Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 217 of 218
Found at i:65255559 original size:30 final size:30
Alignment explanation
Indices: 65255525--65255592 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
65255515 AAAGTTCTAC
65255525 TTAAAATCT-TCAAAAATTTCA-GGAGTTTAA
1 TTAAAAT-TGTCAAAAATTTCATGG-GTTTAA
* *
65255555 TTAAAATTGTCAAAAATTTTATGGGTTTTA
1 TTAAAATTGTCAAAAATTTCATGGGTTTAA
65255585 TTAAAATT
1 TTAAAATT
65255593 TTAGAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 1 0.03
30 31 0.91
31 2 0.06
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (30 bp):
TTAAAATTGTCAAAAATTTCATGGGTTTAA
Found at i:65266993 original size:31 final size:30
Alignment explanation
Indices: 65266895--65267049 Score: 90
Period size: 31 Copynumber: 5.3 Consensus size: 30
65266885 CCATTATTTT
* * * *
65266895 TTTTAGAAATTCTAATTAATCCATATAAAAA
1 TTTTA-AAATTTTAATTAAACCCTCTAAAAA
* * * *
65266926 TTTTGAAAATTTTAATTAGACTCTCTAGAAT
1 TTTT-AAAATTTTAATTAAACCCTCTAAAAA
* *
65266957 TTTTAAAAGTTTTCATTAAACCCTTTAAAAA
1 TTTTAAAA-TTTTAATTAAACCCTCTAAAAA
* *
65266988 TTTTAAAA----AATT--TCCC-CTAAAAT
1 TTTTAAAATTTTAATTAAACCCTCTAAAAA
** *
65267011 TTTTAAAACTCCTAATTAAACCCTCTAAAAG
1 TTTTAAAA-TTTTAATTAAACCCTCTAAAAA
65267042 TTTTAAAA
1 TTTTAAAA
65267050 ACTTTGAATT
Statistics
Matches: 94, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
23 13 0.14
24 3 0.03
26 3 0.03
28 4 0.04
30 7 0.07
31 63 0.67
32 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.40
Consensus pattern (30 bp):
TTTTAAAATTTTAATTAAACCCTCTAAAAA
Found at i:65271619 original size:20 final size:19
Alignment explanation
Indices: 65271596--65271633 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
65271586 TTTTTTTCAT
*
65271596 ATTAATTTTATTTTGATAAA
1 ATTAACTTTATTTT-ATAAA
65271616 ATTAACTTTATTTTATAA
1 ATTAACTTTATTTTATAA
65271634 CTTTTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTAACTTTATTTTATAAA
Found at i:65277319 original size:52 final size:53
Alignment explanation
Indices: 65277244--65277489 Score: 309
Period size: 53 Copynumber: 4.7 Consensus size: 53
65277234 AGCCCCACAA
* * * *
65277244 TTAATCCTACCTCAATTACGATTTATATAAGCTTATCTTTTTAA-TTTTTCAA
1 TTAATCCCACCTCAATTAAGATTTATATAAGCTTATCCTTTTAATTTTTTCAT
* * *
65277296 TTAATCCCATCTCAATTAAGATTTAAATAAGCTTATCCTTTTAATTTTTTGAT
1 TTAATCCCACCTCAATTAAGATTTATATAAGCTTATCCTTTTAATTTTTTCAT
* * * * **
65277349 TTAATTCCACCTAAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTTGTT
1 TTAATCCCACCTCAATTAAGATTTATATAAGCTTATCCTTTTAATTTTTTCAT
* *
65277402 TTAATTCCACCTCAATTAAGATTTATATAAACTTATCCTTTTAA-TTTTTCAT
1 TTAATCCCACCTCAATTAAGATTTATATAAGCTTATCCTTTTAATTTTTTCAT
* *
65277454 TTAATCTCACATCAA-TAAGGATTTATATAAGCTTAT
1 TTAATCCCACCTCAATTAA-GATTTATATAAGCTTAT
65277490 GTAATTTACC
Statistics
Matches: 168, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
51 3 0.02
52 73 0.43
53 92 0.55
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.48
Consensus pattern (53 bp):
TTAATCCCACCTCAATTAAGATTTATATAAGCTTATCCTTTTAATTTTTTCAT
Found at i:65277450 original size:105 final size:104
Alignment explanation
Indices: 65277244--65277489 Score: 341
Period size: 105 Copynumber: 2.3 Consensus size: 104
65277234 AGCCCCACAA
* *
65277244 TTAATCCTACCTCAATTACGATTTATATAAGCTTATCTTTTTAATTTTTCAATTAATCCCATCTC
1 TTAATCC-ACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAATTAATCCCACCTC
* *
65277309 AATTAAGATTTAAATAAGCTTATCCTTTTAATTTTTTGAT
65 AATTAAGATTTAAATAAACTTATCCTTTTAATTTTTTCAT
* *** *
65277349 TTAATTCCACCTAAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTTGTTTTAATTCCACCT
1 TTAA-TCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAA-TTTTTCAATTAATCCCACCT
*
65277414 CAATTAAGATTTATATAAACTTATCCTTTTAA-TTTTTCAT
64 CAATTAAGATTTAAATAAACTTATCCTTTTAATTTTTTCAT
* *
65277454 TTAATCTCACATCAATAAGGATTTATATAAGCTTAT
1 TTAATC-CACCTCAATTAGGATTTATATAAGCTTAT
65277490 GTAATTTACC
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
104 2 0.02
105 75 0.60
106 48 0.38
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.48
Consensus pattern (104 bp):
TTAATCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAATTAATCCCACCTCA
ATTAAGATTTAAATAAACTTATCCTTTTAATTTTTTCAT
Found at i:65281999 original size:13 final size:13
Alignment explanation
Indices: 65281981--65282007 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65281971 TTTTCTTTTT
65281981 GATATAATGTTTA
1 GATATAATGTTTA
65281994 GATATAATGTTTA
1 GATATAATGTTTA
65282007 G
1 G
65282008 GATTACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (13 bp):
GATATAATGTTTA
Found at i:65317135 original size:118 final size:118
Alignment explanation
Indices: 65316911--65317136 Score: 341
Period size: 118 Copynumber: 1.9 Consensus size: 118
65316901 TATATTAGAT
65316911 TATTCCAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAAA
1 TATTCCAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAAA
* * ** *
65316976 AATGGATCATTAATGGGGTTCAAAAGAAGGTTATATAAACAATCTCGGTCAAA
66 AATGGATCATCAATGGGGGTCAAAAGAAAATCATATAAACAATCTCGGTCAAA
*
65317029 TATTCCAAAAATATGGGATTTGGG-A-ATCCTCTACTATCCATAATAACAACACATAATAGCTCA
1 TATTCC-AAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACAT-ATAGCTCA
*
65317092 AAAATGGATCATCAGTGGGGGTCAAAAGAAAATCATA-AGAACAAT
64 AAAATGGATCATCAATGGGGGTCAAAAGAAAATCATATA-AACAAT
65317137 TTAGGTTTAG
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
117 30 0.31
118 52 0.53
119 16 0.16
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (118 bp):
TATTCCAAAACATGGGATTTGGGCATATCCTCTACTATCCATAATAACAACACATATAGCTCAAA
AATGGATCATCAATGGGGGTCAAAAGAAAATCATATAAACAATCTCGGTCAAA
Found at i:65325661 original size:24 final size:24
Alignment explanation
Indices: 65325633--65325684 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
65325623 TTAGTAAGTC
* *
65325633 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
65325657 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
65325681 AAAT
1 AAAT
65325685 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:65327628 original size:24 final size:24
Alignment explanation
Indices: 65327600--65327651 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
65327590 TTAGTAAGTG
* *
65327600 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
65327624 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
65327648 AAAT
1 AAAT
65327652 CTTCTAAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:65328816 original size:110 final size:114
Alignment explanation
Indices: 65328530--65328835 Score: 378
Period size: 110 Copynumber: 2.7 Consensus size: 114
65328520 TAATAATGTA
* *
65328530 TGTTTGTTTTAG-GTTTTAGGAA-GA--ACTGAACCAGCTTATATGTAACAAAACTGGACATGTT
1 TGTTTGTTTTAGTGTTTTA--AATGAGGACTAAACCAGTTTATATGT-A-AAAACTGGACATGTT
*
65328591 T-AAGCTTTAGCTTGGTGTCTGTAACCTAAGCTATAGCCTAGTGTTTTACTGTTGAC
62 TAAAGC-TTAGCTTGGTGTCTGTAACCTAAGCTAGAGCCTAGTG--TTA-TGTTGAC
* *
65328647 TGTTTGTTTTAGTGTTTTAAATTAGGACTAAACCAGTTTACATGTAAAAACTGGACATGTTTAAA
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
* * *
65328712 GCTTAGCTTGGTGTCTGTAATCTAAGCTGGAGCTTAGTG-T-T-TT-AC
66 GCTTAGCTTGGTGTCTGTAACCTAAGCTAGAGCCTAGTGTTATGTTGAC
* * *
65328757 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAGAACTGGTCATGTTTAAC
1 TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
65328822 GCTTAGCTTGGTGT
66 GCTTAGCTTGGTGT
65328836 GTTTATATAT
Statistics
Matches: 171, Mismatches: 13, Indels: 17
0.85 0.06 0.08
Matches are distributed among these distances:
110 76 0.44
111 2 0.01
112 1 0.01
114 1 0.01
116 2 0.01
117 62 0.36
118 11 0.06
119 16 0.09
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (114 bp):
TGTTTGTTTTAGTGTTTTAAATGAGGACTAAACCAGTTTATATGTAAAAACTGGACATGTTTAAA
GCTTAGCTTGGTGTCTGTAACCTAAGCTAGAGCCTAGTGTTATGTTGAC
Found at i:65329481 original size:194 final size:194
Alignment explanation
Indices: 65329229--65329673 Score: 784
Period size: 194 Copynumber: 2.3 Consensus size: 194
65329219 TATATATATA
65329229 TATATATATATGGAGCTTTGACAAAACCAGTTTTATTATGTAAGAACTGGACATGTTGGACATGT
1 TATATATATATGGAGCTTTGACAAAACCAG-TTTA-TATGTAAGAACTGGACATGTTGGACATGT
65329294 TTAAATCTTAGCTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAACGATGGAGTCACC
64 TTAAATCTTAGCTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAACGATGGAGTCACC
65329359 ATTGCTGAATCCAAGTTCAGCACCACAAGCTAAAATCATCT-CCCACAACAAACCCTAGCTAGTC
129 ATTGCTGAATCCAAGTTCAGCACCACAAGCTAAAATCATCTACCC-CAACAAACCCTAGCTAGTC
65329423 TT
193 TT
*
65329425 TATATATATATGGAGTTTTGACAAAACCAGTTTATATGTAAGAACTGGACATGTTGGACATGTTT
1 TATATATATATGGAGCTTTGACAAAACCAGTTTATATGTAAGAACTGGACATGTTGGACATGTTT
* *
65329490 AAATCTTAGCTTGGTGTGTTTCTATGTGGACCTAGTGTTTAACTGTTAAATGATGGAGTCACCAT
66 AAATCTTAGCTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAACGATGGAGTCACCAT
* **
65329555 TGCTGAATCCAAGTTCAGCACCAGAAGCTAAAATCATCTACCCCAACGGACCCTAGCTAGTCTT
131 TGCTGAATCCAAGTTCAGCACCACAAGCTAAAATCATCTACCCCAACAAACCCTAGCTAGTCTT
* *
65329619 TATATATATATGGAGCTTTGACAAAACCAATTTACATGTAAGAACTGGACATGTT
1 TATATATATATGGAGCTTTGACAAAACCAGTTTATATGTAAGAACTGGACATGTT
65329674 TAAGCTTATA
Statistics
Matches: 239, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
194 203 0.85
195 7 0.03
196 29 0.12
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (194 bp):
TATATATATATGGAGCTTTGACAAAACCAGTTTATATGTAAGAACTGGACATGTTGGACATGTTT
AAATCTTAGCTTGGTGTGTTTCTATATGGACCTAGTGTTTAACTGTTAAACGATGGAGTCACCAT
TGCTGAATCCAAGTTCAGCACCACAAGCTAAAATCATCTACCCCAACAAACCCTAGCTAGTCTT
Found at i:65329938 original size:24 final size:23
Alignment explanation
Indices: 65329911--65329956 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
65329901 TTACTATTCG
* *
65329911 ATTTATATATTGTTTAATTTTTTT
1 ATTTATAT-TTCTTTAACTTTTTT
*
65329935 ATTTTTATTTCTTTAACTTTTT
1 ATTTATATTTCTTTAACTTTTT
65329957 ACCTGAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (23 bp):
ATTTATATTTCTTTAACTTTTTT
Found at i:65348289 original size:14 final size:15
Alignment explanation
Indices: 65348272--65348305 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
65348262 TAAATCATTG
65348272 TTATTAAATT-TTTT
1 TTATTAAATTGTTTT
*
65348286 TTATCAAATTGTTTT
1 TTATTAAATTGTTTT
65348301 TTATT
1 TTATT
65348306 TAAAATGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATTAAATTGTTTT
Found at i:65350580 original size:108 final size:108
Alignment explanation
Indices: 65350391--65350683 Score: 414
Period size: 108 Copynumber: 2.7 Consensus size: 108
65350381 CTCCAAGCCA
* * *
65350391 AGTGACGTCTACTCCCAAG-CTTCGGAGCAAGCACACTCGACATTGATGGCTCATTAATCTCGGC
1 AGTGACGTCTACTCCCAAGCCTT-GGAGCAAGCGCACTCGACATTGATGGATCCTTAATCTCGGC
65350455 ACTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
65 ACTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
*
65350499 AGTGACGTCTACTCCCAAGCCTTGGAGTAAGCGCACTCGACATTGATGGATCCTTAATCTCGGCA
1 AGTGACGTCTACTCCCAAGCCTTGGAGCAAGCGCACTCGACATTGATGGATCCTTAATCTCGGCA
*
65350564 CCAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
66 CTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
* * * * * *
65350607 GGTGACGACTACTCCCACA-CCTCGGAGCAAGCGCACTC-ATCTTTGATGACAT-CTTAATCTCA
1 AGTGACGTCTACTCCCA-AGCCTTGGAGCAAGCGCACTCGA-CATTGATG-GATCCTTAATCTCG
*
65350669 GCACTGACAGTAGGC
63 GCACTAACAGTAGGC
65350684 ATAGGAGAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 160 0.96
109 6 0.04
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (108 bp):
AGTGACGTCTACTCCCAAGCCTTGGAGCAAGCGCACTCGACATTGATGGATCCTTAATCTCGGCA
CTAACAGTAGGCTCAACCTCGACACTAGAAGTAGGTATAGGAG
Found at i:65354495 original size:24 final size:24
Alignment explanation
Indices: 65354468--65354515 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
65354458 GTTGTTATTC
* *
65354468 TTGTTGCTGCTATTGTTGCCGTTG
1 TTGTTACTGCTACTGTTGCCGTTG
* *
65354492 TTGTTACTGTTGCTGTTGCCGTTG
1 TTGTTACTGCTACTGTTGCCGTTG
65354516 CCGCTGTTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.04, C:0.17, G:0.29, T:0.50
Consensus pattern (24 bp):
TTGTTACTGCTACTGTTGCCGTTG
Found at i:65362516 original size:18 final size:18
Alignment explanation
Indices: 65362493--65362527 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65362483 TCCGTTTTTG
*
65362493 TTGTTGCTATTGTTGCCA
1 TTGTTGCTAGTGTTGCCA
*
65362511 TTGTTGTTAGTGTTGCC
1 TTGTTGCTAGTGTTGCC
65362528 GTTGCCGTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.14, G:0.26, T:0.51
Consensus pattern (18 bp):
TTGTTGCTAGTGTTGCCA
Found at i:65365977 original size:11 final size:11
Alignment explanation
Indices: 65365961--65366004 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
65365951 GACCGCCACT
65365961 TGCGGCGGAGC
1 TGCGGCGGAGC
*
65365972 TGCGGCGGAGA
1 TGCGGCGGAGC
* *
65365983 TACGGCGGAGG
1 TGCGGCGGAGC
*
65365994 TGCGCCGGAGC
1 TGCGGCGGAGC
65366005 CCTCGATCGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.14, C:0.25, G:0.52, T:0.09
Consensus pattern (11 bp):
TGCGGCGGAGC
Found at i:65370044 original size:23 final size:24
Alignment explanation
Indices: 65369997--65370045 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
65369987 ACACTCATAT
* *
65369997 CCCCTTTGTTTTCTTTCCCATTTA
1 CCCCTTTGTTTCCCTTCCCATTTA
*
65370021 CCCCTTT-TTTCCCTTCTCATTTA
1 CCCCTTTGTTTCCCTTCCCATTTA
65370044 CC
1 CC
65370046 GTCCTTATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.08, C:0.39, G:0.02, T:0.51
Consensus pattern (24 bp):
CCCCTTTGTTTCCCTTCCCATTTA
Found at i:65370462 original size:40 final size:39
Alignment explanation
Indices: 65370409--65370490 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 39
65370399 CCTTCTGCAC
* * *
65370409 TCTTCTTTCAAGCT-CCAGATTACTTCAAGCTCCCTAGTT
1 TCTTCTTTCAAGCTCCCA-ATTACTTCAACCTCACTACTT
* *
65370448 TCTTGCTTTTAAGCTCCCAATTCCTTCAACCTCACTACTT
1 TCTT-CTTTCAAGCTCCCAATTACTTCAACCTCACTACTT
65370488 TCT
1 TCT
65370491 CCTTCAACCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.11
40 29 0.81
41 3 0.08
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (39 bp):
TCTTCTTTCAAGCTCCCAATTACTTCAACCTCACTACTT
Found at i:65372889 original size:87 final size:86
Alignment explanation
Indices: 65372710--65372906 Score: 213
Period size: 87 Copynumber: 2.3 Consensus size: 86
65372700 TACTCCCATG
* * * *
65372710 CCTCAGAGCAAG--CATAT-TC-ACACCGGCAGTAGACTCAACCTTGACGCTAGAAGTAGGTGTA
1 CCTCAGAGCAAGCCCA-ATCTCGACACCGGCAATAGACTCAACCTTGACACTAAAAGTAGGTGCA
* *
65372771 GGGGGTGACGTCTGCTCTCACA
65 GGGGGTGACGCCTACTCTCACA
* * * * * *
65372793 CCTCGGAGCATGCTCAATCTCGACACTGGCAATAGGCTCAACCTTTACACTAAAAGTAGGTGCAG
1 CCTCAGAGCAAGCCCAATCTCGACACCGGCAATAGACTCAACCTTGACACTAAAAGTAGGTGCAG
*
65372858 GAGGGTGACGCCTACTCTCAGA
66 G-GGGTGACGCCTACTCTCACA
* *
65372880 CCTTAGAGCAAGCCCAATCTCGGCACC
1 CCTCAGAGCAAGCCCAATCTCGACACC
65372907 TCATGCAATA
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
83 10 0.11
84 2 0.02
85 4 0.04
86 37 0.41
87 38 0.42
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (86 bp):
CCTCAGAGCAAGCCCAATCTCGACACCGGCAATAGACTCAACCTTGACACTAAAAGTAGGTGCAG
GGGGTGACGCCTACTCTCACA
Found at i:65377984 original size:20 final size:20
Alignment explanation
Indices: 65377956--65377994 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65377946 TTCGCATGTG
*
65377956 TTTGCGTGATTATTGTAAAT
1 TTTGCGTGATTACTGTAAAT
*
65377976 TTTGTGTGATTACTGTAAA
1 TTTGCGTGATTACTGTAAA
65377995 CTGTGTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.49
Consensus pattern (20 bp):
TTTGCGTGATTACTGTAAAT
Found at i:65382747 original size:20 final size:20
Alignment explanation
Indices: 65382722--65382762 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
65382712 ATAAGAACAC
65382722 AATTTACAATAATCACACAA
1 AATTTACAATAATCACACAA
65382742 AATTTACAATAATCACACAA
1 AATTTACAATAATCACACAA
65382762 A
1 A
65382763 CAAATGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (20 bp):
AATTTACAATAATCACACAA
Found at i:65390386 original size:6 final size:6
Alignment explanation
Indices: 65390378--65390417 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
65390368 GTCATTAATG
*
65390378 TTGCCG TTGCCT TTGCCT TTG-CT GTTGCCT TTGCCT TTGC
1 TTGCCT TTGCCT TTGCCT TTGCCT -TTGCCT TTGCCT TTGC
65390418 ATGCGATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 2 0.06
6 27 0.87
7 2 0.06
ACGTcount: A:0.00, C:0.30, G:0.23, T:0.47
Consensus pattern (6 bp):
TTGCCT
Found at i:65390399 original size:18 final size:18
Alignment explanation
Indices: 65390378--65390417 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
65390368 GTCATTAATG
65390378 TTGCCGTTGCCTTTGCCT
1 TTGCCGTTGCCTTTGCCT
*
65390396 TTGCTGTTGCCTTTGCCT
1 TTGCCGTTGCCTTTGCCT
65390414 TTGC
1 TTGC
65390418 ATGCGATGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.23, T:0.47
Consensus pattern (18 bp):
TTGCCGTTGCCTTTGCCT
Found at i:65391763 original size:29 final size:28
Alignment explanation
Indices: 65391716--65391793 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
65391706 GTCAGTATTT
65391716 AATTAATTTTTAAAAATTAAAAAACATAA
1 AATT-ATTTTTAAAAATTAAAAAACATAA
* * *
65391745 AATCTATTTTTAAAAATTAATAATCATTA
1 AAT-TATTTTTAAAAATTAAAAAACATAA
65391774 AATTA---TTAAAAATTAAAAAA
1 AATTATTTTTAAAAATTAAAAAA
65391794 ATTATTTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
25 13 0.30
28 2 0.05
29 27 0.63
30 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
AATTATTTTTAAAAATTAAAAAACATAA
Found at i:65395704 original size:3 final size:3
Alignment explanation
Indices: 65395696--65395734 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
65395686 ACCTAAAATC
65395696 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
65395735 AATATAAGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:65396288 original size:3 final size:3
Alignment explanation
Indices: 65396280--65396313 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
65396270 CTAACATATC
* *
65396280 TGA TGA TGA TGA TGG TGA TAA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
65396314 CAACACCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:65402036 original size:3 final size:3
Alignment explanation
Indices: 65402028--65402058 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
65402018 TACCTAAAAT
65402028 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
65402059 GATATAAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65402613 original size:3 final size:3
Alignment explanation
Indices: 65402605--65402629 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65402595 CTAACATATC
65402605 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
65402630 CAACACCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:65409911 original size:27 final size:27
Alignment explanation
Indices: 65409880--65409935 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
65409870 TCCAAGCCTT
65409880 AAATTATTTAAGTCTGATTTAAGAAAA
1 AAATTATTTAAGTCTGATTTAAGAAAA
* * *
65409907 AAATTATTTAGGTTTGGTTTAAGAAAA
1 AAATTATTTAAGTCTGATTTAAGAAAA
65409934 AA
1 AA
65409936 CGTGATTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.38
Consensus pattern (27 bp):
AAATTATTTAAGTCTGATTTAAGAAAA
Found at i:65421067 original size:27 final size:27
Alignment explanation
Indices: 65421014--65421071 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
65421004 TTGTTTAAAG
65421014 TTTAATTATAGATAATATATCCTTAAT
1 TTTAATTATAGATAATATATCCTTAAT
* * *
65421041 ATTTAATTATTG-TATTATATGCTTAAT
1 -TTTAATTATAGATAATATATCCTTAAT
65421068 TTTA
1 TTTA
65421072 TGTAATAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 4 0.15
27 13 0.48
28 10 0.37
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (27 bp):
TTTAATTATAGATAATATATCCTTAAT
Found at i:65422031 original size:173 final size:174
Alignment explanation
Indices: 65421740--65422075 Score: 455
Period size: 173 Copynumber: 1.9 Consensus size: 174
65421730 CGATATCTAG
* * * * * *
65421740 AATTACTTATAACATCTTCCCAATCTATAAATAGTAGAAGAATGCGCTTCAACACACTCGAACCC
1 AATTACTCATAACATCTCCCCAAGCTATAAATAGGAGAAGAATACGCTCCAACACACTCGAACCC
* *
65421805 ACGTTCTCCTGCATTGGTAACAATGCTCATGTCAATCGAGTTAAGACTCAATCGACATAA-ATAT
66 ACGTTCTCCTACATTGGCAACAATGCTCATGTCAATCGAGTTAAGACTCAATCGACATAAGATAT
* *
65421869 ATATTATATAAGAG-CCTATTTCACAAATGTTATATGATGTTTAT
131 ATATTATATAAAAGTCC-ATTTCACAAAAGTTATATGATGTTTAT
* * *
65421913 AATTACTCATAATC-TCTCCCCAAGCTATAAATAGGAGGATAATACGCTCCAACACACTCGAACT
1 AATTACTCATAA-CATCTCCCCAAGCTATAAATAGGAGAAGAATACGCTCCAACACACTCGAACC
* * * *
65421977 CA-TTTCTTCCTACATTTGCGACAATGCTCATGTCAATCGAGTTAAGATTCAATCGACATAAGTA
65 CACGTTC-TCCTACATTGGCAACAATGCTCATGTCAATCGAGTTAAGACTCAATCGACATAAG-A
65422041 TATATATTATATAAAAGTCCATTTCACAAAAGTTA
128 TATATATTATATAAAAGTCCATTTCACAAAAGTTA
65422076 AAATCGAGAG
Statistics
Matches: 141, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
172 3 0.02
173 104 0.74
174 1 0.01
175 31 0.22
176 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (174 bp):
AATTACTCATAACATCTCCCCAAGCTATAAATAGGAGAAGAATACGCTCCAACACACTCGAACCC
ACGTTCTCCTACATTGGCAACAATGCTCATGTCAATCGAGTTAAGACTCAATCGACATAAGATAT
ATATTATATAAAAGTCCATTTCACAAAAGTTATATGATGTTTAT
Found at i:65424608 original size:46 final size:46
Alignment explanation
Indices: 65424534--65424732 Score: 325
Period size: 46 Copynumber: 4.4 Consensus size: 46
65424524 GTGATAAGCG
* *
65424534 GTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAA
1 GTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
65424580 GTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
1 GTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
* *
65424626 GTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
65424672 GTGAGAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGATC-A
1 GTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
65424716 G-G-GACAAGTGATAAGTG
1 GTGAGA-AAGTGATAAGTG
65424733 ATCATATGTA
Statistics
Matches: 146, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
42 2 0.01
43 13 0.09
44 2 0.01
45 19 0.13
46 110 0.75
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (46 bp):
GTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAA
Found at i:65425506 original size:18 final size:17
Alignment explanation
Indices: 65425457--65425507 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
65425447 AAAGTTTTAT
*
65425457 AAATATATATAAATTAA
1 AAATATATAAAAATTAA
*
65425474 AAAGATTATTAAAAATCTAA
1 AAATA-TA-TAAAAAT-TAA
65425494 AAATATATAAAAAT
1 AAATATATAAAAAT
65425508 GTTAATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.14
18 9 0.32
19 8 0.29
20 7 0.25
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AAATATATAAAAATTAA
Found at i:65427397 original size:3 final size:3
Alignment explanation
Indices: 65427391--65427482 Score: 52
Period size: 3 Copynumber: 31.7 Consensus size: 3
65427381 CAAAATTCGC
* *
65427391 ATA ATA A-A AT- ATA A-A AGTA -TA ATA GTA ATA ATAA ATC ATA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA AT-A ATA ATA ATA
* * * * *
65427434 CTA AT- ATGC ATA AT- AGA ATA ATA ATA TTA ATA ATA TTA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
65427478 ATA AT
1 ATA AT
65427483 CTAATTTTTT
Statistics
Matches: 67, Mismatches: 13, Indels: 18
0.68 0.13 0.18
Matches are distributed among these distances:
2 11 0.16
3 50 0.75
4 6 0.09
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:65427634 original size:15 final size:16
Alignment explanation
Indices: 65427616--65427650 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
65427606 AATGATAAGT
65427616 AAATAAAT-AAAATAA
1 AAATAAATAAAAATAA
*
65427631 AAATACATAAAAATAA
1 AAATAAATAAAAATAA
65427647 AAAT
1 AAAT
65427651 CTAGACAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAATAAAAATAA
Found at i:65437758 original size:20 final size:19
Alignment explanation
Indices: 65437722--65437760 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
65437712 GTAAATATTA
**
65437722 CAAGTTAAATTTGTAAAAT
1 CAAGTTAAATTAATAAAAT
65437741 CAAGATTAAATTAATAAAAT
1 CAAG-TTAAATTAATAAAAT
65437761 GTGTACATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (19 bp):
CAAGTTAAATTAATAAAAT
Found at i:65438380 original size:32 final size:32
Alignment explanation
Indices: 65438339--65438403 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
65438329 CTTTTTATTC
65438339 TCGTATTGTTGGTTTTAAAGGTAGTACTCGTA
1 TCGTATTGTTGGTTTTAAAGGTAGTACTCGTA
65438371 TCGTATTGTTGGTTTTAAAGGTAGTACTCGTA
1 TCGTATTGTTGGTTTTAAAGGTAGTACTCGTA
65438403 T
1 T
65438404 GTCTGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.09, G:0.25, T:0.45
Consensus pattern (32 bp):
TCGTATTGTTGGTTTTAAAGGTAGTACTCGTA
Found at i:65441577 original size:14 final size:14
Alignment explanation
Indices: 65441558--65441585 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65441548 AGTTGTTGGC
65441558 TGCTTAAAAAGGTT
1 TGCTTAAAAAGGTT
65441572 TGCTTAAAAAGGTT
1 TGCTTAAAAAGGTT
65441586 AAGTTCTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
TGCTTAAAAAGGTT
Found at i:65441660 original size:29 final size:29
Alignment explanation
Indices: 65441618--65441675 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
65441608 TGAACTATCA
65441618 ATTGTAGGTTATAGGGAATTTCAATTATT
1 ATTGTAGGTTATAGGGAATTTCAATTATT
65441647 ATTGTAGGTTATAGGGAATTTCAATTATT
1 ATTGTAGGTTATAGGGAATTTCAATTATT
65441676 CATTCCAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (29 bp):
ATTGTAGGTTATAGGGAATTTCAATTATT
Found at i:65442849 original size:21 final size:21
Alignment explanation
Indices: 65442824--65442870 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
65442814 TAAAATATAA
65442824 ATTTATTTAT-TAAAAATGTTT
1 ATTTATTTATATAAAAAT-TTT
* *
65442845 TTTTATTTTTATAAAAATTTT
1 ATTTATTTATATAAAAATTTT
65442866 ATTTA
1 ATTTA
65442871 AAATTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTATTTATATAAAAATTTT
Found at i:65444027 original size:17 final size:15
Alignment explanation
Indices: 65444004--65444044 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
65443994 TATTACTTAT
65444004 AAAAAATAATATTTTA
1 AAAAAATAA-ATTTTA
65444020 ATAAAAATAAATTTT-
1 A-AAAAATAAATTTTA
65444035 AAAAAATAAA
1 AAAAAATAAA
65444045 AATGTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.38
15 1 0.04
16 6 0.25
17 8 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAAATAAATTTTA
Found at i:65444047 original size:16 final size:16
Alignment explanation
Indices: 65444003--65444052 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
65443993 GTATTACTTA
*
65444003 TAAAAAAT-AATATTT
1 TAAAAAATAAAAATTT
*
65444018 TAATAAAA-ATAAATTT
1 TAA-AAAATAAAAATTT
*
65444034 TAAAAAATAAAAATGT
1 TAAAAAATAAAAATTT
65444050 TAA
1 TAA
65444053 TTTGAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
TAAAAAATAAAAATTT
Found at i:65453625 original size:19 final size:20
Alignment explanation
Indices: 65453585--65453626 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
65453575 ACTTTCATTA
65453585 TCATTTACATTATTTATTTT
1 TCATTTACATTATTTATTTT
65453605 TCATTTACACTT-TTT-TTTT
1 TCATTTACA-TTATTTATTTT
65453624 TCA
1 TCA
65453627 CTAATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 12 0.57
21 2 0.10
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (20 bp):
TCATTTACATTATTTATTTT
Found at i:65454159 original size:23 final size:23
Alignment explanation
Indices: 65454126--65454169 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
65454116 GGTAACATTA
65454126 TAAAAATATA-TTTTTAAATTTT
1 TAAAAATATATTTTTTAAATTTT
65454148 TAAAAATAATATTTTTTAAATT
1 TAAAAAT-ATATTTTTTAAATT
65454170 CATTAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TAAAAATATATTTTTTAAATTTT
Found at i:65454175 original size:25 final size:22
Alignment explanation
Indices: 65454122--65454175 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
65454112 ACATGGTAAC
65454122 ATTA-TAAAAATATATTTTTAA
1 ATTATTAAAAATATATTTTTAA
*
65454143 ATTTTTAAAAATAATATTTTTTAA
1 ATTATTAAAAAT-ATA-TTTTTAA
65454167 ATTCATTAA
1 ATT-ATTAA
65454176 TATTTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 7 0.26
23 3 0.11
24 10 0.37
25 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTATTAAAAATATATTTTTAA
Found at i:65454229 original size:21 final size:23
Alignment explanation
Indices: 65454188--65454230 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65454178 TTTGAAAAAT
*
65454188 AAAAATATAATATATATTTTTTG
1 AAAAATAGAATATATATTTTTTG
65454211 AAAAATAGAAT-TA-ATTTTTT
1 AAAAATAGAATATATATTTTTT
65454231 TGTTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 2 0.11
23 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (23 bp):
AAAAATAGAATATATATTTTTTG
Found at i:65457143 original size:31 final size:31
Alignment explanation
Indices: 65457077--65457157 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 31
65457067 TGAAAAGCCT
* *
65457077 TTATTTGAGCACTTCACAAAACAGTTTGATTC
1 TTATTTGAGCACTT-TCAAAACAGTTTGATCC
* * *
65457109 TTATTTAAGCACTTTCAAAACATTTTGGTCC
1 TTATTTGAGCACTTTCAAAACAGTTTGATCC
65457140 TTATTTGAGCAGCTTTCA
1 TTATTTGAGCA-CTTTCA
65457158 TTTAAACATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 23 0.55
32 19 0.45
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (31 bp):
TTATTTGAGCACTTTCAAAACAGTTTGATCC
Found at i:65460481 original size:18 final size:16
Alignment explanation
Indices: 65460446--65460486 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
65460436 TTTATATTTT
65460446 TTAATTTATATAACTA
1 TTAATTTATATAACTA
*
65460462 TTTATTTATATATACATA
1 TTAATTTATATA-AC-TA
65460480 TTAATTT
1 TTAATTT
65460487 TTAGGTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 11 0.52
17 2 0.10
18 8 0.38
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATTTATATAACTA
Found at i:65463313 original size:21 final size:21
Alignment explanation
Indices: 65463284--65463328 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
65463274 AAGATTTATG
*
65463284 AGGTTAATAATTGACCCCGGT
1 AGGTGAATAATTGACCCCGGT
65463305 AGGTGAATAATTGACCCCGGT
1 AGGTGAATAATTGACCCCGGT
65463326 AGG
1 AGG
65463329 AAGGTAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (21 bp):
AGGTGAATAATTGACCCCGGT
Found at i:65467579 original size:69 final size:69
Alignment explanation
Indices: 65467498--65467641 Score: 191
Period size: 69 Copynumber: 2.1 Consensus size: 69
65467488 CCTTACCCTT
* * *
65467498 ACTTGACATCGACATTAATTTAAACTTTAAAGTTTAAAAAAACTT-AACAAAAATCAAAAGTATT
1 ACTTGACATCGACATCAATTTAAACTTTAAAGTTCAAAAAAA-TTGAACAAAAATCAAAAATATT
**
65467562 GGTAC
65 AATAC
* * * *
65467567 ACTTGACATCGACATCAATTTGAATTTTAAAGTTCAGAAAAATTGAACAAAAATTAAAAATATTA
1 ACTTGACATCGACATCAATTTAAACTTTAAAGTTCAAAAAAATTGAACAAAAATCAAAAATATTA
65467632 ATAC
66 ATAC
65467636 ACTTGA
1 ACTTGA
65467642 GAAAGTATCG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
68 2 0.03
69 63 0.97
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (69 bp):
ACTTGACATCGACATCAATTTAAACTTTAAAGTTCAAAAAAATTGAACAAAAATCAAAAATATTA
ATAC
Found at i:65473909 original size:113 final size:108
Alignment explanation
Indices: 65473701--65474054 Score: 401
Period size: 105 Copynumber: 3.3 Consensus size: 108
65473691 AAATTTTGAA
* *
65473701 TTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTTGAAAAAAATTTTTTTGGGTGCT
1 TTTTTTTCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTT-AAAAAAA-TTTTTTGGGTGCT
* *
65473766 GGCTTGTCAATGG-CTAGCACCCAGTACAAATTTTAAAAAACAATTTTTTTTC
64 GGCATGTCAATGGCCGA-CACCCAGTACAAATTTT-AAAAA-AA-----TTTC
* * **
65473818 TTTTTTTCGTGTAAAAATCAGATATCAGAATACAAAAAAAG-TAAAAAAA-AATTTGGGTGCTGG
1 TTTTTTTCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAAAAATTTTTTGGGTGCTGG
*
65473881 CATGTCACTGGCCGACACCCAGTACAAA-TTTAAAAAAATTTC
66 CATGTCAATGGCCGACACCCAGTACAAATTTTAAAAAAATTTC
* *
65473923 TTTTTTGCGTGTAAAAATCATATATCAGTATACGAAAAAAGTTAAAAGAAATTTTTTGGGTGCTG
1 TTTTTTTCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAA-AAATTTTTTGGGTGCTG
* *
65473988 GCCTGTCAATGGCCGGCACCCAGTACAAA--TT---AAAA----
65 GCATGTCAATGGCCGACACCCAGTACAAATTTTAAAAAAATTTC
65474023 TTTTTTTCGTGTAAAAATCAGATATCAGTATA
1 TTTTTTTCGTGTAAAAATCAGATATCAGTATA
65474055 TTGATATCTG
Statistics
Matches: 213, Mismatches: 20, Indels: 25
0.83 0.08 0.10
Matches are distributed among these distances:
100 30 0.14
104 4 0.02
105 41 0.19
106 5 0.02
107 5 0.02
108 37 0.17
110 2 0.01
111 5 0.02
112 3 0.01
113 34 0.16
114 2 0.01
115 7 0.03
116 1 0.00
117 37 0.17
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (108 bp):
TTTTTTTCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAAAAATTTTTTGGGTGCTGG
CATGTCAATGGCCGACACCCAGTACAAATTTTAAAAAAATTTC
Found at i:65475466 original size:111 final size:109
Alignment explanation
Indices: 65475335--65475745 Score: 447
Period size: 104 Copynumber: 3.8 Consensus size: 109
65475325 AAAAATTAAA
* * ** * *
65475335 TTTTTGGGTGCAGGCCTGTCAATGGCCGGCACCCAATAGTAA-CAAAAAAAATTTTGAATTTTTT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTTT--CTTTTTT
* *
65475399 TCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTTGAAAAAAAAT
64 TCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTT-AAAAAAAAT
* **
65475446 TTTTTGGGTGCTGGCTTGTCAATGGCTAGCACCCAGTACAAATTTTAAAAAACAATTTTTTTTCT
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA--TTAAAAAA-AA----TTTTCT
* *
65475511 TTTTTTCGTGTAAAAATCAGATATCAGAATACAAAAAAAG-TAAAAAAAA-
59 TTTTTTCGTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAAAAAAT
* * * * *
65475560 --TTTGGGTGCTGGCATGTCACTGGCCGACACCCAGTACAAATTTAAAAAAA-TTTCTTTTTTGC
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTTTCTTTTTTTC
* *
65475622 GTGTAAAAATCATATATCAGTATACGAAAAAAGTTAAAAGAAAT
66 GTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAAAAAAT
65475666 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATT----AAAA-----TTTTTTTC
1 TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTTTCTTTTTTTC
65475722 GTGTAAAAATCAGATATCAGTATA
66 GTGTAAAAATCAGATATCAGTATA
65475746 TTGATATCTG
Statistics
Matches: 259, Mismatches: 29, Indels: 35
0.80 0.09 0.11
Matches are distributed among these distances:
100 30 0.12
104 45 0.17
105 8 0.03
108 39 0.15
109 2 0.01
110 7 0.03
111 35 0.14
112 35 0.14
114 6 0.02
115 10 0.04
116 1 0.00
117 37 0.14
119 4 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (109 bp):
TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAATTTTCTTTTTTTC
GTGTAAAAATCAGATATCAGTATACGAAAAAAGTTAAAAAAAAT
Found at i:65476375 original size:18 final size:18
Alignment explanation
Indices: 65476325--65476382 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 18
65476315 TAATCACTCA
*
65476325 ATTTT-AATAAATTTT-T
1 ATTTTAAATTAATTTTAT
65476341 ATTTTAATCACTT-ATTTTAT
1 ATTTTAA--A-TTAATTTTAT
65476361 ATTTTAAATTAATTTTAT
1 ATTTTAAATTAATTTTAT
65476379 -TTTT
1 ATTTT
65476383 TTCAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
16 5 0.14
17 7 0.20
18 8 0.23
19 6 0.17
20 9 0.26
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTAAATTAATTTTAT
Found at i:65476528 original size:30 final size:31
Alignment explanation
Indices: 65476488--65476557 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
65476478 GTGAGTGACC
* **
65476488 AAAATAAAAATAA-TTTTAACCGTAGTGCAT
1 AAAATGAAAATAATTTTTAACAATAGTGCAT
* *
65476518 AAAATGAAAATAATTTTTAATAATAGTTCAT
1 AAAATGAAAATAATTTTTAACAATAGTGCAT
65476549 AAAATGAAA
1 AAAATGAAA
65476558 TTTTTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 12 0.35
31 22 0.65
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (31 bp):
AAAATGAAAATAATTTTTAACAATAGTGCAT
Found at i:65483491 original size:3 final size:3
Alignment explanation
Indices: 65483483--65483516 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
65483473 ATGAAAACTG
65483483 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
65483517 ACACAAGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:65483913 original size:21 final size:23
Alignment explanation
Indices: 65483873--65483915 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65483863 ATAATATAAT
65483873 ATAATATAAATATAATTTGAGAC
1 ATAATATAAATATAATTTGAGAC
*
65483896 ATAATATACAT-T-ATTTGAGA
1 ATAATATAAATATAATTTGAGA
65483916 AAACCTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 1 0.05
23 10 0.53
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (23 bp):
ATAATATAAATATAATTTGAGAC
Found at i:65484860 original size:21 final size:20
Alignment explanation
Indices: 65484822--65484861 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
65484812 ACTTTTATTT
65484822 AAATATAATATAAAAATATA
1 AAATATAATATAAAAATATA
* *
65484842 AAATATTATCATAATAATAT
1 AAATATAAT-ATAAAAATAT
65484862 TAATTATGAT
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:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATAATATAAAAATATA
Found at i:65489726 original size:30 final size:30
Alignment explanation
Indices: 65489685--65489749 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
65489675 GGCCAAACTA
* *
65489685 AAAACAATTTTAACCATAGTGCCTAAAATG
1 AAAATAATTTTAACAATAGTGCCTAAAATG
*
65489715 AAAATAATTTTAATAATAGTGCCTAAAATG
1 AAAATAATTTTAACAATAGTGCCTAAAATG
65489745 AAAAT
1 AAAAT
65489750 TTTTTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (30 bp):
AAAATAATTTTAACAATAGTGCCTAAAATG
Found at i:65490209 original size:19 final size:20
Alignment explanation
Indices: 65490182--65490219 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
65490172 AGAAAGCACG
*
65490182 ATACTCTTAAAAAA-TATCA
1 ATACCCTTAAAAAAGTATCA
65490201 ATACCCTTAAAAAAGTATC
1 ATACCCTTAAAAAAGTATC
65490220 GATAACCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (20 bp):
ATACCCTTAAAAAAGTATCA
Found at i:65490228 original size:20 final size:19
Alignment explanation
Indices: 65490187--65490228 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
65490177 GCACGATACT
*
65490187 CTTAAAAAATATCAATACC
1 CTTAAAAAATATCAATAAC
*
65490206 CTTAAAAAAGTATCGATAAC
1 CTTAAAAAA-TATCAATAAC
65490226 CTT
1 CTT
65490229 GCTTGACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.29
Consensus pattern (19 bp):
CTTAAAAAATATCAATAAC
Found at i:65499030 original size:10 final size:9
Alignment explanation
Indices: 65499017--65499139 Score: 63
Period size: 9 Copynumber: 13.0 Consensus size: 9
65499007 TTTTATGATT
65499017 TTTTTCATAA
1 TTTTT-ATAA
65499027 TTTTTATAA
1 TTTTTATAA
*
65499036 TTTATATAA
1 TTTTTATAA
* *
65499045 -GTATATAA
1 TTTTTATAA
65499053 TATTTTCA-ACA
1 T-TTTT-ATA-A
*
65499064 TTTTTAGAA
1 TTTTTATAA
*
65499073 TTTTT-TGAG
1 TTTTTAT-AA
*
65499082 TTTTAATAA
1 TTTTTATAA
*
65499091 TATTTATAA
1 TTTTTATAA
65499100 GTTTTTTATGAA
1 --TTTTTAT-AA
65499112 TTATTTATAA
1 TT-TTTATAA
* *
65499122 GTTTTATAT
1 TTTTTATAA
65499131 TTTTTATAA
1 TTTTTATAA
65499140 GTTTCCTTAA
Statistics
Matches: 87, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
8 7 0.08
9 45 0.52
10 19 0.22
11 14 0.16
12 2 0.02
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:65499137 original size:22 final size:22
Alignment explanation
Indices: 65499080--65499130 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
65499070 GAATTTTTTG
65499080 AGTTTTA-AT-AA-TATTTATA
1 AGTTTTATATGAATTATTTATA
*
65499099 AGTTTTTTATGAATTATTTATA
1 AGTTTTATATGAATTATTTATA
65499121 AGTTTTATAT
1 AGTTTTATAT
65499131 TTTTTATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 6 0.22
20 2 0.07
21 2 0.07
22 17 0.63
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (22 bp):
AGTTTTATATGAATTATTTATA
Found at i:65499142 original size:40 final size:38
Alignment explanation
Indices: 65499064--65499143 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 38
65499054 ATTTTCAACA
*
65499064 TTTTTAGAATTTTTTGAGTTTTAATAATATTTATAAGT
1 TTTTTAGAATTTTTTAAGTTTTAATAATATTTATAAGT
* *
65499102 TTTTTATGAATTATTTATAAGTTTT-ATATTTTTTATAAGT
1 TTTTTA-GAATT-TTT-TAAGTTTTAATAATATTTATAAGT
65499142 TT
1 TT
65499144 CCTTAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 6 0.17
39 5 0.14
40 18 0.50
41 7 0.19
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (38 bp):
TTTTTAGAATTTTTTAAGTTTTAATAATATTTATAAGT
Found at i:65506441 original size:33 final size:33
Alignment explanation
Indices: 65506403--65506468 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
65506393 CTAATTATAA
*
65506403 AATTTA-ATGATTATATTTAAATATTTA-AAATAT
1 AATTTATAT-ATTATAATTAAAT-TTTATAAATAT
*
65506436 AATTTATATATTCTAATTAAATTTTATAAATAT
1 AATTTATATATTATAATTAAATTTTATAAATAT
65506469 TTATATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 4 0.14
33 23 0.79
34 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (33 bp):
AATTTATATATTATAATTAAATTTTATAAATAT
Found at i:65510249 original size:10 final size:10
Alignment explanation
Indices: 65510234--65510292 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
65510224 CTAAAGAAAC
65510234 TTTAAAAATA
1 TTTAAAAATA
65510244 TTTAAAAAT-
1 TTTAAAAATA
*
65510253 TATAAAAAATA
1 T-TTAAAAATA
***
65510264 CAAAAAAATA
1 TTTAAAAATA
*
65510274 TTTAAAATTA
1 TTTAAAAATA
65510284 -TTAAAAATA
1 TTTAAAAATA
65510293 GAAAAATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
9 9 0.23
10 30 0.77
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:65510280 original size:29 final size:30
Alignment explanation
Indices: 65510237--65510298 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
65510227 AAGAAACTTT
65510237 AAAAATATTTAAAAATTATAAAAAATACAA
1 AAAAATATTTAAAAATTATAAAAAATACAA
* *
65510267 AAAAATATTT-AAAATTATTAAAAATAGAA
1 AAAAATATTTAAAAATTATAAAAAATACAA
65510296 AAA
1 AAA
65510299 TTATACAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (30 bp):
AAAAATATTTAAAAATTATAAAAAATACAA
Found at i:65510681 original size:21 final size:22
Alignment explanation
Indices: 65510641--65510681 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
65510631 GTAATTTTAT
65510641 ATTTTTTTAGTTTTGTAATTTC
1 ATTTTTTTAGTTTTGTAATTTC
65510663 ATTTTTTCTA-TTTT-TAATT
1 ATTTTTT-TAGTTTTGTAATT
65510682 ATTTTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 11 0.61
23 2 0.11
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.71
Consensus pattern (22 bp):
ATTTTTTTAGTTTTGTAATTTC
Found at i:65510688 original size:33 final size:34
Alignment explanation
Indices: 65510635--65510721 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 34
65510625 ATTTTAGTAA
*
65510635 TTTTATATTTTT--TTAGTTTTGTAATTTCAT-T
1 TTTTATATTTTTAATTATTTTTGTAATTTCATAT
* *
65510666 TTTTCTATTTTTAATTATTTTTGTAATTTTATAT
1 TTTTATATTTTTAATTATTTTTGTAATTTCATAT
*
65510700 TTTTTTCATTTTTTAA-TATTTT
1 TTTTAT-A-TTTTTAATTATTTT
65510722 AAAAGTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
31 11 0.23
33 16 0.34
34 6 0.13
35 7 0.15
36 7 0.15
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (34 bp):
TTTTATATTTTTAATTATTTTTGTAATTTCATAT
Found at i:65510711 original size:16 final size:16
Alignment explanation
Indices: 65510651--65510703 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
65510641 ATTTTTTTAG
*
65510651 TTTTGTAATTTCAT-T
1 TTTTGTAATTTTATAT
* *
65510666 TTTTCTATTTTTAATTAT
1 TTTTGTAATTTT-A-TAT
65510684 TTTTGTAATTTTATAT
1 TTTTGTAATTTTATAT
65510700 TTTT
1 TTTT
65510704 TTCATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 9 0.30
16 8 0.27
17 2 0.07
18 11 0.37
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (16 bp):
TTTTGTAATTTTATAT
Found at i:65513722 original size:42 final size:42
Alignment explanation
Indices: 65513670--65513767 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
65513660 GCATAATAAT
*
65513670 AACAAGATAACACTGTTGTGCAAGTGTAACCAGTAAATTAAC
1 AACAAAATAACACTGTTGTGCAAGTGTAACCAGTAAATTAAC
* *
65513712 AACAAAATAACACTGTTGTGTAAGTGTAACCAGTAAATTAAT
1 AACAAAATAACACTGTTGTGCAAGTGTAACCAGTAAATTAAC
65513754 AACAAAATAACACT
1 AACAAAATAACACT
65513768 TCTATTGGCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.24
Consensus pattern (42 bp):
AACAAAATAACACTGTTGTGCAAGTGTAACCAGTAAATTAAC
Found at i:65516214 original size:128 final size:128
Alignment explanation
Indices: 65515986--65516242 Score: 505
Period size: 128 Copynumber: 2.0 Consensus size: 128
65515976 TTAGTTTAAT
*
65515986 TGACATTGTTGTAATATATAGCATAACCGAAATTTTAATGGGGTTAAATGGCAATCTCAACTTAT
1 TGACATTGTTGTAATATATAGCATAACCGAAATTTTAATGGGGTTAAATGGCAATCCCAACTTAT
65516051 GGTGCCTTTAAACTTAATACTAATGGATGATCGCTTGGTTATCCCAACATCAAAGATGTTGAG
66 GGTGCCTTTAAACTTAATACTAATGGATGATCGCTTGGTTATCCCAACATCAAAGATGTTGAG
65516114 TGACATTGTTGTAATATATAGCATAACCGAAATTTTAATGGGGTTAAATGGCAATCCCAACTTAT
1 TGACATTGTTGTAATATATAGCATAACCGAAATTTTAATGGGGTTAAATGGCAATCCCAACTTAT
65516179 GGTGCCTTTAAACTTAATACTAATGGATGATCGCTTGGTTATCCCAACATCAAAGATGTTGAG
66 GGTGCCTTTAAACTTAATACTAATGGATGATCGCTTGGTTATCCCAACATCAAAGATGTTGAG
65516242 T
1 T
65516243 CTAGCATTAA
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 128 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (128 bp):
TGACATTGTTGTAATATATAGCATAACCGAAATTTTAATGGGGTTAAATGGCAATCCCAACTTAT
GGTGCCTTTAAACTTAATACTAATGGATGATCGCTTGGTTATCCCAACATCAAAGATGTTGAG
Found at i:65524659 original size:50 final size:51
Alignment explanation
Indices: 65524605--65524709 Score: 203
Period size: 50 Copynumber: 2.1 Consensus size: 51
65524595 GAAACAAGTC
65524605 TTTTAGCGTCTGTGTTGAGTTATTTGGGCTAATGGCAAATGCATTTGGA-T
1 TTTTAGCGTCTGTGTTGAGTTATTTGGGCTAATGGCAAATGCATTTGGAGT
65524655 TTTTAGCGTCTGTGTTGAGTTATTTGGGCTAATGGCAAATGCATTTGGAGT
1 TTTTAGCGTCTGTGTTGAGTTATTTGGGCTAATGGCAAATGCATTTGGAGT
65524706 TTTT
1 TTTT
65524710 TGATAGGGAC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 49 0.91
51 5 0.09
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.44
Consensus pattern (51 bp):
TTTTAGCGTCTGTGTTGAGTTATTTGGGCTAATGGCAAATGCATTTGGAGT
Found at i:65533465 original size:14 final size:15
Alignment explanation
Indices: 65533440--65533468 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
65533430 AACAATCGAC
65533440 AGAACAAAAAGAAAA
1 AGAACAAAAAGAAAA
65533455 AGAAC-AAAAGAAAA
1 AGAACAAAAAGAAAA
65533469 GAGCTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (15 bp):
AGAACAAAAAGAAAA
Found at i:65552038 original size:67 final size:67
Alignment explanation
Indices: 65551961--65552093 Score: 257
Period size: 67 Copynumber: 2.0 Consensus size: 67
65551951 CTATAAATTT
65551961 TTTATTTATACTTTATTAATTTGGTTAATATTTTTTTAAAAGTTGATAAAAAAATTATCTATTTT
1 TTTATTTATACTTTATTAATTTGGTTAATATTTTTTTAAAAGTTGATAAAAAAATTATCTATTTT
65552026 TA
66 TA
*
65552028 TTTATTTATACTTTATTAATTTGGTTAATATTTTTTTAAAATTTGATAAAAAAATTATCTATTTT
1 TTTATTTATACTTTATTAATTTGGTTAATATTTTTTTAAAAGTTGATAAAAAAATTATCTATTTT
65552093 T
66 T
65552094 TAAACATTAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.56
Consensus pattern (67 bp):
TTTATTTATACTTTATTAATTTGGTTAATATTTTTTTAAAAGTTGATAAAAAAATTATCTATTTT
TA
Found at i:65561358 original size:2 final size:2
Alignment explanation
Indices: 65561351--65561379 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
65561341 CATGCACGCG
65561351 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
65561380 TCTTTAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:65566754 original size:50 final size:51
Alignment explanation
Indices: 65566700--65566801 Score: 161
Period size: 50 Copynumber: 2.0 Consensus size: 51
65566690 TAAATTTCGC
* * *
65566700 TGCATGCATCTGTAAGTGAAATGTG-TATGTATATATTCTTTTGGTATATT
1 TGCATGCATCTGTAAGTGAAATGTGATATATATATATTATTTTGATATATT
65566750 TGCATGCATCTGTAAGTGAAATGTGCATATATATATATTATTTTGATATATT
1 TGCATGCATCTGTAAGTGAAATGTG-ATATATATATATTATTTTGATATATT
65566802 CTTTCTTTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 25 0.53
52 22 0.47
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (51 bp):
TGCATGCATCTGTAAGTGAAATGTGATATATATATATTATTTTGATATATT
Found at i:65566863 original size:54 final size:50
Alignment explanation
Indices: 65566777--65566905 Score: 150
Period size: 54 Copynumber: 2.5 Consensus size: 50
65566767 GAAATGTGCA
*
65566777 TATATATATATTATTTTGATATATTCTTTCTTTCTATCTGTTTGTGTGTG
1 TATATATATATTATTTTGATATATTCTTTCTTTCTATCTGTATGTGTGTG
* * *
65566827 TATATATATTTTCTTTTGATATATTCTTTCTTTCTTTCTATCTGTATGTGTGTATT
1 TATATATATATTATTTTGATATA----TTCTTTCTTTCTATCTGTATGTGTG--TG
* *
65566883 TGTGTATATATTATTTTGATATA
1 TATATATATATTATTTTGATATA
65566906 ATCCTATCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 21 0.32
54 24 0.37
56 20 0.31
ACGTcount: A:0.21, C:0.08, G:0.11, T:0.60
Consensus pattern (50 bp):
TATATATATATTATTTTGATATATTCTTTCTTTCTATCTGTATGTGTGTG
Found at i:65566877 original size:50 final size:50
Alignment explanation
Indices: 65566777--65566877 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
65566767 GAAATGTGCA
* * *
65566777 TATATATATATTATTTTGATATATTCTTTCTTTCTATCTGTTTGTGTGTG
1 TATATATATATTATTTTGATATATTCTTTCTTTCTATCTATCTGTATGTG
* * *
65566827 TATATATATTTTCTTTTGATATATTCTTTCTTTCTTTCTATCTGTATGTG
1 TATATATATATTATTTTGATATATTCTTTCTTTCTATCTATCTGTATGTG
65566877 T
1 T
65566878 GTATTTGTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.61
Consensus pattern (50 bp):
TATATATATATTATTTTGATATATTCTTTCTTTCTATCTATCTGTATGTG
Found at i:65570494 original size:16 final size:16
Alignment explanation
Indices: 65570473--65570541 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
65570463 TTTGGTTCGC
65570473 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65570489 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65570505 TGTATTGAGATTAGAGG
1 TGTATTG-GATTAGAGG
65570522 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65570538 TGTA
1 TGTA
65570542 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:65570519 original size:33 final size:32
Alignment explanation
Indices: 65570473--65570541 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
65570463 TTTGGTTCGC
65570473 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
65570505 TGTATTGAGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTG-GATTAGAGGTGTATTGGATTAGAGG
65570538 TGTA
1 TGTA
65570542 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.19
33 29 0.81
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:65570798 original size:18 final size:19
Alignment explanation
Indices: 65570777--65570813 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
65570767 TTATTATTAA
65570777 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
65570795 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
65570814 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:65570872 original size:61 final size:58
Alignment explanation
Indices: 65570807--65570994 Score: 143
Period size: 61 Copynumber: 3.1 Consensus size: 58
65570797 ATAATTTATA
*
65570807 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATAAATATTCTTATATGAATTT--T-AAATCATAATATATGATACT
* * ** * * *
65570868 ATAAAATATAATTTGAAATAATTAATATT-AAATAT--ATTTT-AATTAAAATATATGAT-TT
1 ATAAAAT-T--CTT--AATAATAAATATTCTTATATGAATTTTAAATCATAATATATGATACT
* *
65570926 AATAAAATTCTTAATATTAAATATTCTTATATGAATTTTTTAAAATCATAATATATAATACT
1 -ATAAAATTCTTAATAATAAATATTCTTATATGAA--TTTT-AAATCATAATATATGATACT
65570988 ATAAAAT
1 ATAAAAT
65570995 ATAATTTAAC
Statistics
Matches: 97, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
54 11 0.11
55 4 0.04
56 2 0.02
57 1 0.01
58 2 0.02
59 25 0.26
61 28 0.29
62 2 0.02
63 4 0.04
64 2 0.02
65 4 0.04
66 12 0.12
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (58 bp):
ATAAAATTCTTAATAATAAATATTCTTATATGAATTTTAAATCATAATATATGATACT
Found at i:65570921 original size:59 final size:58
Alignment explanation
Indices: 65570855--65571040 Score: 166
Period size: 59 Copynumber: 3.1 Consensus size: 58
65570845 CTCAAATCAT
* *
65570855 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * *
65570914 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTTTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
65570974 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
65571034 AATATAT
1 AATATAT
65571041 AATTTATCAT
Statistics
Matches: 100, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
58 6 0.06
59 39 0.39
60 19 0.19
61 31 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:65570978 original size:120 final size:120
Alignment explanation
Indices: 65570757--65571046 Score: 447
Period size: 120 Copynumber: 2.4 Consensus size: 120
65570747 TTAATCATAT
65570757 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
65570822 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
65570879 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
**
65570943 TAAATATTCTTATATGAATTTTTTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
65570999 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
65571047 TCATCATACT
Statistics
Matches: 153, Mismatches: 13, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
119 2 0.01
120 108 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:65582622 original size:10 final size:10
Alignment explanation
Indices: 65582607--65582636 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
65582597 TTTTTTTTTC
65582607 AAAAAAAGAA
1 AAAAAAAGAA
65582617 AAAAAAAGAA
1 AAAAAAAGAA
65582627 AAAGAAAAGA
1 AAA-AAAAGA
65582637 GTTTGACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:65599019 original size:150 final size:150
Alignment explanation
Indices: 65598790--65599233 Score: 787
Period size: 150 Copynumber: 3.0 Consensus size: 150
65598780 AGATGATGGG
*
65598790 TTTCTGTTACTCAGTGTTAGCCTTGTATATTTGCGAGATTTTCTCTCTCTAATGTGTGGCTTCTT
1 TTTCTGTTACTCAGTGTTAGCCTTGTATATTTGCGAGATTTTCTCTCTCTAATGTGTGGCGTCTT
* *
65598855 TTATGTCTCAGTTTGAGGCGTGACATGAATACTCGTGGATTCTTTTACTTTTCCTATACTAACAT
66 TTATGCCTCGGTTTGAGGCGTGACATGAATACTCGTGGATTCTTTTACTTTTCCTATACTAACAT
65598920 GTTTAGGAATTTGAATGAAA
131 GTTTAGGAATTTGAATGAAA
65598940 TTTCTGTTACTCAGTGTTAGCCTTGTATATTTGCGAGATTTTCTCTCTCTAATGTGTGGCGTCTT
1 TTTCTGTTACTCAGTGTTAGCCTTGTATATTTGCGAGATTTTCTCTCTCTAATGTGTGGCGTCTT
65599005 TTATGCCTCGGTTTGAGGCGTGACATGAATACTCGTGGATTCTTTTACTTTTCCTATACTAACAT
66 TTATGCCTCGGTTTGAGGCGTGACATGAATACTCGTGGATTCTTTTACTTTTCCTATACTAACAT
65599070 GTTTAGGAATTTGAATGAAA
131 GTTTAGGAATTTGAATGAAA
* *
65599090 TTTTTGTTACTCAGTGTTAGCCTTGTATATTTGCGAGATTTTCGCTCTCTAATGTGTGGCGTCTT
1 TTTCTGTTACTCAGTGTTAGCCTTGTATATTTGCGAGATTTTCTCTCTCTAATGTGTGGCGTCTT
65599155 TTATGCCTCGGTTTGAGGCGTGACATGAATA--C------TCTTTTACTTTTCCTATACTAACAT
66 TTATGCCTCGGTTTGAGGCGTGACATGAATACTCGTGGATTCTTTTACTTTTCCTATACTAACAT
65599212 GTTTAGGAATTTGAATGAAA
131 GTTTAGGAATTTGAATGAAA
65599232 TT
1 TT
65599234 GTGTAATAAA
Statistics
Matches: 289, Mismatches: 5, Indels: 8
0.96 0.02 0.03
Matches are distributed among these distances:
142 47 0.16
148 1 0.00
150 241 0.83
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.43
Consensus pattern (150 bp):
TTTCTGTTACTCAGTGTTAGCCTTGTATATTTGCGAGATTTTCTCTCTCTAATGTGTGGCGTCTT
TTATGCCTCGGTTTGAGGCGTGACATGAATACTCGTGGATTCTTTTACTTTTCCTATACTAACAT
GTTTAGGAATTTGAATGAAA
Found at i:65608386 original size:78 final size:78
Alignment explanation
Indices: 65608257--65608407 Score: 248
Period size: 78 Copynumber: 1.9 Consensus size: 78
65608247 CTCATATTCT
* * *
65608257 ACCATTAAACCATGATCCCTTGATCTTACCAGCTGGGAGAGTCGGTGATCATGTTGATAATGATC
1 ACCATTAAACCATGATCCCTTGATCTCACCAGCTAGGAGAGTCGGTGATCATGTTGATAACGATC
65608322 ACCATGGAGTTCG
66 ACCATGGAGTTCG
* * *
65608335 ACCATTAAACCATGATCCCTTGATCTCATCAGCTAGGAGAGTTGGTGATCATGTTGATAGCGATC
1 ACCATTAAACCATGATCCCTTGATCTCACCAGCTAGGAGAGTCGGTGATCATGTTGATAACGATC
65608400 ACCATGGA
66 ACCATGGA
65608408 CTTTGTGTAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (78 bp):
ACCATTAAACCATGATCCCTTGATCTCACCAGCTAGGAGAGTCGGTGATCATGTTGATAACGATC
ACCATGGAGTTCG
Found at i:65611492 original size:9 final size:9
Alignment explanation
Indices: 65611480--65611505 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
65611470 AAAATTTTGC
65611480 TTTGTTCTT
1 TTTGTTCTT
65611489 TTTGTTCTT
1 TTTGTTCTT
65611498 TTTGTTCT
1 TTTGTTCT
65611506 GGGCCTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.77
Consensus pattern (9 bp):
TTTGTTCTT
Found at i:65617311 original size:19 final size:17
Alignment explanation
Indices: 65617270--65617312 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
65617260 AAAGTGAGTG
65617270 TTTGATGGGTGATGGGGA
1 TTTGA-GGGTGATGGGGA
*
65617288 GTTGAGGGTGATGTGGGTA
1 TTTGAGGGTGATG-GGG-A
65617307 TTTGAG
1 TTTGAG
65617313 CACCAGAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 8 0.38
18 7 0.33
19 6 0.29
ACGTcount: A:0.16, C:0.00, G:0.49, T:0.35
Consensus pattern (17 bp):
TTTGAGGGTGATGGGGA
Found at i:65618611 original size:17 final size:18
Alignment explanation
Indices: 65618577--65618622 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
65618567 CCGTTATGTT
65618577 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
65618592 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
65618609 CGCGACCGCGACCG
1 CGCGACCGCGACCG
65618623 TAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:65620135 original size:29 final size:29
Alignment explanation
Indices: 65620044--65620135 Score: 130
Period size: 29 Copynumber: 3.2 Consensus size: 29
65620034 CAAATAATAA
* *
65620044 TATATAATTGTTATAACTAATGTATATTT
1 TATATATTTGTTATAATTAATGTATATTT
* *
65620073 TATACATTTGGTATAATTAATGTATATTT
1 TATATATTTGTTATAATTAATGTATATTT
* *
65620102 TATATATTTGTTTTAATTAATGCATATTT
1 TATATATTTGTTATAATTAATGTATATTT
65620131 TATAT
1 TATAT
65620136 TAACAAATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (29 bp):
TATATATTTGTTATAATTAATGTATATTT
Found at i:65621140 original size:16 final size:16
Alignment explanation
Indices: 65621121--65621155 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
65621111 TAGTAATTTT
65621121 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
65621137 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
65621153 AAT
1 AAT
65621156 TACGAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:65625194 original size:18 final size:18
Alignment explanation
Indices: 65625163--65625200 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
65625153 TATGTTTGTA
65625163 TTTTTTTGATTTGT-ATT
1 TTTTTTTGATTTGTCATT
*
65625180 TTTTTTTGTTATTGTCATT
1 TTTTTTTGAT-TTGTCATT
65625199 TT
1 TT
65625201 CTTTCAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 4 0.22
19 5 0.28
ACGTcount: A:0.11, C:0.03, G:0.11, T:0.76
Consensus pattern (18 bp):
TTTTTTTGATTTGTCATT
Found at i:65626042 original size:25 final size:25
Alignment explanation
Indices: 65626013--65626064 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
65626003 AATAAACACC
65626013 AAAAATTTATTTTAAAAATAAAAAAT
1 AAAAATTTATTTT-AAAATAAAAAAT
**
65626039 AAAAAAATATTTTAAAATAAAAAAT
1 AAAAATTTATTTTAAAATAAAAAAT
65626064 A
1 A
65626065 TATTTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAAATTTATTTTAAAATAAAAAAT
Found at i:65626057 original size:18 final size:19
Alignment explanation
Indices: 65626034--65626069 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
65626024 TTAAAAATAA
65626034 AAAATAAAAAA-ATATTTT
1 AAAATAAAAAATATATTTT
65626052 AAAATAAAAAATATATTT
1 AAAATAAAAAATATATTT
65626070 ATTATATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATAAAAAATATATTTT
Found at i:65626062 original size:17 final size:19
Alignment explanation
Indices: 65626034--65626070 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
65626024 TTAAAAATAA
65626034 AAAATAAAAAAATAT-TTT
1 AAAATAAAAAAATATATTT
65626052 AAAAT-AAAAAATATATTT
1 AAAATAAAAAAATATATTT
65626070 A
1 A
65626071 TTATATTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATAAAAAAATATATTT
Found at i:65629086 original size:6 final size:6
Alignment explanation
Indices: 65629077--65629110 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
65629067 ATTTCTTTTC
* *
65629077 CTTTGT CTTTGT CTTTGT TTTTGT TTTTGT CTTT
1 CTTTGT CTTTGT CTTTGT CTTTGT CTTTGT CTTT
65629111 TGCCTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.74
Consensus pattern (6 bp):
CTTTGT
Found at i:65631758 original size:20 final size:20
Alignment explanation
Indices: 65631733--65631772 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
65631723 CAATTGTTTT
65631733 AAAATTAA-ATAAGTTTAAAA
1 AAAATTAATATAA-TTTAAAA
65631753 AAAATTAATATAATTTAAAA
1 AAAATTAATATAATTTAAAA
65631773 TTTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAATTAATATAATTTAAAA
Found at i:65634014 original size:365 final size:365
Alignment explanation
Indices: 65633339--65634612 Score: 2314
Period size: 365 Copynumber: 3.5 Consensus size: 365
65633329 GTTTTATTGA
* * ** * * *
65633339 TCTCTTCCTGTATATGCATACAGCGATTCAAACCAAGAACGAACGGTTCAATCAGAGCGAGTTTC
1 TCTCCTCCTGTAGATGCATATTGCAATGCAAACCAAGAACGAACGGTTCAATCAGAACGAGTTTC
* * * * * * * * * *
65633404 AGGTTTGGTGCGCGTTAAACGCACCGTCGCATCGGCTCCCAAAGTGTAGAAAATCGCCATCAATC
66 GGGTTTGTTGAGCGTCAAATGCGCCGTCGCTTCGACTCCTAGAGTGTAGAAAATCGCCATCAATC
65633469 GTGTAAGTGTAGAAAACCTTTTCTTGTTTTTGCTTAGCAGAATAATTTTGGGGTAAGGTTTTTTT
131 GTGTAAGTGTAGAAAACCTTTTCTTGTTTTTGCTTAGCAGAATAATTTTGGGGTAAGGTTTTTTT
65633534 GGGCCTGAGTCACGCTTAGATTTCGGCTTATCATTTATATTTTTGTCATTATAGTTAACTTTTCC
196 GGGCCTGAGTCACGCTTAGATTTCGGCTTATCATTTATATTTTTGTCATTATAGTTAACTTTTCC
65633599 AAATAACATGACACTAGTTCCATTCTGTTTCTTTCCATGTTTCAAATCTATGGATCTCATTCTGT
261 AAATAACATGACACTAGTTCCATTCTGTTTCTTTCCATGTTTCAAATCTATGGATCTCATTCTGT
*
65633664 TTGTTTCCTGTGTTCTTTTGTGAGATAGATACCTAATTTT
326 TTGTTTCCTGTGTTCTTTCGTGAGATAGATACCTAATTTT
65633704 TCTCCTCCTGTAGATGCATATTGCAATGCAAACCAAGAACGAACGGTTCAATCAGAACGAGTTTC
1 TCTCCTCCTGTAGATGCATATTGCAATGCAAACCAAGAACGAACGGTTCAATCAGAACGAGTTTC
65633769 GGGTTTGTTGAGCGTCAAATGCGCCGTCGCTTCGACTCCTAGAGTGTAGAAAATCGCCATCAATC
66 GGGTTTGTTGAGCGTCAAATGCGCCGTCGCTTCGACTCCTAGAGTGTAGAAAATCGCCATCAATC
65633834 GTGTAAGTGTAGAAAACCTTTTCTTGTTTTTGCTTAGCAGAATAATTTTGGGGTAAGGTTTTTTT
131 GTGTAAGTGTAGAAAACCTTTTCTTGTTTTTGCTTAGCAGAATAATTTTGGGGTAAGGTTTTTTT
65633899 GGGCCTGAGTCACGCTTAGATTTCGGCTTATCATTTATATTTTTGTCATTATAGTTAACTTTTCC
196 GGGCCTGAGTCACGCTTAGATTTCGGCTTATCATTTATATTTTTGTCATTATAGTTAACTTTTCC
65633964 AAATAACATGACACTAGTTCCATTCTGTTTCTTTCCATGTTTCAAATCTATGGATCTCATTCTGT
261 AAATAACATGACACTAGTTCCATTCTGTTTCTTTCCATGTTTCAAATCTATGGATCTCATTCTGT
65634029 TTGTTTCCTGTGTTCTTTCGTGAGATAGATACCTAATTTT
326 TTGTTTCCTGTGTTCTTTCGTGAGATAGATACCTAATTTT
65634069 TCTCCTCCTGTAGATGCATATTGCAATGCAAACCAAGAACGAACGGTTCAATCAGAACGAGTTTC
1 TCTCCTCCTGTAGATGCATATTGCAATGCAAACCAAGAACGAACGGTTCAATCAGAACGAGTTTC
65634134 GGGTTTGTTGAGCGTCAAATGCGCCGTCGCTTCGACTCCTAGAGTGTAGAAAATCGCCATCAATC
66 GGGTTTGTTGAGCGTCAAATGCGCCGTCGCTTCGACTCCTAGAGTGTAGAAAATCGCCATCAATC
65634199 GTGTAAGTGTAGAAAACCTTTTCTTGTTTTTGCTTAGCAGAATAATTTTGGGGTAAGGTTTTTTT
131 GTGTAAGTGTAGAAAACCTTTTCTTGTTTTTGCTTAGCAGAATAATTTTGGGGTAAGGTTTTTTT
65634264 GGGCCTGAGTCACGCTTAGATTTCGGCTTATCATTTATATTTTTGTCATTATAGTTAACTTTTCC
196 GGGCCTGAGTCACGCTTAGATTTCGGCTTATCATTTATATTTTTGTCATTATAGTTAACTTTTCC
65634329 AAATAACATGACACTAGTTCCATTCTGTTTCTTTCCATGTTTCAAATCTATGGATCTCATTCTGT
261 AAATAACATGACACTAGTTCCATTCTGTTTCTTTCCATGTTTCAAATCTATGGATCTCATTCTGT
65634394 TTGTTTCCTGTGTTCTTTCGTGAGATAGATACCTAATTTT
326 TTGTTTCCTGTGTTCTTTCGTGAGATAGATACCTAATTTT
65634434 TCTCCTCCTGTAGATGCATATTGCAATGCAAACCAAGAACGAACGGTTCAATCAGAACGAGTTTC
1 TCTCCTCCTGTAGATGCATATTGCAATGCAAACCAAGAACGAACGGTTCAATCAGAACGAGTTTC
* * ** *
65634499 GGGTTTGTTGAGCGTCAAATGCGCCGTCGCTTCGACTCCTAGAGTCTGGAAAATCATCGTCAATC
66 GGGTTTGTTGAGCGTCAAATGCGCCGTCGCTTCGACTCCTAGAGTGTAGAAAATCGCCATCAATC
* * *
65634564 CTGTAAGTGTAGAAAATCTTTTCTTGTTTTTGCCTAGCAGAATAATTTT
131 GTGTAAGTGTAGAAAACCTTTTCTTGTTTTTGCTTAGCAGAATAATTTT
65634613 TGTAATATCC
Statistics
Matches: 883, Mismatches: 26, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
365 883 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (365 bp):
TCTCCTCCTGTAGATGCATATTGCAATGCAAACCAAGAACGAACGGTTCAATCAGAACGAGTTTC
GGGTTTGTTGAGCGTCAAATGCGCCGTCGCTTCGACTCCTAGAGTGTAGAAAATCGCCATCAATC
GTGTAAGTGTAGAAAACCTTTTCTTGTTTTTGCTTAGCAGAATAATTTTGGGGTAAGGTTTTTTT
GGGCCTGAGTCACGCTTAGATTTCGGCTTATCATTTATATTTTTGTCATTATAGTTAACTTTTCC
AAATAACATGACACTAGTTCCATTCTGTTTCTTTCCATGTTTCAAATCTATGGATCTCATTCTGT
TTGTTTCCTGTGTTCTTTCGTGAGATAGATACCTAATTTT
Found at i:65635012 original size:231 final size:229
Alignment explanation
Indices: 65634608--65635133 Score: 727
Period size: 231 Copynumber: 2.3 Consensus size: 229
65634598 TAGCAGAATA
*
65634608 ATTTTTGTAATATCCGCTGAGCAGAATACTTTTCCTCTCTGTTTTTAGTTGATATATTCTTCTTT
1 ATTTTTGTAATATTCGCTGAGCAGAATACTTTTCCTCTCTGTTTTTAGTTGATATATTCTTCTTT
* **
65634673 TCTTGTTTTTGCTTAGCAGAGTAATATTGGGGTTTGGTATTTTTGAGCCTGAATCACGATTAGAT
66 TCTTGTTTTTGCTTAGCAGAATAATATTGGGGTTTGGTATTTTTGAGCCCAAATCACGATTAGAT
* * * *
65634738 TTCGGCTTTTCATTTATATTTTTGTCATTATATTTACTTTTCCAATTAACATGACCCTAGTTCCA
131 TTCGGCTTATCATTTATATTTTTGTCATTATATTCACTTTTCCAAATAACATGACACTAGTTCCA
* *
65634803 TTGCTCCCA-AGACTGAAGAAAATATCTATTATTAAG
196 TTGCTCCCAGA-ACTCAAGAAAATATCT-GTA-TAAG
*
65634839 ATTTTTGTAATATTCGCTGAGCAGAATAATTTTCCTCTCTGTTTTTAGTTGATATATTCTTCTTT
1 ATTTTTGTAATATTCGCTGAGCAGAATACTTTTCCTCTCTGTTTTTAGTTGATATATTCTTCTTT
* * * * * *
65634904 TCTTGTTTTTGCTTAGTAGAATAATTTTGTGGTTTGGTTTTTTTGGGCCCAAATCACGCTTAGAA
66 TCTTGTTTTTGCTTAGCAGAATAATATTGGGGTTTGGTATTTTTGAGCCCAAATCACGATTAG-A
*
65634969 TTT-GGCTTATCATTTATATTTTTGTCATTATAGTTCA-TTTTCCAAATAACATTACACTAGTTC
130 TTTCGGCTTATCATTTATATTTTTGTCATTATA-TTCACTTTTCCAAATAACATGACACTAGTTC
* * * * *
65635032 CTTTGCTCTCAGAACTCAGGATAATATCTGTATAAT
194 CATTGCTCCCAGAACTCAAGAAAATATCTGTATAAG
* * * *
65635068 ATTTTTGTAAT-TTCTGCTTAGCAGAATACTATTCCTCTCTGTTTTTAGTTGACATATGCTTCTT
1 ATTTTTGTAATATTC-GCTGAGCAGAATACTTTTCCTCTCTGTTTTTAGTTGATATATTCTTCTT
65635132 TT
65 TT
65635134 TGCTAATATG
Statistics
Matches: 263, Mismatches: 28, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
228 3 0.01
229 60 0.23
230 2 0.01
231 190 0.72
232 8 0.03
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.47
Consensus pattern (229 bp):
ATTTTTGTAATATTCGCTGAGCAGAATACTTTTCCTCTCTGTTTTTAGTTGATATATTCTTCTTT
TCTTGTTTTTGCTTAGCAGAATAATATTGGGGTTTGGTATTTTTGAGCCCAAATCACGATTAGAT
TTCGGCTTATCATTTATATTTTTGTCATTATATTCACTTTTCCAAATAACATGACACTAGTTCCA
TTGCTCCCAGAACTCAAGAAAATATCTGTATAAG
Found at i:65637980 original size:267 final size:265
Alignment explanation
Indices: 65637507--65638039 Score: 967
Period size: 267 Copynumber: 2.0 Consensus size: 265
65637497 TTCTCAGTGG
65637507 TATTTGTTGATGTTTGCAGATCAGATCTCCAGTATCTTTTGGTTATTACATTCAGACCTTATGAG
1 TATTTGTTGATGTTTGCAGATCAGATCTCCAGTATCTTTTGGTTATTACATTCAGACCTTATGAG
* *
65637572 GCTAGGGTTACAGCTGTAAAGAGAATCCACGAAGTACGAGAAGGGAGGAAGAGAGAATAATGAAA
66 GCTAGGGTTACAACTGTAAAGAGAATCCACGAAGTACGAGAAGGGAGGAAGAGAGAATAAAGAAA
65637637 ACAAACCCCTGCTTCATGGGAGTCATTTCAGGTATGAATATTTACATTAACTGTGTATTTGCCTT
131 ACAAACCCCTGCTTCATGGGAGTCATTTCAGGTATGAATATTTACATTAACTGTGTATTTGCCTT
* *
65637702 TTCATGTATTTTTTTAATTTCAGATCTCTGCTTCTCTCCTTTGTTTTTTCTCTTGGTTTTTTGTT
196 ATCATGTATTTTTTTAATTTCAGATCTCTGCTTCTCTCCTTTGTTTTTTCTCTTGGTTTTTGGTT
65637767 TTTCA
261 TTTCA
*
65637772 TATTTGTTGATGTTTGCAGATCAGATTTCCAGTATCTTTTGGTTATTACATTCAGACCTTTATGA
1 TATTTGTTGATGTTTGCAGATCAGATCTCCAGTATCTTTTGGTTATTACATTCAGACC-TTATGA
*
65637837 GGCTAGGGTTATAACTGTAAAGAGAATCCACGAAGTACGAGAAGGGAGGAAGAGAGAATAAAAGA
65 GGCTAGGGTTACAACTGTAAAGAGAATCCACGAAGTACGAGAAGGGAGGAAGAGAGAAT-AAAGA
* *
65637902 AAACAAACCCTTGCTTCATGGGAGTCATTTTAGGTATGAATATTTACATTAACTGTGTATTTGCC
129 AAACAAACCCCTGCTTCATGGGAGTCATTTCAGGTATGAATATTTACATTAACTGTGTATTTGCC
*
65637967 TTATCATGTATTTTTTTAATTTCAGATCTCTGCTTCTCTCCTTTGTTTTTTCTGTTGGTTTTTGG
194 TTATCATGTATTTTTTTAATTTCAGATCTCTGCTTCTCTCCTTTGTTTTTTCTCTTGGTTTTTGG
65638032 TTTTTCA
259 TTTTTCA
65638039 T
1 T
65638040 CTTTAGAATA
Statistics
Matches: 257, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
265 57 0.22
266 63 0.25
267 137 0.53
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (265 bp):
TATTTGTTGATGTTTGCAGATCAGATCTCCAGTATCTTTTGGTTATTACATTCAGACCTTATGAG
GCTAGGGTTACAACTGTAAAGAGAATCCACGAAGTACGAGAAGGGAGGAAGAGAGAATAAAGAAA
ACAAACCCCTGCTTCATGGGAGTCATTTCAGGTATGAATATTTACATTAACTGTGTATTTGCCTT
ATCATGTATTTTTTTAATTTCAGATCTCTGCTTCTCTCCTTTGTTTTTTCTCTTGGTTTTTGGTT
TTTCA
Found at i:65641733 original size:61 final size:61
Alignment explanation
Indices: 65641638--65641760 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
65641628 CTCAAGATAT
*
65641638 TAGAAAATAAGGCAGGTAAAGAAATTAAGGCTGCTTGGGGGCATCTAATGTATCATCATTC
1 TAGAAAATAAGGCAAGTAAAGAAATTAAGGCTGCTTGGGGGCATCTAATGTATCATCATTC
65641699 TAGAAAATAAGGCAAGTAAAGAAATTAAGGCTGCTTGGGGGCATCTAATGTATCATCATTC
1 TAGAAAATAAGGCAAGTAAAGAAATTAAGGCTGCTTGGGGGCATCTAATGTATCATCATTC
65641760 T
1 T
65641761 TCAGCAGCTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (61 bp):
TAGAAAATAAGGCAAGTAAAGAAATTAAGGCTGCTTGGGGGCATCTAATGTATCATCATTC
Found at i:65642421 original size:13 final size:13
Alignment explanation
Indices: 65642374--65642422 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
65642364 CCAGTTCTAA
65642374 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
65642387 CTTATGAGAAGTG
1 CTTTTGAAAAGTG
**
65642400 CTTGGGAAAAGTG
1 CTTTTGAAAAGTG
*
65642413 TTTTTGAAAA
1 CTTTTGAAAA
65642423 ATTTGAGTGT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:65652140 original size:6 final size:6
Alignment explanation
Indices: 65652129--65652153 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
65652119 GATACTATGA
65652129 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
65652154 CAAACTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:65658849 original size:38 final size:39
Alignment explanation
Indices: 65658807--65658885 Score: 97
Period size: 38 Copynumber: 2.0 Consensus size: 39
65658797 CCGAATATAA
* **
65658807 TAAATATTTTTATTTTTTTAA-TTTTAAAATACTTTTTT
1 TAAATATTTTTAATTTTAAAATTTTTAAAATACTTTTTT
*
65658845 TAAATTTTTTTAATTTTAAAATTTTTTTAAAATACTTTTTT
1 TAAATATTTTTAATTTTAAAA--TTTTTAAAATACTTTTTT
65658886 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 17 0.50
41 17 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (39 bp):
TAAATATTTTTAATTTTAAAATTTTTAAAATACTTTTTT
Found at i:65658854 original size:30 final size:29
Alignment explanation
Indices: 65658818--65658936 Score: 141
Period size: 30 Copynumber: 3.9 Consensus size: 29
65658808 AAATATTTTT
*
65658818 ATTTTTTTAATTTTAAAATACTTTTTTTAA
1 ATTTTTTTAATTTTAAAATA-TTTTTTAAA
65658848 ATTTTTTTAATTTTAAAAT-TTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTTAAA
*
65658876 ATACTTTTTTAATTTTAAAATATTTTTAAAA
1 AT--TTTTTTAATTTTAAAATATTTTTTAAA
*
65658907 TACTTTTTTTAAATTTTTAAAATAATTTTT
1 -A-TTTTTTT-AA-TTTTAAAATATTTTTT
65658937 GGTATTTATT
Statistics
Matches: 78, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
28 10 0.13
30 36 0.46
31 14 0.18
32 3 0.04
33 15 0.19
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAATTTTAAAATATTTTTTAAA
Found at i:65658861 original size:17 final size:17
Alignment explanation
Indices: 65658818--65658904 Score: 73
Period size: 17 Copynumber: 5.6 Consensus size: 17
65658808 AAATATTTTT
65658818 ATTTTTTTAATTTTAAA
1 ATTTTTTTAATTTTAAA
**
65658835 A-TACTTT--TTTT-AA
1 ATTTTTTTAATTTTAAA
65658848 ATTTTTTTAATTTTAAA
1 ATTTTTTTAATTTTAAA
*
65658865 ATTTTTTTAA----AAT
1 ATTTTTTTAATTTTAAA
*
65658878 ACTTTTTTAATTTTAAA
1 ATTTTTTTAATTTTAAA
*
65658895 ATATTTTTAA
1 ATTTTTTTAA
65658905 AATACTTTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 16
0.68 0.12 0.21
Matches are distributed among these distances:
13 14 0.26
14 8 0.15
16 8 0.15
17 23 0.43
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTTTTAATTTTAAA
Found at i:65658903 original size:41 final size:41
Alignment explanation
Indices: 65658828--65658907 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
65658818 ATTTTTTTAA
**
65658828 TTTTAAAATACTTTTTTTAAATTTTTTTAATTTTAAAATTT
1 TTTTAAAATACTTTTTTTAAATTTTAATAATTTTAAAATTT
*
65658869 TTTTAAAATAC-TTTTTT-AATTTTAAAATATTTTTAAAAT
1 TTTTAAAATACTTTTTTTAAATTTT--AATAATTTTAAAAT
65658908 ACTTTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 6 0.18
40 6 0.18
41 22 0.65
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (41 bp):
TTTTAAAATACTTTTTTTAAATTTTAATAATTTTAAAATTT
Found at i:65658943 original size:21 final size:20
Alignment explanation
Indices: 65658896--65658943 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
65658886 AATTTTAAAA
* *
65658896 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTG
65658916 TAAATTTTTAAAATAATTTTTGG
1 T--ATTTTTAAAATAATTTTT-G
65658939 TATTT
1 TATTT
65658944 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 1 0.04
21 4 0.17
22 17 0.74
23 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTG
Found at i:65659179 original size:14 final size:15
Alignment explanation
Indices: 65659153--65659185 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
65659143 CCTAAACCTA
*
65659153 TAAATCTTTAAACCC
1 TAAATCTTTAAACAC
65659168 TAAATC-TTAAACAC
1 TAAATCTTTAAACAC
65659182 TAAA
1 TAAA
65659186 CCCTGCTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATCTTTAAACAC
Found at i:65659567 original size:8 final size:8
Alignment explanation
Indices: 65659554--65659593 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
65659544 ATGATGAACT
65659554 AAACCCTA
1 AAACCCTA
65659562 AAACCCTA
1 AAACCCTA
*
65659570 AAA-CCTT
1 AAACCCTA
65659577 AAACCCT-
1 AAACCCTA
65659584 AAACCCTA
1 AAACCCTA
65659592 AA
1 AA
65659594 CTCTATACCG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 13 0.45
8 16 0.55
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (8 bp):
AAACCCTA
Found at i:65659580 original size:7 final size:7
Alignment explanation
Indices: 65659552--65659594 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
65659542 AAATGATGAA
65659552 CTAAACC
1 CTAAACC
65659559 CTAAAACC
1 CT-AAACC
65659567 CTAAAACC
1 CT-AAACC
*
65659575 TTAAACC
1 CTAAACC
65659582 CTAAACC
1 CTAAACC
65659589 CTAAAC
1 CTAAAC
65659595 TCTATACCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 19 0.58
8 14 0.42
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:65659580 original size:15 final size:15
Alignment explanation
Indices: 65659552--65659593 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
65659542 AAATGATGAA
*
65659552 CTAAACCCTAAAACC
1 CTAAAACCTAAAACC
*
65659567 CTAAAACCTTAAACC
1 CTAAAACCTAAAACC
*
65659582 CTAAACCCTAAA
1 CTAAAACCTAAA
65659594 CTCTATACCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.17
Consensus pattern (15 bp):
CTAAAACCTAAAACC
Found at i:65660010 original size:9 final size:9
Alignment explanation
Indices: 65659983--65660096 Score: 63
Period size: 9 Copynumber: 11.9 Consensus size: 9
65659973 AATACTTTTT
65659983 TTATAAAAATA
1 TTAT-AAAA-A
*
65659994 TTAGAAAAA
1 TTATAAAAA
65660003 TTATAAAAA
1 TTATAAAAA
65660012 -TA-AAAATA
1 TTATAAAA-A
65660020 TTAATATTAAAAA
1 -T--TA-TAAAAA
* *
65660033 TGATATAAAC
1 TTATA-AAAA
*
65660043 TTAAAAAAA
1 TTATAAAAA
65660052 TTATAAAAA
1 TTATAAAAA
*
65660061 CTTATAAATA
1 -TTATAAAAA
65660071 TTATAAAAA
1 TTATAAAAA
*
65660080 TCTA-ATAAA
1 T-TATAAAAA
65660089 TTATAAAA
1 TTATAAAA
65660097 TTAACAAAGA
Statistics
Matches: 80, Mismatches: 12, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
7 4 0.05
8 5 0.06
9 39 0.49
10 21 0.26
11 3 0.04
12 3 0.04
13 1 0.01
14 4 0.05
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (9 bp):
TTATAAAAA
Found at i:65660052 original size:19 final size:19
Alignment explanation
Indices: 65660028--65660079 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
65660018 TATTAATATT
*
65660028 AAAAATGATATAAACTTAA
1 AAAAATGATAAAAACTTAA
* *
65660047 AAAAATTATAAAAACTTAT
1 AAAAATGATAAAAACTTAA
* *
65660066 AAATATTATAAAAA
1 AAAAATGATAAAAA
65660080 TCTAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATGATAAAAACTTAA
Found at i:65662565 original size:7 final size:7
Alignment explanation
Indices: 65662555--65662599 Score: 72
Period size: 7 Copynumber: 6.3 Consensus size: 7
65662545 CTTAATCTTC
*
65662555 AACCCTC
1 AACCCTA
65662562 AACCCTA
1 AACCCTA
65662569 AACCCTA
1 AACCCTA
65662576 AACCCTA
1 AACCCTA
65662583 AACCCCTA
1 AA-CCCTA
65662591 AACCCTA
1 AACCCTA
65662598 AA
1 AA
65662600 ACCACTAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
7 29 0.81
8 7 0.19
ACGTcount: A:0.42, C:0.44, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:65662592 original size:22 final size:20
Alignment explanation
Indices: 65662555--65662624 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 20
65662545 CTTAATCTTC
65662555 AACCCTCAACCCTAAACCCTA
1 AACCCT-AACCCTAAACCCTA
65662576 AACCCTAAACCCCTAAACCCTAA
1 AACCCT-AA-CCCTAAACCCT-A
65662599 AACCACTAACACC-AAACCCCTA
1 AACC-CTAAC-CCTAAA-CCCTA
65662621 AACC
1 AACC
65662625 TAGACCTTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
21 8 0.19
22 20 0.47
23 13 0.30
24 2 0.05
ACGTcount: A:0.43, C:0.46, G:0.00, T:0.11
Consensus pattern (20 bp):
AACCCTAACCCTAAACCCTA
Found at i:65672220 original size:27 final size:29
Alignment explanation
Indices: 65672190--65672252 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
65672180 CAGAAACCCG
* * *
65672190 AAAACCATGACCATTATCAC-AG-CCCAA
1 AAAACCAGGACAACTATCACAAGTCCCAA
* *
65672217 AAAAACAGGACAACTATCACAAGTCGCAA
1 AAAACCAGGACAACTATCACAAGTCCCAA
65672246 AAAACCA
1 AAAACCA
65672253 ATGGCCACAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
27 16 0.57
28 2 0.07
29 10 0.36
ACGTcount: A:0.51, C:0.29, G:0.10, T:0.11
Consensus pattern (29 bp):
AAAACCAGGACAACTATCACAAGTCCCAA
Found at i:65676454 original size:25 final size:25
Alignment explanation
Indices: 65676421--65676468 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
65676411 ACAACGCATT
65676421 AATTAAAAATATT-TTTAAATAATTA
1 AATTAAAAA-ATTATTTAAATAATTA
* *
65676446 AATTTAAAAATTATTTTAATAAT
1 AATTAAAAAATTATTTAAATAAT
65676469 ATTACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AATTAAAAAATTATTTAAATAATTA
Done.