Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 42 of 182
Found at i:13323327 original size:6 final size:6
Alignment explanation
Indices: 13323318--13323343 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13323308 TTATGTTCTA
13323318 TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
13323344 CCTTCATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:13337199 original size:13 final size:13
Alignment explanation
Indices: 13337181--13337205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13337171 TACCTAAAAC
13337181 AACACATAAATAA
1 AACACATAAATAA
13337194 AACACATAAATA
1 AACACATAAATA
13337206 TCATATAATT
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:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
AACACATAAATAA
Found at i:13337959 original size:41 final size:41
Alignment explanation
Indices: 13337914--13338018 Score: 165
Period size: 41 Copynumber: 2.6 Consensus size: 41
13337904 ACTGGCACTT
* *
13337914 AGCCTGCTAGACGTAAAGTCTGGTATGTTTCACCGGTATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
*
13337955 AGCCTACTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
* *
13337996 AGCCTGTTAAACGTAATGTCTGG
1 AGCCTGCTAGACGTAATGTCTGG
13338019 ATTACATCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (41 bp):
AGCCTGCTAGACGTAATGTCTGGTATGTTTCACCGGCATCA
Found at i:13347392 original size:10 final size:10
Alignment explanation
Indices: 13347372--13347408 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
13347362 TTATATACTC
13347372 TTTAGAATTTT
1 TTTA-AATTTT
13347383 TTTAAATTTT
1 TTTAAATTTT
*
13347393 TTTTAATTTT
1 TTTAAATTTT
13347403 TTTAAA
1 TTTAAA
13347409 AAATATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (10 bp):
TTTAAATTTT
Found at i:13348696 original size:19 final size:19
Alignment explanation
Indices: 13348664--13348701 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13348654 AATGAAGAGT
*
13348664 TTTGTTAGTAATTTTGTTA
1 TTTGTAAGTAATTTTGTTA
*
13348683 TTTGTAAGTTATTTTGTTA
1 TTTGTAAGTAATTTTGTTA
13348702 GGTTATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.16, T:0.63
Consensus pattern (19 bp):
TTTGTAAGTAATTTTGTTA
Found at i:13351721 original size:443 final size:443
Alignment explanation
Indices: 13350895--13351780 Score: 1646
Period size: 443 Copynumber: 2.0 Consensus size: 443
13350885 TCGGCCACAT
13350895 TCTACAGGTTGGCTACCTTGATGCGAAGAATGGGGCAGTACCAAGTCAACCAGATGGAGGCGGGA
1 TCTACAGGTTGGCTACCTTGATGCGAAGAATGGGGCAGTACCAAGTCAACCAGATGGAGGCGGGA
* *
13350960 CACGTGTTTGTCAAACATGTCAGGAATGCTATGGTTGCAAATCAGCGGATGGCGAGGTCGATGAA
66 CACGTGTTTGTCAAACATGTCAGGAATGCAATGGTTGCAAATCAGCGGATGGCGAGGTCGACGAA
*
13351025 TGTAGAAGTATATTCACGAAGTAATGAAGCATTTTAAGTTACAGATACCATTGGTTATCGACCCG
131 TGTAGAAGTATATTCACGAAGTAATGAAACATTTTAAGTTACAGATACCATTGGTTATCGACCCG
13351090 ATATACCACCTAGGTCCTATAGAGTTGATCTCTAAAACAGACGGTGCGATTGTAGGAGGTTCCAG
196 ATATACCACCTAGGTCCTATAGAGTTGATCTCTAAAACAGACGGTGCGATTGTAGGAGGTTCCAG
*
13351155 ACACTTCATTATTCCTGTGAACATGTCGTGGCAACTTGTGGTAAAGTCTTGCTCAATAGTGAACA
261 ACACTTCATTATTCCTGTGAACATGTCGTGGCAACTTGTGCTAAAGTCTTGCTCAATAGTGAACA
13351220 ATTTATTGATGAAGTGTACACCCTCAAACGCACGTTGCGTGTATGGGAGAACGAGTTCCCCGTGC
326 ATTTATTGATGAAGTGTACACCCTCAAACGCACGTTGCGTGTATGGGAGAACGAGTTCCCCGTGC
13351285 TACCTGACCTATCTACATGGGAGGTACCTCCGACGACTTTCGAGCTTGACCTA
391 TACCTGACCTATCTACATGGGAGGTACCTCCGACGACTTTCGAGCTTGACCTA
*
13351338 TCTACAGGTTGGCTACCTTGATGCTAAGAATGGGGCAGTACCAAGTCAACCAGATGGAGGCGGGA
1 TCTACAGGTTGGCTACCTTGATGCGAAGAATGGGGCAGTACCAAGTCAACCAGATGGAGGCGGGA
13351403 CACGTGTTTGTCAAACATGTCAGGAATGCAATGGTTGCAAATCAGCGGATGGCGAGGTCGACGAA
66 CACGTGTTTGTCAAACATGTCAGGAATGCAATGGTTGCAAATCAGCGGATGGCGAGGTCGACGAA
* * *
13351468 TGTAGAAGTATATTCACGACGTAATGAAACATTTTGAGTTACAGATACCATTGGTTATTGACCCG
131 TGTAGAAGTATATTCACGAAGTAATGAAACATTTTAAGTTACAGATACCATTGGTTATCGACCCG
* *
13351533 GTATACCACCTAGGTCCTATGGAGTTGATCTCTAAAACAGACGGTGCGATTGTAGGAGGTTCCAG
196 ATATACCACCTAGGTCCTATAGAGTTGATCTCTAAAACAGACGGTGCGATTGTAGGAGGTTCCAG
*
13351598 ACACTTCATTATTCCTGTGAACATGTCGTGGCAGCTTGTGCTAAAGTCTTGCTCAATAGTGAACA
261 ACACTTCATTATTCCTGTGAACATGTCGTGGCAACTTGTGCTAAAGTCTTGCTCAATAGTGAACA
*
13351663 ATTTATTGATGAAGTGTACACCCTCAAACGCACGTTGCGTGTATGGGAGAATGAGTTCCCCGTGC
326 ATTTATTGATGAAGTGTACACCCTCAAACGCACGTTGCGTGTATGGGAGAACGAGTTCCCCGTGC
* *
13351728 TACCTGACCTATCTACATGGGAGGTGCCTCCGACGACTTTCGAGCTTGTCCTA
391 TACCTGACCTATCTACATGGGAGGTACCTCCGACGACTTTCGAGCTTGACCTA
13351781 GACAAAAGGT
Statistics
Matches: 429, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
443 429 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (443 bp):
TCTACAGGTTGGCTACCTTGATGCGAAGAATGGGGCAGTACCAAGTCAACCAGATGGAGGCGGGA
CACGTGTTTGTCAAACATGTCAGGAATGCAATGGTTGCAAATCAGCGGATGGCGAGGTCGACGAA
TGTAGAAGTATATTCACGAAGTAATGAAACATTTTAAGTTACAGATACCATTGGTTATCGACCCG
ATATACCACCTAGGTCCTATAGAGTTGATCTCTAAAACAGACGGTGCGATTGTAGGAGGTTCCAG
ACACTTCATTATTCCTGTGAACATGTCGTGGCAACTTGTGCTAAAGTCTTGCTCAATAGTGAACA
ATTTATTGATGAAGTGTACACCCTCAAACGCACGTTGCGTGTATGGGAGAACGAGTTCCCCGTGC
TACCTGACCTATCTACATGGGAGGTACCTCCGACGACTTTCGAGCTTGACCTA
Found at i:13352253 original size:74 final size:75
Alignment explanation
Indices: 13352132--13352318 Score: 287
Period size: 74 Copynumber: 2.6 Consensus size: 75
13352122 TTACGTAAAT
*
13352132 AATACAAAGTTT-ATTATTTAAATTACAAAAACCCCTAAAATTAATAACTAAAATGGC-AAAAAA
1 AATACAAA-TTTGATTATTTAAATTACAAAAATCCCTAAAATTAATAACTAAAATGGCAAAAAAA
13352195 GTCATTACATA
65 GTCATTACATA
*
13352206 AATACAAATTTGACTATTTAAATTACAAAAATCCCTAAAATTAATAACTAAAATGGCAAAAAAAG
1 AATACAAATTTGATTATTTAAATTACAAAAATCCCTAAAATTAATAACTAAAATGGCAAAAAAAG
13352271 TCATTACATA
66 TCATTACATA
* *
13352281 AATACAAA---G-TTATTTAAATTACAAAACTGCCTAAAATT
1 AATACAAATTTGATTATTTAAATTACAAAAATCCCTAAAATT
13352319 GATGGTTTGA
Statistics
Matches: 106, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
71 26 0.25
72 1 0.01
73 3 0.03
74 51 0.48
75 25 0.24
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.29
Consensus pattern (75 bp):
AATACAAATTTGATTATTTAAATTACAAAAATCCCTAAAATTAATAACTAAAATGGCAAAAAAAG
TCATTACATA
Found at i:13354712 original size:104 final size:102
Alignment explanation
Indices: 13354570--13354824 Score: 327
Period size: 104 Copynumber: 2.5 Consensus size: 102
13354560 TAAAAATCAA
** *
13354570 ATAAAATTACATTATAAAAAATTTACATTAATGAAAAATCACAAAACACTAAACTAAACACTAAC
1 ATAAAATTATTTTATAAAAAA-TTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAAC
13354635 AATTTATGTAACCTAATCATAAATTACTAACAAAATAACT
65 AATTTA--TAACCTAATCATAAATTACTAACAAAATAACT
* * * *
13354675 ATAAAATTATTTTTTAAAAAATTACATTATTAAAAAATTACAAAACCCTAAACTAAACACTAACA
1 ATAAAATTATTTTATAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACA
** *
13354740 ATTTATAAAATAATCATAAATTATTAACAAAATAACT
66 ATTTATAACCTAATCATAAATTACTAACAAAATAACT
* * * * *
13354777 AT--AA-CATTTTAAAAAAAATTACATTACTGATAAATCACAAAACACTAA
1 ATAAAATTATTTTATAAAAAATTACATTAATAAAAAATCACAAAACACTAA
13354825 TAATTTATAA
Statistics
Matches: 132, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
99 36 0.27
100 2 0.02
102 31 0.23
104 45 0.34
105 18 0.14
ACGTcount: A:0.56, C:0.14, G:0.01, T:0.29
Consensus pattern (102 bp):
ATAAAATTATTTTATAAAAAATTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACA
ATTTATAACCTAATCATAAATTACTAACAAAATAACT
Found at i:13354780 original size:22 final size:22
Alignment explanation
Indices: 13354746--13354793 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
13354736 AACAATTTAT
*
13354746 AAAATAATCATAA-ATTATTAAC
1 AAAATAATCATAACATT-TTAAA
13354768 AAAATAA-CTATAACATTTTAAA
1 AAAATAATC-ATAACATTTTAAA
13354790 AAAA
1 AAAA
13354794 ATTACATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 1 0.04
22 19 0.83
23 3 0.13
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAATCATAACATTTTAAA
Found at i:13354833 original size:87 final size:89
Alignment explanation
Indices: 13354729--13354911 Score: 253
Period size: 87 Copynumber: 2.1 Consensus size: 89
13354719 ACCCTAAACT
*
13354729 AAACACTAACAATTTATAAAATAATCATAAATTATTAACAAAATAACTAT-AA-CATTTTAAAAA
1 AAACACTAACAATTTATAAAATAATCATAAATTACTAACAAAATAACTATAAATCATTTTAAAAA
* *
13354792 AAATTACATTACTGATAAATCACA
66 AAATTACATTACTAAAAAATCACA
* ** * **
13354816 AAACACTAATAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTTTTAA
1 AAACACTAACAATTTATAAAATAATCATAAATTACTAACAAAATAACTAT-AAATCATTTTAAAA
*
13354881 AAATTTACATTACTAAAAAATCACA
65 AAAATTACATTACTAAAAAATCACA
13354906 AAACAC
1 AAACAC
13354912 AAAACACGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
87 46 0.55
89 2 0.02
90 35 0.42
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.31
Consensus pattern (89 bp):
AAACACTAACAATTTATAAAATAATCATAAATTACTAACAAAATAACTATAAATCATTTTAAAAA
AAATTACATTACTAAAAAATCACA
Found at i:13355054 original size:92 final size:95
Alignment explanation
Indices: 13354881--13355059 Score: 256
Period size: 92 Copynumber: 1.9 Consensus size: 95
13354871 TATTTTTTAA
* * * *
13354881 AAATTTACATTACTAAAAAATCACAAAACACAAAACACGAAACATTAACAATTTATAACCTAATC
1 AAATTTACATTAATAAAAAATCACAAAACACAAAACACGAAACATCAACAATTTAGAACATAATC
13354946 ATAAATTACTAACAAAATAATTAACAAAAT
66 ATAAATTACTAACAAAATAATTAACAAAAT
* * *
13354976 AAATTTACATTAATAAAAAATCACAAAATAC-TAA-ACTAAACA-CAACAATTTAGAACATAATC
1 AAATTTACATTAATAAAAAATCACAAAACACAAAACACGAAACATCAACAATTTAGAACATAATC
* *
13355038 CTAAATTACTACCAAAATAATT
66 ATAAATTACTAACAAAATAATT
13355060 TTAAACTAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
92 37 0.49
93 7 0.09
94 2 0.03
95 29 0.39
ACGTcount: A:0.57, C:0.17, G:0.01, T:0.25
Consensus pattern (95 bp):
AAATTTACATTAATAAAAAATCACAAAACACAAAACACGAAACATCAACAATTTAGAACATAATC
ATAAATTACTAACAAAATAATTAACAAAAT
Found at i:13355585 original size:21 final size:20
Alignment explanation
Indices: 13355563--13355599 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
13355553 CCCAGTATAT
13355563 ATATATTTTT-TAAAAAATA
1 ATATATTTTTATAAAAAATA
13355582 ATATATTTTTATAAAAAA
1 ATATATTTTTATAAAAAA
13355600 ATTATTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATATTTTTATAAAAAATA
Found at i:13365835 original size:51 final size:51
Alignment explanation
Indices: 13365759--13365864 Score: 194
Period size: 51 Copynumber: 2.1 Consensus size: 51
13365749 TCAGAAGCTA
* *
13365759 GCACAATAAAGGGAGTATGCAGGAAAAGGGTGCATGTGTGAAAATAGTAGT
1 GCACAATAAAGAGAGTATGCAGGAAAAGGGTACATGTGTGAAAATAGTAGT
13365810 GCACAATAAAGAGAGTATGCAGGAAAAGGGTACATGTGTGAAAATAGTAGT
1 GCACAATAAAGAGAGTATGCAGGAAAAGGGTACATGTGTGAAAATAGTAGT
13365861 GCAC
1 GCAC
13365865 GTTGTATGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (51 bp):
GCACAATAAAGAGAGTATGCAGGAAAAGGGTACATGTGTGAAAATAGTAGT
Found at i:13374529 original size:14 final size:15
Alignment explanation
Indices: 13374495--13374532 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
13374485 GGTTTTTGTA
13374495 ATAATAAAATAAAAG
1 ATAATAAAATAAAAG
* *
13374510 ATAATAACATAAAGG
1 ATAATAAAATAAAAG
13374525 A-AATAAAA
1 ATAATAAAA
13374533 GTTCAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.18
Consensus pattern (15 bp):
ATAATAAAATAAAAG
Found at i:13376003 original size:38 final size:38
Alignment explanation
Indices: 13375923--13376003 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
13375913 TCAGGTGCGG
* * *
13375923 CGACAATTCTAAACGCAATTTGGAATTAACCCATGCAG
1 CGACAATTCTAAACACAATCTGGAATTAACCCATGCAA
** **
13375961 CGACAATTCTGGACACAATCTGGAATTAACTTATGCAA
1 CGACAATTCTAAACACAATCTGGAATTAACCCATGCAA
13375999 CGACA
1 CGACA
13376004 TTAATATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.23
Consensus pattern (38 bp):
CGACAATTCTAAACACAATCTGGAATTAACCCATGCAA
Found at i:13379038 original size:23 final size:22
Alignment explanation
Indices: 13378995--13379038 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
13378985 GTCTAAGTCG
13378995 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
13379018 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
13379039 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:13379240 original size:51 final size:51
Alignment explanation
Indices: 13379179--13379318 Score: 183
Period size: 51 Copynumber: 2.7 Consensus size: 51
13379169 TGTTCGGTTG
* *
13379179 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCTGATAT
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATAT
* * * * * *
13379230 ACGTAGTAGCCTACACATAGTACTACACAAGTGATCGA-AACTATCCGGTAT
1 ACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATAACCATCCGATAT
*
13379281 GCATAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 ACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
13379319 CACTTTCACT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
50 2 0.03
51 70 0.95
52 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (51 bp):
ACATAGTAGCCTGCACATAGTACTACACATGTGACCATAACCATCCGATAT
Found at i:13380612 original size:21 final size:21
Alignment explanation
Indices: 13380586--13380631 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13380576 TTCTCATTTT
*
13380586 CAACAACCTCCTCTTCTTCAA
1 CAACAACCTCCTCTTCTGCAA
* *
13380607 CAACAACTTTCTCTTCTGCAA
1 CAACAACCTCCTCTTCTGCAA
13380628 CAAC
1 CAAC
13380632 TTCTGTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (21 bp):
CAACAACCTCCTCTTCTGCAA
Found at i:13394961 original size:13 final size:13
Alignment explanation
Indices: 13394943--13394978 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
13394933 GACTAAATGA
13394943 ATCCACATAGTTT
1 ATCCACATAGTTT
13394956 ATCCACATAGTTT
1 ATCCACATAGTTT
13394969 ATCCACATAG
1 ATCCACATAG
13394979 CCGTGTGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (13 bp):
ATCCACATAGTTT
Found at i:13395399 original size:16 final size:15
Alignment explanation
Indices: 13395378--13395407 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13395368 TTTATTTTTA
13395378 TTTTTATTGTTATTTG
1 TTTTTATT-TTATTTG
13395394 TTTTTATTTTATTT
1 TTTTTATTTTATTT
13395408 TCCAAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTATTTG
Found at i:13395440 original size:22 final size:22
Alignment explanation
Indices: 13395373--13395458 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 22
13395363 CTATCTTTAT
13395373 TTTTATTTTTATTGTTATT-TGT-
1 TTTTA-TTTTATT-TTATTATGTA
13395395 TTTTATTTTATTTTCCAAACTTATGTA
1 TTTTATTTTATTTT----A-TTATGTA
*
13395422 TTTTATTTTATTTTATTATGCA
1 TTTTATTTTATTTTATTATGTA
*
13395444 CTTTATTATTATTTT
1 TTTTATT-TTATTTT
13395459 TTCGAATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.04
21 7 0.13
22 17 0.31
23 8 0.15
24 1 0.02
25 2 0.04
26 3 0.06
27 14 0.26
ACGTcount: A:0.21, C:0.06, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTATTTTATTTTATTATGTA
Found at i:13397700 original size:49 final size:49
Alignment explanation
Indices: 13397639--13397747 Score: 166
Period size: 49 Copynumber: 2.2 Consensus size: 49
13397629 GGGCTGAATG
* * *
13397639 ATTCCACGTGGCCATACCACACGGTCATGTGATCC-ACATAGGTTGAACT
1 ATTCCACATGGCCATACCACACGGTCATGTGA-CCAACACAGGTTGAACC
*
13397688 ATTCCACATGGCCATACCACACGGTCGTGTGACCAACACAGGTTGAACC
1 ATTCCACATGGCCATACCACACGGTCATGTGACCAACACAGGTTGAACC
13397737 ATTCCACATGG
1 ATTCCACATGG
13397748 TCGTTGACCT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 2 0.04
49 53 0.96
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (49 bp):
ATTCCACATGGCCATACCACACGGTCATGTGACCAACACAGGTTGAACC
Found at i:13401040 original size:13 final size:14
Alignment explanation
Indices: 13401019--13401060 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
13401009 TTTCAAAATG
*
13401019 GAAATAATAAA-AA
1 GAAAAAATAAATAA
13401032 GAAAAAATAAATAA
1 GAAAAAATAAATAA
*
13401046 -ATAAAATAAATAA
1 GAAAAAATAAATAA
13401059 GA
1 GA
13401061 CCTTAACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 22 0.88
14 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (14 bp):
GAAAAAATAAATAA
Found at i:13402158 original size:147 final size:146
Alignment explanation
Indices: 13401858--13402391 Score: 698
Period size: 147 Copynumber: 3.6 Consensus size: 146
13401848 AAAATTATTC
* * * *
13401858 TAAAATTTTAAAATTTCATTTAAAATGATTTAAAAAACATATTTTTATTTTTCAAAATCTAAAAT
1 TAAAATTTTAAAATTTCCTTTAAAATGACTAAAAAAACATATTTTTATTTTTCAAAATCTAAACT
** *
13401923 TTCTCTCTTTTTTTTTAAAAAACACTGTTTTTCTTAAAGATTAAAGCTTTTATTTTGAAGTAGTT
66 TTCTC-C---TTTTAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTATTTT--A-TAGTT
*
13401988 TGAAAAAAATCAAAACTTTGTTT
124 TGAAAAAAATAAAAACTTTGTTT
* * *
13402011 TAAACA-TTTAAACTTTCCTTTAAAATGACTTAAAAAAACAAATTTATATTTTTCAAAATCTAAA
1 TAAA-ATTTTAAAATTTCCTTTAAAATGAC-TAAAAAAACATATTTTTATTTTTCAAAATCTAAA
*
13402075 CTTTCTCCTTTTAAAAAAAACACTATTTTTCTTAAAGATTAAAGTTTTTATTTTATAGTTTGAAA
64 CTTTCTCCTTTTAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTATTTTATAGTTTGAAA
13402140 AAAATAAAAACTTTGTTT
129 AAAATAAAAACTTTGTTT
13402158 TAAAATTTTAAAATTTCCTTTAAAATGACTAACAAAAACATATTTTTATTTTTCAAAATCTAAAC
1 TAAAATTTTAAAATTTCCTTTAAAATGACTAA-AAAAACATATTTTTATTTTTCAAAATCTAAAC
* * *
13402223 TTTCTCCTTTTAAAAAAAACCACAATTTTTCTTAAAGATTAAAACTTTTACTTTAAAATAG-TTG
65 TTTCTCCTTTTAAAAAAAA-CACTATTTTTCTTAAAGATTAAAGCTTTTA-TTT--TATAGTTTG
*
13402287 AAAAAAAATCAAAAA-TTTATTT
126 -AAAAAAAT-AAAAACTTTGTTT
* * * *
13402309 TAAAATTTTAAATTTTCCTTTAAAATAACTAAAAAAACATATTTTTACTTGTT-AAAATCTAAAT
1 TAAAATTTTAAAATTTCCTTTAAAATGACTAAAAAAACATATTTTTA-TTTTTCAAAATCTAAAC
*
13402373 TTTCTCGTTTTAAAAAAAA
65 TTTCTCCTTTTAAAAAAAA
13402392 ATTCCCAAAA
Statistics
Matches: 345, Mismatches: 25, Indels: 25
0.87 0.06 0.06
Matches are distributed among these distances:
146 4 0.01
147 102 0.30
148 28 0.08
149 3 0.01
150 88 0.26
151 52 0.15
152 5 0.01
153 25 0.07
154 38 0.11
ACGTcount: A:0.43, C:0.10, G:0.04, T:0.43
Consensus pattern (146 bp):
TAAAATTTTAAAATTTCCTTTAAAATGACTAAAAAAACATATTTTTATTTTTCAAAATCTAAACT
TTCTCCTTTTAAAAAAAACACTATTTTTCTTAAAGATTAAAGCTTTTATTTTATAGTTTGAAAAA
AATAAAAACTTTGTTT
Found at i:13402728 original size:3 final size:3
Alignment explanation
Indices: 13402720--13402759 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
13402710 GTAAAAAATG
* *
13402720 ATA ATA ATA ATA ATA ATA ATA ATA TTTA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
13402760 GTAGTAGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:13406446 original size:20 final size:20
Alignment explanation
Indices: 13406423--13406463 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13406413 TGAAAAACAC
13406423 ATATAAAAATGAAAAATAAA
1 ATATAAAAATGAAAAATAAA
** *
13406443 ATATGCAAATGAAAAGTAAA
1 ATATAAAAATGAAAAATAAA
13406463 A
1 A
13406464 ACAAAAGCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (20 bp):
ATATAAAAATGAAAAATAAA
Found at i:13414351 original size:8 final size:8
Alignment explanation
Indices: 13414338--13414370 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
13414328 TTTTAAATAA
13414338 TATTTTAT
1 TATTTTAT
13414346 TATTTTAT
1 TATTTTAT
13414354 TATTTTAT
1 TATTTTAT
13414362 TATTTTAT
1 TATTTTAT
13414370 T
1 T
13414371 GTTTAGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:13422296 original size:13 final size:13
Alignment explanation
Indices: 13422278--13422303 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13422268 AATTTTAAAA
13422278 ATTTTAAAAATTT
1 ATTTTAAAAATTT
13422291 ATTTTAAAAATTT
1 ATTTTAAAAATTT
13422304 TTAAAACACT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTAAAAATTT
Found at i:13422649 original size:21 final size:21
Alignment explanation
Indices: 13422624--13422667 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13422614 TTTCATAAAT
*
13422624 AATTCAA-GAATTTATAAAAAA
1 AATTCAACAAATTT-TAAAAAA
13422645 AATTCAACAAATTTTAAAAAA
1 AATTCAACAAATTTTAAAAAA
13422666 AA
1 AA
13422668 CTCATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
AATTCAACAAATTTTAAAAAA
Found at i:13422682 original size:23 final size:22
Alignment explanation
Indices: 13422632--13422686 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
13422622 ATAATTCAAG
* *
13422632 AATTTATAAAAAAAATTCAACA
1 AATTTTTAAAAAAAACTCAACA
13422654 AA-TTTTAAAAAAAACTCATA-A
1 AATTTTTAAAAAAAACTCA-ACA
13422675 TAATTTTTAAAA
1 -AATTTTTAAAA
13422687 TATAATCCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 15 0.54
22 5 0.18
23 8 0.29
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTTTTAAAAAAAACTCAACA
Found at i:13424182 original size:15 final size:15
Alignment explanation
Indices: 13424147--13424194 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
13424137 TTATGTTAAC
*
13424147 ATAATTAATTAAAAT
1 ATAAATAATTAAAAT
* *
13424162 AT-AATATTTCAAAT
1 ATAAATAATTAAAAT
13424176 ATAAATAATTAAAAT
1 ATAAATAATTAAAAT
13424191 ATAA
1 ATAA
13424195 CCTCAGACAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAATAATTAAAAT
Found at i:13424541 original size:14 final size:14
Alignment explanation
Indices: 13424522--13424555 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
13424512 TATTGTAAAA
13424522 AAAATTTTGATTTT
1 AAAATTTTGATTTT
13424536 AAAATTTTGATTTT
1 AAAATTTTGATTTT
13424550 AAAATT
1 AAAATT
13424556 CAATGAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (14 bp):
AAAATTTTGATTTT
Found at i:13428337 original size:45 final size:45
Alignment explanation
Indices: 13428233--13428363 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
13428223 GCTATACACC
* * *
13428233 TAAAAATAAGTAAGACCATAGTTGAAAGATGCTATGGTATCACGA
1 TAAAAATGAGTAAGACTATAGTTGAAAGATGCTATGGCATCACGA
* * * * * *
13428278 TATAATTGAGTAAGACTATGGTTGAACGATGCTATGACATCATGA
1 TAAAAATGAGTAAGACTATAGTTGAAAGATGCTATGGCATCACGA
* *
13428323 TAAAAATGACTAAGA-TCATAGTTGAAAGACGCTATGGCATC
1 TAAAAATGAGTAAGACT-ATAGTTGAAAGATGCTATGGCATC
13428364 CTAGCAGCCC
Statistics
Matches: 69, Mismatches: 16, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
44 1 0.01
45 68 0.99
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (45 bp):
TAAAAATGAGTAAGACTATAGTTGAAAGATGCTATGGCATCACGA
Found at i:13428484 original size:27 final size:27
Alignment explanation
Indices: 13428454--13428543 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
13428444 CTGATGGGAA
*
13428454 ATTAAACATGAGATAGTCCGATAGGAC
1 ATTAAACATGAGATAGTCCGACAGGAC
* * * *
13428481 ATTAAACATGGGATAGTTCGACAAGAT
1 ATTAAACATGAGATAGTCCGACAGGAC
** *
13428508 ATTAAACACAAGATAGTCTGACAGGAC
1 ATTAAACATGAGATAGTCCGACAGGAC
*
13428535 ACTAAACAT
1 ATTAAACAT
13428544 AGAGCGGTCA
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (27 bp):
ATTAAACATGAGATAGTCCGACAGGAC
Found at i:13442989 original size:24 final size:23
Alignment explanation
Indices: 13442936--13442989 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
13442926 TCAAAGTATA
13442936 AAAAT-ATTATATTAAATGAAAT
1 AAAATAATTATATTAAATGAAAT
13442958 AAACATAATTATATTAATAAT-AAAT
1 AAA-ATAATTATATT-A-AATGAAAT
13442983 AAAATAA
1 AAAATAA
13442990 AAACCTCCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 3 0.11
23 2 0.07
24 12 0.43
25 8 0.29
26 3 0.11
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAATAATTATATTAAATGAAAT
Found at i:13460148 original size:24 final size:24
Alignment explanation
Indices: 13460121--13460170 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
13460111 TGAACCGTGT
*
13460121 CCTAGCAATCTACCTACACCTCCA
1 CCTAACAATCTACCTACACCTCCA
13460145 CCTAACAATCTACCTACACCTCCA
1 CCTAACAATCTACCTACACCTCCA
13460169 CC
1 CC
13460171 CATCACGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.48, G:0.02, T:0.20
Consensus pattern (24 bp):
CCTAACAATCTACCTACACCTCCA
Found at i:13465161 original size:51 final size:51
Alignment explanation
Indices: 13465106--13465208 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
13465096 AATTCCTTCC
*
13465106 CATAAATCATCAGAGCATGATTAGTTCCATGCTCAACTAATTTCCTTTTAG
1 CATAAATCAACAGAGCATGATTAGTTCCATGCTCAACTAATTTCCTTTTAG
* *
13465157 CATAAATCAACAGAGCATGATTAGTTCCATGCTCAATTAATTTCTTTTTAG
1 CATAAATCAACAGAGCATGATTAGTTCCATGCTCAACTAATTTCCTTTTAG
13465208 C
1 C
13465209 TTTAGCCTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (51 bp):
CATAAATCAACAGAGCATGATTAGTTCCATGCTCAACTAATTTCCTTTTAG
Found at i:13465841 original size:15 final size:14
Alignment explanation
Indices: 13465823--13465871 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
13465813 ATAATTTGTT
13465823 TTTATTTTATTTTAA
1 TTTATTTTATTTT-A
* *
13465838 TTTACTTTATATTTG
1 TTTATTTTAT-TTTA
*
13465853 TTTATTTTATTTTC
1 TTTATTTTATTTTA
13465867 TTTAT
1 TTTAT
13465872 CAACTAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 8 0.28
15 18 0.62
16 3 0.10
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:13471617 original size:41 final size:41
Alignment explanation
Indices: 13471488--13471617 Score: 129
Period size: 41 Copynumber: 3.1 Consensus size: 41
13471478 TCCGGTTGGC
* *
13471488 AAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGAT
1 AAGACTTGATGCGATCTACTCTACTGTAACTTCAGAGAGAT
** * * *
13471529 AAGATCAGTTTCTTCTG-TCTATTCCACTGTAA-TCTCAGAGAGAT
1 AAGA-C--TTGATGC-GATCTACTCTACTGTAACT-TCAGAGAGAT
*
13471573 AAGACTTGATGCGATCTACTCTACTATAACTTCAGAGAGAT
1 AAGACTTGATGCGATCTACTCTACTGTAACTTCAGAGAGAT
13471614 AAGA
1 AAGA
13471618 TCCTTTATTT
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
40 1 0.01
41 34 0.49
42 2 0.03
43 2 0.03
44 29 0.42
45 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (41 bp):
AAGACTTGATGCGATCTACTCTACTGTAACTTCAGAGAGAT
Found at i:13471640 original size:85 final size:85
Alignment explanation
Indices: 13471488--13471661 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
13471478 TCCGGTTGGC
* * * * * * *
13471488 AAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCAGTTTCTTCTGTCTATTC
1 AAGACTTGATGCGATCTACTCTACTACAACTTCAGAGAGATAAGATCACTTTATTCTATCCACTC
13471553 CACTGTAATCTC-AGAGAGAT
66 CACTGTAATCTCAAG-GAGAT
* * *
13471573 AAGACTTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATC-CTTTATTTTAATCCGCT
1 AAGACTTGATGCGATCTACTCTACTACAACTTCAGAGAGATAAGATCACTTTATTCT-ATCCACT
13471637 CCACTGTAATCTCAAGGAGAT
65 CCACTGTAATCTCAAGGAGAT
13471658 AAGA
1 AAGA
13471662 TTACTAGCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
84 6 0.08
85 69 0.90
86 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (85 bp):
AAGACTTGATGCGATCTACTCTACTACAACTTCAGAGAGATAAGATCACTTTATTCTATCCACTC
CACTGTAATCTCAAGGAGAT
Found at i:13471800 original size:44 final size:42
Alignment explanation
Indices: 13471728--13471934 Score: 159
Period size: 44 Copynumber: 4.8 Consensus size: 42
13471718 ATCTGATGCG
* * *
13471728 ATCTACTCTACTGTAA-CTTCAGTGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGAGAGATAAGAT--TTTATTTTA
* * * *
13471772 ATCTGCTCCACTGTAATCTCAGGGAGATAGGATTGCTAGTTTCA
1 ATCTGCTCCACTGTAATCTCAGAGAGATAAGATT-TTA-TTTTA
* * * * *
13471816 ATCTGTTCCGCTGTAATCTCAGAGAGATAAGATTTGA-TGTG
1 ATCTGCTCCACTGTAATCTCAGAGAGATAAGATTTTATTTTA
* * *
13471857 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCCTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGAGAGATAAGAT--TTTATTTTA
* * *
13471901 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATT
1 ATCTGCTCCACTGTAATCTCAGAGAGATAAGATT
13471935 ACTAGCTTCA
Statistics
Matches: 126, Mismatches: 29, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
40 1 0.01
41 28 0.22
42 1 0.01
43 5 0.04
44 89 0.71
45 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (42 bp):
ATCTGCTCCACTGTAATCTCAGAGAGATAAGATTTTATTTTA
Found at i:13471835 original size:142 final size:132
Alignment explanation
Indices: 13471555--13471950 Score: 543
Period size: 142 Copynumber: 3.0 Consensus size: 132
13471545 GTCTATTCCA
* *
13471555 CTGTAATCTCAGAGAGATAAGA-CT--TGATGCGATCTACTCTACTATAACTTCAGAGAGATAAG
1 CTGTAATCTCAGAGAGATAAGATTTGATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
* *
13471617 ATCCTTTATTTTAATCCGCTCCACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGCCC
66 ATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCCC
13471682 CG
131 CG
* *
13471684 TTGTAATCTCAGGGAGATAAGATTTCTGGCTTCGATCTGATGCGATCTACTCTACTGTAACTTCA
1 CTGTAATCTCAGAGAGATAAGA----T---TT-GA--TGATGCGATCTACTCTACTGTAACTTCA
* * * *
13471749 GTGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTCAGGGAGATAGGATTGCTAGTTT
56 GAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTT
**
13471814 CAATCTGTTCCG
121 CAATCTGCCCCG
13471826 CTGTAATCTCAGAGAGATAAGATTTGATG-T--GATCTACTCTACTGTAACTTCAGAGAGATAAG
1 CTGTAATCTCAGAGAGATAAGATTTGATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
*
13471888 ATCCCTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
66 ATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
13471951 TCCACCACTG
Statistics
Matches: 234, Mismatches: 20, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
129 109 0.47
131 1 0.00
132 2 0.01
134 2 0.01
135 2 0.01
137 1 0.00
138 1 0.00
142 116 0.50
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (132 bp):
CTGTAATCTCAGAGAGATAAGATTTGATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
ATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCCC
CG
Found at i:13484402 original size:13 final size:12
Alignment explanation
Indices: 13484372--13484405 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
13484362 AAACTGGACA
13484372 TTTA-TTTATTT
1 TTTATTTTATTT
13484383 TTTATTTTATTT
1 TTTATTTTATTT
13484395 TATTATTTTAT
1 T-TTATTTTAT
13484406 GTATGTTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 8 0.38
13 9 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:13497603 original size:23 final size:19
Alignment explanation
Indices: 13497554--13497590 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13497544 CCCTGTTTTA
*
13497554 CCCTCTGCCTCTTCTGTTC
1 CCCTTTGCCTCTTCTGTTC
13497573 CCCTTTGCCTCTTCTGTT
1 CCCTTTGCCTCTTCTGTT
13497591 TCGCCCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.43, G:0.11, T:0.46
Consensus pattern (19 bp):
CCCTTTGCCTCTTCTGTTC
Found at i:13497632 original size:15 final size:15
Alignment explanation
Indices: 13497612--13497673 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
13497602 GCTCCCTCCG
* *
13497612 TTTCTTTTCTTTTCT
1 TTTCTTTGCTTTGCT
13497627 TTTCTTTGCTTTGCT
1 TTTCTTTGCTTTGCT
13497642 TTCTCCTTTGCTTT-C-
1 TT-T-CTTTGCTTTGCT
*
13497657 TTCCTTTGCTTTGCT
1 TTTCTTTGCTTTGCT
13497672 TT
1 TT
13497674 CTCCAGTCGA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 9 0.22
14 1 0.03
15 19 0.47
16 2 0.05
17 9 0.22
ACGTcount: A:0.00, C:0.24, G:0.08, T:0.68
Consensus pattern (15 bp):
TTTCTTTGCTTTGCT
Found at i:13497652 original size:12 final size:13
Alignment explanation
Indices: 13497635--13497668 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
13497625 CTTTTCTTTG
13497635 CTTTGCTTTC-TC
1 CTTTGCTTTCTTC
13497647 CTTTGCTTTCTTC
1 CTTTGCTTTCTTC
13497660 CTTTGCTTT
1 CTTTGCTTT
13497669 GCTTTCTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.00, C:0.29, G:0.09, T:0.62
Consensus pattern (13 bp):
CTTTGCTTTCTTC
Found at i:13497693 original size:31 final size:30
Alignment explanation
Indices: 13497630--13497699 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
13497620 CTTTTCTTTT
* * *
13497630 CTTTGCTTTGCTTTCTCCTTTGCTTTCTTC
1 CTTTGCTTTGCTTTCTCCGTCGCTATCTTC
13497660 CTTTGCTTTGCTTTCTCCAGTCGAC-ATCTTC
1 CTTTGCTTTGCTTTCTCC-GTCG-CTATCTTC
13497691 CTTTGCTTT
1 CTTTGCTTT
13497700 CTCCAGTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 18 0.51
31 16 0.46
32 1 0.03
ACGTcount: A:0.04, C:0.30, G:0.11, T:0.54
Consensus pattern (30 bp):
CTTTGCTTTGCTTTCTCCGTCGCTATCTTC
Found at i:13499584 original size:15 final size:15
Alignment explanation
Indices: 13499549--13499600 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13499539 TTAAGAATTT
*
13499549 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13499563 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13499577 TATTTAATAATAAT-
1 TATTTAATTATAATA
13499591 TATGTTAATT
1 TAT-TTAATT
13499601 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13499699 original size:16 final size:16
Alignment explanation
Indices: 13499678--13499719 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13499668 TTATTAAATT
*
13499678 ATATATTTTAATTATA
1 ATATATTTTAATAATA
13499694 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
13499709 AT-TATGTTTAA
1 ATATAT-TTTAA
13499720 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:13499704 original size:15 final size:15
Alignment explanation
Indices: 13499669--13499710 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13499659 TTAAGAATTT
*
13499669 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13499683 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13499697 TATTTAATAATAAT
1 TATTTAATTATAAT
13499711 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13499957 original size:16 final size:16
Alignment explanation
Indices: 13499936--13499987 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
13499926 GATTTGCTAT
13499936 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
13499952 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
13499968 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13499984 TACA
1 TACA
13499988 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13503781 original size:16 final size:19
Alignment explanation
Indices: 13503760--13503796 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
13503750 GCTGGGCAGC
13503760 AAAAAAAGA-AGAA-AAGA
1 AAAAAAAGAGAGAAGAAGA
13503777 AAAAAAAGAGAGAAGAAGA
1 AAAAAAAGAGAGAAGAAGA
13503796 A
1 A
13503797 GAAATGGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 4 0.22
19 5 0.28
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAGAGAAGAAGA
Found at i:13506614 original size:22 final size:23
Alignment explanation
Indices: 13506560--13506614 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
13506550 TCAAAATTAC
13506560 TAAAAACATTAAAATAAATATTTT
1 TAAAAA-ATTAAAATAAATATTTT
*
13506584 TCAACAAATTGAAAAT-AAT-TTTT
1 T-AAAAAATT-AAAATAAATATTTT
13506607 TAAAAAAT
1 TAAAAAAT
13506615 ATGTATGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 6 0.22
23 5 0.19
24 7 0.26
25 9 0.33
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.36
Consensus pattern (23 bp):
TAAAAAATTAAAATAAATATTTT
Found at i:13507074 original size:23 final size:22
Alignment explanation
Indices: 13507032--13507076 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13507022 GTTTTAAAAG
13507032 TCGAATTTAATATCTAATTGTA
1 TCGAATTTAATATCTAATTGTA
*
13507054 TCGATTTTATATAT-TATATTGTA
1 TCGAATTTA-ATATCTA-ATTGTA
13507077 CAAAATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (22 bp):
TCGAATTTAATATCTAATTGTA
Found at i:13507956 original size:8 final size:8
Alignment explanation
Indices: 13507945--13507969 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13507935 CCACCTACCC
13507945 CCCACTTG
1 CCCACTTG
13507953 CCCACTTG
1 CCCACTTG
13507961 CCCACTTG
1 CCCACTTG
13507969 C
1 C
13507970 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:13520132 original size:44 final size:44
Alignment explanation
Indices: 13520065--13521236 Score: 529
Period size: 44 Copynumber: 26.8 Consensus size: 44
13520055 AAAAAATTTC
*
13520065 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* ** **
13520109 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * *
13520153 TA-ATCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA---A-
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* ** * * *
13520192 AGATCTTATCTCTCTGA-AGTTACAGTAAAGAAGA-TCACA-TCAG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCCAG
* * * ** *
13520235 -G-TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTCC--
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGA---TTGAA-GCCAG
*
13520279 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * *
13520323 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
** * * ** *** *
13520366 CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATCAAAATGAT
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCCAG
* ** * *
13520410 AGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAG-AATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---G
* *
13520456 AGATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * *
13520500 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * *** *
13520544 TA-ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCCAG
* ** * * * *
13520587 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCCAG
* * * * ** * *
13520631 -G-TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAG-AATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---G
*
13520675 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * *
13520719 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * *** *
13520763 TA-ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCCAG
* ** * * * *
13520806 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCCAG
* * * * ** * *
13520850 -G-TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAG-AATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---G
*
13520894 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * *
13520938 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * *** *
13520982 TA-ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCCAG
* ** * * * *
13521025 AGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCAG
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCCAG
* * * * ** * *
13521069 -G-TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAG-AATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---G
* * * **
13521113 AGATCTTATCTCCCTGAGGTTACAATGGGGCAGATTGAAGATAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * *
13521157 TA-ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
* * * *
13521201 TA-ATCCTATCTCCTTGAGATTACAATGGAGCGGATT
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
13521237 AAAAGATCTT
Statistics
Matches: 869, Mismatches: 193, Indels: 132
0.73 0.16 0.11
Matches are distributed among these distances:
38 3 0.00
39 23 0.03
40 2 0.00
41 111 0.13
42 11 0.01
43 53 0.06
44 489 0.56
45 14 0.02
46 159 0.18
47 4 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG
Found at i:13520466 original size:177 final size:178
Alignment explanation
Indices: 13520236--13520612 Score: 564
Period size: 177 Copynumber: 2.1 Consensus size: 178
13520226 TCACATCAGG
* * ** *
13520236 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTCCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTCCAGATCTTATCTCCCTGAGGTTA
13520301 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-CT
*
13520365 ACT-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATGATA-GA
130 ACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAAT-AAAGGA
* *
13520413 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCTTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTCCAGATCTTATCTCCCTGAGGTTA
* * *
13520478 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTA
* * *
13520543 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGA
131 CTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATAAAGGA
*
13520591 TCTTATCTCTCTGA-AGTTACAG
1 TCTTATCTCCCTGAGA-TTACAG
13520613 CAGAGTAGAT
Statistics
Matches: 181, Mismatches: 15, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
176 1 0.01
177 122 0.67
178 58 0.32
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (178 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTCCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGCTA
CTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATAAAGGA
Found at i:13520667 original size:219 final size:219
Alignment explanation
Indices: 13520413--13521334 Score: 1572
Period size: 219 Copynumber: 4.2 Consensus size: 219
13520403 AAATGATAGA
* * * ** *
13520413 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCTTGAGGTTA
1 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
13520478 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
13520543 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
13520608 TACAGCAGAGTAGATCGCATCAGG
196 TACAGCAGAGTAGATCGCATCAGG
13520632 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
13520697 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
13520762 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
13520827 TACAGCAGAGTAGATCGCATCAGG
196 TACAGCAGAGTAGATCGCATCAGG
13520851 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
13520916 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
13520981 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
13521046 TACAGCAGAGTAGATCGCATCAGG
196 TACAGCAGAGTAGATCGCATCAGG
13521070 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
* * ** *
13521135 CAATGGGGCAGATTGAAGATAGTA-ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT
66 CAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCT
*
13521199 AGTAATCCTATCTC-CTTG-AGATTACAATGGAGCGGATT---A-AAA-GATCTTATCTCTCTGA
130 AGTAATCCTATCTCTC-TGAAG-TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA
* * * *
13521257 AGTTACAGTAAAGAAGATCACATCAGG
193 AGTTACAGCAGAGTAGATCGCATCAGG
** * * *
13521284 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTCCAGATCTTA
1 TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTA
13521335 NNNNNNNNNN
Statistics
Matches: 679, Mismatches: 21, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
214 85 0.13
215 3 0.00
216 1 0.00
218 3 0.00
219 586 0.86
220 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (219 bp):
TCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGCAGAGTAGATCGCATCAGG
Found at i:13521153 original size:46 final size:47
Alignment explanation
Indices: 13521065--13521180 Score: 116
Period size: 46 Copynumber: 2.6 Consensus size: 47
13521055 GTAGATCGCA
* * * *
13521065 TCAGGTCTTATCACCCTGAGGTTAC-AGGGGAGTAGACCGAAGA-ATT
1 TCAGATCTTATCTCCCTGAGGTTACAAGGGGAGCAGACCGAAGATA-G
* **
13521111 TCAGATCTTATCTCCCTGAGGTTACAATGGG-GCAGATTGAAGATAG
1 TCAGATCTTATCTCCCTGAGGTTACAAGGGGAGCAGACCGAAGATAG
*
13521157 T-A-ATCTTATCTCCCTGAGATTACA
1 TCAGATCTTATCTCCCTGAGGTTACA
13521181 GCGGAGTAGA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 21 0.35
45 1 0.02
46 33 0.55
47 5 0.08
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (47 bp):
TCAGATCTTATCTCCCTGAGGTTACAAGGGGAGCAGACCGAAGATAG
Found at i:13530209 original size:25 final size:25
Alignment explanation
Indices: 13530176--13530287 Score: 120
Period size: 25 Copynumber: 4.5 Consensus size: 25
13530166 ACAAGCTATA
*
13530176 AACGGTAAGCTCCTCTGAGCTGAAT
1 AACGATAAGCTCCTCTGAGCTGAAT
13530201 AACGATAAGCTCCTCTGAGCTGAAT
1 AACGATAAGCTCCTCTGAGCTGAAT
*
13530226 AACGGTAAGCTCCTCT-ACGCTGAAT
1 AACGATAAGCTCCTCTGA-GCTGAAT
* * * * *
13530251 GATGATAAACTCATAC-GAGCTGAGT
1 AACGATAAGCTCCT-CTGAGCTGAAT
*
13530276 ATCGATAAGCTC
1 AACGATAAGCTC
13530288 ATAAGAGCTG
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.01
25 69 0.96
26 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (25 bp):
AACGATAAGCTCCTCTGAGCTGAAT
Found at i:13530288 original size:25 final size:24
Alignment explanation
Indices: 13530254--13530307 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
13530244 GCTGAATGAT
* *
13530254 GATAAACTCATACGAGCTGAGTATC
1 GATAAACTCATAAGAGCTG-GAATC
*
13530279 GATAAGCTCATAAGAGCTGGAATC
1 GATAAACTCATAAGAGCTGGAATC
13530303 GATAA
1 GATAA
13530308 CCCTAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (24 bp):
GATAAACTCATAAGAGCTGGAATC
Found at i:13530414 original size:11 final size:11
Alignment explanation
Indices: 13530398--13530422 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13530388 TCCTCGTTTC
13530398 ATTATAAGCTA
1 ATTATAAGCTA
13530409 ATTATAAGCTA
1 ATTATAAGCTA
13530420 ATT
1 ATT
13530423 GTATAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
ATTATAAGCTA
Found at i:13531221 original size:22 final size:23
Alignment explanation
Indices: 13531196--13531238 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
13531186 TTATCTTTAA
13531196 TTACCT-A-TTTACAAAATTACCC
1 TTACCTAACTTTA-AAAATTACCC
13531218 TTACCTAACTTTAAAAATTAC
1 TTACCTAACTTTAAAAATTAC
13531239 ACTAATGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (23 bp):
TTACCTAACTTTAAAAATTACCC
Found at i:13535372 original size:23 final size:22
Alignment explanation
Indices: 13535321--13535372 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
13535311 CCTCGTCTTT
*
13535321 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
13535343 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
13535366 TTCTTTT
1 TTCTTTT
13535373 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:13537014 original size:60 final size:60
Alignment explanation
Indices: 13536943--13537058 Score: 232
Period size: 60 Copynumber: 1.9 Consensus size: 60
13536933 TGATACCAAA
13536943 TGATACGGGGTTGCGCACGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTATTTC
1 TGATACGGGGTTGCGCACGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTATTTC
13537003 TGATACGGGGTTGCGCACGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTA
1 TGATACGGGGTTGCGCACGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTA
13537059 CGAAAACCCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (60 bp):
TGATACGGGGTTGCGCACGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTATTTC
Found at i:13539259 original size:23 final size:22
Alignment explanation
Indices: 13539207--13539259 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
13539197 TCCACGTCTT
*
13539207 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
13539229 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
13539252 TTTCTTTT
1 TTTCTTTT
13539260 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:13543577 original size:7 final size:7
Alignment explanation
Indices: 13543567--13543659 Score: 59
Period size: 7 Copynumber: 13.7 Consensus size: 7
13543557 CTAAATCTTG
13543567 AGGTTTA
1 AGGTTTA
*
13543574 AGGTTTG
1 AGGTTTA
* *
13543581 GGGTTTG
1 AGGTTTA
*
13543588 A-GTTTT
1 AGGTTTA
*
13543594 AGGTTTG
1 AGGTTTA
13543601 A-GTTTA
1 AGGTTTA
13543607 AGGTTT-
1 AGGTTTA
*
13543613 ATGTTTA
1 AGGTTTA
*
13543620 GGGTTTAA
1 AGGTTT-A
13543628 AGGTTTA
1 AGGTTTA
*
13543635 AGATTTA
1 AGGTTTA
*
13543642 AAGTTT-
1 AGGTTTA
*
13543648 GGGTTTA
1 AGGTTTA
13543655 AGGTT
1 AGGTT
13543660 CAAATGTTTG
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
6 19 0.29
7 40 0.62
8 6 0.09
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (7 bp):
AGGTTTA
Found at i:13543598 original size:13 final size:13
Alignment explanation
Indices: 13543582--13543625 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
13543572 TAAGGTTTGG
*
13543582 GGTTTGAGTTTTA
1 GGTTTGAGTTTAA
13543595 GGTTTGAGTTTAA
1 GGTTTGAGTTTAA
*
13543608 GGTTT-ATGTTTAG
1 GGTTTGA-GTTTAA
13543621 GGTTT
1 GGTTT
13543626 AAAGGTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 1 0.04
13 27 0.96
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (13 bp):
GGTTTGAGTTTAA
Found at i:13543612 original size:20 final size:21
Alignment explanation
Indices: 13543567--13543659 Score: 61
Period size: 20 Copynumber: 4.6 Consensus size: 21
13543557 CTAAATCTTG
* *
13543567 AGGTTTAAGGTTTGGGGTTTG
1 AGGTTTAAGGTTTGGAGTTTA
*
13543588 A-GTTTTAGGTTT-GAGTTTA
1 AGGTTTAAGGTTTGGAGTTTA
*
13543607 AGGTTT-ATGTTTAGG-GTTTAA
1 AGGTTTAAGGTTT-GGAGTTT-A
* **
13543628 AGGTTTAAGATTTAAAGTTT-
1 AGGTTTAAGGTTTGGAGTTTA
*
13543648 GGGTTTAAGGTT
1 AGGTTTAAGGTT
13543660 CAAATGTTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
19 11 0.20
20 28 0.50
21 9 0.16
22 8 0.14
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (21 bp):
AGGTTTAAGGTTTGGAGTTTA
Found at i:13543641 original size:28 final size:27
Alignment explanation
Indices: 13543602--13543659 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
13543592 TTAGGTTTGA
* *
13543602 GTTTAAGGTTT-ATGTTTAGGGTTTAAAG
1 GTTTAAGATTTAAAGTTT-GGGTTT-AAG
13543630 GTTTAAGATTTAAAGTTTGGGTTTAAG
1 GTTTAAGATTTAAAGTTTGGGTTTAAG
13543657 GTT
1 GTT
13543660 CAAATGTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 6 0.22
28 16 0.59
29 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (27 bp):
GTTTAAGATTTAAAGTTTGGGTTTAAG
Found at i:13543670 original size:21 final size:20
Alignment explanation
Indices: 13543629--13543671 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13543619 AGGGTTTAAA
*
13543629 GGTTTAAGATTTAAAGTTTG
1 GGTTTAAGATTCAAAGTTTG
*
13543649 GGTTTAAGGTTCAAATGTTTG
1 GGTTTAAGATTCAAA-GTTTG
13543670 GG
1 GG
13543672 GTAATGACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.42
Consensus pattern (20 bp):
GGTTTAAGATTCAAAGTTTG
Found at i:13543897 original size:21 final size:20
Alignment explanation
Indices: 13543814--13543898 Score: 55
Period size: 21 Copynumber: 4.0 Consensus size: 20
13543804 TTTGAGTTTG
* * *
13543814 GGGTTTGGGATTTTAGGTTTT
1 GGGTTTGAG-TTTTAGATTTA
*
13543835 GGGTTTGAGTTTCTAGAGTTA
1 GGGTTTGAGTTT-TAGATTTA
** *
13543856 AAGTTT-AGTGTTTAGTGTTTA
1 GGGTTTGAGT-TTTAG-ATTTA
13543877 GGGTTTGAGATTTTAGATTTA
1 GGGTTTGAG-TTTTAGATTTA
13543898 G
1 G
13543899 TTTTTTTGGT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
20 9 0.19
21 31 0.65
22 7 0.15
23 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (20 bp):
GGGTTTGAGTTTTAGATTTA
Found at i:13544012 original size:21 final size:21
Alignment explanation
Indices: 13543960--13544012 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
13543950 TTAGTTTTGG
* *
13543960 GGTTTATGGTTCTAGATTATT
1 GGTTTATGATTCTAGATTATA
13543981 GGTTTGA-GATTCTAGATT-TAA
1 GGTTT-ATGATTCTAGATTAT-A
13544002 GGTTTATGATT
1 GGTTTATGATT
13544013 TAAGGATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.25, T:0.49
Consensus pattern (21 bp):
GGTTTATGATTCTAGATTATA
Found at i:13544014 original size:14 final size:14
Alignment explanation
Indices: 13543995--13544033 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13543985 TGAGATTCTA
*
13543995 GATTTAAGGTTTAT
1 GATTTAAGGTTCAT
*
13544009 GATTTAAGGATCAT
1 GATTTAAGGTTCAT
*
13544023 GATTTAGGGTT
1 GATTTAAGGTT
13544034 ATGGGTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.44
Consensus pattern (14 bp):
GATTTAAGGTTCAT
Found at i:13544098 original size:20 final size:20
Alignment explanation
Indices: 13544062--13544118 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
13544052 AGTTATTAAT
13544062 TTTAGGTTTAATGTTT-AGGG
1 TTTAGG-TTAATGTTTAAGGG
*
13544082 TTTAGGTTCATGATTTAAGGG
1 TTTAGGTTAATG-TTTAAGGG
*
13544103 TTAAGGTTATATGTTT
1 TTTAGGTTA-ATGTTT
13544119 GAGTTTAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 5 0.16
20 9 0.29
21 14 0.45
22 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (20 bp):
TTTAGGTTAATGTTTAAGGG
Found at i:13544709 original size:14 final size:14
Alignment explanation
Indices: 13544692--13544793 Score: 68
Period size: 14 Copynumber: 7.4 Consensus size: 14
13544682 TTCATACCTC
*
13544692 AACCCTAAATCATA
1 AACCCTAAACCATA
*
13544706 AACCC-AAACCCTA
1 AACCCTAAACCATA
* *
13544719 AATCATAAAACCA-A
1 AACCCT-AAACCATA
* *
13544733 AACCCTAAAACACA
1 AACCCTAAACCATA
* *
13544747 AACCATTAAACCCTA
1 AACC-CTAAACCATA
*
13544762 AA-CCTAAACAATA
1 AACCCTAAACCATA
13544775 AACCCTAAACTCA-A
1 AACCCTAAAC-CATA
13544789 AACCC
1 AACCC
13544794 AGAATCAAAC
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
13 23 0.35
14 29 0.44
15 14 0.21
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.14
Consensus pattern (14 bp):
AACCCTAAACCATA
Found at i:13544735 original size:21 final size:20
Alignment explanation
Indices: 13544692--13544792 Score: 98
Period size: 20 Copynumber: 4.9 Consensus size: 20
13544682 TTCATACCTC
*
13544692 AACCCTAAATCATAAACCCA
1 AACCCTAAATCATAAACCAA
13544712 AACCCTAAATCATAAAACCAA
1 AACCCTAAATCAT-AAACCAA
* *
13544733 AACCCTAAAACACAAACCATTA
1 AACCCTAAATCATAAACCA--A
* *
13544755 AACCCTAAA-CCTAAACAATA
1 AACCCTAAATCATAAACCA-A
13544775 AACCCTAAACTCA-AAACC
1 AACCCTAAA-TCATAAACC
13544793 CAGAATCAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
20 30 0.44
21 27 0.40
22 11 0.16
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.14
Consensus pattern (20 bp):
AACCCTAAATCATAAACCAA
Found at i:13544765 original size:7 final size:7
Alignment explanation
Indices: 13544692--13544784 Score: 57
Period size: 7 Copynumber: 13.4 Consensus size: 7
13544682 TTCATACCTC
13544692 AACCCTA
1 AACCCTA
* *
13544699 AATCATA
1 AACCCTA
13544706 AACCC-A
1 AACCCTA
13544712 AACCCTA
1 AACCCTA
* *
13544719 AATCATA
1 AACCCTA
* *
13544726 AAACCAA
1 AACCCTA
13544733 AACCCTAA
1 AACCCT-A
*
13544741 AACAC-A
1 AACCCTA
*
13544747 AACCATTA
1 AACC-CTA
13544755 AACCCTA
1 AACCCTA
13544762 AA-CCTA
1 AACCCTA
**
13544768 AACAATA
1 AACCCTA
13544775 AACCCTA
1 AACCCTA
13544782 AAC
1 AAC
13544785 TCAAAACCCA
Statistics
Matches: 62, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
6 16 0.26
7 36 0.58
8 10 0.16
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (7 bp):
AACCCTA
Found at i:13544851 original size:21 final size:20
Alignment explanation
Indices: 13544827--13544867 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13544817 TCCCACACCC
13544827 TAAACTTTAAGGTTCAGGGTT
1 TAAACTTT-AGGTTCAGGGTT
* *
13544848 TAAAGTTTATGTTCAGGGTT
1 TAAACTTTAGGTTCAGGGTT
13544868 CGAGTTCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.41
Consensus pattern (20 bp):
TAAACTTTAGGTTCAGGGTT
Found at i:13548346 original size:5 final size:5
Alignment explanation
Indices: 13548331--13548371 Score: 73
Period size: 5 Copynumber: 8.0 Consensus size: 5
13548321 ATTATTTTAA
13548331 AATTAT AATTT AATTT AATTT AATTT AATTT AATTT AATTT
1 AATT-T AATTT AATTT AATTT AATTT AATTT AATTT AATTT
13548372 TTCTTTTCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
AATTT
Found at i:13549759 original size:29 final size:30
Alignment explanation
Indices: 13549714--13549806 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
13549704 TTTTATTATG
*
13549714 CCAATATCTCGATACCCATATC-TTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
13549744 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
13549774 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13549804 CCA
1 CCA
13549807 TAAATATAGA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
29 13 0.22
30 47 0.78
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:13549768 original size:15 final size:15
Alignment explanation
Indices: 13549724--13549800 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
13549714 CCAATATCTC
13549724 GATACCCATATC-TT
1 GATACCCATATCTTT
** *
13549738 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13549753 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13549768 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13549783 GATACCCATATCTTT
1 GATACCCATATCTTT
13549798 GAT
1 GAT
13549801 TTTCCATAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
14 12 0.26
15 30 0.65
16 4 0.09
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:13550981 original size:43 final size:43
Alignment explanation
Indices: 13550935--13551199 Score: 354
Period size: 43 Copynumber: 6.1 Consensus size: 43
13550925 AAAAAATGCT
* * *
13550935 GCTAAAGATCATGGCCTTTAGTGGCGCTTTTATCACAAACGCT
1 GCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAACGCC
* * *
13550978 GCTAAAGATCATGACCTTTAACAGCGCTTCTATCACAAACGCC
1 GCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAACGCC
* * *
13551021 GCTAAAAATCATGACCTTTAACGGCGCTTCTATCACAAACGCC
1 GCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAACGCC
* *
13551064 GCTAAAGATCATGACCTTTAGCAGG-GTTTTTTGTCACAAACGCC
1 GCTAAAGATCATGACCTTTAGC-GGCG-CTTTTATCACAAACGCC
* * *
13551108 GCTAAA-AGTCATGCCCTTTAGCGACGCTTTTGTCACAAACGCC
1 GCTAAAGA-TCATGACCTTTAGCGGCGCTTTTATCACAAACGCC
*
13551151 GCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACGCC
1 GCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAACGCC
13551194 GCTAAA
1 GCTAAA
13551200 AAACAAATCT
Statistics
Matches: 197, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
43 160 0.81
44 37 0.19
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
GCTAAAGATCATGACCTTTAGCGGCGCTTTTATCACAAACGCC
Found at i:13551144 original size:130 final size:129
Alignment explanation
Indices: 13550935--13551199 Score: 358
Period size: 130 Copynumber: 2.0 Consensus size: 129
13550925 AAAAAATGCT
* * *
13550935 GCTAAAGATCATGGCCTTTAGTGGCGCTTTTATCACAAACGCTGCTAAAGATCATGACCTTTAAC
1 GCTAAAGATCATGACCTTTAGAGGCGCTTTTATCACAAACGCCGCTAAAGATCATGACCTTTAAC
13551000 AGCGCTTCTATCACAAACGCCGCTAAA-AATCATGACCTTTAACGGCGCTTCTATCACAAACGCC
66 AGCGCTTCTATCACAAACGCCGCTAAAGAA-CATGACCTTTAACGGCGCTTCTATCACAAACGCC
* * *
13551064 GCTAAAGATCATGACCTTTAGCAGG-GTTTTTTGTCACAAACGCCGCTAAA-AGTCATGCCCTTT
1 GCTAAAGATCATGACCTTTAG-AGGCG-CTTTTATCACAAACGCCGCTAAAGA-TCATGACCTTT
* * * * *
13551127 AGC-GACGCTTTTGTCACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
63 AACAG-CGCTTCTATCACAAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTCTATCACAAAC
13551191 GCC
127 GCC
13551194 GCTAAA
1 GCTAAA
13551200 AAACAAATCT
Statistics
Matches: 120, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
129 23 0.19
130 95 0.79
131 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (129 bp):
GCTAAAGATCATGACCTTTAGAGGCGCTTTTATCACAAACGCCGCTAAAGATCATGACCTTTAAC
AGCGCTTCTATCACAAACGCCGCTAAAGAACATGACCTTTAACGGCGCTTCTATCACAAACGCC
Found at i:13555663 original size:14 final size:14
Alignment explanation
Indices: 13555641--13555693 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
13555631 TTAAAATAGT
*
13555641 AACTCCTAAACCTTA
1 AACT-CTAAACCATA
13555656 AACTCTAAACCATA
1 AACTCTAAACCATA
* * *
13555670 TACCCTAAACCAAA
1 AACTCTAAACCATA
*
13555684 AACCCTAAAC
1 AACTCTAAAC
13555694 TATAGTGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 29 0.88
15 4 0.12
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (14 bp):
AACTCTAAACCATA
Found at i:13556185 original size:41 final size:41
Alignment explanation
Indices: 13555870--13556174 Score: 335
Period size: 41 Copynumber: 7.4 Consensus size: 41
13555860 TAAATTATTT
*
13555870 TAAATCCCTGAGCATTAGCGGCGCTTT-TTAGAAAACGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCA-AAAACGCCGC
* * * * * *
13555911 TAAA-GCCTCGAGCATTAGCAGTGCTTTATCAAAAATGCCAC
1 TAAATCCCT-GAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * * * **
13555952 TAAAGCCCCGAGCATTAGCGACGCTTTCTTAAAAATGCTAC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
13555993 TAAATCCCTGAGAATTAGTGGCGCTTTCTCAAAAACGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * *
13556034 TAAATCCCTGAGCATTAGCGGCGGTTTCTAAAAAACACTGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
13556075 TAAAGCCCTGAGCATTAGCGGCACTTTCTCAAAAACGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * *
13556116 TAAAGCCTTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
*
13556157 TAAATCCATGAGCATTAG
1 TAAATCCCTGAGCATTAG
13556175 TAGTGCTTTC
Statistics
Matches: 220, Mismatches: 41, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
40 3 0.01
41 213 0.97
42 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (41 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:13556201 original size:123 final size:122
Alignment explanation
Indices: 13555870--13556208 Score: 385
Period size: 123 Copynumber: 2.8 Consensus size: 122
13555860 TAAATTATTT
* *
13555870 TAAATCCCTGAGCATTAGCGGCGCTTT-TTAGAAAACGCCGCTAAAGCCTCGAGCATTAGCAGTG
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTA-AAAACGCCGCTAAATCCT-GAGCATTAGCAGTG
* * * * * * * *
13555934 CTTTATCAAAAATGCCACTAAAGCCCCGAGCATTAGCGACGCTTTCTTAAAAATGCTAC
64 CTTTCTAAAAAATGACTCTAAAGCCCCGAGCATTAGCGACACTTTCTCAAAAACGCCAC
* * * * * * *
13555993 TAAATCCCTGAGAATTAGTGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGG
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAAT-CCTGAGCATTAGCAGTGC
* * * *
13556058 TTTCTAAAAAA-CACTGCTAAAGCCCTGAGCATTAGCGGCACTTTCTCAAAAACGCCGC
65 TTTCTAAAAAATGACT-CTAAAGCCCCGAGCATTAGCGACACTTTCTCAAAAACGCCAC
* * *
13556116 TAAAGCCTTGAGCATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCATGAGCATTAGTAGTGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCC-TGAGCATTAGCAGTGC
* *
13556181 TTTCTAAAAAATGTCTCTAAATCCCCGA
65 TTTCTAAAAAATGACTCTAAAGCCCCGA
13556209 AAGCTCAATC
Statistics
Matches: 178, Mismatches: 33, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
122 3 0.02
123 168 0.94
124 7 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (122 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCTGAGCATTAGCAGTGCT
TTCTAAAAAATGACTCTAAAGCCCCGAGCATTAGCGACACTTTCTCAAAAACGCCAC
Found at i:13559861 original size:192 final size:191
Alignment explanation
Indices: 13559532--13559915 Score: 687
Period size: 192 Copynumber: 2.0 Consensus size: 191
13559522 AGGATGAAAT
*
13559532 TATTTCTTAGAAAACTTAAGTCTCGATGGACTAGACCTTATATGATTCACTGAGTGTATCCATAT
1 TATTTCTTAGAAAACTTAAGTCTCGATGGACTAGACCTTACATGATTCACTGAGTGTATCCATAT
13559597 GGAGTAGTGGAATTGCATAATGGACAACGAAGAACTTTTAAGGTAAATGGTCAGCATCTTAAACA
66 GGAGTAGTGGAATTGCATAATGGACAACGAAGAACTTTTAAGGTAAATGGTCAGCATCTTAAACA
* *
13559662 TTATTGAAAAAAATGAAATGGAGCATAATGAGATTTCACTCATTTTATTGTATCCATGAGTG
131 CTATTG-AAAAAATGAAATGGAGCATAATGAGATTTCACTCATTTTATTGGATCCATGAGTG
**
13559724 TATTTCTTAGAAAACTTCTGTCTCGATGGACTAGACCTTACATGATTCACTGAGTGTATCCATAT
1 TATTTCTTAGAAAACTTAAGTCTCGATGGACTAGACCTTACATGATTCACTGAGTGTATCCATAT
* * *
13559789 GGAGTAGTTGAATTGCATAATGGACAATGAAGAACTTTTAAGGTAAATGGTCAGCGTCTTAAACA
66 GGAGTAGTGGAATTGCATAATGGACAACGAAGAACTTTTAAGGTAAATGGTCAGCATCTTAAACA
13559854 CTATTGAAAAAATGAAATGGAGCATAATGAGATTTCACTCATTTTATTGGATCCATGAGTG
131 CTATTGAAAAAATGAAATGGAGCATAATGAGATTTCACTCATTTTATTGGATCCATGAGTG
13559915 T
1 T
13559916 TACTTTAAAT
Statistics
Matches: 184, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
191 55 0.30
192 129 0.70
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (191 bp):
TATTTCTTAGAAAACTTAAGTCTCGATGGACTAGACCTTACATGATTCACTGAGTGTATCCATAT
GGAGTAGTGGAATTGCATAATGGACAACGAAGAACTTTTAAGGTAAATGGTCAGCATCTTAAACA
CTATTGAAAAAATGAAATGGAGCATAATGAGATTTCACTCATTTTATTGGATCCATGAGTG
Found at i:13579581 original size:29 final size:30
Alignment explanation
Indices: 13579519--13579575 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
13579509 ATTTTTTAAA
13579519 ATTTTTAAAATTCAAAAATATATAAAAATG
1 ATTTTTAAAATTCAAAAATATATAAAAATG
13579549 ATTTTTAAAAATT-AAAAATCAT-TAAAA
1 ATTTTT-AAAATTCAAAAAT-ATATAAAA
13579576 TTATTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (30 bp):
ATTTTTAAAATTCAAAAATATATAAAAATG
Found at i:13579583 original size:20 final size:19
Alignment explanation
Indices: 13579560--13579621 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
13579550 TTTTTAAAAA
13579560 TTAAAAATCATTAAAATTAT
1 TTAAAAAT-ATTAAAATTAT
*
13579580 TTAAAAAGTATAAAAATTA-
1 TTAAAAA-TATTAAAATTAT
*
13579599 -TAAAAATATTAATATT-T
1 TTAAAAATATTAAAATTAT
13579616 TTAAAA
1 TTAAAA
13579622 TTTTTAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 8 0.22
18 11 0.31
20 16 0.44
21 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TTAAAAATATTAAAATTAT
Found at i:13579602 original size:28 final size:27
Alignment explanation
Indices: 13579516--13579608 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 27
13579506 TTAATTTTTT
*
13579516 AAAAT-TTTTAAAATTCAAAAAT-ATATA
1 AAAATATTTAAAAATT-AAAAATCAT-TA
13579543 AAAATGATTTTTAAAAATTAAAAATCATTA
1 AAAAT-A--TTTAAAAATTAAAAATCATTA
* *
13579573 AAATTATTTAAAAAGTATAAAAATTA-TA
1 AAAATATTTAAAAA-T-TAAAAATCATTA
13579601 AAAATATT
1 AAAATATT
13579609 AATATTTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
27 13 0.24
28 10 0.18
29 9 0.16
30 12 0.22
31 11 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAATATTTAAAAATTAAAAATCATTA
Found at i:13579630 original size:36 final size:38
Alignment explanation
Indices: 13579549--13579634 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 38
13579539 TATAAAAATG
13579549 ATTTTTAAAAA-T-TAAAAATCATTAAAATTATTTAAA
1 ATTTTTAAAAATTATAAAAATCATTAAAATTATTTAAA
** * *
13579585 AAGTATAAAAATTATAAAAAT-ATTAATATT-TTTAAA
1 ATTTTTAAAAATTATAAAAATCATTAAAATTATTTAAA
13579621 ATTTTTAAAAATTA
1 ATTTTTAAAAATTA
13579635 ACTTAATGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
36 25 0.61
37 9 0.22
38 7 0.17
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (38 bp):
ATTTTTAAAAATTATAAAAATCATTAAAATTATTTAAA
Found at i:13583846 original size:23 final size:23
Alignment explanation
Indices: 13583812--13583862 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
13583802 GGTTCCTTAA
*
13583812 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
13583835 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
13583858 AGTAA
1 TGTAA
13583863 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:13585599 original size:21 final size:21
Alignment explanation
Indices: 13585549--13585600 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
13585539 GTTGCTAACT
* *
13585549 TGATTTTCCAGGTTTCTATTA
1 TGATTTTCTAGGTTTCCATTA
*
13585570 TCATTTTCTAGGTTTCCATTA
1 TGATTTTCTAGGTTTCCATTA
13585591 TGATTTTCTA
1 TGATTTTCTA
13585601 AGTTCTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (21 bp):
TGATTTTCTAGGTTTCCATTA
Found at i:13586337 original size:22 final size:22
Alignment explanation
Indices: 13586306--13586347 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13586296 TACACCAAAA
* *
13586306 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCACTTTTT
13586328 TAGGCCTTTAGCGGCACTTT
1 TAGGCCTTTAGCGGCACTTT
13586348 GAGAAGCGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.26, T:0.40
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCACTTTTT
Found at i:13586437 original size:43 final size:43
Alignment explanation
Indices: 13586411--13586739 Score: 376
Period size: 43 Copynumber: 7.6 Consensus size: 43
13586401 TTTTTAGAAA
13586411 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * ** *
13586454 AAACGCCGCTAAAGACCAATATCTTTAGCGGCGCTACTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * * * *
13586497 AAACGCCGCTAAAGACTAATATCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * *
13586540 AAACGCCGCTAAAGACCAAGACATTTAGCGGTGCTTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC-TTTTACCAC
* *
13586584 AAACGCCGCTAAAAACCATA-ACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTACCAC
* * * *
13586627 AAACGCTGCTAAAGTCCATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
* * * * *
13586670 AAACGTCGCTAAAGACCATGACCTTTAGCAGCGCTTCT-CACAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTAC-CAC
*
13586713 AAACGCCGCTAAAAACCATA-ACCTTTA
1 AAACGCCGCTAAAGACCA-AGACCTTTA
13586740 AAAATATATA
Statistics
Matches: 247, Mismatches: 34, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
43 209 0.85
44 37 0.15
45 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
Found at i:13586655 original size:173 final size:173
Alignment explanation
Indices: 13586411--13586730 Score: 448
Period size: 173 Copynumber: 1.8 Consensus size: 173
13586401 TTTTTAGAAA
* *
13586411 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAATAT
1 AAACGCCGCTAAAAACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAATAC
* * * * *
13586476 CTTTAGCGGCGCTACTCCCACAAACGCCGCTAAAGACTAAT-ATCTTTAGCGGCGCTTTTCCCAA
66 CTTTAGCGGCGCTACTACCACAAACGCCGCTAAAGAC-AATGACCTTTAGCAGCGCTTCTCACAA
*
13586540 AAACGCCGCTAAAGACCAAGACATTTAGCGGTGCTTTTTCCCAC
130 AAACGCCGCTAAAAACCAAGACATTTAGCGGTGCTTTTTCCCAC
* * *
13586584 AAACGCCGCTAAAAACCATA-ACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGTCC-ATG
1 AAACGCCGCTAAAAACCA-AGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAT-
** * * *
13586647 ACCTTTAGCGGCGCTTTTATCACAAACGTCGCTAAAGACCATGACCTTTAGCAGCGCTTCTCACA
64 ACCTTTAGCGGCGCTACTACCACAAACGCCGCTAAAGACAATGACCTTTAGCAGCGCTTCTCACA
13586712 AAAACGCCGCTAAAAACCA
129 AAAACGCCGCTAAAAACCA
13586731 TAACCTTTAA
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
172 4 0.03
173 123 0.96
174 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (173 bp):
AAACGCCGCTAAAAACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAATAC
CTTTAGCGGCGCTACTACCACAAACGCCGCTAAAGACAATGACCTTTAGCAGCGCTTCTCACAAA
AACGCCGCTAAAAACCAAGACATTTAGCGGTGCTTTTTCCCAC
Found at i:13590518 original size:22 final size:23
Alignment explanation
Indices: 13590464--13590522 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
13590454 GTATGTTTGT
* *
13590464 AAAGTTGGGGGTTTCAAGAGGGG
1 AAAGTTGGGGATTTTAAGAGGGG
* *
13590487 AAA-TTAGGGATTTTAGGA-GGG
1 AAAGTTGGGGATTTTAAGAGGGG
13590508 AAAGTTGGGGATTTT
1 AAAGTTGGGGATTTT
13590523 GGGGAGGGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 6 0.20
22 21 0.70
23 3 0.10
ACGTcount: A:0.29, C:0.02, G:0.41, T:0.29
Consensus pattern (23 bp):
AAAGTTGGGGATTTTAAGAGGGG
Found at i:13590850 original size:75 final size:76
Alignment explanation
Indices: 13590765--13590908 Score: 272
Period size: 76 Copynumber: 1.9 Consensus size: 76
13590755 AAAAATTATT
*
13590765 TATATAAAATGGCTA-TTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCT
1 TATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCT
13590829 AAAGTTTTTGC
66 AAAGTTTTTGC
13590840 TATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCT
1 TATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCT
13590905 AAAG
66 AAAG
13590909 GTTTGTAAGG
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 14 0.21
76 53 0.79
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (76 bp):
TATATAAAATGACTATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCT
AAAGTTTTTGC
Found at i:13591077 original size:46 final size:44
Alignment explanation
Indices: 13591016--13591101 Score: 118
Period size: 46 Copynumber: 1.9 Consensus size: 44
13591006 CTATTTTTTA
**
13591016 TAAAATAATTTTTGTGGTTTTTTTATAAAAACGCCGCTATAAAG
1 TAAAATAATTTTTGTGGCGTTTTTATAAAAACGCCGCTATAAAG
* *
13591060 TAAAATTAATTTTTTGTGGCGTTTTTATAAAAATGTCGCTAT
1 TAAAA-TAA-TTTTTGTGGCGTTTTTATAAAAACGCCGCTAT
13591102 TGCTTACCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 5 0.14
45 3 0.08
46 28 0.78
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (44 bp):
TAAAATAATTTTTGTGGCGTTTTTATAAAAACGCCGCTATAAAG
Found at i:13591352 original size:76 final size:76
Alignment explanation
Indices: 13591116--13591366 Score: 413
Period size: 76 Copynumber: 3.3 Consensus size: 76
13591106 TACCTTTGGC
13591116 GGCG-TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAA
1 GGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAA
13591180 TTATTTTTTGT
66 TTATTTTTTGT
*
13591191 GGCGTTTTTTTATAAAAACACCGCTAAATGTTTTG-TATATAAAATGGCTA-TTTTTAAAGTAAA
1 GGCG-TTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAA
13591254 ATTATTTTTTGT
65 ATTATTTTTTGT
*
13591266 GGCGTTTTTTATAAAAACGCCGCTAAA-GTTTTTGCTATATAAAATGACTATTTTTTAAAGTAAA
1 GGCGTTTTTTATAAAAACGCCGCTAAATG-TTTTGCTATATAAAATGGCTATTTTTTAAAGTAAA
13591330 ATTATTTTTTGT
65 ATTATTTTTTGT
*
13591342 GGCGTTTTTTACT-AAAACGCTGCTA
1 GGCGTTTTTTA-TAAAAACGCCGCTA
13591367 TTGCTTACCT
Statistics
Matches: 166, Mismatches: 4, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
73 1 0.01
74 27 0.16
75 47 0.28
76 62 0.37
77 29 0.17
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (76 bp):
GGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAA
TTATTTTTTGT
Found at i:13591447 original size:191 final size:192
Alignment explanation
Indices: 13591185--13591787 Score: 578
Period size: 229 Copynumber: 2.9 Consensus size: 192
13591175 TAAAATTATT
*
13591185 TTTTGTGGCGTTTTTTTATAAAAACACCGCTAAATGTTTTG-TATATAAAATGGCTATTTTTAAA
1 TTTTGCGGCG-TTTTTTATAAAAACACCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTAAA
13591249 GTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAAGTTTTTGCTATATAAAATGAC
65 GTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAAGTTTTTGCTATATAAAATGAC
*
13591314 TATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTACT-AAAACGCTGCTATTGCTTACC-
130 TATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTA-TAAAAACGCCGCTATTGCTTACCA
* *
13591376 TTTTGCGGCGTTTTTTATAAAAACTCTGCTAAATGTTTTGCTATATAAAATGGCTATTTTTAAAG
1 TTTTGCGGCGTTTTTTATAAAAACACCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTAAAG
* * **
13591441 TAAAATTAATTTTTTGTGGCG-TTTTTATAAAAATGTCGCTATTGCTTACCTTTGGCGGCGTTTT
66 TAAAATT-ATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAAG-TT---TTT----GC-----
* *
13591505 TATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAAGTAAAATT-TTTTTT
117 TAT----A------TAAA----ATG--A-CT---A----T-TT-TTTAAAGTAAAATTATTTTTT
*
13591569 ATGGCG-TTTTTATAAAAACGCCGCTATTGCTTACCA
156 GTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACCA
*
13591605 TTTTGCGGCG-TTTTTATAAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAA
1 TTTTGCGGCGTTTTTTAT-AAAAACACCGCTAAATGTTTTGCTATATAAAATGGCTA-TTTTTAA
*
13591669 AGTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACACCGCTAAA-TGTTTTG-TATATAAAAT
64 AGTAAAATTATTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTAAAGT-TTTTGCTATATAAAAT
* *
13591732 GGCTA-TTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAACACCGCTA
127 GACTATTTTTTAAAGTAAAATTATTTTTTGTGGCG-TTTTTTATAAAAACGCCGCTA
13591788 AATGTTTTGT
Statistics
Matches: 338, Mismatches: 23, Indels: 100
0.73 0.05 0.22
Matches are distributed among these distances:
190 42 0.12
191 72 0.21
192 15 0.04
193 19 0.06
195 3 0.01
197 1 0.00
199 2 0.01
200 1 0.00
203 2 0.01
204 3 0.01
207 4 0.01
208 1 0.00
213 1 0.00
214 4 0.01
217 3 0.01
218 2 0.01
220 1 0.00
221 1 0.00
223 1 0.00
224 1 0.00
227 4 0.01
228 34 0.10
229 73 0.22
230 31 0.09
231 17 0.05
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (192 bp):
TTTTGCGGCGTTTTTTATAAAAACACCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTAAAG
TAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTAAAGTTTTTGCTATATAAAATGACT
ATTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACCA
Found at i:13591568 original size:114 final size:114
Alignment explanation
Indices: 13591260--13591705 Score: 688
Period size: 115 Copynumber: 3.9 Consensus size: 114
13591250 TAAAATTATT
* *
13591260 TTTTGTGGCGTTTTTTATAAAAACGCCGCTAAA-GTTTTTGCTATATAAAATGACTATTTTTTAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATG-TTTTGCTATATAAAATGGCTATTTTTTAA
13591324 AGTAAAATTATTTTTTGTGGCGTTTTT-TACTAAAACGCTGCTATTGCTTACC
65 AGTAAAATTATTTTTTGTGGCGTTTTTATA--AAAACGC-GCTATTGCTTACC
* *
13591376 TTTTGCGGCGTTTTTTATAAAAACTCTGCTAAATGTTTTGCTATATAAAATGGCTA-TTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAA
*
13591440 GTAAAATTAATTTTTTGTGGCGTTTTTATAAAAATGTCGCTATTGCTTACC
66 GTAAAATT-ATTTTTTGTGGCGTTTTTATAAAAACG-CGCTATTGCTTACC
*
13591491 TTTGGCGGCG-TTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAA
1 TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAA
*
13591555 GTAAAATT-TTTTTTATGGCGTTTTTATAAAAACGCCGCTATTGCTTACC
66 GTAAAATTATTTTTTGTGGCGTTTTTATAAAAACG-CGCTATTGCTTACC
13591604 ATTTTGCGGCG-TTTTTATAAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTA
1 -TTTTGCGGCGTTTTTTAT-AAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTA
13591668 AAGTAAAATTATTTTTTGTGGCGTTTTTTTATAAAAAC
64 AAGTAAAATTATTTTTTGTGGCG--TTTTTATAAAAAC
13591706 ACCGCTAAAT
Statistics
Matches: 307, Mismatches: 13, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
113 38 0.12
114 59 0.19
115 114 0.37
116 80 0.26
117 3 0.01
118 13 0.04
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (114 bp):
TTTTGCGGCGTTTTTTATAAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAAA
GTAAAATTATTTTTTGTGGCGTTTTTATAAAAACGCGCTATTGCTTACC
Found at i:13591770 original size:75 final size:75
Alignment explanation
Indices: 13591605--13591861 Score: 446
Period size: 75 Copynumber: 3.4 Consensus size: 75
13591595 TTGCTTACCA
* * *
13591605 TTTTGCGGCGTTTTTATA-AAAAACGCCGCTAAATGTTTTGCTATATAAAATGGCTATTTTTTAA
1 TTTTGTGGCGTTTTTTTATAAAAACACCGCTAAATGTTTTG-TATATAAAATGGCTA-TTTTTAA
13591669 AGTAAAATTATT
64 AGTAAAATTATT
13591681 TTTTGTGGCGTTTTTTTATAAAAACACCGCTAAATGTTTTGTATATAAAATGGCTATTTTTAAAG
1 TTTTGTGGCGTTTTTTTATAAAAACACCGCTAAATGTTTTGTATATAAAATGGCTATTTTTAAAG
13591746 TAAAATTATT
66 TAAAATTATT
13591756 TTTTGTGGCGTTTTTTTATAAAAACACCGCTAAATGTTTTGTATATAAAATGGCTATTTTTAAAG
1 TTTTGTGGCGTTTTTTTATAAAAACACCGCTAAATGTTTTGTATATAAAATGGCTATTTTTAAAG
13591821 TAAAATTATT
66 TAAAATTATT
*
13591831 TTTTGTGGCG-TTTTTTATAAAAACGCCGCTA
1 TTTTGTGGCGTTTTTTTATAAAAACACCGCTA
13591862 TTGCTTACCT
Statistics
Matches: 176, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
74 20 0.11
75 104 0.59
76 31 0.18
77 21 0.12
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (75 bp):
TTTTGTGGCGTTTTTTTATAAAAACACCGCTAAATGTTTTGTATATAAAATGGCTATTTTTAAAG
TAAAATTATT
Found at i:13592248 original size:19 final size:19
Alignment explanation
Indices: 13592224--13592262 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13592214 CTAATCTCCA
13592224 TTTTATTAAAGATATTTCT
1 TTTTATTAAAGATATTTCT
*
13592243 TTTTATTAATGATATTTCT
1 TTTTATTAAAGATATTTCT
13592262 T
1 T
13592263 CCTAACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTATTAAAGATATTTCT
Found at i:13593026 original size:89 final size:89
Alignment explanation
Indices: 13592838--13593018 Score: 240
Period size: 89 Copynumber: 2.0 Consensus size: 89
13592828 CCCCAAATCA
* * *
13592838 CTAACCTCTAAACCTTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAATCATAAACCCT
1 CTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAAACCCT
* * *
13592903 AACCCGACCCTGAATCCCTAACCC
66 AACCCGACCCTAAATCCATAAACC
* * *
13592927 CTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAACCCTAAA-CCT
1 CTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAAACCCT
* *
13592991 AACCTGACACC-AAATCTATAAACC
66 AACCCGAC-CCTAAATCCATAAACC
13593015 CTAA
1 CTAA
13593019 ATCCCTAACT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
88 23 0.29
89 57 0.71
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.26
Consensus pattern (89 bp):
CTAACCCCTAAACATTATTTAATATAGAAATTAAAAAACACTAATTAATCTAAACCATAAACCCT
AACCCGACCCTAAATCCATAAACC
Found at i:13593055 original size:14 final size:14
Alignment explanation
Indices: 13593038--13593090 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
13593028 TCTTGACCTC
*
13593038 TAACCCTTAAACCT
1 TAACCCTTAAACCA
* *
13593052 TAACCCCTAACCCA
1 TAACCCTTAAACCA
* *
13593066 TAAACCTTAAATCA
1 TAACCCTTAAACCA
*
13593080 CAACCCTTAAA
1 TAACCCTTAAA
13593091 TCAGAATTCC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.23
Consensus pattern (14 bp):
TAACCCTTAAACCA
Found at i:13593199 original size:18 final size:20
Alignment explanation
Indices: 13593176--13593222 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
13593166 ATCCTAAATT
*
13593176 AACCAT-ATA-TATACCCTA
1 AACCATAATATTAAACCCTA
13593194 AACCATAATATTAAACCCTA
1 AACCATAATATTAAACCCTA
*
13593214 AACTATAAT
1 AACCATAAT
13593223 GATAATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.24
19 3 0.12
20 16 0.64
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (20 bp):
AACCATAATATTAAACCCTA
Found at i:13593562 original size:41 final size:41
Alignment explanation
Indices: 13593503--13593742 Score: 372
Period size: 41 Copynumber: 5.9 Consensus size: 41
13593493 AAATATTTTT
13593503 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * ** *
13593544 GTGGCGCTTCATGGAAAACGCCGCGAAAGATCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
13593585 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * ** *
13593626 GTGGCGCTTCATGGAAAACGCCGCGAAAGATCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
13593667 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
13593708 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGA
13593743 AAGGTAGAAA
Statistics
Matches: 175, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 175 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:13593640 original size:82 final size:82
Alignment explanation
Indices: 13593503--13593742 Score: 426
Period size: 82 Copynumber: 2.9 Consensus size: 82
13593493 AAATATTTTT
*
13593503 GCGGCGCTTCTTCAAAAACGCCGCTAAAGATCTGAGCATTAGTGGCGCTTCATGGAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGTGGCGCTTCATGGAAAACGCCGC
13593568 GAAAGATCTGAGCATTA
66 GAAAGATCTGAGCATTA
13593585 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGTGGCGCTTCATGGAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGTGGCGCTTCATGGAAAACGCCGC
13593650 GAAAGATCTGAGCATTA
66 GAAAGATCTGAGCATTA
* * **
13593667 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGTGGCGCTTCATGGAAAACGCCGC
*
13593732 TAAAGATCTGA
66 GAAAGATCTGA
13593743 AAGGTAGAAA
Statistics
Matches: 152, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 152 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (82 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTAGTGGCGCTTCATGGAAAACGCCGC
GAAAGATCTGAGCATTA
Found at i:13596394 original size:13 final size:14
Alignment explanation
Indices: 13596377--13596421 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
13596367 ATTGTTTTTA
13596377 AAAAGT-ATTTTGT
1 AAAAGTAATTTTGT
13596390 AAAAGTAATTTTG-
1 AAAAGTAATTTTGT
13596403 AGAAA-TAATTTTG-
1 A-AAAGTAATTTTGT
13596416 AAAAGT
1 AAAAGT
13596422 TTGGTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.10
13 17 0.59
14 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.38
Consensus pattern (14 bp):
AAAAGTAATTTTGT
Found at i:13598672 original size:28 final size:28
Alignment explanation
Indices: 13598635--13598704 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
13598625 AAATAAAAAA
* *
13598635 TTACCAAAATGT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAA-ATTTTTTTAT
13598663 TTACCAAAATATATATAAATTTTTTTAT
1 TTACCAAAATATATATAAATTTTTTTAT
13598691 TTACCAAAATATAT
1 TTACCAAAATATAT
13598705 CAAAAAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 34 0.87
29 5 0.13
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAAATTTTTTTAT
Found at i:13598803 original size:27 final size:27
Alignment explanation
Indices: 13598773--13598839 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
13598763 AGGGAAGCAG
*
13598773 GTTGGCGGCACCAAACAAGGGAACTCT
1 GTTGGCGGCACCAAACAAGGGAACCCT
*
13598800 GTTGGCGGCACCAAACAAGGGATCCCT
1 GTTGGCGGCACCAAACAAGGGAACCCT
13598827 GTTGGCGGCACCA
1 GTTGGCGGCACCA
13598840 GTCCTGCCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.15
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGGAACCCT
Found at i:13598890 original size:27 final size:26
Alignment explanation
Indices: 13598860--13598934 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 26
13598850 CCAGATTGGC
13598860 GGAACACTGTTGGCGGCACCAAACAAG
1 GGAAC-CTGTTGGCGGCACCAAACAAG
13598887 GGAACCTTGTTGGCGGCACCAAACAAG
1 GGAACC-TGTTGGCGGCACCAAACAAG
**
13598914 GGTTCCCTGTTGGCGGCACCA
1 GG-AACCTGTTGGCGGCACCA
13598935 CTCGTGTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.02
27 41 0.93
28 2 0.05
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.16
Consensus pattern (26 bp):
GGAACCTGTTGGCGGCACCAAACAAG
Found at i:13599218 original size:3 final size:3
Alignment explanation
Indices: 13599210--13599241 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13599200 AATTTTATAG
13599210 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13599242 AGATGTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:13602557 original size:26 final size:27
Alignment explanation
Indices: 13602528--13602593 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 27
13602518 ACTTTTTTTG
13602528 ATATATTTTGGTAAAT-AAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAATTAT
* *
13602554 ATATATTTTCGTAAGTAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAATTAT
13602581 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
13602594 TTTTTTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 25 0.69
27 11 0.31
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAATTAT
Found at i:13602651 original size:19 final size:19
Alignment explanation
Indices: 13602629--13602669 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13602619 TATAAAACCC
13602629 ATAATAAAACA-TAACAAAA
1 ATAATAAAACATTAA-AAAA
*
13602648 ATAATAAAATATTAAAAAA
1 ATAATAAAACATTAAAAAA
13602667 ATA
1 ATA
13602670 CCAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAATAAAACATTAAAAAA
Found at i:13603431 original size:38 final size:37
Alignment explanation
Indices: 13603355--13603490 Score: 132
Period size: 38 Copynumber: 3.5 Consensus size: 37
13603345 ATAAAAATTA
*
13603355 CCTTATTTTCTTTTTTTTCCT-TCCTTCTCTCTTCTTC-TT
1 CCTTCTTTT-TTTTTTTTCCTCTCCTT-TC-CTT-TTCTTT
*
13603394 CTTTCTTTTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTT
1 CCTTCTTTTTTTTTTTTC-C-TCTCCTTTCCTTTTCTTT
* * *
13603433 CCTTATTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTT
1 CCTTCTTTTT-TTTTTTTCCTCTCCTTTCCTTTTCTTT
* *
13603471 CCTTCTTTTTCTTTCTTCCT
1 CCTTCTTTTTTTTTTTTCCT
13603491 TTCTTTCTTC
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
37 7 0.09
38 38 0.46
39 22 0.27
40 10 0.12
41 5 0.06
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (37 bp):
CCTTCTTTTTTTTTTTTCCTCTCCTTTCCTTTTCTTT
Found at i:13603702 original size:28 final size:28
Alignment explanation
Indices: 13603670--13603738 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
13603660 TGTTTTTTTG
13603670 ATATATTTTGGTAAATAAAAAAAATTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
* *
13603698 ATATATTTTGATAAATAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAATTAT
*
13603726 A-ACATTTTGGTAA
1 ATATATTTTGGTAA
13603739 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 10 0.27
28 27 0.73
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAATTAT
Found at i:13606431 original size:21 final size:20
Alignment explanation
Indices: 13606394--13606432 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13606384 TCATATTTCC
* *
13606394 TTTATTTTTTTATGAATTTA
1 TTTATATTTTCATGAATTTA
13606414 TTTATATTTTCATGGAATT
1 TTTATATTTTCAT-GAATT
13606433 GCCAAGGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (20 bp):
TTTATATTTTCATGAATTTA
Done.