Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold492
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: 781693
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 6
Found at i:712567 original size:57 final size:58
Alignment explanation
Indices: 712498--712799 Score: 382
Period size: 57 Copynumber: 5.3 Consensus size: 58
712488 CACCAACTTG
** * * * *
712498 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTATGTGCTTT-TAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAA-GGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACT
* * * * *
712555 TGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGGTGTCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGG-AAAGGATGCCACTGACT
* *
712614 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACAGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACT
712671 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACT
* * * *
712728 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACT
712786 TGTGGGC-TTTGAAA
1 TGTGGGCTTTTGAAA
712800 AAGATGCCAC
Statistics
Matches: 216, Mismatches: 24, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
56 5 0.02
57 111 0.51
58 47 0.22
59 53 0.25
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32
Consensus pattern (58 bp):
TGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACT
Found at i:712758 original size:144 final size:144
Alignment explanation
Indices: 712532--712816 Score: 507
Period size: 144 Copynumber: 2.0 Consensus size: 144
712522 CAACTTATGT
*
712532 GCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGA
1 GCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATACCACTGACTTGTGGGCTTTGGA
* *
712597 AAAGGGTGTCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATG
66 AAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATG
712662 CCACAGACTTGTGG
131 CCACAGACTTGTGG
* * *
712676 GCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTTGGA
1 GCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATACCACTGACTTGTGGGCTTTGGA
712741 AAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATG
66 AAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATG
*
712806 CCACGGACTTG
131 CCACAGACTTG
712817 GAAGAAAAGA
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 134 1.00
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.31
Consensus pattern (144 bp):
GCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATACCACTGACTTGTGGGCTTTGGA
AAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATG
CCACAGACTTGTGG
Found at i:712796 original size:87 final size:87
Alignment explanation
Indices: 712498--712816 Score: 414
Period size: 87 Copynumber: 3.7 Consensus size: 87
712488 CACCAACTTG
** * * * *
712498 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTATGTGCTTT-TAAAGGTTGCCACTGACTTGTGGG
1 TGTGGGCTTTTGAAA-GGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGG
* *
712561 CTTTTGAAAAGATACCACTGACT
65 CTTTGGAAAAGATGCCACTGACT
* * * * *
712584 TGTGGGCTTTGGAAAAGGGTGTCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGG
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGG
*
712648 CTTTGGAAAAGATGCCACAGACT
65 CTTTGGAAAAGATGCCACTGACT
712671 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGC
1 TGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGC
*
712735 TTTGGAAAAGGGTGCCACTGACT
66 TTTGGAAAA-GATGCCACTGACT
* * *
712758 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACGGACTTG
1 TGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTG
712817 GAAGAAAAGA
Statistics
Matches: 208, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
85 25 0.12
86 46 0.22
87 137 0.66
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (87 bp):
TGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGC
TTTGGAAAAGATGCCACTGACT
Found at i:712855 original size:31 final size:30
Alignment explanation
Indices: 712810--712943 Score: 142
Period size: 31 Copynumber: 4.3 Consensus size: 30
712800 AAGATGCCAC
*
712810 GGACTTGGAAGAAAAGATGCCACTGAGTCGT
1 GGACTTTG-AGAAAAGATGCCACTGAGTCGT
* * *
712841 GGACTTTAGGGAAAAAAGACGCCACTAAGTCGT
1 GGACTTT---GAGAAAAGATGCCACTGAGTCGT
*
712874 GGACTTTGAAGAAGAGATGCCACTGAGTCGT
1 GGACTTTG-AGAAAAGATGCCACTGAGTCGT
* *
712905 GGACTTTGAAAAAGAGATGCCACTAAGTCGT
1 GGACTTTGAGAAA-AGATGCCACTGAGTCGT
*
712936 GAACTTTG
1 GGACTTTG
712944 GGGAAAAAAG
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
30 4 0.05
31 55 0.64
33 26 0.30
34 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (30 bp):
GGACTTTGAGAAAAGATGCCACTGAGTCGT
Found at i:712892 original size:64 final size:62
Alignment explanation
Indices: 712810--712981 Score: 199
Period size: 64 Copynumber: 2.7 Consensus size: 62
712800 AAGATGCCAC
*
712810 GGACTTGGAAGAAAAGATGCCACTGAGTCGTGGACTTTAGGGAAAAA-AGACGCCACTAAGTCGT
1 GGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTT---GAAAAAGAGACGCCACTAAGTCGT
* *
712874 GGACTTTGAAGAAGAGATGCCACTGAGTCGTGGACTTTGAAAAAGAGATGCCACTAAGTCGT
1 GGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAAAAGAGACGCCACTAAGTCGT
* * * *
712936 GAACTTTGGGGAA-AAAAGATACCATTGAGTCGTAGAC-TT-AAAAAGA
1 GGACTTT---GAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAAAAGA
712982 AAAGGTGCCA
Statistics
Matches: 96, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
61 6 0.06
62 29 0.30
63 2 0.02
64 56 0.58
65 3 0.03
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (62 bp):
GGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAAAAGAGACGCCACTAAGTCGT
Found at i:712895 original size:144 final size:140
Alignment explanation
Indices: 712544--712899 Score: 358
Period size: 144 Copynumber: 2.5 Consensus size: 140
712534 TTTTAAAGGT
* * * ** * * * * *
712544 TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAAAAGGGTGTCAC
1 TGCCACTGACTCGTGGACTTTGGAAAAGACGCCACTAACTCGTGGACTTTGGAAAAGGATGCCAC
*
712609 TGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACAGACTTGT
66 TGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACAGACTTGT
* * * *
712674 GGGCTTTTGAAGGT
131 GAG----TAAAAGA
* * * * * * * *
712688 TGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCAC
1 TGCCACTGACTCGTGGACTTTGGAAAAGACGCCACTAACTCGTGGACTTTGGAAAAGGATGCCAC
*
712753 TGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACGGACTTG-
66 TGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACAGACTTGT
712817 GAAG-AAAAGA
131 G-AGTAAAAGA
* *
712827 TGCCACTGAGTCGTGGACTTTAGGGAAAAAAGACGCCACTAAGTCGTGGACTTT-GAAGAAGAGA
1 TGCCACTGACTCGTGGACTTT--GG--AAAAGACGCCACTAACTCGTGGACTTTGGAA-AAG-GA
712891 TGCCACTGA
60 TGCCACTGA
712900 GTCGTGGACT
Statistics
Matches: 185, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
139 21 0.11
141 2 0.01
142 3 0.02
143 25 0.14
144 134 0.72
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.27
Consensus pattern (140 bp):
TGCCACTGACTCGTGGACTTTGGAAAAGACGCCACTAACTCGTGGACTTTGGAAAAGGATGCCAC
TGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAAGATGCCACAGACTTGT
GAGTAAAAGA
Found at i:713097 original size:34 final size:33
Alignment explanation
Indices: 712976--713182 Score: 258
Period size: 34 Copynumber: 6.2 Consensus size: 33
712966 CGTAGACTTA
* *
712976 AAAAG-AAAAGGTGCCACGGAGTTGTAGAC-TT
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
713007 AAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TT
1 AAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTT
* *
713040 AAAAGGGACAAAGAGTGCCACGGAGTTATGGGCTTT
1 AAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTT
713076 GAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 -AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
*
713110 AAAAAGAAAGAGGTGCCACGGAGTTGTGGGCTTT
1 -AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
*
713144 GAAAAGAAAAATGTGCCACGGAGTTGTGGGCTTT
1 -AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
713178 AAAAG
1 AAAAG
713183 GGTGAGGAAT
Statistics
Matches: 157, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
31 4 0.03
32 1 0.01
33 33 0.21
34 90 0.57
35 23 0.15
36 2 0.01
37 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.20
Consensus pattern (33 bp):
AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:713128 original size:68 final size:67
Alignment explanation
Indices: 712973--713181 Score: 289
Period size: 68 Copynumber: 3.1 Consensus size: 67
712963 AGTCGTAGAC
* * *
712973 TTAAAAAGAAAAGGTGCCACGGAGTTGTAGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGG
1 TTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAGGTGCCACGGAGTTGTGG
*
713036 AC-
65 GCT
* *
713038 TTAAAAGGGACAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGT
1 TTAAAA-AGA-AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGT
713103 GGGCT
63 GGGCT
*
713108 TTAAAAAGAAAGAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAATGTGCCACGGAGTTGTGG
1 TTAAAAAGAAA-AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGG
713173 GCT
65 GCT
713176 TTAAAA
1 TTAAAA
713182 GGGTGAGGAA
Statistics
Matches: 128, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
65 6 0.05
66 2 0.02
67 4 0.03
68 76 0.59
69 30 0.23
70 10 0.08
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (67 bp):
TTAAAAAGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGG
CT
Found at i:714633 original size:1 final size:1
Alignment explanation
Indices: 714629--714726 Score: 88
Period size: 1 Copynumber: 98.0 Consensus size: 1
714619 TTTGTTGTTG
* * * * * * *
714629 TTTTTTTTTTTTGTTTTTTTGTTTTTTGTTTTTTGTTTTTTTTTGTTTTTTTTGTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
714694 TGTTTTCTTTTTCTTTCTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
714727 GCGGAGGACG
Statistics
Matches: 73, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:714634 original size:13 final size:12
Alignment explanation
Indices: 714616--714697 Score: 84
Period size: 13 Copynumber: 6.9 Consensus size: 12
714606 CATCCGGACC
714616 TTTTTTGTTGTTG
1 TTTTTT-TTGTTG
*
714629 TTTTTTTT-TTT
1 TTTTTTTTGTTG
714640 TGTTTTTTTGTT-
1 T-TTTTTTTGTTG
714652 TTTTGTTTT-TTG
1 TTTT-TTTTGTTG
714664 -TTTTTTT-TTG
1 TTTTTTTTGTTG
714674 TTTTTTTTGTTTG
1 TTTTTTTTG-TTG
714687 TTTTTTTTGTT
1 TTTTTTTTGTT
714698 TTCTTTTTCT
Statistics
Matches: 61, Mismatches: 1, Indels: 15
0.79 0.01 0.19
Matches are distributed among these distances:
10 7 0.11
11 18 0.30
12 16 0.26
13 20 0.33
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (12 bp):
TTTTTTTTGTTG
Found at i:714634 original size:15 final size:14
Alignment explanation
Indices: 714626--714723 Score: 105
Period size: 13 Copynumber: 7.1 Consensus size: 14
714616 TTTTTTGTTG
714626 TTGTTTT-TTTTTT
1 TTGTTTTGTTTTTT
*
714639 TTGTTTTTTTGTTTT
1 TTGTTTTGTT-TTTT
*
714654 TTGTTTT-TTGTTT
1 TTGTTTTGTTTTTT
714667 TT-TTTTGTTTTTT
1 TTGTTTTGTTTTTT
714680 TTG-TTTGTTTTTT
1 TTGTTTTGTTTTTT
*
714693 TTGTTTTCTTTTTCT
1 TTGTTTTGTTTTT-T
* *
714708 TTCTTTTCTTTTTT
1 TTGTTTTGTTTTTT
714722 TT
1 TT
714724 TTTGCGGAGG
Statistics
Matches: 75, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
12 4 0.05
13 32 0.43
14 15 0.20
15 24 0.32
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (14 bp):
TTGTTTTGTTTTTT
Found at i:718272 original size:175 final size:175
Alignment explanation
Indices: 717981--718334 Score: 681
Period size: 175 Copynumber: 2.0 Consensus size: 175
717971 CTTTATTGAG
*
717981 GTTCCAATCTTAACCTCTTTTCGATTTTCTTTACTACCCAAATTTATCACTTTTGTTGAGTCTTT
1 GTTCCAATCTTAACCTCTTTTCGATTTTCTTTACTACCCAAATTTATCACTTCTGTTGAGTCTTT
718046 GTGGGGCATGATTTGCTCCTCCTCTTGCTCAACTAATCGTAAAAGGTCTATTGGCACAAAGTTCT
66 GTGGGGCATGATTTGCTCCTCCTCTTGCTCAACTAATCGTAAAAGGTCTATTGGCACAAAGTTCT
718111 CTTCAGAATCTTCTTCAAAATCAACTTCACTAGTGCAAATTGACT
131 CTTCAGAATCTTCTTCAAAATCAACTTCACTAGTGCAAATTGACT
718156 GTTCCAATCTTAACCTCTTTTCGATTTTCTTTACTACCCAAATTTATCACTTCTGTTGAGTCTTT
1 GTTCCAATCTTAACCTCTTTTCGATTTTCTTTACTACCCAAATTTATCACTTCTGTTGAGTCTTT
* *
718221 GTGGGGCATGATTTGCTCCTCCTCTTGCTCAACTAATCGTAAGATGTCTATTGGCACAAAGTTCT
66 GTGGGGCATGATTTGCTCCTCCTCTTGCTCAACTAATCGTAAAAGGTCTATTGGCACAAAGTTCT
718286 CTTCAGAATCTTCTTCAAAATCAACTTCACTAGTGCAAATTGACT
131 CTTCAGAATCTTCTTCAAAATCAACTTCACTAGTGCAAATTGACT
718331 GTTC
1 GTTC
718335 GAAATTGATC
Statistics
Matches: 176, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 176 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (175 bp):
GTTCCAATCTTAACCTCTTTTCGATTTTCTTTACTACCCAAATTTATCACTTCTGTTGAGTCTTT
GTGGGGCATGATTTGCTCCTCCTCTTGCTCAACTAATCGTAAAAGGTCTATTGGCACAAAGTTCT
CTTCAGAATCTTCTTCAAAATCAACTTCACTAGTGCAAATTGACT
Found at i:720326 original size:19 final size:19
Alignment explanation
Indices: 720302--720399 Score: 112
Period size: 19 Copynumber: 5.8 Consensus size: 19
720292 TTTCAGCGAT
720302 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
720321 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
720335 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
720353 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
720367 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
720385 TTGTATCGATACATA
1 TTGTATCGATACATA
720400 TTCCATGTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 24
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 37 0.55
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:720339 original size:32 final size:32
Alignment explanation
Indices: 720303--720397 Score: 190
Period size: 32 Copynumber: 3.0 Consensus size: 32
720293 TTCAGCGATT
720303 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
720335 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
720367 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
720398 TATTCCATGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:720340 original size:13 final size:13
Alignment explanation
Indices: 720322--720378 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
720312 ACATAAGTGT
720322 TGTATCGATACAA
1 TGTATCGATACAA
720335 TGTATCGATACATAA
1 TGTATCGATAC--AA
720350 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
720367 TGTATCGATACA
1 TGTATCGATACA
720379 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:720423 original size:13 final size:13
Alignment explanation
Indices: 720405--720430 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
720395 ACATATTCCA
720405 TGTATCGATACAT
1 TGTATCGATACAT
720418 TGTATCGATACAT
1 TGTATCGATACAT
720431 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:722817 original size:52 final size:52
Alignment explanation
Indices: 722751--722887 Score: 170
Period size: 52 Copynumber: 2.6 Consensus size: 52
722741 TTAAGTTTCT
* *
722751 CAATTGTT-CATAATCGGGGATACTCCAACCCCGGTTTTATTTC-CAAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAACAC
* * *
722802 CAATTTTCCTTTAATCGGTGATACTCCAACTCCGATTTTATTTCTAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAACAC
* * *
722855 CAATTTTTCACAATCGAGGATACTCCAACCCCG
1 CAATTTTCCATAATCGGGGATACTCCAACCCCG
722888 TTATTTCCGA
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
50 2 0.03
51 6 0.08
52 49 0.68
53 15 0.21
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (52 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAACAC
Found at i:722959 original size:51 final size:51
Alignment explanation
Indices: 722898--723117 Score: 221
Period size: 51 Copynumber: 4.3 Consensus size: 51
722888 TTATTTCCGA
* * * * *
722898 AGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATC
1 AGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCACAATC
* * * *
722949 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTCACAATC
1 AGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCACAATC
* *
723000 AGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-TC-CTTTAATC
1 AGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCAC---AATC
* * * * * *
723052 GGGGGTACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 AGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACTAATTTCTCACAATC
723104 -GAGGATACTCCAAC
1 AG-GGATACTCCAAC
723118 ATCATTATTT
Statistics
Matches: 142, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
49 1 0.01
50 2 0.01
51 80 0.56
52 43 0.30
53 13 0.09
54 2 0.01
55 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
AGGGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTCTCACAATC
Found at i:723077 original size:52 final size:52
Alignment explanation
Indices: 722937--723117 Score: 213
Period size: 52 Copynumber: 3.5 Consensus size: 52
722927 AAAATATTGA
* *
722937 TTTCTCATAATCGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACACTAAT
1 TTTC-CATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAAT
* * * *
722989 TTTTCACAATCAGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAAT
1 TTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAAT
* * * *
723040 TTTCCTTTAATCGGGGGTACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
1 TTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAAT
* * *
723093 TTTTCACAATCGAGGATACTCCAAC
1 TTTCCATAATCGGGGATACTCCAAC
723118 ATCATTATTT
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
51 42 0.39
52 51 0.47
53 15 0.14
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (52 bp):
TTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAAT
Found at i:723079 original size:103 final size:103
Alignment explanation
Indices: 722898--723117 Score: 293
Period size: 102 Copynumber: 2.1 Consensus size: 103
722888 TTATTTCCGA
* ***
722898 AGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
1 AGGGATACTCCAACCCCGGCTTTATTTCCAAAACACCAATTTCTCATAATCGGGGATACTCCAAC
* *
722963 CCCGATTTTATTT-CTAAAACACTAATTTTTCACAATC
66 CCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
* * * *
723000 AGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-TCCTTTAATCGGGGGTACTCCA
1 AGGGATACTCCAACCCCGGCTTTATTTCCAAAACACCAATTTCT-C-ATAATCGGGGATACTCCA
*
723064 ACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
64 ACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
723104 -GAGGATACTCCAAC
1 AG-GGATACTCCAAC
723118 ATCATTATTT
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
101 1 0.01
102 37 0.36
103 31 0.30
104 34 0.33
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (103 bp):
AGGGATACTCCAACCCCGGCTTTATTTCCAAAACACCAATTTCTCATAATCGGGGATACTCCAAC
CCCGATTTTATTTCCAAAAACACCAATTTTTCACAATC
Found at i:723244 original size:107 final size:107
Alignment explanation
Indices: 723052--723252 Score: 255
Period size: 107 Copynumber: 1.9 Consensus size: 107
723042 TCCTTTAATC
* *
723052 GGGGGTACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAACCGAGGATACTCCAA
*
723117 CATCATTATTTCATCAGGGATACTCCAACCCCGTTACCTCCGA
66 CACCATTATTTCA-CAGGGATACTCCAACCCCGTTACCTCCGA
* * * * *
723160 GGGGATACTCCAA-TCTCGATTTTATTTCC-TAATCATCGATTTTTCACAACCGGGGATACTCCA
1 GGGGATACTCCAACTC-CGATTTTATTTCCAAAAACACCAATTTTTCACAACCGAGGATACTCCA
* *
723223 ACCCCGTTATTTTCA-AGGGGATACTCCAAC
65 ACACCATTA-TTTCACA-GGGATACTCCAAC
723253 TCCATTATTA
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
106 1 0.01
107 49 0.61
108 30 0.38
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAACCGAGGATACTCCAA
CACCATTATTTCACAGGGATACTCCAACCCCGTTACCTCCGA
Found at i:724698 original size:13 final size:13
Alignment explanation
Indices: 724680--724704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
724670 CATAAAATGT
724680 TGTATCGATACAA
1 TGTATCGATACAA
724693 TGTATCGATACA
1 TGTATCGATACA
724705 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:724786 original size:13 final size:13
Alignment explanation
Indices: 724768--724792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
724758 ATTACTCAAA
724768 TGTATCGATACAT
1 TGTATCGATACAT
724781 TGTATCGATACA
1 TGTATCGATACA
724793 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:724857 original size:52 final size:52
Alignment explanation
Indices: 724801--724920 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
724791 CACTGATCTT
* *
724801 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
724853 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
724905 TGTATCGATACATGCA
1 TGTATCGATACATGCA
724921 AACAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:733203 original size:31 final size:30
Alignment explanation
Indices: 733160--733330 Score: 195
Period size: 30 Copynumber: 5.6 Consensus size: 30
733150 TAAAAAAAAA
*
733160 TCCATGACTCAGTGGCAATCTCTTCTCAAAG
1 TCCACGACTCAGTGGC-ATCTCTTCTCAAAG
*
733191 TCCACGACTCAGTGGCAATCTCTGCTCAAAG
1 TCCACGACTCAGTGGC-ATCTCTTCTCAAAG
* *
733222 TCCACGACGCAGTGGCAT-TTTGTCTCAAAG
1 TCCACGACTCAGTGGCATCTCT-TCTCAAAG
*
733252 TCCACGACGCAGTGGCATC-CTTCTCTTTAAAG
1 TCCACGACTCAGTGGCATCTCTTCTC---AAAG
*
733284 TCCACGACTCAGTGGCAT-TTTGTCTCAAAG
1 TCCACGACTCAGTGGCATCTCT-TCTCAAAG
*
733314 TCCACGACTCCGTGGCA
1 TCCACGACTCAGTGGCA
733331 CCTTTTTCCT
Statistics
Matches: 124, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.05
30 48 0.39
31 44 0.35
32 22 0.18
33 4 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (30 bp):
TCCACGACTCAGTGGCATCTCTTCTCAAAG
Found at i:733251 original size:30 final size:31
Alignment explanation
Indices: 733160--733335 Score: 207
Period size: 31 Copynumber: 5.7 Consensus size: 31
733150 TAAAAAAAAA
* *
733160 TCCATGACTCAGTGGCAATCTCT-TCTCAAAG
1 TCCACGACTCAGTGGC-ATCTTTGTCTCAAAG
*
733191 TCCACGACTCAGTGGCAATCTCTG-CTCAAAG
1 TCCACGACTCAGTGGC-ATCTTTGTCTCAAAG
*
733222 TCCACGACGCAGTGGCAT-TTTGTCTCAAAG
1 TCCACGACTCAGTGGCATCTTTGTCTCAAAG
* * * *
733252 TCCACGACGCAGTGGCATCCTTCTCTTTAAAG
1 TCCACGACTCAGTGGCATCTTTGTC-TCAAAG
733284 TCCACGACTCAGTGGCAT-TTTGTCTCAAAG
1 TCCACGACTCAGTGGCATCTTTGTCTCAAAG
* *
733314 TCCACGACTCCGTGGCACCTTT
1 TCCACGACTCAGTGGCATCTTT
733336 TTCCTTTCCA
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
29 3 0.02
30 48 0.38
31 55 0.43
32 22 0.17
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (31 bp):
TCCACGACTCAGTGGCATCTTTGTCTCAAAG
Found at i:733576 original size:70 final size:69
Alignment explanation
Indices: 733310--733992 Score: 885
Period size: 70 Copynumber: 9.9 Consensus size: 69
733300 ATTTTGTCTC
* * * *
733310 AAAGTCCACGACTCCGTGGCAC-CTTTTTCCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT-
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
733373 TTTT
66 TTTT
* **
733377 AAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTTTCAAAGCCCACAACTCCGTGGCACCTCCTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
733440 TTTT
66 TTTT
* *
733444 AAAGCCCACAACTTCGTGGCACTCTTTCTT-CTTTTCAAAGCCCACAACTCTGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTT-TTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
733508 CTGTTT
65 CT-TTT
*
733514 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
733579 CTTTT
65 CTTTT
* *
733584 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--AAGTCCACAACTCCGTGGCATCTTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCACCTTT-T
* *
733647 CCCTTCCT
64 -TCTT-TT
* * * *
733655 AAAGCCCACACAAGTCGGTGGCAAC-CTTCTT-CTTTTCAAAGCCCACAACTCCGTGGCACCTTC
1 AAAG-CC-CACAACTCCGTGGC-ACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTT
733718 TTCTTTT
63 TTCTTTT
**
733725 AAAGCCCACAACTTTGTGGCACTC---TT--TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
733785 TTTT
66 TTTT
** *
733789 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
*
733854 CCGTTT
65 -CTTTT
*
733860 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
733925 CTTTT
65 CTTTT
* *
733930 AAAGCCCACAACTCCGTGGCACTCTTTTTCACTTTT--AAGTCCACAACTCCGTGGCATCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTC-CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
733993 TCCTTCCCAA
Statistics
Matches: 554, Mismatches: 38, Indels: 47
0.87 0.06 0.07
Matches are distributed among these distances:
64 61 0.11
65 2 0.00
66 32 0.06
67 52 0.09
68 63 0.11
69 41 0.07
70 151 0.27
71 108 0.19
72 3 0.01
73 39 0.07
74 2 0.00
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (69 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
TTTT
Found at i:733990 original size:34 final size:34
Alignment explanation
Indices: 733310--733997 Score: 708
Period size: 35 Copynumber: 19.9 Consensus size: 34
733300 ATTTTGTCTC
* * * *
733310 AAAGTCCACGACTCCGTGGCACCTTTTTCCTTTCC
1 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTT-T
* *
733345 AAAGCCCACAACTCCGTGGCACCTTCTT--TTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
733377 AAAGCCCACAACTCCGTGGCACCTTCTT-CTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
* **
733410 CAAAGCCCACAACTCCGTGGCACCTCCTT-CTTTT
1 -AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
*
733444 AAAGCCCACAACTTCGTGGCACTCTTTCTT-CTTTT
1 AAAGCCCACAACTCCGTGGCA-TCTTT-TTCCTTTT
* *
733479 CAAAGCCCACAACTCTGTGGCACCTTTTT-CTGTTT
1 -AAAGCCCACAACTCCGTGGCATCTTTTTCCT-TTT
733514 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTT-CCTTTT
*
733550 CAAAGCCCACAACTCCGTGGCA-CTTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
733584 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTT-CCTTTT
* * *
733620 -AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCT
1 AAAGCCCACAACTCCGTGGCATCTTT-TTCCTT-TT
* * * *
733655 AAAGCCCACACAAGTCGGTGGCAACCTTCTT-CTTTT
1 AAAG-CC-CACAACTCCGTGGC-ATCTTTTTCCTTTT
* *
733691 CAAAGCCCACAACTCCGTGGCACCTTCTT-CTTTT
1 -AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
** * *
733725 AAAGCCCACAACTTTGTGGCA-CTCTTT--TTTC
1 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
*
733756 AAAGCCCACAACTCCGTGGCACCTTTTT-CTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
**
733789 AAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCA-TC-TTTTTCCTTTT
*
733825 CAAAGCCCACAACTCCGTGGCA-CTTTTTTCCGTTT
1 -AAAGCCCACAACTCCGTGGCATC-TTTTTCCTTTT
733860 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTT-CCTTTT
*
733896 CAAAGCCCACAACTCCGTGGCA-CTTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
733930 AAAGCCCACAACTCCGTGGCACTCTTTTTCACTTTT
1 AAAGCCCACAACTCCGTGGCA-TCTTTTTC-CTTTT
*
733966 -AAGTCCACAACTCCGTGGCATCTTTTTTCCTT
1 AAAGCCCACAACTCCGTGGCATC-TTTTTCCTT
733998 CCCAAAGCCC
Statistics
Matches: 572, Mismatches: 47, Indels: 69
0.83 0.07 0.10
Matches are distributed among these distances:
31 22 0.04
32 37 0.06
33 110 0.19
34 117 0.20
35 149 0.26
36 49 0.09
37 71 0.12
38 13 0.02
39 4 0.01
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
Found at i:734010 original size:141 final size:137
Alignment explanation
Indices: 733277--733994 Score: 860
Period size: 141 Copynumber: 5.2 Consensus size: 137
733267 CATCCTTCTC
* * * * * * *
733277 TTTAAAGTCCACGACTCAGTGGCA-TTTTGTC--TCAAAGTCCACGACTCCGTGGCAC-CTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
* *
733338 CCTTTCCAAAGCCCACAACTCCGTGGCACCTTCTT-TTTTAAAGCCCACAACTCCGTGGCAC-CT
66 CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCT
*
733401 TCTT-CT
131 TTTTCCT
* ** *
733407 TTTCAAAGCCCACAACTCCGTGGCACCTCCTTCTTTTAAAGCCCACAACTTCGTGGCACTCTTTC
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT-
*
733472 TT-CTTTTCAAAGCCCACAACTCTGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
64 TTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCAC
733536 TCTTTTTCCCT
128 TCTTTTT-CCT
733547 TTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
* * * * * *
733612 TCCCTTTT--AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTG
65 T-CCTTTTCAAAGCCCACAACTCCGTGGCACCTTT-T-TCTT-TTAAAG-CC-CACAACTCCGTG
*
733675 GCAAC-CTTCTT-CT
124 GC-ACTCTTTTTCCT
* * **
733688 TTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTC---T
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
**
733750 T--TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTTTGTGGCACTC
65 TCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC
733813 TTTTTTCCT
130 -TTTTTCCT
*
733822 TTTCAAAGCCCACAACTCCGTGGCACTTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTT
*
733887 TTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC
64 TT-CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC
733952 TCTTTTTCACT
128 TCTTTTTC-CT
*
733963 TTT-AAGTCCACAACTCCGTGGCATCTTTTTTC
1 TTTAAAGCCCACAACTCCGTGGCA-CTTTTTTC
733995 CTTCCCAAAG
Statistics
Matches: 507, Mismatches: 48, Indels: 57
0.83 0.08 0.09
Matches are distributed among these distances:
130 3 0.01
131 20 0.04
132 15 0.03
133 6 0.01
134 57 0.11
135 68 0.13
136 4 0.01
137 48 0.09
138 9 0.02
139 44 0.09
140 77 0.15
141 135 0.27
142 2 0.00
143 17 0.03
144 2 0.00
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (137 bp):
TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCT
TTTTCCT
Found at i:734036 original size:33 final size:34
Alignment explanation
Indices: 733999--734064 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 34
733989 TTTTTCCTTC
733999 CCAAAGCCCACACAAGTCGGTGGCAA-CCTTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCTT
734032 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 CCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
734065 AAGCCCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 26 0.81
34 6 0.19
ACGTcount: A:0.27, C:0.38, G:0.18, T:0.17
Consensus pattern (34 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCCTTCTT
Found at i:734122 original size:49 final size:49
Alignment explanation
Indices: 734064--735314 Score: 1659
Period size: 49 Copynumber: 25.7 Consensus size: 49
734054 GCAACCCTTC
* * * *
734064 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
734113 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
734162 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
734211 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
734254 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T--TCATCTT
* * *
734310 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
734359 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
734411 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
734460 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
734509 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
734557 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
734606 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
734649 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
734692 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
734744 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
734793 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
734842 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
734890 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
734939 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
734982 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CC----T--TCATCTT
* * *
735038 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
735087 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
735136 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CATCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
735184 TAAATCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
735227 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
*
735279 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
735315 ACATCCTTTT
Statistics
Matches: 1081, Mismatches: 72, Indels: 95
0.87 0.06 0.08
Matches are distributed among these distances:
43 198 0.18
45 3 0.00
48 138 0.13
49 533 0.49
50 6 0.01
51 4 0.00
52 119 0.11
54 2 0.00
55 4 0.00
56 74 0.07
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:734825 original size:333 final size:336
Alignment explanation
Indices: 734064--735323 Score: 1775
Period size: 333 Copynumber: 3.7 Consensus size: 336
734054 GCAACCCTTC
* * * * *
734064 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * * *
734129 GGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCAT
66 GGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* *
734194 ATTGGCACTTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CT
131 ATTGGCAC-CTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCT
* * *
734253 TTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGTCCA
195 TTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG----------GCATC--CTTTAAGTTCA
* * *
734318 ATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGA
248 ATGTAGCTGGCCTTGAATCAGCACATTGGCA---TCA-CTTTAAGTCCAATATAGCTGGCCTTGA
734383 ATCAGCATATTGGCACCTTTTCCATCTT
309 ATCAGCATATTGGCACCTTTTCCATCTT
734411 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
734476 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
734541 ATTGGCACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
131 ATTGGCACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
734606 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTTAAGTTCAATGTAGCTGGCCT
196 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCCTTTAAGTTCAATGTAGCTGGCCT
*
734670 TGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACC
261 TGAATCAGCACATTGGCATCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
734733 TTTTCCATCTT
326 TTTTCCATCTT
734744 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
734809 GGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
734874 ATTGGCACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
131 ATTGGCACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
734939 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTTAAGTTCAATGTAGCTGGCCT
196 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCCTTTAAGTTCAATGTAGCTGGCCT
* * *
735003 TGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGTCCAATATCGCTGGCCTTGACTCAGC
261 TGAATCAGCACATTG----------GCATCA-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGC
*
735068 ACATTGGCACC--TT-CATCTT
315 ATATTGGCACCTTTTCCATCTT
* * *
735087 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATGTCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
* * *
735152 GGCCTTGAATCAGCACATTGGCA-CATCACCTTTAAATCCAATGTAGCTGGCCTTGAATCAGCAC
66 GGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
* * *
735216 ATTGGCA---C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
131 ATTGGCACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CAT
* *
735276 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
193 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCCTTT
735324 TTCATCATCT
Statistics
Matches: 852, Mismatches: 38, Indels: 52
0.90 0.04 0.06
Matches are distributed among these distances:
333 328 0.38
335 1 0.00
337 40 0.05
339 41 0.05
340 43 0.05
341 6 0.01
342 47 0.06
343 92 0.11
344 3 0.00
346 84 0.10
347 128 0.15
350 1 0.00
352 38 0.04
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (336 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
ATTGGCACCTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCCTTTAAGTTCAATGTAGCTGGCCT
TGAATCAGCACATTGGCATCACTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
TTTTCCATCTT
Found at i:735312 original size:95 final size:91
Alignment explanation
Indices: 735130--735323 Score: 253
Period size: 95 Copynumber: 2.1 Consensus size: 91
735120 TTGGCACCTT
* * * *
735130 CACCATTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACATCACCTTTAAATCCAATG
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGGCACATCACCTTTAAATCCAATG
*
735195 TAGCTGGCCTTGAATCAGCACATTGG
66 TAGCTGGCCTTGAATCAGCACATTGA
* * * * *
735221 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTC
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGGCA-C--AT-CACCTTTAAATCC
735286 AATGTAGCTGGCCTTGAATCAGCACATTGA
62 AATGTAGCTGGCCTTGAATCAGCACATTGA
735316 CATCCTTT
1 CA-CCTTT
735324 TTCATCATCT
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
91 40 0.45
92 1 0.01
94 1 0.01
95 41 0.47
96 5 0.06
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (91 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGGCACATCACCTTTAAATCCAATG
TAGCTGGCCTTGAATCAGCACATTGA
Found at i:736158 original size:13 final size:13
Alignment explanation
Indices: 736140--736164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
736130 CATAAAATGT
736140 TGTATCGATACAA
1 TGTATCGATACAA
736153 TGTATCGATACA
1 TGTATCGATACA
736165 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:736246 original size:13 final size:13
Alignment explanation
Indices: 736228--736252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
736218 ATTACTCAAA
736228 TGTATCGATACAT
1 TGTATCGATACAT
736241 TGTATCGATACA
1 TGTATCGATACA
736253 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:736317 original size:52 final size:52
Alignment explanation
Indices: 736261--736380 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
736251 CACTGATCTT
* *
736261 TGTATCGATACATGCAGGCAATTTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
736313 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
736365 TGTATCGATACATGCA
1 TGTATCGATACATGCA
736381 AACAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:750681 original size:1 final size:1
Alignment explanation
Indices: 750677--750738 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
750667 TTCTTTTTCC
* * * * * * * *
750677 AAAAAAAAACAACAACAAAAAAAAACAAAAAAACAAAAAAACAAAAAAAACAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
750739 CAAAGAAAAG
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:750697 original size:16 final size:15
Alignment explanation
Indices: 750676--750747 Score: 90
Period size: 16 Copynumber: 4.5 Consensus size: 15
750666 ATTCTTTTTC
750676 CAAAAAAAAACAACAA
1 CAAAAAAAAACAA-AA
750692 CAAAAAAAAACAAAA
1 CAAAAAAAAACAAAA
*
750707 AAACAAAAAAACAAAA
1 CAA-AAAAAAACAAAA
*
750723 AAAACAAAAAACAAAA
1 CAAA-AAAAAACAAAA
750739 CAAAGAAAA
1 CAAA-AAAA
750748 GAGAGAGAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
15 5 0.10
16 46 0.90
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAACAAAA
Found at i:750706 original size:25 final size:23
Alignment explanation
Indices: 750677--750747 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 23
750667 TTCTTTTTCC
750677 AAAAAAAAACAACAACAAAAAAAA
1 AAAAAAAAACAA-AACAAAAAAAA
*
750701 ACAAAAAAACAAAA-AAACAAAAA
1 AAAAAAAAACAAAACAAA-AAAAA
*
750724 AAACAAAAAACAAAACAAAGAAAA
1 AAA-AAAAAACAAAACAAAAAAAA
750748 GAGAGAGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.07
23 9 0.22
24 26 0.63
25 3 0.07
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (23 bp):
AAAAAAAAACAAAACAAAAAAAA
Found at i:750747 original size:9 final size:8
Alignment explanation
Indices: 750679--750738 Score: 79
Period size: 8 Copynumber: 7.5 Consensus size: 8
750669 CTTTTTCCAA
750679 AAAAAAAC
1 AAAAAAAC
*
750687 AACAACAA-
1 AA-AAAAAC
750695 AAAAAAAC
1 AAAAAAAC
750703 AAAAAAAC
1 AAAAAAAC
750711 AAAAAAAC
1 AAAAAAAC
750719 AAAAAAA-
1 AAAAAAAC
750726 ACAAAAAAC
1 A-AAAAAAC
750735 AAAA
1 AAAA
750739 CAAAGAAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
7 5 0.11
8 36 0.78
9 5 0.11
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:751824 original size:61 final size:59
Alignment explanation
Indices: 751722--752445 Score: 725
Period size: 61 Copynumber: 12.4 Consensus size: 59
751712 CTCCTTCCAC
* * *
751722 TTTT-CAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCG
1 TTTTCCAGTCCTCAAAGAGCAGGACG-C--TTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
751782 TTTTCCAGTCCTCAAAGAGCAGGATGTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACG--CTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * **
751843 TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCC-TTTCAAAGCCCACATAAACTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGAC-GC--TTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
751904 CCTTTT--AGTCCTCAAAGAGCAGGACG---CC-TTTCAAAGCCCACACAAGTTGGTGGCA
1 --TTTTCCAGTCCTCAAAGAGCAGGACGCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
751959 CCTTT-CAGTCCTCAAAGAGCAGGACG---CC-TTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACGCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
752014 TTTTCCAGTCCTCAAAGAGCAGGACG---CCTTTT-AAAGCCCACACAAGTTGGTTGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
752069 TTTTTCAGTCCTCAAAGAGCAGGACG---CCTTTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
752124 TTTTTCAGTCCTCAAAGAGCAGGA---TGCC-TTTCAAAGCCCACATAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
752179 TTTTCCAGTCCTCAAAGAACAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGC-TTC-CTTTTCAAAGCCCACACAAGTTGGTGGCA
** * *
752240 CCTTCCAGTCCTCAAAGAGTAGGACGCCTCGCCTTTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACG-CT-TCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
752300 CCTTT-CAGTCCTCAAACAGGAGGACGCCTTTCCTTTGT-AAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACG-C-TTCCTTT-TCAAAGCCCACACAAGTTGGTGGCA
** * * * **
752361 CCTTCCAGTCCCCAAAAAGCAGGACGCCTTTCCGTTTCAAAGCCCACATGAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACG-C-TTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
752422 CTTTT-TAGTCCTCAAAGAGCAGGA
1 -TTTTCCAGTCCTCAAAGAGCAGGA
752446 TGCACCTTAT
Statistics
Matches: 585, Mismatches: 51, Indels: 55
0.85 0.07 0.08
Matches are distributed among these distances:
54 10 0.02
55 243 0.42
56 3 0.01
59 2 0.00
60 65 0.11
61 251 0.43
62 7 0.01
63 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (59 bp):
TTTTCCAGTCCTCAAAGAGCAGGACGCTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:751959 original size:55 final size:55
Alignment explanation
Indices: 751753--752445 Score: 630
Period size: 55 Copynumber: 12.0 Consensus size: 55
751743 GATGCCTTTT
* * *
751753 CCTTTTAAAGCCCACACAAGTTGGTGG--CGTTTTCCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCCTCAAAGAGCAGGACG
* *
751808 TTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACACCT
1 ------CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGG--A-C-
*
751872 TTT
55 --G
* **
751875 CCTTTCAAAGCCCACATAAACTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
*
751930 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
751985 CCTTTCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCCTCAAAGAGCAGGACG
* * *
752040 CCTTTTAAAGCCCACACAAGTTGGTTGCA-TTTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGCAGGACG
* * *
752095 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTTCAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGCAGGACG
* * *
752150 CCTTTCAAAGCCCACATAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAACAGGATGCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCCTCAAAGAGCAGGA--C--G
** *
752209 CTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGTAGGACGCCTCG
1 C-CTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA-----CG
* * * *
752271 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAACAGGAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
** * *
752326 CCTTTCCTTTGTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCCCAAAAAGCAGGACG
1 CCTTT-C-----AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
** *
752387 CCTTTCCGTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 -----CC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA
752446 TGCACCTTAT
Statistics
Matches: 546, Mismatches: 49, Indels: 74
0.82 0.07 0.11
Matches are distributed among these distances:
53 3 0.01
54 4 0.01
55 253 0.46
56 4 0.01
58 1 0.00
59 2 0.00
60 48 0.09
61 213 0.39
62 7 0.01
63 4 0.01
64 1 0.00
66 3 0.01
67 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG
Found at i:751991 original size:26 final size:26
Alignment explanation
Indices: 751904--751991 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
751894 ACTGGTGGCA
*
751904 CCTTTTAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
751930 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
751959 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
751985 CCTTTCA
1 CCTTTCA
751992 AAGCCCACAC
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.36
27 6 0.14
28 6 0.14
29 10 0.23
30 3 0.07
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:752050 original size:110 final size:110
Alignment explanation
Indices: 751719--752445 Score: 724
Period size: 110 Copynumber: 6.2 Consensus size: 110
751709 CTTCTCCTTC
* * *
751719 CACTTTTCAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCGTT
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCATT
* *
751784 TTCCAGTCCTCAAAGAGCAGGATGTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
60 TTCCAGTCCTCAAAGAGCAGGACG-----CCTTTT-AAAGCCCACACAAGTTGGTGG
* * **
751841 CA-TTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACATAAACTGGTGGCAC
1 CACTTTTC-AGTCCTCAAAGAGCAGG--A-C---GCCTTTCAAAGCCCACACAAGTTGGTGGCA-
*
751905 CTTTT--AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
58 -TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
*
751957 CACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
*
752022 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTTG
66 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
752067 CATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
* * *
752132 TCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACATAAGTTGGTGG
66 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
752177 CA-TTTTCCAGTCCTCAAAGAACAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCAC
1 CACTTTT-CAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCAT
* *
752241 CTTCCAGTCCTCAAAGAGTAGGACGCCTCGCCTTTTAAAGCCCACACAAGTTGGTGG
59 TTTCCAGTCCTCAAAGAGCAGGA-----CGCCTTTTAAAGCCCACACAAGTTGGTGG
* * * **
752298 CACCTTTCAGTCCTCAAACAGGAGGACGCCTTTCCTTTGTAAAGCCCACACAAGTTGGTGGCACC
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTT-C-----AAAGCCCACACAAGTTGGTGGCATT
* * **
752363 TTCCAGTCCCCAAAAAGCAGGACGCCTTTCCGTTTCAAAGCCCACATGAGTTGGTGG
60 TTCCAGTCCTCAAAGAGCAGGACGCC--T---TTT-AAAGCCCACACAAGTTGGTGG
*
752420 CACTTTTTAGTCCTCAAAGAGCAGGA
1 CACTTTTCAGTCCTCAAAGAGCAGGA
752446 TGCACCTTAT
Statistics
Matches: 519, Mismatches: 50, Indels: 72
0.81 0.08 0.11
Matches are distributed among these distances:
108 4 0.01
109 4 0.01
110 193 0.37
112 1 0.00
113 1 0.00
114 2 0.00
115 4 0.01
116 92 0.18
117 9 0.02
118 1 0.00
119 1 0.00
121 96 0.18
122 100 0.19
124 5 0.01
126 1 0.00
127 3 0.01
128 2 0.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (110 bp):
CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:752100 original size:28 final size:28
Alignment explanation
Indices: 751964--752154 Score: 73
Period size: 27 Copynumber: 6.9 Consensus size: 28
751954 TGGCACCTTT
*
751964 CAGTCCTCAAAGAGCAGGACGCCTTTCA
1 CAGTCCTCAAAGAGCAGGACGCCTTTTA
* * * * ** ** * *
751992 AAGCCCACACA-AGTTGGTGGCATTTTC
1 CAGTCCTCAAAGAGCAGGACGCCTTTTA
752019 CAGTCCTCAAAGAGCAGGACGCCTTTTA
1 CAGTCCTCAAAGAGCAGGACGCCTTTTA
* * * * ** ** * *
752047 AAGCCCACACA-AGTTGGTTGCATTTTT
1 CAGTCCTCAAAGAGCAGGACGCCTTTTA
752074 CAGTCCTCAAAGAGCAGGACGCCTTTTA
1 CAGTCCTCAAAGAGCAGGACGCCTTTTA
* * * * ** ** * *
752102 AAGCCCACACA-AGTTGGTGGCATTTTT
1 CAGTCCTCAAAGAGCAGGACGCCTTTTA
*
752129 CAGTCCTCAAAGAGCAGGATGCCTTT
1 CAGTCCTCAAAGAGCAGGACGCCTTT
752155 CAAAGCCCAC
Statistics
Matches: 100, Mismatches: 60, Indels: 6
0.60 0.36 0.04
Matches are distributed among these distances:
27 50 0.50
28 50 0.50
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (28 bp):
CAGTCCTCAAAGAGCAGGACGCCTTTTA
Found at i:752517 original size:42 final size:42
Alignment explanation
Indices: 752429--752521 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
752419 GCACTTTTTA
* * *
752429 GTCCTCAAAGAGCAGGATGCACCTTATTTTCCTCTTTCTTTC
1 GTCCTCAAAGAGCAGGACGCACCTTATTTCCCTCTTTCCTTC
* * * *
752471 GTCCTCAAAGAGCAGGACGTA-CTTCGTTTCCCTTTTTCCTTG
1 GTCCTCAAAGAGCAGGACGCACCTT-ATTTCCCTCTTTCCTTC
752513 GTCCTCAAA
1 GTCCTCAAA
752522 AAATGGGATG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.07
42 40 0.93
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.35
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCACCTTATTTCCCTCTTTCCTTC
Found at i:753141 original size:21 final size:20
Alignment explanation
Indices: 753115--753153 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
753105 GTTGGGACCT
753115 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
753136 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
753154 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:757623 original size:13 final size:14
Alignment explanation
Indices: 757602--757634 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
757592 TTGAAAATTT
757602 TTTAAATTTT-TTA
1 TTTAAATTTTATTA
*
757615 TTTATATTTTATTA
1 TTTAAATTTTATTA
757629 TTTAAA
1 TTTAAA
757635 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTAAATTTTATTA
Found at i:757719 original size:10 final size:10
Alignment explanation
Indices: 757704--757808 Score: 62
Period size: 10 Copynumber: 10.8 Consensus size: 10
757694 AAATAATTAA
757704 TAATTTAAAT
1 TAATTTAAAT
*
757714 TAATTTAATT
1 TAATTTAAAT
757724 TAATTTAAAT
1 TAATTTAAAT
757734 T-A-TTAAAT
1 TAATTTAAAT
*
757742 T--TTATATAT
1 TAATT-TAAAT
* *
757751 AAATTT-GAT
1 TAATTTAAAT
* *
757760 CTAATATAAAA
1 -TAATTTAAAT
757771 TAATTTTTAAAT
1 TAA--TTTAAAT
757783 T--TTTAAAT
1 TAATTTAAAT
*
757791 AAATTTAAAT
1 TAATTTAAAT
757801 TAATTTAA
1 TAATTTAA
757809 TTTGATTCAT
Statistics
Matches: 72, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
8 15 0.21
9 7 0.10
10 41 0.57
11 3 0.04
12 6 0.08
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (10 bp):
TAATTTAAAT
Found at i:757807 original size:20 final size:20
Alignment explanation
Indices: 757704--757808 Score: 62
Period size: 18 Copynumber: 5.4 Consensus size: 20
757694 AAATAATTAA
* *
757704 TAATTTAAATTAATTTAATT
1 TAATTTAAATAAATTTAAAT
*
757724 TAATTTAAAT-TA-TTAAAT
1 TAATTTAAATAAATTTAAAT
* *
757742 T--TTATATATAAATTT-GAT
1 TAATT-TAAATAAATTTAAAT
* *
757760 CTAATATAAAATAATTTTTAAAT
1 -TAAT-TTAAATAA-ATTTAAAT
757783 T--TTTAAATAAATTTAAAT
1 TAATTTAAATAAATTTAAAT
757801 TAATTTAA
1 TAATTTAA
757809 TTTGATTCAT
Statistics
Matches: 63, Mismatches: 11, Indels: 22
0.66 0.11 0.23
Matches are distributed among these distances:
16 2 0.03
17 4 0.06
18 17 0.27
19 11 0.17
20 16 0.25
21 6 0.10
22 5 0.08
23 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
TAATTTAAATAAATTTAAAT
Found at i:758607 original size:20 final size:20
Alignment explanation
Indices: 758558--758609 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
758548 TAAGTAACAA
* *
758558 AATACAAATTTAATAAATAC
1 AATAAAAATATAATAAATAC
758578 AA-AAATAATATAATAAATAC
1 AATAAA-AATATAATAAATAC
*
758598 AATATAAATATA
1 AATAAAAATATA
758610 TTTAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAAAATATAATAAATAC
Found at i:758696 original size:24 final size:24
Alignment explanation
Indices: 758652--758714 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
758642 ACGTTATAAA
* *
758652 TATATATTTTAT-ATTTAATATTT
1 TATATATTTAATAATTTAATATTG
758675 TGATATATTTAATAATTT-ATATTG
1 T-ATATATTTAATAATTTAATATTG
758699 TAT-TATTTACATAATT
1 TATATATTTA-ATAATT
758715 GATTTGAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 6 0.17
23 9 0.26
24 16 0.46
25 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (24 bp):
TATATATTTAATAATTTAATATTG
Found at i:758852 original size:14 final size:15
Alignment explanation
Indices: 758820--758852 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
758810 ATGAAAATAT
*
758820 TTTAAAATATATTAA
1 TTTAAAATATATAAA
758835 TTTAAAATA-ATAAA
1 TTTAAAATATATAAA
758849 TTTA
1 TTTA
758853 TAATCTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAAAATATATAAA
Found at i:759200 original size:3 final size:3
Alignment explanation
Indices: 759192--759224 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
759182 TTGTCGGAAA
759192 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
759225 CTTAGACCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:761164 original size:25 final size:25
Alignment explanation
Indices: 761134--761181 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
761124 ATCGATAGTC
*
761134 ATTTTTAAAATATAATTTTTAATTT
1 ATTTTTAAAATATAAATTTTAATTT
* *
761159 ATTTTTAAATTTTAAATTTTAAT
1 ATTTTTAAAATATAAATTTTAAT
761182 ATTTATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTAAAATATAAATTTTAATTT
Found at i:761201 original size:14 final size:14
Alignment explanation
Indices: 761134--761201 Score: 61
Period size: 14 Copynumber: 4.9 Consensus size: 14
761124 ATCGATAGTC
*
761134 ATTTTTAAAATATA
1 ATTTTTAAATTATA
761148 ATTTTT-AATT-T-
1 ATTTTTAAATTATA
*
761159 ATTTTTAAATTTTA
1 ATTTTTAAATTATA
*
761173 AATTTTAATATTTATA
1 ATTTTTAA-A-TTATA
*
761189 ATTTTTATATTAT
1 ATTTTTAAATTAT
761202 TTTTAATTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
11 6 0.14
12 5 0.11
13 4 0.09
14 17 0.39
15 2 0.05
16 10 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTAAATTATA
Found at i:761208 original size:18 final size:16
Alignment explanation
Indices: 761159--761210 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
761149 TTTTTAATTT
761159 ATTTTTAA-A-TTTTA
1 ATTTTTAATATTTTTA
* *
761173 AATTTTAATATTTATA
1 ATTTTTAATATTTTTA
761189 ATTTTTATATTATTTTTA
1 ATTTTTA-A-TATTTTTA
761207 ATTT
1 ATTT
761211 ATTTATAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.23
15 1 0.03
16 10 0.33
17 1 0.03
18 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTTAATATTTTTA
Found at i:765386 original size:13 final size:13
Alignment explanation
Indices: 765357--765442 Score: 67
Period size: 13 Copynumber: 6.8 Consensus size: 13
765347 TATTATTTTA
765357 ATTATATTTAAATAT
1 ATTATATTT--ATAT
765372 ATTATATTTATAT
1 ATTATATTTATAT
765385 ATTAT-TTT-TAT
1 ATTATATTTATAT
*
765396 ATT-TATTAAATAT
1 ATTATATT-TATAT
765409 ATTATA-TTA-A-
1 ATTATATTTATAT
* *
765419 ATTCCTATTTTTAT
1 ATT-ATATTTATAT
765433 ATTATATTTA
1 ATTATATTTA
765443 AAATAAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
10 4 0.07
11 11 0.19
12 6 0.11
13 22 0.39
14 5 0.09
15 9 0.16
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTATATTTATAT
Found at i:765390 original size:26 final size:26
Alignment explanation
Indices: 765361--765420 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 26
765351 ATTTTAATTA
*
765361 TATTTAAATATATTATATT-TATATAT
1 TATTTAAATATATT-TATTAAATATAT
*
765387 TATTT--TTATATTTATTAAATATAT
1 TATTTAAATATATTTATTAAATATAT
765411 TATATTAAAT
1 TAT-TTAAAT
765421 TCCTATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
23 4 0.15
24 15 0.56
25 2 0.07
26 5 0.19
27 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TATTTAAATATATTTATTAAATATAT
Found at i:765428 original size:37 final size:38
Alignment explanation
Indices: 765347--765440 Score: 117
Period size: 37 Copynumber: 2.5 Consensus size: 38
765337 TGAATATAAG
*
765347 TATTA-TTTTA-ATTATATTTAAATATATTATATTTATA
1 TATTATTTTTATATTATA-TTAAATATATTATATTTAAA
765384 TATTATTTTTATATT-TATTAAATATATTATA-TTAAA
1 TATTATTTTTATATTATATTAAATATATTATATTTAAA
765420 T-TCCTATTTTTATATTATATT
1 TAT--TATTTTTATATTATATT
765441 TAAAATAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
35 1 0.02
36 5 0.10
37 31 0.61
38 11 0.22
39 3 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (38 bp):
TATTATTTTTATATTATATTAAATATATTATATTTAAA
Found at i:765762 original size:18 final size:18
Alignment explanation
Indices: 765719--765765 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
765709 AAAAGATTAT
*
765719 TATATGTTTTATTTTTATA
1 TATAT-TTTTATTTTTAAA
765738 T-TAATTTTTATTTTTAAA
1 TAT-ATTTTTATTTTTAAA
765756 TATATTTTTA
1 TATATTTTTA
765766 AAAATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TATATTTTTATTTTTAAA
Found at i:766424 original size:23 final size:21
Alignment explanation
Indices: 766398--766470 Score: 59
Period size: 23 Copynumber: 3.5 Consensus size: 21
766388 TATATTTTAT
766398 TTATATAAATATAAATATAAAAA
1 TTAT-TAAATATAAATAT-AAAA
766421 TTATTTAAATAT--AT-TAAAA
1 TTA-TTAAATATAAATATAAAA
766440 TT-TTAAATAT-AA-ATAAAA
1 TTATTAAATATAAATATAAAA
766458 TATATTAATATAT
1 T-TATTAA-ATAT
766471 CTATTATATT
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
17 8 0.18
18 7 0.16
19 7 0.16
20 5 0.11
21 6 0.14
23 10 0.23
24 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTATTAAATATAAATATAAAA
Found at i:766437 original size:9 final size:9
Alignment explanation
Indices: 766425--766500 Score: 50
Period size: 9 Copynumber: 8.3 Consensus size: 9
766415 TAAAAATTAT
766425 TTAAATATA
1 TTAAATATA
*
766434 TTAAA-ATT
1 TTAAATATA
766442 TTAAATATAAA
1 TTAAATAT--A
*
766453 TAAAATATA
1 TTAAATATA
766462 TT-AATATA
1 TTAAATATA
*
766470 TCT-ATTATA
1 T-TAAATATA
* *
766479 TTTATTATA
1 TTAAATATA
766488 TTTAAATATA
1 -TTAAATATA
766498 TTA
1 TTA
766501 TATTATATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
8 15 0.28
9 25 0.46
10 7 0.13
11 7 0.13
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (9 bp):
TTAAATATA
Found at i:766458 original size:18 final size:17
Alignment explanation
Indices: 766409--766458 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
766399 TATATAAATA
*
766409 TAAATATAA-AAATTATT
1 TAAATATAATAAAAT-TT
*
766426 TAAATATATTAAAATTT
1 TAAATATAATAAAATTT
766443 TAAATATAAATAAAAT
1 TAAATAT-AATAAAAT
766459 ATATTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATATAATAAAATTT
Found at i:766495 original size:36 final size:34
Alignment explanation
Indices: 766455--766523 Score: 95
Period size: 36 Copynumber: 2.0 Consensus size: 34
766445 AATATAAATA
*
766455 AAATATATTA-ATATATCTATTATATTTATTATATTT
1 AAATATATTATAT-TATAT-TTATATTT-TTATATTT
766491 AAATATATTATATTATATTTATATTTTTATATT
1 AAATATATTATATTATATTTATATTTTTATATT
766524 ATGTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 7 0.23
35 8 0.26
36 14 0.45
37 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (34 bp):
AAATATATTATATTATATTTATATTTTTATATTT
Found at i:766496 original size:26 final size:27
Alignment explanation
Indices: 766457--766516 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 27
766447 TATAAATAAA
766457 ATATATTAATATATCTATTATATT-TA-TT
1 ATAT-TTAATATA--TATTATATTATATTT
766485 ATATTTAA-ATATATTATATTATATTT
1 ATATTTAATATATATTATATTATATTT
766511 ATATTT
1 ATATTT
766517 TTATATTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 9 0.30
25 2 0.07
26 11 0.37
27 4 0.13
28 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATTTAATATATATTATATTATATTT
Found at i:766521 original size:24 final size:23
Alignment explanation
Indices: 766472--766525 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
766462 TTAATATATC
766472 TATTATATTTATTATATTTAAATA
1 TATTATATTTATTATATTT-AATA
*
766496 TATTATATTATATTTATATTT-TTA
1 TATTATATT-TA-TTATATTTAATA
766520 TATTAT
1 TATTAT
766526 GTTAAAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 17 0.63
25 2 0.07
26 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATATTTATTATATTTAATA
Found at i:767755 original size:20 final size:19
Alignment explanation
Indices: 767695--767770 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 19
767685 TGATAAAATT
* *
767695 TAAATATTTAATTTTTTATAA
1 TAAATATAT-ATTTATTA-AA
767716 TAAATAT-TATTATCATTAAA
1 TAAATATATATT-T-ATTAAA
767736 TTAAATATATATTTATTAAA
1 -TAAATATATATTTATTAAA
*
767756 TATATATTATATTTA
1 TAAATA-TATATTTA
767771 ATATTTATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
19 8 0.17
20 18 0.38
21 18 0.38
22 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATATATATTTATTAAA
Found at i:768319 original size:18 final size:19
Alignment explanation
Indices: 768276--768329 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
768266 TTGTTCGTAC
*
768276 TAAATTTAATTATGATTAAA
1 TAAATTTAATT-TGATTTAA
*
768296 T-TATTT-ATTTGATTTAA
1 TAAATTTAATTTGATTTAA
768313 TAAATTTAATTT-ATTTA
1 TAAATTTAATTTGATTTA
768330 GATTAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 8 0.28
18 12 0.41
19 8 0.28
20 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
TAAATTTAATTTGATTTAA
Found at i:768393 original size:25 final size:25
Alignment explanation
Indices: 768355--768403 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
768345 ATATTTTTTT
768355 ATATATTTTATAATTAATTTAAATAAA
1 ATATATTTTATAATT-A-TTAAATAAA
768382 ATATA-TTT-TAATTATTAAATAA
1 ATATATTTTATAATTATTAAATAA
768404 TAATTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.36
24 1 0.05
25 5 0.23
26 3 0.14
27 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATATTTTATAATTATTAAATAAA
Found at i:769235 original size:11 final size:11
Alignment explanation
Indices: 769219--769399 Score: 61
Period size: 10 Copynumber: 17.3 Consensus size: 11
769209 TGATAATTTA
769219 TATATTTAAAT
1 TATATTTAAAT
*
769230 TATATTTATA-
1 TATATTTAAAT
* **
769240 TATTTTTTTAT
1 TATATTTAAAT
769251 TATA-TTATAAT
1 TATATTTA-AAT
769262 TATATTTAAATTT
1 TATATTTAAA--T
* *
769275 TTTATTTATA-
1 TATATTTAAAT
* *
769285 TAAATTTTAA-
1 TATATTTAAAT
769295 TATATTTAAAT
1 TATATTTAAAT
769306 T-TATATT--A-
1 TATAT-TTAAAT
769314 TATATTTAAAT
1 TATATTTAAAT
*
769325 TATAATT--AT
1 TATATTTAAAT
**
769334 TATATAAAAATAT
1 TATAT-TTAA-AT
*
769347 TATATTTTAAT
1 TATATTTAAAT
*
769358 TAT-TTT-ATT
1 TATATTTAAAT
*
769367 TATA-TTATAT
1 TATATTTAAAT
769377 T-T-TTT-AAT
1 TATATTTAAAT
769385 TATATTTAATAT
1 TATATTTAA-AT
769397 TAT
1 TAT
769400 CTATTATAAA
Statistics
Matches: 123, Mismatches: 25, Indels: 43
0.64 0.13 0.23
Matches are distributed among these distances:
8 6 0.05
9 21 0.17
10 36 0.29
11 35 0.28
12 9 0.07
13 16 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATTTAAAT
Found at i:769238 original size:19 final size:19
Alignment explanation
Indices: 769214--769397 Score: 98
Period size: 19 Copynumber: 9.6 Consensus size: 19
769204 ATGAGTGATA
769214 ATTTATATATTTAAATTAT
1 ATTTATATATTTAAATTAT
**
769233 ATTTATATATTTTTTTATTAT
1 ATTTATATA--TTTAAATTAT
769254 ATTATAATTATATTTAAATT-T
1 ATT-T-A-TATATTTAAATTAT
* *
769275 -TTTATTTATATAAA-T-T
1 ATTTATATATTTAAATTAT
*
769291 -TTAATATATTTAAATT-T
1 ATTTATATATTTAAATTAT
769308 ATATTATATATTTAAATTAT
1 AT-TTATATATTTAAATTAT
* **
769328 AATTATTATATAAAAATATTAT
1 ATTTA-TATAT-TTAA-ATTAT
* *
769350 ATTT-TAATTATTTTATTTAT
1 ATTTAT-A-TATTTAAATTAT
* *
769370 A-TTATATTTTTTAATTAT
1 ATTTATATATTTAAATTAT
769388 ATTTA-ATATT
1 ATTTATATATT
769398 ATCTATTATA
Statistics
Matches: 128, Mismatches: 21, Indels: 33
0.70 0.12 0.18
Matches are distributed among these distances:
16 13 0.10
17 10 0.08
18 17 0.13
19 33 0.26
20 16 0.12
21 16 0.12
22 18 0.14
23 1 0.01
24 4 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTATATATTTAAATTAT
Found at i:769338 original size:39 final size:39
Alignment explanation
Indices: 769211--769352 Score: 93
Period size: 33 Copynumber: 3.7 Consensus size: 39
769201 TGGATGAGTG
**
769211 ATAATT-TATATATTTAAA-TTATATTTATATATTTTTTTATT
1 ATAATTAT-TATATTTAAATTTATA-TTATATA--TTTAAATT
* * *
769252 ATATTATAATTATATTTAAATTT-T-TTATTTATATAAA-T
1 ATA--ATTATTATATTTAAATTTATATTATATATTTAAATT
*
769290 -T--TTAATATATTTAAATTTATATTATATATTTAAATT
1 ATAATTATTATATTTAAATTTATATTATATATTTAAATT
**
769326 ATAATTATTATATAAAAATATTATATT
1 ATAATTATTATATTTAAAT-TTATATT
769353 TTAATTATTT
Statistics
Matches: 78, Mismatches: 12, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
33 15 0.19
34 1 0.01
35 11 0.14
36 1 0.01
37 2 0.03
38 1 0.01
39 15 0.19
40 7 0.09
41 9 0.12
43 13 0.17
44 3 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (39 bp):
ATAATTATTATATTTAAATTTATATTATATATTTAAATT
Found at i:769387 original size:18 final size:20
Alignment explanation
Indices: 769345--769394 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
769335 ATATAAAAAT
*
769345 ATTATATTTTAATTATTTTA
1 ATTATATTATAATTATTTTA
*
769365 TTTATATTAT-ATT-TTTTA
1 ATTATATTATAATTATTTTA
769383 ATTATATT-TAAT
1 ATTATATTATAAT
769395 ATTATCTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 14 0.54
19 3 0.12
20 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTATATTATAATTATTTTA
Found at i:769390 original size:13 final size:13
Alignment explanation
Indices: 769351--769391 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
769341 AAATATTATA
769351 TTTTAATTAT-TT
1 TTTTAATTATATT
769363 TATTTATATTATATT
1 T-TTTA-ATTATATT
769378 TTTTAATTATATT
1 TTTTAATTATATT
769391 T
1 T
769392 AATATTATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 1 0.04
13 13 0.50
14 9 0.35
15 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTAATTATATT
Found at i:769396 original size:25 final size:25
Alignment explanation
Indices: 769304--769399 Score: 80
Period size: 25 Copynumber: 4.0 Consensus size: 25
769294 ATATATTTAA
769304 ATTTATATTA-TATATTTAA-ATTAT
1 ATTT-TATTATTATATTTAATATTAT
* **
769328 A-ATTATTA-TATA-AAAATATTAT
1 ATTTTATTATTATATTTAATATTAT
*
769350 ATTTTAATTATTTTATTT-ATATTAT
1 ATTTT-ATTATTATATTTAATATTAT
769375 ATTTT-TTAATTATATTTAATATTAT
1 ATTTTATT-ATTATATTTAATATTAT
769400 CTATTATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
21 2 0.04
22 15 0.26
23 5 0.09
24 13 0.23
25 22 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTATTATTATATTTAATATTAT
Found at i:769596 original size:15 final size:14
Alignment explanation
Indices: 769560--769598 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
769550 AAAATATAGA
*
769560 TAAAAATATTAAATT
1 TAAAAA-ATAAAATT
769575 TAAAAAATAAAATT
1 TAAAAAATAAAATT
769589 TCAAAAAATA
1 T-AAAAAATA
769599 GGTTCATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAAAATAAAATT
Found at i:771725 original size:14 final size:15
Alignment explanation
Indices: 771706--771734 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
771696 GTACGATTTA
771706 TTTT-AATTTAAATT
1 TTTTAAATTTAAATT
771720 TTTTAAATTTAAATT
1 TTTTAAATTTAAATT
771735 ATAATGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAAATTTAAATT
Found at i:772527 original size:36 final size:34
Alignment explanation
Indices: 772478--772561 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 34
772468 GGGGAGGAAA
772478 AAAAAGAAAAATGAAAAAATTGGAAA-AGAAAAAAAG
1 AAAAAGAAAAATGAAAAAA--GGAAAGA-AAAAAAAG
* * *
772514 AAAAAGAAGAATGAAGAAAGGAAGGAAAAAAAAG
1 AAAAAGAAAAATGAAAAAAGGAAAGAAAAAAAAG
772548 AAAAA-AATAAATGA
1 AAAAAGAA-AAATGA
772562 GCGGCCTAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
33 2 0.05
34 22 0.52
35 1 0.02
36 17 0.40
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (34 bp):
AAAAAGAAAAATGAAAAAAGGAAAGAAAAAAAAG
Found at i:773514 original size:66 final size:66
Alignment explanation
Indices: 773431--773565 Score: 209
Period size: 66 Copynumber: 2.0 Consensus size: 66
773421 CCAAAGAGCA
* *
773431 CTCGTTTGCCTCGAGAAAAGCTAAGATAAAAGAGTTATGATTTTCAAATATGCA-CTATATGGAA
1 CTCGTTTGCCTCAAGAAAAGCTAAGATAAAAGAGTTACGATTTTCAAATATG-AGCTATATGGAA
773495 CC
65 CC
* * *
773497 CTCGTTTGCCTCAAGAAAAGCTAAGATAAAGGAGTTACGATTTTCGAATATGAGTTATATGGAAC
1 CTCGTTTGCCTCAAGAAAAGCTAAGATAAAAGAGTTACGATTTTCAAATATGAGCTATATGGAAC
773562 C
66 C
773563 CTC
1 CTC
773566 AGGAATGGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 1 0.02
66 62 0.98
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (66 bp):
CTCGTTTGCCTCAAGAAAAGCTAAGATAAAAGAGTTACGATTTTCAAATATGAGCTATATGGAAC
C
Found at i:777300 original size:20 final size:20
Alignment explanation
Indices: 777275--777353 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
777265 GCTACCAAGG
777275 AAATGTATCGATACATTGCT
1 AAATGTATCGATACATTGCT
*
777295 AAATGTATAGATACA-TGCTT
1 AAATGTATCGATACATTGC-T
*
777315 ATAATTGTATCGATACATTTCT
1 A-AA-TGTATCGATACATTGCT
* * *
777337 CATTATATCGATACATT
1 AAATGTATCGATACATT
777354 CTGGGTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
19 3 0.06
20 29 0.59
21 3 0.06
22 12 0.24
23 2 0.04
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.39
Consensus pattern (20 bp):
AAATGTATCGATACATTGCT
Found at i:780848 original size:53 final size:51
Alignment explanation
Indices: 780729--780868 Score: 199
Period size: 53 Copynumber: 2.7 Consensus size: 51
780719 TCTGAAAAGA
* *
780729 AAATGTATCGATACATTTTTCATTGTATCGATACATTTTGAGTTTTGATCC
1 AAATGTATCGATACATTATTCATTGTATCGATACATTCTGAGTTTTGATCC
* * *
780780 AAATTTATCAATACATTATTCATTGTATCGATACATTCTGAATTTTTTGATCC
1 AAATGTATCGATACATTATTCATTGTATCGATACATTCTG-A-GTTTTGATCC
* *
780833 AAATGTATCGATACATTCTTCAATGTATCGATACAT
1 AAATGTATCGATACATTATTCATTGTATCGATACAT
780869 GTAAGCTATT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 36 0.46
52 1 0.01
53 41 0.53
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (51 bp):
AAATGTATCGATACATTATTCATTGTATCGATACATTCTGAGTTTTGATCC
Done.