGCAT
1 TGGCAT
170715 GTACCCATGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:172483 original size:35 final size:32
Alignment explanation
Indices: 172444--172528 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 32
172434 AATTCTAAAT
172444 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAATA-TA--TTAATAAAAA
* * *
172479 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATAAAAA
* *
172511 AAATAATAACTATTTAAA
1 AAATAATAATTATATAAA
172529 AAATACTAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 23 0.53
34 2 0.05
35 18 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATAAAAA
Found at i:172518 original size:32 final size:34
Alignment explanation
Indices: 172439--172519 Score: 103
Period size: 35 Copynumber: 2.4 Consensus size: 34
172429 TTAATAATTC
*
172439 TAAATAAATAATAATTATATAAATATTATTTTAATA
1 TAAA-AAATAATAATTACATAAATATTA-TTTAATA
* *
172475 AAAAAAATAATATTTACATAAATA-TA-TTAATA
1 TAAAAAATAATAATTACATAAATATTATTTAATA
172507 TAAAAAATAATAA
1 TAAAAAATAATAA
172520 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 17 0.43
34 2 0.05
35 18 0.45
36 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
TAAAAAATAATAATTACATAAATATTATTTAATA
Found at i:172543 original size:33 final size:34
Alignment explanation
Indices: 172472--172550 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 34
172462 TATTATTTTA
* *
172472 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAAAAATAATATTTACATAAATATACTAAC
172506 ATAAAAAATAATAACTATTTA-A-AAA-ATACTAAC
1 ATAAAAAA-AATAA-TATTTACATAAATATACTAAC
172539 ATAAAAATAAAT
1 ATAAAAA-AAAT
172551 TTCTTACCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
33 16 0.40
34 12 0.30
35 6 0.15
36 6 0.15
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAAAAATAATATTTACATAAATATACTAAC
Found at i:172545 original size:32 final size:34
Alignment explanation
Indices: 172472--172548 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 34
172462 TATTATTTTA
* * *
172472 ATAAAAAAAATAATATTTACATAAATATATTAAT
1 ATAAAAATAATAATATTTACATAAATATACTAAC
172506 ATAAAAAATAATAACTATTTA-A-AAA-ATACTAAC
1 AT-AAAAATAATAA-TATTTACATAAATATACTAAC
172539 ATAAAAATAA
1 ATAAAAATAA
172549 ATTTCTTACC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 8 0.21
33 8 0.21
34 5 0.13
35 11 0.29
36 6 0.16
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (34 bp):
ATAAAAATAATAATATTTACATAAATATACTAAC
Found at i:173223 original size:25 final size:24
Alignment explanation
Indices: 173176--173224 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
173166 TATTTATGAA
*
173176 ATTTAAAATATATTTGATTTTTAT
1 ATTTAAAATATATTTGAATTTTAT
173200 ATTTAAAAATATATATT-AATTTTAT
1 ATTT-AAAATATAT-TTGAATTTTAT
173225 TAATTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 16 0.73
26 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTTAAAATATATTTGAATTTTAT
Found at i:173367 original size:20 final size:19
Alignment explanation
Indices: 173342--173409 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
173332 AGAATGTATT
173342 ATTTTATATTTTTTTATATA
1 ATTTTATATTTTTTTA-ATA
173362 A-TTT-TA-TTTTTTAATA
1 ATTTTATATTTTTTTAATA
* *
173378 ATTTTTTAGTTTCTTTAATA
1 ATTTTATA-TTTTTTTAATA
173398 ATTTTTATATTT
1 A-TTTTATATTT
173410 AAAATTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
16 4 0.10
17 10 0.24
18 4 0.10
19 3 0.07
20 14 0.34
21 6 0.15
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (19 bp):
ATTTTATATTTTTTTAATA
Found at i:173373 original size:17 final size:16
Alignment explanation
Indices: 173351--173402 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 16
173341 TATTTTATAT
173351 TTTTTTATATAATTTTA
1 TTTTTTA-ATAATTTTA
173368 TTTTTTAATAATTTTTTA
1 TTTTTTAATAA--TTTTA
173386 GTTTCTTTAATAATTTT
1 -TTT-TTTAATAATTTT
173403 TATATTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.13
17 7 0.23
18 9 0.29
19 3 0.10
20 8 0.26
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTTTAATAATTTTA
Found at i:174840 original size:31 final size:31
Alignment explanation
Indices: 174804--174862 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
174794 AACTTAAAAG
* * *
174804 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTAAAATTTAAATAATTTT
174835 AGTTTTACAATACTAAAATTTAAATAAT
1 AGTTTTACAATACTAAAATTTAAATAAT
174863 CAATATAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTAAAATTTAAATAATTTT
Found at i:174913 original size:22 final size:22
Alignment explanation
Indices: 174887--174977 Score: 101
Period size: 22 Copynumber: 4.0 Consensus size: 22
174877 TAATAAATTA
*
174887 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
*
174909 TTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCAT---AT
**
174934 TACAATAATAAATCAATCCATAT
1 TTTAA-AATAAATCAATCCATAT
*
174957 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
174978 CTAATAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
22 34 0.60
23 4 0.07
25 4 0.07
26 15 0.26
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:174920 original size:26 final size:26
Alignment explanation
Indices: 174891--174968 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 26
174881 AAATTATTTA
*
174891 AAATAAATCAATTCATATTTTAAAAT
1 AAATAAATCAATACATATTTTAAAAT
* * * *
174917 AAATCAATCCATACA-A--CTACAAT
1 AAATAAATCAATACATATTTTAAAAT
*
174940 -AATAAATCAATCCATATTTTAAAAT
1 AAATAAATCAATACATATTTTAAAAT
174965 AAAT
1 AAAT
174969 CAATTCATAC
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
22 11 0.29
23 6 0.16
25 6 0.16
26 15 0.39
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (26 bp):
AAATAAATCAATACATATTTTAAAAT
Found at i:174996 original size:80 final size:80
Alignment explanation
Indices: 174909--176155 Score: 704
Period size: 80 Copynumber: 15.3 Consensus size: 80
174899 CAATTCATAT
*
174909 TTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAATCCATATTTTAAAATAAATCAAT
1 TTTAAAATAAATCAATCCATACAA-TAAAATAAATAAATCAATCCATATTTTAAAATAAATCAAT
*
174973 TCATACTAATAAATTA
65 CCATACTAATAAATTA
* **
174989 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAAATACAATAA
1 TTTAAAATAAATCAATCCATAC-AATAAA--A--T-AAATAAATCAATCCAT---ATTTTAA-AA
175054 TAAATCAATCCATACTAATAAATTA
56 TAAATCAATCCATACTAATAAATTA
* *
175079 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATAC-AATAAA--A--T-AAATAAATCAATCCATATTTTAAAATAAA
175144 TCAATCCATACTAATAAATTA
60 TCAATCCATACTAATAAATTA
*** * * *
175165 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATACAATAAAATAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAA
*
175230 TCAATCCATAC-AACTACA--A
60 TCAATCCATACTAA-TAAATTA
* * *
175249 --T--AATAAATCAATCCATATTAAT-AAATAAATCAATTC-ATACTAATAAATTATTTAAAATA
1 TTTAAAATAAATCAATCCATA-CAATAAAATAAAT-AAATCAAT-C-CAT--A-T-TTTAAAATA
175308 AATCAAT-C---C--AT--A-T-
58 AATCAATCCATACTAATAAATTA
* *
175321 TTTAAGATATATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATAC-AATAAA--A--T-AAATAAATCAATCCATATTTTAAAATAAA
175386 TCAATCCATACTAATAAATTA
60 TCAATCCATACTAATAAATTA
*** * *
175407 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAGT-AATAAATTATTTAAAATAA
1 TTTAAAATAAATCAATCCATACAATAAAATAAAT-AAATCA-A-TCCAT--A-T-TTTAAAATAA
*
175471 ATCAATCCATAC-AACTACA--A
59 ATCAATCCATACTAA-TAAATTA
** * *
175491 --T--AATAAATCAATCCATACTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAA
1 TTTAAAATAAATCAATCCATACAATAAAATAAAT-AAATCAAT-C-CAT--A-T-TTTAAAATAA
*
175551 ATCAATCCATAC-AACTACA--A
59 ATCAATCCATACTAA-TAAATTA
* * ** * ** *
175571 --T--AATAAATCAATTCATAC--T--AATAAATAAATCAATTCATACTAATAAATTATTTAAAA
1 TTTAAAATAAATCAATCCATACAATAAAATAAATAAATCAATCCATA-TTTTAAAATAAAT-CAA
** *
175628 TAAAT-C-AATACA-TA
64 TCCATACTAATAAATTA
*
175642 TTTTAAAATAAATCAATCCATATTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
1 -TTTAAAATAAATCAATCCATA-CAATAAA--A--T-AAATAAATCAATCCATATTTTAAAATAA
* *
175707 ATCAATTCATAC-AACTACA--A
59 ATCAATCCATACTAA-TAAATTA
* * *** * * *
175727 --T--AATAAATTAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATACAATAAAATAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAA
175788 TCAATCCATACTAATAAATTA
60 TCAATCCATACTAATAAATTA
*** * * *
175809 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATACAATAAAATAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAA
*
175874 TCAATCCATAC-AACTACA--A
60 TCAATCCATACTAA-TAAATTA
*
175893 --T--AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATAC-AATAAA--A--T-AAATAAATCAATCCATATTTTAAAATAAA
175954 TCAATCCATACTAATAAATTA
60 TCAATCCATACTAATAAATTA
* * *
175975 TTTAAAATAAATCAATTCATACAACTACAAT-AATAAATCAATTCATATTTTAAAATAAATCAAT
1 TTTAAAATAAATCAATCCATACAA-TAAAATAAATAAATCAATCCATATTTTAAAATAAATCAAT
* *
176039 TCATAATAATAAATTA
65 CCATACTAATAAATTA
* * *
176055 TTTAAAATAAATCAATACATACAACTATAAT-AATAAATCAATTCATATTTTAAAATAAATCAAT
1 TTTAAAATAAATCAATCCATACAA-TAAAATAAATAAATCAATCCATATTTTAAAATAAATCAAT
176119 CCATACTAATAAATTA
65 CCATACTAATAAATTA
176135 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
176156 TTTTATAATA
Statistics
Matches: 975, Mismatches: 90, Indels: 204
0.77 0.07 0.16
Matches are distributed among these distances:
70 4 0.00
71 11 0.01
72 8 0.01
74 15 0.02
75 7 0.01
76 60 0.06
77 6 0.01
78 4 0.00
79 9 0.01
80 407 0.42
81 31 0.03
82 22 0.02
83 5 0.01
84 17 0.02
85 33 0.03
86 252 0.26
87 4 0.00
89 4 0.00
90 76 0.08
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
TTTAAAATAAATCAATCCATACAATAAAATAAATAAATCAATCCATATTTTAAAATAAATCAATC
CATACTAATAAATTA
Found at i:174999 original size:54 final size:54
Alignment explanation
Indices: 174877--176168 Score: 614
Period size: 54 Copynumber: 23.8 Consensus size: 54
174867 ATAACTACAA
*
174877 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
174931 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
174979 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* * * * * *
175043 AAATACAA-TA-AT-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAC
1 TAATA-AATTATTTAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATAC
*
175101 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
175155 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
175209 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
* * * * *
175267 TAATAAATAAATCAATTCATACTAATAAAT---TA-TTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAA--AATA--AATCAATCCATATTTTAAAATAAATCAATCCATAC
** * * ** **
175320 TTTTAAGA-TATAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-
1 TAATAA-ATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
** * ** * ** ** *
175374 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATA--C
* * * * *
175431 TAAAATAAATCAATTCATAGT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * *
175483 -AACTACA--A--T--AATAAATCAATCCATACTTTAAAATAAATCAATTCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
175531 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
* * * * *
175589 TAATAAATAAATCAATTCATACTAATAAAT---TA-TTTAAAATAAATC-A---ATAC
1 TAATAAATTATTTAA--AATA--AATCAATCCATATTTTAAAATAAATCAATCCATAC
* * ** * **
175639 --AT--A-T-TTTAAAATAAATCAATCCATATTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATATT-TTAAAATAAAT-CAATCCATAC
** * *** * * **
175688 -AATCCA-TATTTTAAAATAAATCAATTCATACAACTACAAT-AATAAATTAAT-C
1 TAATAAATTA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
175740 T-AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
175799 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
175853 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
*
175911 TAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *** * * *
175965 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAAT-AATAAAT-CA-AT
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
* * ** * *
176017 TCAT--A-T-TTTAAAATAAATCAATTCATAATAATAAATTATTTAAAATAAATCAATAC
1 TAATAAATTATTTAAAATAAATCAATCCAT-ATTTTAAA--A--T-AAATCAATCCATAC
* *
176073 --ATACAACTA--TAATAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC
1 TAATA-AATTATTTAA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
176125 TAATAAATTATTTAAAATAAATCAATCCATATTTTATAATAAAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT
176169 TATTTTAAAA
Statistics
Matches: 988, Mismatches: 125, Indels: 250
0.72 0.09 0.18
Matches are distributed among these distances:
40 6 0.01
42 3 0.00
43 4 0.00
44 10 0.01
45 7 0.01
46 1 0.00
47 4 0.00
48 108 0.11
49 9 0.01
50 23 0.02
52 33 0.03
53 18 0.02
54 421 0.43
55 24 0.02
56 6 0.01
57 31 0.03
58 170 0.17
59 10 0.01
60 24 0.02
61 2 0.00
62 25 0.03
63 4 0.00
64 43 0.04
65 2 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:175028 original size:134 final size:136
Alignment explanation
Indices: 174877--175995 Score: 751
Period size: 134 Copynumber: 8.2 Consensus size: 136
174867 ATAACTACAA
*
174877 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATAC-AACTACAA-T
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAA-TAAAATT
174940 -AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAA
65 AAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAA
175004 TCCATAC
130 TCCATAC
* * **
175011 TAATAAATTATTTAAAATAAATCAATCCATACAAATACAATAATAAATCAATCCATACTAATAAA
1 TAATAAATTATTTAAAATAAATCAATTCAT---ATTTTAA-AATAAATCAATCCATACTAATAAA
* * * * * * *
175076 TTATTTAAAATAAATCAATTCATA--CT--AATAAAT-TATTTAAAATAAATCAATCTATATTTT
62 --A-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATTCATACT-AAT-AA-AT-TA-TTT
175136 AAAATAAATCAATCCATAC
118 AAAATAAATCAATCCATAC
*
175155 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAA--A-
* * ** ** *
175220 TTAAAATAAATCAATCCATA----CAACTACAAT-AATAAAT-C-AATCCA-TATTAATAAATAA
63 TT-AAATAAATCAATCCATATTTTAAAATA-AATCAATTCATACTAATAAATTATTTA-AAATAA
*
175277 ATCAATTCATAC
125 ATCAATCCATAC
* * *
175289 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAGATATATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAA--A-
*
175354 TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
63 TT-AAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
*
175419 CAATCCATATTT
127 CAATCCATA--C
* * * * * *
175431 TAAAATAAATCAATTCATAGT-AAT-AAAT--TA-TTTAAAATAAATCAATCCATAC-AACTACA
1 T--AATAAAT-TATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAA-TAAA
*
175490 A-T-AATAAATCAATCCATACTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
62 ATTAAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
175553 CAATCCATAC
127 CAATCCATAC
* * * *
175563 -AACTACA--A--T--AATAAATCAATTCATA-CTAATAAATAAATCAATTCATACTAATAAATT
1 TAA-TAAATTATTTAAAATAAATCAATTCATATTTTA-AAATAAATCAATCCATACTAATAAA--
* * *
175620 ATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCCATATTAATAAATTATTTAAAATAA
62 A-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAA
175685 ATCAAT-C---C
125 ATCAATCCATAC
* ** * * **
175693 --AT--A-T-TTTAAAATAAATCAATTCATACAACTACAATAATAAATTAATCTATA-TTTTAAA
1 TAATAAATTATTTAAAATAAATCAATTCAT---ATTTTAA-AATAAATCAATCCATACTAATAAA
* * * *
175751 A-TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
62 ATTAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATTCATACTAATAAATTATTTAAA
175815 ATAAATCAATCCATA-
121 ATAAATCAATCCATAC
** * ** * ** ** *
175830 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA
1 TAATAAATTATTTAAAATAAAT-C-AATTCATAT-TTTAAAATAAATCAATCCATACTAA-TAAA
** * ** * * * *
175892 A-T-AATAAATCAATCCATACTAATAAATTATTTAAAAT-A-AATCAATACA-TATTTTAAAATA
62 ATTAAATAAATCAATCCATA-TTTTAAAATAAATCAATTCATACT-AATAAATTA-TTTAAAATA
175952 AATCAATCCATAC
124 AATCAATCCATAC
175965 TAATAAATTATTTAAAATAAATCAATTCATA
1 TAATAAATTATTTAAAATAAATCAATTCATA
175996 CAACTACAAT
Statistics
Matches: 787, Mismatches: 115, Indels: 165
0.74 0.11 0.15
Matches are distributed among these distances:
123 2 0.00
124 3 0.00
125 3 0.00
126 1 0.00
127 5 0.01
128 32 0.04
129 6 0.01
130 22 0.03
131 1 0.00
132 2 0.00
133 16 0.02
134 353 0.45
135 19 0.02
136 8 0.01
137 7 0.01
138 35 0.04
139 13 0.02
140 127 0.16
141 28 0.04
142 10 0.01
143 6 0.01
144 82 0.10
145 6 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (136 bp):
TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCCATACTAATAAAATTA
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
CCATAC
Found at i:175059 original size:26 final size:26
Alignment explanation
Indices: 174914--176131 Score: 323
Period size: 32 Copynumber: 44.9 Consensus size: 26
174904 CATATTTTAA
*
174914 AATAAATCAATCCATAC-AACTACAAT
1 AATAAATCAATCCATACTAA-TAAAAT
**
174940 AATAAATCAATCCATA-T--TTTAA-
1 AATAAATCAATCCATACTAATAAAAT
*
174962 AATAAATCAATTCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
174992 AAAATAAATCAATCCATACTAATAAATTATTT
1 --AATAAATCAATCCATACTAATAAA--A--T
* *
175024 AAAATAAATCAATCCATACAAATACAAT
1 --AATAAATCAATCCATACTAATAAAAT
175052 AATAAATCAATCCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
* *
175082 AAAATAAATCAATTCATACTAATAAATT
1 --AATAAATCAATCCATACTAATAAAAT
* * * **
175110 ATTTAAAATAAATCAAT-CTATATTTTAA-
1 A-AT-AAATCAATCCATACTA-A-TAAAAT
175138 AATAAATCAATCCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
**
175168 AAAATAAATCAATCCATA-T--TTTAA-
1 --AATAAATCAATCCATACTAATAAAAT
175192 AATAAATCAATCCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
*
175222 AAAATAAATCAATCCATAC-AACTACAAT
1 --AATAAATCAATCCATACTAA-TAAAAT
*
175250 AATAAATCAATCCATA-T--TAATA-
1 AATAAATCAATCCATACTAATAAAAT
*
175272 AATAAATCAATTCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
** *
175302 AAAATAAATCAATCCATA-TTTTAAGAT
1 --AATAAATCAATCCATACTAATAAAAT
175329 -AT--ATCAATCCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
**
175356 AAAATAAATCAATCCATA-T--TTTAA-
1 --AATAAATCAATCCATACTAATAAAAT
175380 AATAAATCAATCCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
**
175410 AAAATAAATCAATCCATA-T--TTTAA-
1 --AATAAATCAATCCATACTAATAAAAT
* *
175434 AATAAATCAATTCATAGTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
*
175464 AAAATAAATCAATCCATAC-AACTACAAT
1 --AATAAATCAATCCATACTAA-TAAAAT
*
175492 AATAAATCAATCCATACT--T-TAA-
1 AATAAATCAATCCATACTAATAAAAT
*
175514 AATAAATCAATTCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
*
175544 AAAATAAATCAATCCATAC-AACTACAAT
1 --AATAAATCAATCCATACTAA-TAAAAT
*
175572 AATAAATCAATTCATACTAAT---A-
1 AATAAATCAATCCATACTAATAAAAT
* *
175594 AATAAATCAATTCATACTAATAAATT
1 AATAAATCAATCCATACTAATAAAAT
* * * * **
175620 ATTTAAAATAAATCAATACATATTTTAA-
1 A-AT-AAATCAATCCATAC-TAATAAAAT
*
175648 AATAAATCAATCCATATTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
**
175678 AAAATAAATCAATCCATA-T--TTTAA-
1 --AATAAATCAATCCATACTAATAAAAT
* *
175702 AATAAATCAATTCATAC-AACTACAAT
1 AATAAATCAATCCATACTAA-TAAAAT
* * **
175728 AATAAATTAAT-C-TA-TATTTTAA-
1 AATAAATCAATCCATACTAATAAAAT
175750 AATAAATCAATCCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
175780 AAAATAAATCAATCCATACTAATAAATTATTT
1 --AATAAATCAATCCATACTAATAAA--A--T
**
175812 AAAATAAATCAATCCATA-T--TTTAA-
1 --AATAAATCAATCCATACTAATAAAAT
175836 AATAAATCAATCCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
*
175866 AAAATAAATCAATCCATAC-AACTACAAT
1 --AATAAATCAATCCATACTAA-TAAAAT
*
175894 AATAAATCAATCCATACTAATAAATT
1 AATAAATCAATCCATACTAATAAAAT
* * * * **
175920 ATTTAAAATAAATCAATACATATTTTAA-
1 A-AT-AAATCAATCCATAC-TAATAAAAT
175948 AATAAATCAATCCATACTAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
* *
175978 AAAATAAATCAATTCATAC-AACTACAAT
1 --AATAAATCAATCCATACTAA-TAAAAT
* **
176006 AATAAATCAATTCATA-T--TTTAA-
1 AATAAATCAATCCATACTAATAAAAT
* *
176028 AATAAATCAATTCATAATAATAAATTATTT
1 AATAAATCAATCCATACTAATAAA--A--T
* *
176058 AAAATAAATCAATACATAC-AACTATAAT
1 --AATAAATCAATCCATACTAA-TAAAAT
* **
176086 AATAAATCAATTCATA-T--TTTAA-
1 AATAAATCAATCCATACTAATAAAAT
176108 AATAAATCAATCCATACTAATAAA
1 AATAAATCAATCCATACTAATAAA
176132 TTATTTAAAA
Statistics
Matches: 907, Mismatches: 121, Indels: 329
0.67 0.09 0.24
Matches are distributed among these distances:
22 198 0.22
23 32 0.04
24 9 0.01
25 37 0.04
26 187 0.21
27 35 0.04
28 45 0.05
29 21 0.02
30 10 0.01
31 21 0.02
32 312 0.34
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (26 bp):
AATAAATCAATCCATACTAATAAAAT
Found at i:175089 original size:14 final size:14
Alignment explanation
Indices: 175070--175122 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
175060 AATCCATACT
175070 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
175084 AATAAATCAATTCATACT
1 AATAAAT-TATT--TA-A
175102 AATAAATTATTTAA
1 AATAAATTATTTAA
175116 AATAAAT
1 AATAAAT
175123 CAATCTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:175162 original size:22 final size:22
Alignment explanation
Indices: 175113--175161 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
175103 ATAAATTATT
* **
175113 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
175135 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
175158 TAAA
1 TAAA
175162 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:175191 original size:22 final size:22
Alignment explanation
Indices: 175165--175207 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
175155 TAATAAATTA
175165 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
175187 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
175208 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:175216 original size:22 final size:22
Alignment explanation
Indices: 175167--175215 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
175157 ATAAATTATT
**
175167 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
175189 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
175212 TAAA
1 TAAA
175216 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:175275 original size:22 final size:22
Alignment explanation
Indices: 175223--175296 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 22
175213 AAATTATTTA
175223 AAATAAATCAATCCATAC-AACT
1 AAATAAATCAATCCATACTAA-T
*
175245 ACAATAATAAATCAATCCATATTAAT
1 ---A-AATAAATCAATCCATACTAAT
*
175271 AAATAAATCAATTCATACTAAT
1 AAATAAATCAATCCATACTAAT
175293 AAAT
1 AAAT
175297 TATTTAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 23 0.52
23 1 0.02
25 1 0.02
26 17 0.39
27 2 0.05
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.28
Consensus pattern (22 bp):
AAATAAATCAATCCATACTAAT
Found at i:175291 original size:188 final size:188
Alignment explanation
Indices: 175079--176075 Score: 1178
Period size: 188 Copynumber: 5.3 Consensus size: 188
175069 TAATAAATTA
*
175079 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAA
1 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
175144 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
66 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
175209 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
131 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
* * *
175266 TTAATAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAGATAT
1 TTTA-AAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
175331 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
65 ATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*** * * *
175396 CTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATTCATAGT-AATAAAT
130 CTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AAT-AAATCA-A-TCCAT--A-
175459 T
188 T
* * *
175460 ATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATACTTTAAAATA
1 -TTTAAAATAAATCAATTCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATA
* * **
175518 AATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAAT
64 AATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAAT
* ** * ** * * * * *
175583 TCATACTAATAAA-TAAAT-CAATTCAT-ACT-AATA-AATTATTTAA-AATAAATCAATACATA
125 CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTA--CAATAATAAATCAATCCATA
175642 T
188 T
* *
175643 TTTAAAATAAATCAATCCATATTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
* * * *
175708 TCAATTCATAC-AACTACA--A--T--AATAAATTAATCTATATTTTAAAATAAATCAATCCATA
66 TCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA
*
175766 CTAATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATTATTTAAAATAAATCAATCCATA
130 CTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATA
175830 T
188 T
* * **
175831 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AA
*
175896 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAATCC
62 TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCC
* *
175961 ATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATTCATAT
127 ATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
* *
176023 TTTAAAATAAATCAATTCATAATAATAAATTATTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATA
176076 CAACTATAAT
Statistics
Matches: 692, Mismatches: 67, Indels: 100
0.81 0.08 0.12
Matches are distributed among these distances:
178 23 0.03
179 7 0.01
180 5 0.01
181 3 0.00
182 40 0.06
183 6 0.01
184 5 0.01
185 1 0.00
186 5 0.01
187 15 0.02
188 339 0.49
189 8 0.01
190 11 0.02
191 12 0.02
192 109 0.16
193 4 0.01
194 22 0.03
195 3 0.00
196 2 0.00
197 2 0.00
198 70 0.10
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (188 bp):
TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
Found at i:175325 original size:22 final size:22
Alignment explanation
Indices: 175299--175341 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
175289 TAATAAATTA
175299 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
* *
175321 TTTAAGATATATCAATCCATA
1 TTTAAAATAAATCAATCCATA
175342 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:175379 original size:22 final size:22
Alignment explanation
Indices: 175353--175395 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
175343 TAATAAATTA
175353 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
175375 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
175396 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:175404 original size:22 final size:22
Alignment explanation
Indices: 175355--175403 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
175345 ATAAATTATT
**
175355 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
175377 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
175400 TAAA
1 TAAA
175404 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:175433 original size:22 final size:22
Alignment explanation
Indices: 175407--175449 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
175397 TAATAAATTA
175407 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
175429 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
175450 GTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:175458 original size:22 final size:22
Alignment explanation
Indices: 175409--175457 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
175399 ATAAATTATT
**
175409 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
175431 TAAAATAAATCAATTCATAGTAA
1 TAAAATAAATCAATCCATA-TAA
175454 TAAA
1 TAAA
175458 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:175517 original size:22 final size:22
Alignment explanation
Indices: 175461--175531 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 22
175451 TAATAAATTA
175461 TTTAAAATAAATCAATCCATACAAC
1 TTTAAAATAAATCAATCCAT---AC
**
175486 TACAATAATAAATCAATCCATAC
1 TTTAA-AATAAATCAATCCATAC
*
175509 TTTAAAATAAATCAATTCATAC
1 TTTAAAATAAATCAATCCATAC
175531 T
1 T
175532 AATAAATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 17 0.43
23 5 0.12
25 3 0.08
26 15 0.38
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAC
Found at i:175594 original size:18 final size:19
Alignment explanation
Indices: 175490--175618 Score: 68
Period size: 22 Copynumber: 6.5 Consensus size: 19
175480 TACAACTACA
*
175490 ATAATAAATCAATCCATAC
1 ATAATAAATCAATTCATAC
*
175509 TTTAAAATAAATCAATTCATAC
1 ---ATAATAAATCAATTCATAC
* * *
175531 -TAATAAAT-TATTTA-AA
1 ATAATAAATCAATTCATAC
* * *
175547 ATAAATCAATCCATACAACTAC
1 AT-AATAAATCAATTC-A-TAC
175569 AATAATAAATCAATTCATAC
1 -ATAATAAATCAATTCATAC
175589 TAATAAATAAATCAATTCATAC
1 --AT-AATAAATCAATTCATAC
175611 -TAATAAAT
1 ATAATAAAT
175619 TATTTAAAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
16 1 0.01
17 5 0.06
18 20 0.24
19 3 0.04
20 4 0.05
21 4 0.05
22 45 0.54
23 2 0.02
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAATAAATCAATTCATAC
Found at i:175597 original size:22 final size:22
Alignment explanation
Indices: 175572--175618 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
175562 CAACTACAAT
175572 AATAAATCAATTCATACTAATA
1 AATAAATCAATTCATACTAATA
175594 AATAAATCAATTCATACTAATA
1 AATAAATCAATTCATACTAATA
175616 AAT
1 AAT
175619 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAATCAATTCATACTAATA
Found at i:175637 original size:22 final size:22
Alignment explanation
Indices: 175612--175658 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
175602 AATTCATACT
175612 AATAAAT-TATTTAAAATAAATC
1 AATAAATAT-TTTAAAATAAATC
*
175634 AATACATATTTTAAAATAAATC
1 AATAAATATTTTAAAATAAATC
175656 AAT
1 AAT
175659 CCATATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAATATTTTAAAATAAATC
Found at i:175663 original size:22 final size:22
Alignment explanation
Indices: 175621--175665 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
175611 TAATAAATTA
175621 TTTAAAATAAATCAATACATAT
1 TTTAAAATAAATCAATACATAT
*
175643 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
175665 T
1 T
175666 AATAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:175672 original size:22 final size:22
Alignment explanation
Indices: 175619--175671 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
175609 ACTAATAAAT
175619 TATT-TAAAATAAATCAATACA
1 TATTATAAAATAAATCAATACA
* *
175640 TATTTTAAAATAAATCAATCCA
1 TATTATAAAATAAATCAATACA
175662 TATTAATAAA
1 TATT-ATAAA
175672 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 20 0.71
23 4 0.14
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (22 bp):
TATTATAAAATAAATCAATACA
Found at i:175701 original size:22 final size:22
Alignment explanation
Indices: 175675--175765 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
175665 TAATAAATTA
175675 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
* *
175697 TTTAAAATAAATCAATTCATACAAC
1 TTTAAAATAAATCAATCCAT---AT
** * *
175722 TACAATAATAAATTAATCTATAT
1 TTTAA-AATAAATCAATCCATAT
175745 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
175766 CTAATAAATT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
22 33 0.62
23 4 0.08
25 4 0.08
26 12 0.23
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:175835 original size:22 final size:22
Alignment explanation
Indices: 175809--175851 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
175799 TAATAAATTA
175809 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
175831 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
175852 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:175860 original size:22 final size:22
Alignment explanation
Indices: 175811--175859 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
175801 ATAAATTATT
**
175811 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
175833 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
175856 TAAA
1 TAAA
175860 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:175946 original size:22 final size:22
Alignment explanation
Indices: 175921--175963 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
175911 TAATAAATTA
175921 TTTAAAATAAATCAATACATAT
1 TTTAAAATAAATCAATACATAT
*
175943 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATACATA
175964 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:175972 original size:22 final size:22
Alignment explanation
Indices: 175923--175971 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
175913 ATAAATTATT
**
175923 TAAAATAAATCAATACATATTT
1 TAAAATAAATCAATACATATAA
*
175945 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATACATA-TAA
175968 TAAA
1 TAAA
175972 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:175997 original size:112 final size:112
Alignment explanation
Indices: 175782--176168 Score: 478
Period size: 112 Copynumber: 3.5 Consensus size: 112
175772 AATTATTTAA
*
175782 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAAT
*
175847 CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
66 CCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAAT
175894 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAAT
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAAT
175959 CCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAAT
66 CCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAAT
* ** * ** * * *
176006 AATAAATCAATTCATA-TTTTAAAATAAATCAATTCATAAT-AATAAAT-TATTTAAAATAAATC
1 AATAAATCAATCCATACTAATAAATTATTTAAAAT-A-AATCAATACATAT-TTTAAAATAAATC
* * * **
176068 AATACATAC-AACT--A-TA---ATAATAAATCAATTCAT---ATTTTAA-
63 AATCCATACTAA-TAAATTATTTAAAATAAATCAATTCATACAACTACAAT
* *
176108 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTATAATAAAT
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAAT
176169 TATTTTAAAA
Statistics
Matches: 241, Mismatches: 27, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
101 3 0.01
102 32 0.13
103 16 0.07
106 16 0.07
109 2 0.01
110 1 0.00
111 14 0.06
112 154 0.64
113 3 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (112 bp):
AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATACATATTTTAAAATAAATCAAT
CCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAAT
Done.