Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 78 of 125
Found at i:24362624 original size:2 final size:2
Alignment explanation
Indices: 24362617--24362648 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24362607 GATTAAACGA
24362617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24362649 TGTTACATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24368991 original size:61 final size:59
Alignment explanation
Indices: 24368926--24369041 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 59
24368916 AGTGATTATC
* * *
24368926 TTAATATTAAATTTAATTTAATGTTTATATTGCAGATAAATATTCTATTAA-TTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATATT--A-ATAAATATTATATTAATTTAATAAGAT
* *
24368987 TTAATTTTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATATTAATAAATATTATATTAATTTAATA
24369042 TTAAAGTAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 15 0.31
59 7 0.14
61 27 0.55
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATATTAATAAATATTATATTAATTTAATAAGAT
Found at i:24369055 original size:58 final size:59
Alignment explanation
Indices: 24368928--24369061 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 59
24368918 TGATTATCTT
* * * *
24368928 AATATTAAATTTAATTTAATGTTTATATTGCAGATAAATATTCTATTAATTAATAAGATTT
1 AATATTAAATTTAATCTAATATTTATATT-CAGATAAATATTATATTAATT-ATAAGATTA
* * *
24368989 AATTTTAAATTTAATCTAATATTTATCTT-A-ATAAATATTATATTAATT-TAATATTA
1 AATATTAAATTTAATCTAATATTTATATTCAGATAAATATTATATTAATTATAAGATTA
24369045 AAGTAATTAAATTTAAT
1 AA-T-ATTAAATTTAAT
24369062 AATAGTTGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
56 8 0.13
57 1 0.02
58 28 0.44
59 1 0.02
61 25 0.40
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (59 bp):
AATATTAAATTTAATCTAATATTTATATTCAGATAAATATTATATTAATTATAAGATTA
Found at i:24371717 original size:2 final size:2
Alignment explanation
Indices: 24371706--24371738 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
24371696 GAAATTCAAA
24371706 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24371739 TTAACGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:24380014 original size:58 final size:60
Alignment explanation
Indices: 24379952--24380067 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 60
24379942 ATCACTAGAA
* * * *
24379952 TATTAAATTAATATAATATTTA-TCAA-GATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATCAATAAAATATTTATTCAATGATAAATATTAAATTAAATTGAATATTAAATC
* *
24380010 TATTAAATCAATAAAATATTTATTTTAATGATAAATATTAAATTAGATTGAATATTAA
1 TATTAAATCAATAAAATATTTA-TTCAATGATAAATATTAAATTAAATTGAATATTAA
24380068 GATAATCAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
58 20 0.41
60 3 0.06
61 26 0.53
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (60 bp):
TATTAAATCAATAAAATATTTATTCAATGATAAATATTAAATTAAATTGAATATTAAATC
Found at i:24382174 original size:26 final size:26
Alignment explanation
Indices: 24382145--24382194 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
24382135 TTTTCATATT
*
24382145 AATATTAATTTAAAAAATTGTAATAC
1 AATATTAATTTAAAAAATTATAATAC
** *
24382171 AATATTCCTTTACAAAATTATAAT
1 AATATTAATTTAAAAAATTATAAT
24382195 TATTTTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (26 bp):
AATATTAATTTAAAAAATTATAATAC
Found at i:24382747 original size:13 final size:14
Alignment explanation
Indices: 24382724--24382755 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
24382714 TTATTTTAAA
24382724 AATATTAAAATATT
1 AATATTAAAATATT
24382738 AATA-TAAAATATT
1 AATATTAAAATATT
24382751 -ATATT
1 AATATT
24382756 TTTCAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 10 0.59
14 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTAAAATATT
Found at i:24382756 original size:37 final size:37
Alignment explanation
Indices: 24382687--24382757 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
24382677 AATCAAGCTT
* * *
24382687 AATATTAATATATTAATAATAATATTTTTATTTTAAA
1 AATATTAAAATATTAATAAAAATATTTATATTTTAAA
24382724 AATATTAAAATATTAATATAAAATA-TTATATTTT
1 AATATTAAAATATTAATA-AAAATATTTATATTTT
24382758 TCAATATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 25 0.83
38 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
AATATTAAAATATTAATAAAAATATTTATATTTTAAA
Found at i:24396554 original size:40 final size:40
Alignment explanation
Indices: 24396499--24396584 Score: 172
Period size: 40 Copynumber: 2.1 Consensus size: 40
24396489 AAGCATAAGG
24396499 CAAAAGGTGGAGGAGATCAAAATAGAGATTGAAAAACCCA
1 CAAAAGGTGGAGGAGATCAAAATAGAGATTGAAAAACCCA
24396539 CAAAAGGTGGAGGAGATCAAAATAGAGATTGAAAAACCCA
1 CAAAAGGTGGAGGAGATCAAAATAGAGATTGAAAAACCCA
24396579 CAAAAG
1 CAAAAG
24396585 TGGCCAAGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.51, C:0.13, G:0.24, T:0.12
Consensus pattern (40 bp):
CAAAAGGTGGAGGAGATCAAAATAGAGATTGAAAAACCCA
Found at i:24400764 original size:13 final size:13
Alignment explanation
Indices: 24400746--24400771 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24400736 ACACTAATGA
24400746 CATCATAAATATT
1 CATCATAAATATT
24400759 CATCATAAATATT
1 CATCATAAATATT
24400772 TAATAATTAA
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:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
CATCATAAATATT
Found at i:24405657 original size:61 final size:61
Alignment explanation
Indices: 24405591--24405746 Score: 206
Period size: 61 Copynumber: 2.6 Consensus size: 61
24405581 CATTTATTAT
* * * *
24405591 AAGTATTGTATGTAAAGGAACGCCTTTGTGGTAAATATATGGACA-AGAAAGCCTTTGTGGC
1 AAGTATTGTATGTAAAGGAACGCTTTTGTGGCAAATACATAGACAGA-AAAGCCTTTGTGGC
* * *
24405652 GAGTATTGTATGTAAAAGAACGCTTTTGTGGCAAATACCTAGACAGAAAAGCCTTTGTGGC
1 AAGTATTGTATGTAAAGGAACGCTTTTGTGGCAAATACATAGACAGAAAAGCCTTTGTGGC
* * *
24405713 AAGTACTGCATGTAAAGGAATGCTTTTGTGGCAA
1 AAGTATTGTATGTAAAGGAACGCTTTTGTGGCAA
24405747 TCTTTGTAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
61 81 0.99
62 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (61 bp):
AAGTATTGTATGTAAAGGAACGCTTTTGTGGCAAATACATAGACAGAAAAGCCTTTGTGGC
Found at i:24405680 original size:32 final size:32
Alignment explanation
Indices: 24405592--24405683 Score: 91
Period size: 32 Copynumber: 3.0 Consensus size: 32
24405582 ATTTATTATA
* *
24405592 AGTATTGTATGTAAAGGAACGCCTTTGTGG-T
1 AGTATTGTATGTAAAAGAACGCCTTTGTGGCG
* * * * *
24405623 A--AATATATGGACAAGAAAGCCTTTGTGGCG
1 AGTATTGTATGTAAAAGAACGCCTTTGTGGCG
*
24405653 AGTATTGTATGTAAAAGAACGCTTTTGTGGC
1 AGTATTGTATGTAAAAGAACGCCTTTGTGGC
24405684 AAATACCTAG
Statistics
Matches: 45, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
29 21 0.47
30 1 0.02
31 1 0.02
32 22 0.49
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (32 bp):
AGTATTGTATGTAAAAGAACGCCTTTGTGGCG
Found at i:24410197 original size:13 final size:13
Alignment explanation
Indices: 24410179--24410203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24410169 TAAGTTAAAA
24410179 ATGCTAAAAATGC
1 ATGCTAAAAATGC
24410192 ATGCTAAAAATG
1 ATGCTAAAAATG
24410204 GTAAAATGGG
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:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:24411308 original size:3 final size:3
Alignment explanation
Indices: 24411300--24411325 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24411290 TGCATGGGTT
24411300 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
24411326 GCGTTCCTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:24424725 original size:13 final size:13
Alignment explanation
Indices: 24424707--24424735 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24424697 TGCTGAAGCC
24424707 TGAGTTCAACAAG
1 TGAGTTCAACAAG
24424720 TGAGTTCAACAAG
1 TGAGTTCAACAAG
24424733 TGA
1 TGA
24424736 AGTGCAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (13 bp):
TGAGTTCAACAAG
Found at i:24428577 original size:3 final size:3
Alignment explanation
Indices: 24428569--24428614 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
24428559 AAGGGCCCAA
* *
24428569 ATT ATT ATT ATC ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
24428615 GGGTTTCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:24429149 original size:98 final size:96
Alignment explanation
Indices: 24429030--24429218 Score: 272
Period size: 98 Copynumber: 1.9 Consensus size: 96
24429020 TTGGGGAAGT
* *
24429030 TTTTGTTTTTTTAAACAATTTCAAAATAAAAGTTTTGATTTTTAAGAAAAATAATGATTTTCTTT
1 TTTTGTTTTTTTAAACAATTTCAAAATAAAAGTTTGGATTTTTAAGAAAAATAATGAATTT-TTT
24429095 AAAAAAAGAAAAAGTTTAAATTTTTAAACAAAG
65 -AAAAAAGAAAAAGTTTAAATTTTTAAACAAAG
* * * *
24429128 TTTTGATTTTTTT-AACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGAATTTTTT
1 TTTTG-TTTTTTTAAACAATTTCAAAATAAAAGTTTGGATTTTTAAGAAAAATAATGAATTTTTT
* *
24429192 AAAAAAGAGAAAGTTTATATTTTTAAA
65 AAAAAAGAAAAAGTTTAAATTTTTAAA
24429219 AATAAAATTT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
96 25 0.30
97 3 0.04
98 47 0.57
99 7 0.09
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (96 bp):
TTTTGTTTTTTTAAACAATTTCAAAATAAAAGTTTGGATTTTTAAGAAAAATAATGAATTTTTTA
AAAAAGAAAAAGTTTAAATTTTTAAACAAAG
Found at i:24429230 original size:22 final size:23
Alignment explanation
Indices: 24429187--24429238 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
24429177 AATAGTGAAT
24429187 TTTTTAAAAAAGAGAAAGTTTATA
1 TTTTT-AAAAAGAGAAAGTTTATA
* * *
24429211 TTTTTAAAAATA-AAATTTTATT
1 TTTTTAAAAAGAGAAAGTTTATA
24429233 TTTTTA
1 TTTTTA
24429239 GTCATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 14 0.56
23 6 0.24
24 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (23 bp):
TTTTTAAAAAGAGAAAGTTTATA
Found at i:24429267 original size:98 final size:98
Alignment explanation
Indices: 24429030--24429269 Score: 233
Period size: 98 Copynumber: 2.5 Consensus size: 98
24429020 TTGGGGAAGT
* ** *
24429030 TTTTG-TTTTTTTAAACAATTTC-AAAATAAAAGTTTTGATTTTTAAGAAAAATAATGATTTTCT
1 TTTTGATTTTTTT-AACTATTTCGAAAA-AAAAGTTTAAATTTTTAAGAAAAATAATGAATTTCT
*
24429093 TTAAAAAAAGAAAAAGTTTAAATTTTTAAACAAAG
64 TTAAAAAAAGAAAAAGTTTAAATTTTTAAACAAAA
* ** * *
24429128 TTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGAATTT-TTT
1 TTTTGATTTTTTTAACTATTTCGAAAAAAAAGTTTAAATTTTTAAGAAAAATAATGAATTTCTTT
* * *
24429192 -AAAAAAGAGAAAGTTTATATTTTTAAAAATAAAA
66 AAAAAAAGAAAAAGTTTAAATTTTT--AAACAAAA
* * *
24429226 TTTT-ATTTTTTT-AGTCATTT-TAAAGAAAAAGTTTAAAATTTTAA
1 TTTTGATTTTTTTAACT-ATTTCGAAA-AAAAAGTTTAAATTTTTAA
24429270 ACAAAATTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
96 27 0.22
97 30 0.25
98 53 0.44
99 10 0.08
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (98 bp):
TTTTGATTTTTTTAACTATTTCGAAAAAAAAGTTTAAATTTTTAAGAAAAATAATGAATTTCTTT
AAAAAAAGAAAAAGTTTAAATTTTTAAACAAAA
Found at i:24429326 original size:50 final size:49
Alignment explanation
Indices: 24429105--24429326 Score: 145
Period size: 51 Copynumber: 4.5 Consensus size: 49
24429095 AAAAAAAGAA
* * *
24429105 AAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATA
1 AAAGTTTAAATTTTTAAATAAAATTTTGA-TTTTTTAACTATTT-GAAATG
** * ** *
24429156 AAAGTTTGGATTTTTAAGTAAAATAGTGAATTTTTTAA--A----AAAGAG
1 AAAGTTTAAATTTTTAAATAAAATTTTG-ATTTTTTAACTATTTGAAA-TG
* * * *
24429201 AAAGTTTATATTTTTAAAAATAAAATTTT-ATTTTTTTAGTCATTTTAAA-G
1 AAAGTTTAAATTTTT--AAATAAAATTTTGATTTTTTAACT-ATTTGAAATG
* *
24429251 AAAAAGTTTAAAATTTTAAACAAAATTTTGATTTTTTAACTATTTCGAAATG
1 --AAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTAACTATTT-GAAATG
* *
24429303 AAAGTTTGAATTTTTAAGTAAAAT
1 AAAGTTTAAATTTTTAAATAAAAT
24429327 AATAATTTTC
Statistics
Matches: 130, Mismatches: 25, Indels: 33
0.69 0.13 0.18
Matches are distributed among these distances:
44 3 0.02
45 21 0.16
47 9 0.07
48 1 0.01
49 1 0.01
50 36 0.28
51 41 0.32
52 18 0.14
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (49 bp):
AAAGTTTAAATTTTTAAATAAAATTTTGATTTTTTAACTATTTGAAATG
Found at i:24429598 original size:146 final size:147
Alignment explanation
Indices: 24429099--24429632 Score: 715
Period size: 147 Copynumber: 3.6 Consensus size: 147
24429089 TTCTTTAAAA
*
24429099 AAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAGTTTG
1 AAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTG
* *
24429164 GATTTTTAAGTAAAATAGTGAATTTT--TTAAAAAAGAGAAAGTTTATATTTT-TAAAAATAAAA
66 GATTTTTAAGTAAAATAGTG-ATTTTCATT-AAAAA-AGAAAGTTTAGATTTTAAAAAAATAAAA
*
24429226 TTTTATTTTTTTAGTCATTTT
128 ATTTA-TTTTTTAGTCATTTT
* * * *
24429247 AAAGAAAAAGTTTAAAATTTTAAACAAAATTTTGA-TTTTTTAACTATTTCGAAATGAAAGTTTG
1 AAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTG
* * *
24429311 AATTTTTAAGTAAAATAATAATTTTCATTAAAAAAGAAAGTTTAGATTTTTAAAAAAATGAAAAA
66 GATTTTTAAGTAAAATAGTGATTTTCATTAAAAAAGAAAGTTTAGA-TTTTAAAAAAAT-AAAAA
24429376 TTTATTTTTTAGTCATTTT
129 TTTATTTTTTAGTCATTTT
*
24429395 AAAG-AAAAGTTTAAATTTTTATACAAAGTTTTGATTTTTTTTAAAACTATTTCAAAATAAAAGT
1 AAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGA-TTTTTTT--AACTATTTCAAAATAAAAGT
*
24429459 TTGGATTTTTAAGTAAAGTAGTGATTTTCATT-AAAAA-AAA-TTTAGATTTTAAAAAAATAAAA
63 TTGGATTTTTAAGTAAAATAGTGATTTTCATTAAAAAAGAAAGTTTAGATTTTAAAAAAATAAAA
* * *
24429521 ATCTGTTTTTTAGTGATTTT
128 ATTTATTTTTTAGTCATTTT
* *
24429541 AAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTTTGACTATTTCAAAATAAAAATT
1 AAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGA--TTTTTTTAACTATTTCAAAATAAAAGTT
* ** *
24429606 TTGATTTCGAAGTAAAGTAGTGATTTT
64 TGGATTTTTAAGTAAAATAGTGATTTT
24429633 GTTTTAATAA
Statistics
Matches: 348, Mismatches: 27, Indels: 24
0.87 0.07 0.06
Matches are distributed among these distances:
146 84 0.24
147 122 0.35
148 74 0.21
149 17 0.05
150 5 0.01
151 46 0.13
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (147 bp):
AAAGAAAAAGTTTAAATTTTTAAACAAAGTTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTG
GATTTTTAAGTAAAATAGTGATTTTCATTAAAAAAGAAAGTTTAGATTTTAAAAAAATAAAAATT
TATTTTTTAGTCATTTT
Found at i:24430225 original size:15 final size:15
Alignment explanation
Indices: 24430205--24430238 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24430195 TTATTTATTC
*
24430205 TTATTTCATCTTTAT
1 TTATTTCATCTCTAT
*
24430220 TTATTTCATGTCTAT
1 TTATTTCATCTCTAT
24430235 TTAT
1 TTAT
24430239 ATTTATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.65
Consensus pattern (15 bp):
TTATTTCATCTCTAT
Found at i:24452341 original size:17 final size:17
Alignment explanation
Indices: 24452319--24452359 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
24452309 CAATGAGATA
24452319 TAAATTTAGTTTT-AAGT
1 TAAATTTA-TTTTAAAGT
*
24452336 TAAATTTATTTTAAATT
1 TAAATTTATTTTAAAGT
24452353 TAAATTT
1 TAAATTT
24452360 GCATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TAAATTTATTTTAAAGT
Found at i:24452385 original size:17 final size:17
Alignment explanation
Indices: 24452335--24452390 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
24452325 TAGTTTTAAG
*
24452335 TTAAATTTATTTTAAAT
1 TTAAATTTATTATAAAT
24452352 TTAAATTTGCA-TA-AAAT
1 TTAAATTT--ATTATAAAT
24452369 TTAAATTTATTATAAAT
1 TTAAATTTATTATAAAT
24452386 TTAAA
1 TTAAA
24452391 ATTAAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 1 0.03
16 2 0.06
17 29 0.85
18 1 0.03
19 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAAATTTATTATAAAT
Found at i:24453150 original size:12 final size:12
Alignment explanation
Indices: 24453130--24453243 Score: 58
Period size: 12 Copynumber: 9.5 Consensus size: 12
24453120 TAAATGCTAC
24453130 TAATAATAATAT
1 TAATAATAATAT
*
24453142 TATTAATAAT-T
1 TAATAATAATAT
*
24453153 ATAATAATAAATAA
1 -TAATAAT-AATAT
**
24453167 TACCAATAAATAT
1 TAATAAT-AATAT
*
24453180 TAATGATAATAAT
1 TAATAATAAT-AT
* * *
24453193 GATTAATAATAA
1 TAATAATAATAT
**
24453205 TAATAATAGCAT
1 TAATAATAATAT
24453217 TAATAATGAA-AT
1 TAATAAT-AATAT
24453229 T-AT--TAATAT
1 TAATAATAATAT
24453238 TAATAA
1 TAATAA
24453244 ATAACGTAAT
Statistics
Matches: 74, Mismatches: 19, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
8 2 0.03
9 4 0.05
10 2 0.03
11 3 0.04
12 36 0.49
13 27 0.36
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:24453208 original size:16 final size:15
Alignment explanation
Indices: 24453130--24453209 Score: 70
Period size: 16 Copynumber: 4.9 Consensus size: 15
24453120 TAAATGCTAC
*
24453130 TAATAATAATATTAT
1 TAATAATAATAATAT
*
24453145 TAATAATTATAATAAT
1 TAATAATAATAAT-AT
*
24453161 AAATAATACCAATAAATAT
1 TAATAAT---AAT-AATAT
*
24453180 TAATGATAATAATGAT
1 TAATAATAATAAT-AT
24453196 TAATAATAATAATA
1 TAATAATAATAATA
24453210 ATAGCATTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
15 15 0.29
16 25 0.48
19 9 0.17
20 3 0.06
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (15 bp):
TAATAATAATAATAT
Found at i:24453223 original size:3 final size:3
Alignment explanation
Indices: 24453130--24453212 Score: 67
Period size: 3 Copynumber: 26.7 Consensus size: 3
24453120 TAAATGCTAC
* * * * *
24453130 TAA TAA TAA TAT TAT TAA TAA TTA TAA TAA TAAA TAA TAC CAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA T-AA
* * *
24453177 TAT TAA TGA TAA TAA TGAT TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA
24453213 GCATTAATAA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
3 55 0.87
4 8 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:24454553 original size:59 final size:59
Alignment explanation
Indices: 24454365--24455013 Score: 889
Period size: 59 Copynumber: 11.0 Consensus size: 59
24454355 TTGACACCCA
*
24454365 AACTTTCCAAAATCCCATTTTTAACCCTGATTTCACC-AAAATTACCATTTTACCCTCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* * * *
24454423 AACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAAATTATCATCTTACCCCCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC-AAAAATTACCATTTTACCCTCG
** *
24454483 AACTTTCCAAAATCCCATTTTTAACCTTGATTTCACCAAAAATTATCATTTTAGCCC-CG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTA-CCCTCG
* * *
24454542 AACTTTCCAAAATCCTATTTTTAACCCCGATTTCACCAAAAAATTATCATCTTACCCTCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC-AAAAATTACCATTTTACCCTCG
* ** * *
24454602 AACTTTCTAAAATCCCA-TTTTAACCCTAATTTCACC-AAAATTACCATTTTACCCCCA
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* **
24454659 AACTTTCCAAAATCCCATTTTTAATCCATATTTCACCAAAAATTACCATTTTACCC-CTG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTC-G
** * *
24454718 AACTTTCCAAAATCCCA-TTTTAACCCTAATTTCACCAAAAATTATCATTTTACCCCCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* * * *
24454776 AACTTTCTAAAATCCCTTTTTTAACCCCGATTTCACCAAAAAATTATCATCTTACCCTCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC-AAAAATTACCATTTTACCCTCG
* *
24454836 AACTTTCCAAAATCTCA-TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTTG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* * * *
24454894 AACTTTCCAAAATCCTATTTTTAACCTCGATTTCACCAAAAATTACCATTTTGCCCTTG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
* *
24454953 AACTTTCCAAAATCCCATTTTCAACCCCGATTTCACCAAAAATTACCACTTTACCCTCG
1 AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
24455012 AA
1 AA
24455014 TTCGAAAATT
Statistics
Matches: 529, Mismatches: 50, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
57 33 0.06
58 136 0.26
59 237 0.45
60 123 0.23
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
AACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCG
Found at i:24455009 original size:176 final size:177
Alignment explanation
Indices: 24454365--24455013 Score: 902
Period size: 176 Copynumber: 3.7 Consensus size: 177
24454355 TTGACACCCA
24454365 AACTTTCCAAAATCCCATTTTTAACCCTGATTTCACC-AAAATTACCATTTTACCCTCGAACTTT
1 AACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCTCGAACTTT
* *
24454429 CCAAAATCCCATTTTTAACCTCGATTTCACCAAAAAATTATCATCTTACCCCCGAACTTTCCAAA
66 CCAAAATCCCATTTTTAACCCCGATTTCACCAAAAAATTACCATCTTACCCCCGAACTTTCCAAA
** * *
24454494 ATCCCATTTTTAACCTTGATTTCACCAAAAATTATCATTTTAGCCCCG
131 ATCCCATTTTTAACCCAGATTTCACCAAAAATTACCATTTTA-CCCTG
* * * *
24454542 AACTTTCCAAAATCCTATTTTTAACCCCGATTTCACCAAAAAATTATCATCTTACCCTCGAACTT
1 AACTTTCCAAAATCCCATTTTTAACCCTGATTTCACC-AAAAATTACCATTTTACCCTCGAACTT
* ** * *
24454607 TCTAAAATCCCA-TTTTAACCCTAATTTCACC--AAAATTACCATTTTACCCCCAAACTTTCCAA
65 TCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAAATTACCATCTTACCCCCGAACTTTCCAA
* *
24454669 AATCCCATTTTTAATCCATATTTCACCAAAAATTACCATTTTACCCCTG
130 AATCCCATTTTTAACCCAGATTTCACCAAAAATTACCATTTTA-CCCTG
* * *
24454718 AACTTTCCAAAATCCCA-TTTTAACCCTAATTTCACCAAAAATTATCATTTTACCCCCGAACTTT
1 AACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCTCGAACTTT
* * * *
24454782 CTAAAATCCCTTTTTTAACCCCGATTTCACCAAAAAATTATCATCTTACCCTCGAACTTTCCAAA
66 CCAAAATCCCATTTTTAACCCCGATTTCACCAAAAAATTACCATCTTACCCCCGAACTTTCCAAA
* *
24454847 ATCTCA-TTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTTG
131 ATCCCATTTTTAACCCAGATTTCACCAAAAATTACCATTTTACCC-TG
* * *
24454894 AACTTTCCAAAATCCTATTTTTAA-CCTCGATTTCACCAAAAATTACCATTTTGCCCTTGAACTT
1 AACTTTCCAAAATCCCATTTTTAACCCT-GATTTCACCAAAAATTACCATTTTACCCTCGAACTT
* *
24454958 TCCAAAATCCCATTTTCAACCCCGATTTCACC-AAAAATTACCA-CTTTACCCTCGAA
65 TCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAAATTACCATC-TTACCCCCGAA
24455014 TTCGAAAATT
Statistics
Matches: 419, Mismatches: 44, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
174 36 0.09
175 38 0.09
176 160 0.38
177 134 0.32
178 16 0.04
179 35 0.08
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (177 bp):
AACTTTCCAAAATCCCATTTTTAACCCTGATTTCACCAAAAATTACCATTTTACCCTCGAACTTT
CCAAAATCCCATTTTTAACCCCGATTTCACCAAAAAATTACCATCTTACCCCCGAACTTTCCAAA
ATCCCATTTTTAACCCAGATTTCACCAAAAATTACCATTTTACCCTG
Found at i:24456841 original size:72 final size:72
Alignment explanation
Indices: 24456724--24456867 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
24456714 TGCTGATTTT
*
24456724 TTTTATATATATATTTATTTATCACCTGCTACTAACCATGTTTGTTTTTCCTCTTTCATCTGCAT
1 TTTTATATATATATTTATTTATCACCTGCTACTAACCATGTTTGTTTTTCCTCCTTCATCTGCAT
24456789 TTGCATC
66 TTGCATC
24456796 TTTTATATATATATTTATTTATCACCTGCTACTAACCATGTTTGTTTTTCCTCCTTCATCTGCAT
1 TTTTATATATATATTTATTTATCACCTGCTACTAACCATGTTTGTTTTTCCTCCTTCATCTGCAT
24456861 TTGCATC
66 TTGCATC
24456868 ATCATGAATG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.21, C:0.22, G:0.07, T:0.51
Consensus pattern (72 bp):
TTTTATATATATATTTATTTATCACCTGCTACTAACCATGTTTGTTTTTCCTCCTTCATCTGCAT
TTGCATC
Found at i:24467532 original size:201 final size:201
Alignment explanation
Indices: 24467184--24467970 Score: 1223
Period size: 201 Copynumber: 4.0 Consensus size: 201
24467174 AGTAGTTCGA
*
24467184 CAAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAATTCATCGCTCAAA
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAATTCATCGCTCAAA
*
24467249 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTTGAAGCAATAAAAA
66 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAA
* *
24467314 GGTTAGCTTCTTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAAAGAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAA
24467379 GCGAAT
196 GCGAAT
* * *
24467385 CAAAACAAGCGAGGCGATCATCTTCCTGATGAGATACAGAAAAGAACACTAATTCATCGCTTAAA
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAATTCATCGCTCAAA
*
24467450 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAA
66 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAA
* *
24467515 TGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTAAGGAGATCCAGAGAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAA
24467580 GCGAAT
196 GCGAAT
* * * * *
24467586 CAAAACAAACGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCACTCAAA
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAATTCATCGCTCAAA
*
24467651 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATATAAA
66 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAA
*
24467716 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCTAGAGAA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAA
24467781 GCGAAT
196 GCGAAT
* * * *
24467787 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACCAACTCAGCACTC-AA
1 CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAATTCATCGCTCAAA
*
24467851 CACGAG-----CTT-----CCA-------GATGAGACACTGAGAAGCAAGTCGAAGCAATATAAA
66 CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAA
* *
24467899 GGTTAGCTTCCTGATGAGACACAGGGAAGTGGACCAGATTTAGTCTTCCTGAGGAGATCCAGAGA
131 GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGA-TTCGTCTTCCTGAGGAGATCCAGAGA
24467964 AGCGAAT
195 AGCGAAT
24467971 TAAATGATTG
Statistics
Matches: 558, Mismatches: 27, Indels: 19
0.92 0.04 0.03
Matches are distributed among these distances:
183 73 0.13
184 31 0.06
190 3 0.01
195 3 0.01
200 8 0.01
201 440 0.79
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (201 bp):
CAAAACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAACACTAATTCATCGCTCAAA
CACGAGCAAATCTTCGAACCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAA
GGTTAGCTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAA
GCGAAT
Found at i:24468372 original size:17 final size:17
Alignment explanation
Indices: 24468350--24468391 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
24468340 CAATGAGATA
24468350 TAAATTTAGTTTT-AAGT
1 TAAATTTA-TTTTAAAGT
*
24468367 TAAATTTATTTTAAATT
1 TAAATTTATTTTAAAGT
24468384 TAAATTTA
1 TAAATTTA
24468392 AAATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TAAATTTATTTTAAAGT
Found at i:24469188 original size:16 final size:17
Alignment explanation
Indices: 24469169--24469240 Score: 55
Period size: 16 Copynumber: 4.4 Consensus size: 17
24469159 AAATAATACC
*
24469169 AATAAAT-ATTAATGAT
1 AATAAATGATTAATAAT
24469185 AAT-AATGATTAATAAT
1 AATAAATGATTAATAAT
24469201 AAT-AATAGCATTAATAAT
1 AATAAAT-G-ATTAATAAT
* * *
24469219 --GAAATTATTAATATT
1 AATAAATGATTAATAAT
24469234 AATAAAT
1 AATAAAT
24469241 AACGTAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
15 11 0.24
16 17 0.38
17 8 0.18
18 9 0.20
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.38
Consensus pattern (17 bp):
AATAAATGATTAATAAT
Found at i:24469218 original size:3 final size:3
Alignment explanation
Indices: 24469130--24469207 Score: 57
Period size: 3 Copynumber: 25.0 Consensus size: 3
24469120 AATGCTACTG
* * * **
24469130 ATA ATA ATA TTA TTA ATA ATT ATA ATA ATAA ATA ATA CCA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA
* * *
24469177 TTA ATG ATA ATA ATGA TTA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
24469208 GCATTAATAA
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
3 50 0.86
4 8 0.14
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:24470093 original size:30 final size:29
Alignment explanation
Indices: 24470051--24470856 Score: 172
Period size: 29 Copynumber: 27.4 Consensus size: 29
24470041 ATAGGTCCTT
24470051 GAACTGTT-CAAAAATTACATTTTGACCCCC
1 GAACT-TTCCAAAAATTACATTTT-ACCCCC
* * *
24470081 GAACTTTCC-AAAATCCAAATTTTA-ACCC
1 GAACTTTCCAAAAAT-TACATTTTACCCCC
*
24470109 GAA-TTTCACAAAAATTACCATTTTACCCCT
1 GAACTTTC-CAAAAATTA-CATTTTACCCCC
* ** * *
24470139 GAACTTT-CTAAAATCCCATTTTTAACCTC
1 GAACTTTCCAAAAATTACA-TTTTACCCCC
24470168 G-A-TTTCACCAAAAATTATCATTTTACCCCC
1 GAACTTT--CCAAAAATTA-CATTTTACCCCC
** *
24470198 GAACTTTCC-AAAATCCCATTTTTAACCCC
1 GAACTTTCCAAAAATTACA-TTTTACCCCC
* *
24470227 G-A-TTTCACCAAAAAATTATCATCTTA-ACCC
1 GAACTTT--CC-AAAAATTA-CATTTTACCCCC
** *
24470257 GAACTTTCC-AAAATCCCATTTTTAACCCC
1 GAACTTTCCAAAAATTACA-TTTTACCCCC
* ** *
24470286 -TA-TTTCACCGAAATTACCATTTTACCCCT
1 GAACTTTC-CAAAAATTA-CATTTTACCCCC
* * * *
24470315 AAACTTTCC-AAAATCCTA-TTTTTAACCTC
1 GAACTTTCCAAAAAT--TACATTTTACCCCC
* *
24470344 G-A-TTTCACCAAAATTACCATTTTACCCCT
1 GAACTTTC-CAAAAATTA-CATTTTACCCCC
* * *
24470373 AAACTTTCC-AAAATCT-CGTTTTTAACCCC
1 GAACTTTCCAAAAAT-TAC-ATTTTACCCCC
**
24470402 -AA-TTTCACAAAAATTACCATTTTACCCTT
1 GAACTTTC-CAAAAATTA-CATTTTACCCCC
* * * *
24470431 AAAATTTCC-AAAATCTA-ATTTTTAACTCC
1 GAACTTTCCAAAAAT-TACA-TTTTACCCCC
* *
24470460 G-ATTTTACC-AAAATTACCATTTTACCCCT
1 GAACTTT-CCAAAAATTA-CATTTTACCCCC
** *
24470489 GAACTTTCC-AAAATCCCATTTTTAACCCC
1 GAACTTTCCAAAAATTACA-TTTTACCCCC
* *
24470518 G-A-TTTCACCAAAAAATTATCATCTTACCCTC
1 GAACTTT--CC-AAAAATTA-CATTTTACCCCC
** *
24470549 GAACTTTCC-AAAATCCCATTTTTA-ACCC
1 GAACTTTCCAAAAATTACA-TTTTACCCCC
* * *
24470577 TAA-TTTCACCAAAAATTACCATTTTAGCCCT
1 GAACTTT--CCAAAAATTA-CATTTTACCCCC
* * *
24470608 AAACTTTCC-AAAA-TCCGATTTTTAACCCC
1 GAACTTTCCAAAAATTAC-A-TTTTACCCCC
* * *
24470637 G-ATTTTACAAAAATTTATCATTTTACCCTC
1 GAACTTTCCAAAAA-TTA-CATTTTACCCCC
* *
24470667 GAACTTTCC-AAAATTCCATGTTTAACCCC
1 GAACTTTCCAAAAATTACAT-TTTACCCCC
* *
24470696 G-A-TTTCACCAAAAAATTATCATCTTACCCCT
1 GAACTTT--CC-AAAAATTA-CATTTTACCCCC
* ** *
24470727 AAACTTTCC-AAAATCCCATTTTTAACCCC
1 GAACTTTCCAAAAATTACA-TTTTACCCCC
* *
24470756 -AATTTTACC-AAAATTACCATTTTGCCCCC
1 GAACTTT-CCAAAAATTA-CATTTTACCCCC
* *
24470785 GAACTTTCC-AAAATCCTA-TTTTTAACCCC
1 GAACTTTCCAAAAAT--TACATTTTACCCCC
* *
24470814 G-A-TTTCACCAAAAATTACCATTTTGCCCTC
1 GAACTTT--CCAAAAATTA-CATTTTACCCCC
*
24470844 AAACTTTCCAAAA
1 GAACTTTCCAAAA
24470857 TCCCATTTTC
Statistics
Matches: 560, Mismatches: 122, Indels: 188
0.64 0.14 0.22
Matches are distributed among these distances:
27 39 0.07
28 69 0.12
29 241 0.43
30 108 0.19
31 75 0.13
32 22 0.04
33 6 0.01
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (29 bp):
GAACTTTCCAAAAATTACATTTTACCCCC
Found at i:24470190 original size:59 final size:59
Alignment explanation
Indices: 24470059--24470905 Score: 1063
Period size: 58 Copynumber: 14.4 Consensus size: 59
24470049 TTGAACTGTT
* * *
24470059 CAAAAATTA-CATTTTGACCCCCGAACTTTCCAAAATCCAAATTTTAA-CCCGAATTTCA-
1 CAAAAATTACCATTTT-ACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCG-ATTTCAC
* *
24470117 CAAAAATTACCATTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* *
24470176 CAAAAATTATCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * * *
24470235 CAAAAAATTATCATCTTAACCC-GAACTTTCCAAAATCCCATTTTTAACCCCTATTTCAC
1 C-AAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * * *
24470294 C-GAAATTACCATTTTACCCCTAAACTTTCCAAAATCCTATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * * *
24470352 C-AAAATTACCATTTTACCCCTAAACTTTCCAAAATCTCGTTTTTAACCCCAATTTCA-
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * * ** * *
24470409 CAAAAATTACCATTTTACCCTTAAAATTTCCAAAATCTAATTTTTAACTCCGATTTTAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
24470468 C-AAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * **
24470526 CAAAAAATTATCATCTTA-CCCTCGAACTTTCCAAAATCCCATTTTTAACCCTAATTTCAC
1 C-AAAAATTACCATTTTACCCCT-GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * * *
24470586 CAAAAATTACCATTTTAGCCCTAAACTTTCCAAAATCCGATTTTTAACCCCGATTTTA-
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * *
24470644 CAAAAATTTATCATTTTA-CCCTCGAACTTTCCAAAATTCCATGTTTAACCCCGATTTCAC
1 CAAAAA-TTACCATTTTACCCCT-GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * * * *
24470704 CAAAAAATTATCATCTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTTAC
1 C-AAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * *
24470764 C-AAAATTACCATTTTGCCCCCGAACTTTCCAAAATCCTATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * * *
24470822 CAAAAATTACCATTTT-GCCCTCAAACTTTCCAAAATCCCATTTTCAATCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCT-GAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* *
24470881 CAAAAATTACCACTTTACCCTTGAA
1 CAAAAATTACCATTTTACCCCTGAA
24470906 GTAAAAAATT
Statistics
Matches: 689, Mismatches: 81, Indels: 37
0.85 0.10 0.05
Matches are distributed among these distances:
57 16 0.02
58 289 0.42
59 257 0.37
60 118 0.17
61 9 0.01
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
Found at i:24470291 original size:118 final size:118
Alignment explanation
Indices: 24470059--24470900 Score: 1094
Period size: 118 Copynumber: 7.2 Consensus size: 118
24470049 TTGAACTGTT
* *
24470059 CAAAAATTA-CATTTTGACCCCCGAACTTTCCAAAATCCAAATTTTAA-CCCGAATTTCA-CAAA
1 CAAAAATTACCATTTT-ACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCG-ATTTCACCAAA
* * *
24470121 AATTACCATTTTACCCCTGAACTTTCTAAAATCCCATTTTTAACCTCGATTTCAC
64 AATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
*
24470176 CAAAAATTATCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC-AAAA
* * * * *
24470241 ATTATCATCTTAACCC-GAACTTTCCAAAATCCCATTTTTAACCCCTATTTCAC
65 ATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* ** * *
24470294 C-GAAATTACCATTTTACCCCTAAACTTTCCAAAATCCTATTTTTAACCTCGATTTCACC-AAAA
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAA
* * *
24470357 TTACCATTTTACCCCTAAACTTTCCAAAATCTCGTTTTTAACCCCAATTTCA-
66 TTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
*** * ** * *
24470409 CAAAAATTACCATTTTACCCTTAAAATTTCCAAAATCTAATTTTTAACTCCGATTTTACC-AAAA
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAA
*
24470473 TTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
66 TTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * * **
24470526 CAAAAAATTATCATCTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCTAATTTCACCAAAA
1 C-AAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAA
* * *
24470591 ATTACCATTTTAGCCCTAAACTTTCCAAAATCCGATTTTTAACCCCGATTTTA-
65 ATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* * * *
24470644 CAAAAATTTATCATTTTACCCTCGAACTTTCCAAAATTCCATGTTTAACCCCGATTTCACCAAAA
1 CAAAAA-TTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC-AAA
* * * *
24470709 AATTATCATCTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTTAC
64 AATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
* *
24470764 C-AAAATTACCATTTTGCCCCCGAACTTTCCAAAATCCTATTTTTAACCCCGATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAA
* * *
24470828 TTACCATTTT-GCCCTCAAACTTTCCAAAATCCCATTTTCAATCCCGATTTCAC
66 TTACCATTTTACCCCT-AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
*
24470881 CAAAAATTACCACTTTACCC
1 CAAAAATTACCATTTTACCC
24470901 TTGAAGTAAA
Statistics
Matches: 638, Mismatches: 73, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
115 17 0.03
116 138 0.22
117 149 0.23
118 208 0.33
119 125 0.20
120 1 0.00
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.34
Consensus pattern (118 bp):
CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAA
TTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCAC
Found at i:24484256 original size:7 final size:7
Alignment explanation
Indices: 24484246--24484270 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24484236 AATATTAAAT
24484246 AAATTTA
1 AAATTTA
24484253 AAATTTA
1 AAATTTA
24484260 AAATTTA
1 AAATTTA
24484267 AAAT
1 AAAT
24484271 AATTTATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:24488080 original size:24 final size:24
Alignment explanation
Indices: 24488033--24488079 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
24488023 AAAAGTTACA
* *
24488033 AAAAAATATTGACATTATAAAAAT
1 AAAAAATATTAAAATTATAAAAAT
24488057 AAAAAATATTAAAAATTATAAAA
1 AAAAAATATT-AAAATTATAAAA
24488080 TTACTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAAATATTAAAATTATAAAAAT
Found at i:24496021 original size:37 final size:37
Alignment explanation
Indices: 24495943--24496022 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
24495933 GCATGGTTAC
** *
24495943 ACTTGTATCTGGATTATTTAGTATCGGTAGTTTAGAT
1 ACTTGTATCTGGATTATTTAGTATCGGTAGTAAACAT
* *
24495980 ACTTGTATTTGGATTATTTAGTATTGGTAG-AAACAT
1 ACTTGTATCTGGATTATTTAGTATCGGTAGTAAACAT
24496016 AACTTGT
1 -ACTTGT
24496023 TTCGGTAGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (37 bp):
ACTTGTATCTGGATTATTTAGTATCGGTAGTAAACAT
Found at i:24501116 original size:17 final size:19
Alignment explanation
Indices: 24501084--24501125 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
24501074 TCAATATGGG
24501084 TTATTTTGTGGTTTTCAAA
1 TTATTTTGTGGTTTTCAAA
*
24501103 TTATTTT-T-GTTTTCATA
1 TTATTTTGTGGTTTTCAAA
24501120 TTATTT
1 TTATTT
24501126 GGGAATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 1 0.05
19 7 0.32
ACGTcount: A:0.19, C:0.05, G:0.10, T:0.67
Consensus pattern (19 bp):
TTATTTTGTGGTTTTCAAA
Found at i:24502087 original size:17 final size:18
Alignment explanation
Indices: 24502065--24502102 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
24502055 GGATGACTAG
*
24502065 AATTCT-TATTAAAATAA
1 AATTCTGTAGTAAAATAA
*
24502082 AATTCTGTGGTAAAATAA
1 AATTCTGTAGTAAAATAA
24502100 AAT
1 AAT
24502103 AAAAGTAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (18 bp):
AATTCTGTAGTAAAATAA
Found at i:24506491 original size:17 final size:17
Alignment explanation
Indices: 24506469--24506507 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
24506459 AGGTGGAGAA
* * *
24506469 CTTGTTCGTTGAGAGTT
1 CTTGTTAGTAGAGAATT
24506486 CTTGTTAGTAGAGAATT
1 CTTGTTAGTAGAGAATT
24506503 CTTGT
1 CTTGT
24506508 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.10, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTAGTAGAGAATT
Found at i:24509204 original size:6 final size:6
Alignment explanation
Indices: 24509193--24509259 Score: 52
Period size: 6 Copynumber: 11.5 Consensus size: 6
24509183 CTTGCTCTCT
* * *
24509193 TTTTTC TTTTTC TTTTT- TTTTGC -TTTAC GCTTTTC TTTTTC -TTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC
*
24509239 TTTTT- TTCTTTC TCTTTC TTT
1 TTTTTC TT-TTTC TTTTTC TTT
24509260 CATGATAGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
5 15 0.31
6 29 0.59
7 5 0.10
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:24509245 original size:19 final size:18
Alignment explanation
Indices: 24509223--24509259 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
24509213 TGCTTTACGC
*
24509223 TTTTCTTTTTCTTTTCTTT
1 TTTTCTTTCTC-TTTCTTT
24509242 TTTTCTTTCTCTTTCTTT
1 TTTTCTTTCTCTTTCTTT
24509260 CATGATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTCTTTCTCTTTCTTT
Found at i:24512097 original size:79 final size:78
Alignment explanation
Indices: 24511966--24512123 Score: 235
Period size: 79 Copynumber: 2.0 Consensus size: 78
24511956 CAATGAGTCA
* * *
24511966 TGTCTCTTCATTAGAATCTGATGTAGTTGAAAAGGCATGACATTTCTCCTTAATAAAGACTTATT
1 TGTCTCTTCATTAGAATCTGATATAGCTGAAAAGGAATGACATTTCTCCTTAATAAAGACTTA-T
*
24512031 GTATCCTTAATGTG
65 GTAACCTTAATGTG
* ** *
24512045 TGTCTCTTCATTAGGATCTGATATAGCTGAAAAGGAATGGTATTTCTCCTTAATGAAGACTTATG
1 TGTCTCTTCATTAGAATCTGATATAGCTGAAAAGGAATGACATTTCTCCTTAATAAAGACTTATG
24512110 TAACCTTAATGTG
66 TAACCTTAATGTG
24512123 T
1 T
24512124 TTATTGGTTG
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
78 15 0.21
79 56 0.79
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (78 bp):
TGTCTCTTCATTAGAATCTGATATAGCTGAAAAGGAATGACATTTCTCCTTAATAAAGACTTATG
TAACCTTAATGTG
Found at i:24512490 original size:48 final size:48
Alignment explanation
Indices: 24512374--24512491 Score: 182
Period size: 48 Copynumber: 2.5 Consensus size: 48
24512364 AAAACACTCA
* * *
24512374 TAACAAACAAAACATTTAATAATGCAGATTACTAAACAAAGATGCATT
1 TAACAAACAAAACACTTAATGATGCAGATTACTAAACAAAGACGCATT
* *
24512422 TAACAAACAAAACACTTAATGATGTAGATTATTAAACAAAGACGCATT
1 TAACAAACAAAACACTTAATGATGCAGATTACTAAACAAAGACGCATT
*
24512470 TAACAAACAAAGCACTTAATGA
1 TAACAAACAAAACACTTAATGA
24512492 AGCATAATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (48 bp):
TAACAAACAAAACACTTAATGATGCAGATTACTAAACAAAGACGCATT
Found at i:24518510 original size:79 final size:78
Alignment explanation
Indices: 24518419--24518576 Score: 253
Period size: 79 Copynumber: 2.0 Consensus size: 78
24518409 CAATGACTCA
* *
24518419 TGTCTCTTCATTAGAATCTGATGTAATTGAAAAGGCATGGCATTTCTCCTTAATGAAGACTTATT
1 TGTCTCTTCATTAGAATCTGATGTAACTGAAAAGGCATGACATTTCTCCTTAATGAAGACTTA-T
*
24518484 GTATCCTTAATGTG
65 GTAACCTTAATGTG
* * *
24518498 TGTCTCTTCATTAGGATCTGATGTAGCTGAAAAGGCATGATATTTCTCCTTAATGAAGACTTATG
1 TGTCTCTTCATTAGAATCTGATGTAACTGAAAAGGCATGACATTTCTCCTTAATGAAGACTTATG
24518563 TAACCTTAATGTG
66 TAACCTTAATGTG
24518576 T
1 T
24518577 TTATTGACTG
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 15 0.21
79 58 0.79
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (78 bp):
TGTCTCTTCATTAGAATCTGATGTAACTGAAAAGGCATGACATTTCTCCTTAATGAAGACTTATG
TAACCTTAATGTG
Found at i:24518943 original size:48 final size:48
Alignment explanation
Indices: 24518827--24518954 Score: 184
Period size: 48 Copynumber: 2.6 Consensus size: 48
24518817 AAAACACTCC
* *
24518827 TAACAAACAAAACATTTAATAATGCAAATTACTAAACAAAGATGCAGT
1 TAACAAACAAAACACTTAATGATGCAAATTACTAAACAAAGATGCAGT
* ** *
24518875 TAACAAACAAAACACTTAATGATGCAGATTGTTAAACAAAGATGCATT
1 TAACAAACAAAACACTTAATGATGCAAATTACTAAACAAAGATGCAGT
*
24518923 TAACAAACAAAACACTTAATGAAGCATAATTA
1 TAACAAACAAAACACTTAATGATGCA-AATTA
24518955 AAGAAAAACA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
48 67 0.96
49 3 0.04
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.23
Consensus pattern (48 bp):
TAACAAACAAAACACTTAATGATGCAAATTACTAAACAAAGATGCAGT
Found at i:24524424 original size:18 final size:17
Alignment explanation
Indices: 24524401--24524447 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
24524391 CTAAATTAAC
24524401 AAAAAAAATGTAATGACA
1 AAAAAAAATGTAATGA-A
**
24524419 AAAAAAAATGCGATGAA
1 AAAAAAAATGTAATGAA
*
24524436 AATAAAAATGTA
1 AAAAAAAATGTA
24524448 TGGAATCTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.66, C:0.04, G:0.13, T:0.17
Consensus pattern (17 bp):
AAAAAAAATGTAATGAA
Found at i:24524897 original size:3 final size:3
Alignment explanation
Indices: 24524889--24524929 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
24524879 TTATCACATG
24524889 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTCC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC T
24524930 CTTGGCCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:24527980 original size:26 final size:28
Alignment explanation
Indices: 24527944--24527996 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
24527934 TAGCAAACAT
24527944 TTTTTTCTTCTTT-TCTTTTCTC-TTTTA
1 TTTTTTCTTCTTTCT-TTTTCTCATTTTA
24527971 TTTTTT-TTCTTTCTTTTTCTCATTTT
1 TTTTTTCTTCTTTCTTTTTCTCATTTT
24527997 CCTTTTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (28 bp):
TTTTTTCTTCTTTCTTTTTCTCATTTTA
Found at i:24530320 original size:222 final size:222
Alignment explanation
Indices: 24529934--24530379 Score: 847
Period size: 222 Copynumber: 2.0 Consensus size: 222
24529924 GTCTCCGTAG
24529934 TGCTATGGGTTGAAGGCATGATACGATTGTTGATAAAATGGAACCAGACTTTGCAAAAGGGTGTA
1 TGCTATGGGTTGAAGGCATGATACGATTGTTGATAAAATGGAACCAGACTTTGCAAAAGGGTGTA
*
24529999 AGGTACCTTCTGTGCATTATGTAGTTGTGGAAGCCATTACTAGTCCAAGTGGCTCCATCGATGCA
66 AGGTACCTTCTGTACATTATGTAGTTGTGGAAGCCATTACTAGTCCAAGTGGCTCCATCGATGCA
*
24530064 TAGGTTCTCCATCCTCTATGCCATACTTTCATCGTCCAAACAATGCATAAATGGTGCATGGTCGT
131 TAAGTTCTCCATCCTCTATGCCATACTTTCATCGTCCAAACAATGCATAAATGGTGCATGGTCGT
24530129 CCACTCGCTCCGGAATCCTTAGCAGCA
196 CCACTCGCTCCGGAATCCTTAGCAGCA
24530156 TGCTATGGGTTGAAGGCATGATACGATTGTTGATAAAATGGAACCAGACTTTGCAAAAGGGTGTA
1 TGCTATGGGTTGAAGGCATGATACGATTGTTGATAAAATGGAACCAGACTTTGCAAAAGGGTGTA
*
24530221 AGGTACCTTCTGTACATTATGTAGTTTTGGAAGCCATTACTAGTCCAAGTGGCTCCATCGATGCA
66 AGGTACCTTCTGTACATTATGTAGTTGTGGAAGCCATTACTAGTCCAAGTGGCTCCATCGATGCA
* *
24530286 TAAGTTCTCCATCCTCTGTGCCATACTTTCATCGTCCAAACAATGCGTAAATGGTGCATGGTCGT
131 TAAGTTCTCCATCCTCTATGCCATACTTTCATCGTCCAAACAATGCATAAATGGTGCATGGTCGT
24530351 CCACTCGCTCCGGAATCCTTAGCAGCA
196 CCACTCGCTCCGGAATCCTTAGCAGCA
24530378 TG
1 TG
24530380 TTTATCTATG
Statistics
Matches: 219, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
222 219 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (222 bp):
TGCTATGGGTTGAAGGCATGATACGATTGTTGATAAAATGGAACCAGACTTTGCAAAAGGGTGTA
AGGTACCTTCTGTACATTATGTAGTTGTGGAAGCCATTACTAGTCCAAGTGGCTCCATCGATGCA
TAAGTTCTCCATCCTCTATGCCATACTTTCATCGTCCAAACAATGCATAAATGGTGCATGGTCGT
CCACTCGCTCCGGAATCCTTAGCAGCA
Found at i:24543711 original size:6 final size:6
Alignment explanation
Indices: 24543700--24543737 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
24543690 TATAGCATTT
24543700 TTTTTC TTTTTC TTATTCTC TTTTTC -TTTTC TTTTTC T
1 TTTTTC TTTTTC TT-TT-TC TTTTTC TTTTTC TTTTTC T
24543738 CAAGTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
6 16 0.55
7 4 0.14
8 4 0.14
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:24543729 original size:19 final size:20
Alignment explanation
Indices: 24543700--24543738 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
24543690 TATAGCATTT
24543700 TTTTTCTTTTTCTTATTCTC
1 TTTTTCTTTTTCTTATTCTC
*
24543720 TTTTTC-TTTTCTTTTTCTC
1 TTTTTCTTTTTCTTATTCTC
24543739 AAGTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTCTTTTTCTTATTCTC
Found at i:24546699 original size:21 final size:20
Alignment explanation
Indices: 24546660--24546699 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24546650 TATTCCTGCA
* *
24546660 TAAAATTGAAAAGAAACAAG
1 TAAAAGTGAAAAAAAACAAG
24546680 TAAAAGTGAAAAAAATACAA
1 TAAAAGTGAAAAAAA-ACAA
24546700 AGAAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (20 bp):
TAAAAGTGAAAAAAAACAAG
Found at i:24556228 original size:23 final size:23
Alignment explanation
Indices: 24556201--24556530 Score: 491
Period size: 23 Copynumber: 14.3 Consensus size: 23
24556191 ATCTTAATTC
*
24556201 TTTAAGCACAAATCACTTTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24556224 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24556247 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
24556270 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24556293 TTTTAGCACAAAACATATTAATA
1 TTTAAGCACAAATCACATTAATA
24556316 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
24556339 TTTGAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
24556362 TTTAGGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
24556385 GTTGAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
24556408 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
24556431 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24556454 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
24556477 TTTAAGCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
24556500 TTTAA-CTACAAATCACATTAATA
1 TTTAAGC-ACAAATCACATTAATA
24556523 TTTAAGCA
1 TTTAAGCA
24556531 TGGATATAAG
Statistics
Matches: 272, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
22 1 0.00
23 270 0.99
24 1 0.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:24558679 original size:30 final size:30
Alignment explanation
Indices: 24558615--24558690 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 30
24558605 TCATTTTTTG
* * *
24558615 GAAAAATGAGAGAAATATGCCAATTTTAAA
1 GAAAAATTAGGGAAATAGGCCAATTTTAAA
* **
24558645 GAAAAATTAGGGAATTAGGCCAATTTTATC
1 GAAAAATTAGGGAAATAGGCCAATTTTAAA
*
24558675 G-AAAATTAAGGAAATA
1 GAAAAATTAGGGAAATA
24558691 AGCTTTTTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 13 0.34
30 25 0.66
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (30 bp):
GAAAAATTAGGGAAATAGGCCAATTTTAAA
Found at i:24559807 original size:24 final size:27
Alignment explanation
Indices: 24559760--24559814 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
24559750 TACAAGATAG
24559760 GAAATTGAGAGAATAAGAATTTGAG-A
1 GAAATTGAGAGAATAAGAATTTGAGAA
24559786 GAAATTG-GATGAA-AA-AATTTGAGAA
1 GAAATTGAGA-GAATAAGAATTTGAGAA
24559811 GAAA
1 GAAA
24559815 ATAGTTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.30
25 9 0.33
26 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (27 bp):
GAAATTGAGAGAATAAGAATTTGAGAA
Found at i:24559968 original size:30 final size:30
Alignment explanation
Indices: 24559932--24560060 Score: 100
Period size: 30 Copynumber: 4.3 Consensus size: 30
24559922 TTTTAATTTT
*
24559932 TTAAAAGTTGGAAAAAAAAATTTAGGTCCC
1 TTAAAAGTTGGAAAAAAAAATTTTGGTCCC
* * * **
24559962 TTAAAAGTTGG-TACAAAAATTTTGGGCAT
1 TTAAAAGTTGGAAAAAAAAATTTTGGTCCC
** *
24559991 TTAAAAACT-AAAACAAAAAATTTTTGGTCCC
1 TTAAAAGTTGGAAA-AAAAAA-TTTTGGTCCC
* * * * *
24560022 TTAAAAATTGGTAAAAAATATTTTTGTCCT
1 TTAAAAGTTGGAAAAAAAAATTTTGGTCCC
24560052 TTAAAAGTT
1 TTAAAAGTT
24560061 AAATTTTTTG
Statistics
Matches: 74, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
29 20 0.27
30 32 0.43
31 20 0.27
32 2 0.03
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (30 bp):
TTAAAAGTTGGAAAAAAAAATTTTGGTCCC
Found at i:24566508 original size:3 final size:3
Alignment explanation
Indices: 24566500--24566588 Score: 124
Period size: 3 Copynumber: 29.7 Consensus size: 3
24566490 ACCTACTTCT
* * * * * *
24566500 TTA TTA TTA TTA TCA TCA TCA TCA TCA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24566548 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24566589 TTAACACTCC
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:24569671 original size:30 final size:30
Alignment explanation
Indices: 24569594--24569681 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 30
24569584 AATGTGTATG
*
24569594 ATTGAATCAAAATTAAAGATTCATATATACA
1 ATTGAA-CCAAATTAAAGATTCATATATACA
* *
24569625 TTTGAACCACAATTAAAGATTCATGTATACA
1 ATTGAACCA-AATTAAAGATTCATATATACA
* * *
24569656 ATTGTACTAAATTAAAG-TTTATATAT
1 ATTGAACCAAATTAAAGATTCATATAT
24569682 CAAATTGCAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 7 0.15
30 10 0.21
31 31 0.65
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (30 bp):
ATTGAACCAAATTAAAGATTCATATATACA
Found at i:24571822 original size:52 final size:52
Alignment explanation
Indices: 24571765--24571905 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 52
24571755 ATAAATTAAG
* *
24571765 AGGTCCGATGACTCTGTGTCATCGTGAGTATATGAATCCTTTACGGATTCA-A
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCATTACGGATT-ATA
* * *
24571817 AGGTCCGATGACTTTGTGTCATCGTGAGTATATGAATTCATTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCATTACGGATTATA
* * *
24571869 AGGTCCGATGGCTATGTGTTATCATGAGTATATGAAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAAT
24571906 GGAGAGAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 1 0.01
52 79 0.99
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCATTACGGATTATA
Found at i:24579075 original size:52 final size:52
Alignment explanation
Indices: 24578940--24579136 Score: 247
Period size: 52 Copynumber: 3.8 Consensus size: 52
24578930 TAAGCTGTAA
* * *
24578940 ATTAAGAGGTCCGATGACTCTGTGCCATCGTGAGTATATGAATCCTTTACGA
1 ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAATCCTTTAAGG
* * *
24578992 ATT-A-AGGTCTGATGATTCTGTGTCATTGTGAGTATATGAATCCTTTAAGG
1 ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAATCCTTTAAGG
* *
24579042 ATTAAGAGGTCCGATGACTCTATGTCATCGTGAGTATATGAATTCC-TTATGG
1 ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAA-TCCTTTAAGG
* * ** *
24579094 TTTATGAGGTCCGATGGTTATGTGTCATCGTGAGTATATGAAT
1 ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAAT
24579137 GGAGAGAAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
50 43 0.34
51 3 0.02
52 76 0.61
53 3 0.02
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (52 bp):
ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAATCCTTTAAGG
Found at i:24585850 original size:70 final size:73
Alignment explanation
Indices: 24585735--24585878 Score: 215
Period size: 70 Copynumber: 2.0 Consensus size: 73
24585725 CTCTTATCCT
*
24585735 ATCCTACCCCCTAACTACCCCAAACCCATTTCCCCTAATTTTTTT-A-ATTCT-CCTCCAAAATT
1 ATCCTACCCCCTAACTACCCCAAACCCATTTCCCCTAATTTTTTTAATATTCTCCCTCAAAAATT
24585797 TTACTCCC
66 TTACTCCC
* *
24585805 ATCCTACCCCC-ATCTACCCCAAACCCATTTCCGCCTAATTTTTTTAAATATTTTCCCTCAAAAA
1 ATCCTACCCCCTAACTACCCCAAACCCATTTCC-CCTAATTTTTTT-AATATTCTCCCTCAAAAA
24585869 TTTTACTCCC
64 TTTTACTCCC
24585879 CCATTTACTT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
69 20 0.30
70 23 0.35
72 1 0.02
73 4 0.06
74 18 0.27
ACGTcount: A:0.26, C:0.38, G:0.01, T:0.35
Consensus pattern (73 bp):
ATCCTACCCCCTAACTACCCCAAACCCATTTCCCCTAATTTTTTTAATATTCTCCCTCAAAAATT
TTACTCCC
Found at i:24592153 original size:18 final size:16
Alignment explanation
Indices: 24592120--24592162 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
24592110 TCAAACTTAA
*
24592120 AATAAATATCATAATT
1 AATAATTATCATAATT
24592136 AATAATTATCATTGAATT
1 AATAATTATCA-T-AATT
*
24592154 AATTATTAT
1 AATAATTAT
24592163 TATTATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 10 0.43
17 1 0.04
18 12 0.52
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (16 bp):
AATAATTATCATAATT
Found at i:24607539 original size:2 final size:2
Alignment explanation
Indices: 24607532--24607562 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24607522 TAAAATTTGA
24607532 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24607563 AATTTAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24610920 original size:32 final size:33
Alignment explanation
Indices: 24610881--24610954 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
24610871 GTCAAAGTTG
* * *
24610881 TTTATTTTATTAATTTTATTTTGA-TTAAATT-
1 TTTATTTTACTAATTTCATTTTGACTAAAATTA
*
24610912 TGTTATTTTCCTAATTTCATTTTGACTAAAATTA
1 T-TTATTTTACTAATTTCATTTTGACTAAAATTA
24610946 TTTATTTTA
1 TTTATTTTA
24610955 AGTAAATAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 1 0.03
32 20 0.57
33 13 0.37
34 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.62
Consensus pattern (33 bp):
TTTATTTTACTAATTTCATTTTGACTAAAATTA
Found at i:24617898 original size:12 final size:12
Alignment explanation
Indices: 24617881--24617937 Score: 57
Period size: 12 Copynumber: 4.9 Consensus size: 12
24617871 AAAAGAAAAA
24617881 AAAAAGAAAGGG
1 AAAAAGAAAGGG
*
24617893 AAAAAGAGAA--A
1 AAAAAGA-AAGGG
24617904 AAAAAG-AAGGG
1 AAAAAGAAAGGG
*
24617915 AAAAAGAGAGGG
1 AAAAAGAAAGGG
*
24617927 AAAAAGGAAGG
1 AAAAAGAAAGG
24617938 AAATATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 2 0.06
11 12 0.33
12 20 0.56
13 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGGG
Found at i:24617930 original size:22 final size:23
Alignment explanation
Indices: 24617871--24617923 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
24617861 CGATTCAAGC
*
24617871 AAAAGAAAAAAAAAAGAAAGGGA
1 AAAAGAGAAAAAAAAGAAAGGGA
24617894 AAAAGAGAAAAAAAAG-AAGGGA
1 AAAAGAGAAAAAAAAGAAAGGGA
24617916 AAAAGAGA
1 AAAAGAGA
24617924 GGGAAAAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (23 bp):
AAAAGAGAAAAAAAAGAAAGGGA
Found at i:24626830 original size:3 final size:3
Alignment explanation
Indices: 24626822--24626855 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
24626812 ATTCCTCTAT
24626822 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24626856 AAGGTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24629916 original size:6 final size:6
Alignment explanation
Indices: 24629905--24629931 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24629895 TCTATCCCCA
24629905 GCATGG GCATGG GCATGG GCATGG GCA
1 GCATGG GCATGG GCATGG GCATGG GCA
24629932 GAGCAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.48, T:0.15
Consensus pattern (6 bp):
GCATGG
Found at i:24636025 original size:7 final size:7
Alignment explanation
Indices: 24636021--24636051 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
24636011 TATCATATAT
24636021 TATATTA
1 TATATTA
24636028 TATATTA
1 TATATTA
24636035 TATATTA
1 TATATTA
24636042 TATATT-
1 TATATTA
24636048 TATA
1 TATA
24636052 AAAAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATTA
Found at i:24636032 original size:14 final size:13
Alignment explanation
Indices: 24636010--24636051 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
24636000 AGTATAAATC
*
24636010 ATATCATATA-TT
1 ATATTATATATTT
24636022 ATATTATATATTAT
1 ATATTATATATT-T
24636036 ATATTATATATTT
1 ATATTATATATTT
24636049 ATA
1 ATA
24636052 AAAAATAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 9 0.33
13 5 0.19
14 13 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTATATATTT
Found at i:24636984 original size:71 final size:73
Alignment explanation
Indices: 24636860--24637042 Score: 201
Period size: 78 Copynumber: 2.5 Consensus size: 73
24636850 GCGGAAATTG
* * * * *
24636860 TGCTGCTCACACAAACTGTCGAGAATTCGCAATACATGTTGGATCTCAACCA-T-T-GCTAAATA
1 TGCTGCTCACTCAAACTGTCGAGAATCCACAAT-TATATTGGATCTCAACCATTATCGCTAAATA
24636922 ATAATTCGA
65 ATAATTCGA
* * *
24636931 TGTTGCTCACTCAAACTGTCGAGAATCCACAACTTATATTGGATCTTAGCCATTGTGAATCGCTA
1 TGCTGCTCACTCAAACTGTCGAGAATCCACAA-TTATATTGGATCTCAACCA-T-T--ATCGCTA
24636996 AATAATAATTCGA
61 AATAATAATTCGA
* *
24637009 TGCTGCTCACTCAAGCTGTCGATAATCCACAATT
1 TGCTGCTCACTCAAACTGTCGAGAATCCACAATT
24637043 TATGCTAGAT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
71 42 0.45
72 1 0.01
74 1 0.01
77 3 0.03
78 46 0.49
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (73 bp):
TGCTGCTCACTCAAACTGTCGAGAATCCACAATTATATTGGATCTCAACCATTATCGCTAAATAA
TAATTCGA
Found at i:24637054 original size:78 final size:78
Alignment explanation
Indices: 24636914--24637061 Score: 224
Period size: 78 Copynumber: 1.9 Consensus size: 78
24636904 CTCAACCATT
* * * *
24636914 GCTAAATAATAATTCGATGTTGCTCACTCAAACTGTCGAGAATCCACAACTTATATTGGATCTTA
1 GCTAAATAATAATTCGATGCTGCTCACTCAAACTGTCGAGAATCCACAACTTATACTAGATCTCA
24636979 GCCATTGTGAATC
66 GCCATTGTGAATC
* * * *
24636992 GCTAAATAATAATTCGATGCTGCTCACTCAAGCTGTCGATAATCCACAATTTATGCTAGATCTCA
1 GCTAAATAATAATTCGATGCTGCTCACTCAAACTGTCGAGAATCCACAACTTATACTAGATCTCA
24637057 GCCAT
66 GCCAT
24637062 CGGATGAATC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (78 bp):
GCTAAATAATAATTCGATGCTGCTCACTCAAACTGTCGAGAATCCACAACTTATACTAGATCTCA
GCCATTGTGAATC
Found at i:24638088 original size:21 final size:21
Alignment explanation
Indices: 24638062--24638102 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24638052 TGGCAATTTT
*
24638062 CCTTTTGTTTAAGTTTTAATA
1 CCTTTTATTTAAGTTTTAATA
*
24638083 CCTTTTATTTAATTTTTAAT
1 CCTTTTATTTAAGTTTTAAT
24638103 TTAATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.61
Consensus pattern (21 bp):
CCTTTTATTTAAGTTTTAATA
Found at i:24639361 original size:488 final size:488
Alignment explanation
Indices: 24638445--24639423 Score: 1931
Period size: 488 Copynumber: 2.0 Consensus size: 488
24638435 GTCGATACTC
24638445 TTATACCTTAAATAACTATCCACTTAACAAATTCATCAAACCAAAATCTAATATAATAATATAAT
1 TTATACCTTAAATAACTATCCACTTAACAAATTCATCAAACCAAAATCTAATATAATAATATAAT
24638510 TAACTCATAAATATTATTCAATAATATTTAAGGACTAGATCATCAGAGAACGGAGTTCCAAAATC
66 TAACTCATAAATATTATTCAATAATATTTAAGGACTAGATCATCAGAGAACGGAGTTCCAAAATC
24638575 ACCGTTTTCGACACCACTGAAAATTGTGTTGTTATAATTTGACAAATTTCTTCAACCATGTAAAT
131 ACCGTTTTCGACACCACTGAAAATTGTGTTGTTATAATTTGACAAATTTCTTCAACCATGTAAAT
24638640 TTCACCCAATTTCCAACGCGTTCATTCTCTTTCTTGTCTAACGAAGCACCCAACAAGCAATGACA
196 TTCACCCAATTTCCAACGCGTTCATTCTCTTTCTTGTCTAACGAAGCACCCAACAAGCAATGACA
24638705 TAATGGCTCCAGGTTGATATAACTATTTTCGGTTATCACTTGTTTGTCAATTTGAAAATCAGTTA
261 TAATGGCTCCAGGTTGATATAACTATTTTCGGTTATCACTTGTTTGTCAATTTGAAAATCAGTTA
24638770 TTAAGGCGACATCTTCCGATGTTATAGTCGCTTCCCTGCATGAAAAATGAATTGTATGTATTTCG
326 TTAAGGCGACATCTTCCGATGTTATAGTCGCTTCCCTGCATGAAAAATGAATTGTATGTATTTCG
24638835 GCCTCCATCTTTCTAGCAAGGAGGCAAGCAACAACAATATCATTTCAAACTTGATTATTGCATAT
391 GCCTCCATCTTTCTAGCAAGGAGGCAAGCAACAACAATATCATTTCAAACTTGATTATTGCATAT
24638900 ATCGTTAATAAACCAATCCTCTTTAAGTGGTCT
456 ATCGTTAATAAACCAATCCTCTTTAAGTGGTCT
* *
24638933 TTATACCTTAAATAATTGTCCACTTAACAAATTCATCAAACCAAAATCTAATATAATAATATAAT
1 TTATACCTTAAATAACTATCCACTTAACAAATTCATCAAACCAAAATCTAATATAATAATATAAT
24638998 TAACTCATAAATATTATTCAATAATATTTAAGGACTAGATCATCAGAGAACGGAGTTCCAAAATC
66 TAACTCATAAATATTATTCAATAATATTTAAGGACTAGATCATCAGAGAACGGAGTTCCAAAATC
*
24639063 ACCGTTTTCGACATCACTGAAAATTGTGTTGTTATAATTTGACAAATTTCTTCAACCATGTAAAT
131 ACCGTTTTCGACACCACTGAAAATTGTGTTGTTATAATTTGACAAATTTCTTCAACCATGTAAAT
24639128 TTCACCCAATTTCCAACGCGTTCATTCTCTTTCTTGTCTAACGAAGCACCCAACAAGCAATGACA
196 TTCACCCAATTTCCAACGCGTTCATTCTCTTTCTTGTCTAACGAAGCACCCAACAAGCAATGACA
24639193 TAATGGCTCCAGGTTGATATAACTATTTTCGGTTATCACTTGTTTGTCAATTTGAAAATCAGTTA
261 TAATGGCTCCAGGTTGATATAACTATTTTCGGTTATCACTTGTTTGTCAATTTGAAAATCAGTTA
24639258 TTAAGGCGACATCTTCCGATGTTATAGTCGCTTCCCTGCATGAAAAATGAATTGTATGTATTTCG
326 TTAAGGCGACATCTTCCGATGTTATAGTCGCTTCCCTGCATGAAAAATGAATTGTATGTATTTCG
24639323 GCCTCCATCTTTCTAGCAAGGAGGCAAGCAACAACAATATCATTTCAAACTTGATTATTGCATAT
391 GCCTCCATCTTTCTAGCAAGGAGGCAAGCAACAACAATATCATTTCAAACTTGATTATTGCATAT
24639388 ATCGTTAATAAACCAATCCTCTTTAAGTGGTCT
456 ATCGTTAATAAACCAATCCTCTTTAAGTGGTCT
24639421 TTA
1 TTA
24639424 GTACGTCCAT
Statistics
Matches: 488, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
488 488 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (488 bp):
TTATACCTTAAATAACTATCCACTTAACAAATTCATCAAACCAAAATCTAATATAATAATATAAT
TAACTCATAAATATTATTCAATAATATTTAAGGACTAGATCATCAGAGAACGGAGTTCCAAAATC
ACCGTTTTCGACACCACTGAAAATTGTGTTGTTATAATTTGACAAATTTCTTCAACCATGTAAAT
TTCACCCAATTTCCAACGCGTTCATTCTCTTTCTTGTCTAACGAAGCACCCAACAAGCAATGACA
TAATGGCTCCAGGTTGATATAACTATTTTCGGTTATCACTTGTTTGTCAATTTGAAAATCAGTTA
TTAAGGCGACATCTTCCGATGTTATAGTCGCTTCCCTGCATGAAAAATGAATTGTATGTATTTCG
GCCTCCATCTTTCTAGCAAGGAGGCAAGCAACAACAATATCATTTCAAACTTGATTATTGCATAT
ATCGTTAATAAACCAATCCTCTTTAAGTGGTCT
Found at i:24641107 original size:29 final size:29
Alignment explanation
Indices: 24641070--24641128 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
24641060 CAAACATCAG
*
24641070 TAGTGCCTCATAAGTATCTCAAAATCCAC
1 TAGTACCTCATAAGTATCTCAAAATCCAC
24641099 TAGTACCTCATAAGTATCTCAAAATCCAC
1 TAGTACCTCATAAGTATCTCAAAATCCAC
24641128 T
1 T
24641129 GAACTGCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.27, G:0.08, T:0.29
Consensus pattern (29 bp):
TAGTACCTCATAAGTATCTCAAAATCCAC
Found at i:24641755 original size:20 final size:20
Alignment explanation
Indices: 24641667--24641757 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
24641657 ATTATATTGT
24641667 TGTTTTGGTGCTATTTTTTTAC
1 TGTTTTGGTGC--TTTTTTTAC
* *
24641689 TGTTTTAGTTGTTGTTTTTTAC
1 TGTTTT-GGTGCT-TTTTTTAC
* *
24641711 T-TTTTTGTG-TTCTTTTAC
1 TGTTTTGGTGCTTTTTTTAC
24641729 TGTTTTGGTGCTTTTTTTAC
1 TGTTTTGGTGCTTTTTTTAC
24641749 TGTTTTGGT
1 TGTTTTGGT
24641758 TGTTATTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
18 8 0.14
19 8 0.14
20 19 0.33
21 5 0.09
22 15 0.26
23 3 0.05
ACGTcount: A:0.07, C:0.08, G:0.19, T:0.67
Consensus pattern (20 bp):
TGTTTTGGTGCTTTTTTTAC
Found at i:24641822 original size:55 final size:55
Alignment explanation
Indices: 24641769--24641875 Score: 171
Period size: 55 Copynumber: 1.9 Consensus size: 55
24641759 GTTATTTTTG
*
24641769 TGTTGTTTTGCTATTATTTTTGTTGCTGCTTTT-GTTGCTATTTTTGTTGTTTTTAA
1 TGTTG-TTTGCTATTATTTTTGCTGCTG-TTTTGGTTGCTATTTTTGTTGTTTTTAA
*
24641825 TGTTGTTTGCTATTATTTTTGCTGCTGTTTTGGTTGTTATTTTTGTTGTTT
1 TGTTGTTTGCTATTATTTTTGCTGCTGTTTTGGTTGCTATTTTTGTTGTTT
24641876 GGTTGTTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
54 4 0.08
55 39 0.81
56 5 0.10
ACGTcount: A:0.07, C:0.07, G:0.20, T:0.66
Consensus pattern (55 bp):
TGTTGTTTGCTATTATTTTTGCTGCTGTTTTGGTTGCTATTTTTGTTGTTTTTAA
Found at i:24649024 original size:17 final size:17
Alignment explanation
Indices: 24649002--24649035 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24648992 AATTCATTTC
24649002 CAAATTGAATAATTAAT
1 CAAATTGAATAATTAAT
*
24649019 CAAATTTAATAATTAAT
1 CAAATTGAATAATTAAT
24649036 ATTATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (17 bp):
CAAATTGAATAATTAAT
Found at i:24651636 original size:7 final size:7
Alignment explanation
Indices: 24651624--24651666 Score: 86
Period size: 7 Copynumber: 6.1 Consensus size: 7
24651614 TCCTCGTAAC
24651624 GAATGCT
1 GAATGCT
24651631 GAATGCT
1 GAATGCT
24651638 GAATGCT
1 GAATGCT
24651645 GAATGCT
1 GAATGCT
24651652 GAATGCT
1 GAATGCT
24651659 GAATGCT
1 GAATGCT
24651666 G
1 G
24651667 TATGTCAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (7 bp):
GAATGCT
Found at i:24667865 original size:3 final size:3
Alignment explanation
Indices: 24667857--24667887 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
24667847 ATACAACAGA
*
24667857 TAG TAG TAG TAG TAG TAA TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG T
24667888 TCTGAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (3 bp):
TAG
Found at i:24667928 original size:15 final size:17
Alignment explanation
Indices: 24667897--24667928 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
24667887 TTCTGAAAAT
24667897 TCTAGTAATAGTATAAA
1 TCTAGTAATAGTATAAA
24667914 TCTAG-AATA-TATAAA
1 TCTAGTAATAGTATAAA
24667929 GGTCAAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.34
Consensus pattern (17 bp):
TCTAGTAATAGTATAAA
Found at i:24672529 original size:16 final size:15
Alignment explanation
Indices: 24672508--24672537 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24672498 CAAAGCAGAA
24672508 AAAATTTGTGTGAAAG
1 AAAATTTGT-TGAAAG
24672524 AAAATTTGTTGAAA
1 AAAATTTGTTGAAA
24672538 ACACAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
AAAATTTGTTGAAAG
Found at i:24676392 original size:18 final size:18
Alignment explanation
Indices: 24676369--24676403 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24676359 ACCGACCCCG
24676369 ACCGAATTCAA-TCGATTA
1 ACCGAATT-AATTCGATTA
24676387 ACCGAATTAATTCGATT
1 ACCGAATTAATTCGATT
24676404 TTACCCGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (18 bp):
ACCGAATTAATTCGATTA
Found at i:24676499 original size:21 final size:24
Alignment explanation
Indices: 24676464--24676506 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
24676454 CTCTTATTCC
24676464 CTATAAAAGAATATTA-TATTTTT
1 CTATAAAAGAATATTATTATTTTT
24676487 CTAT-AAA-AATATTATTATTT
1 CTATAAAAGAATATTATTATTT
24676507 AATTACCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (24 bp):
CTATAAAAGAATATTATTATTTTT
Found at i:24677487 original size:41 final size:41
Alignment explanation
Indices: 24677442--24677527 Score: 172
Period size: 41 Copynumber: 2.1 Consensus size: 41
24677432 TTTCTATGTT
24677442 TAATAGACTTAAAATTATTACAAGGTTATGTAAGGTAATAA
1 TAATAGACTTAAAATTATTACAAGGTTATGTAAGGTAATAA
24677483 TAATAGACTTAAAATTATTACAAGGTTATGTAAGGTAATAA
1 TAATAGACTTAAAATTATTACAAGGTTATGTAAGGTAATAA
24677524 TAAT
1 TAAT
24677528 TTTGGTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.35
Consensus pattern (41 bp):
TAATAGACTTAAAATTATTACAAGGTTATGTAAGGTAATAA
Found at i:24684883 original size:22 final size:24
Alignment explanation
Indices: 24684858--24684907 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
24684848 ATAATATCAC
24684858 ATATTTTTT-A-AAAATCAAATAT
1 ATATTTTTTAATAAAATCAAATAT
24684880 ATATTTTTTGAATTAAAATCAAATAT
1 ATATTTTTT-AA-TAAAATCAAATAT
24684906 AT
1 AT
24684908 TTATGAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.38
24 1 0.04
26 14 0.58
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
ATATTTTTTAATAAAATCAAATAT
Found at i:24685498 original size:22 final size:22
Alignment explanation
Indices: 24685473--24685523 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
24685463 CATTATGAGA
* * *
24685473 ATTAAAATATAATTTTTATATT
1 ATTAAAATAAAATTTATAAATT
**
24685495 ATTAATTTAAAATTTATAAATT
1 ATTAAAATAAAATTTATAAATT
24685517 ATTAAAA
1 ATTAAAA
24685524 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTAAAATAAAATTTATAAATT
Found at i:24686207 original size:99 final size:100
Alignment explanation
Indices: 24686099--24686301 Score: 221
Period size: 99 Copynumber: 2.0 Consensus size: 100
24686089 AGCATATTAA
* ** * *
24686099 AAATGGCATAATGACAAAATTAATTTATAATATTTGAGTGTTTGATAATTTTGATCC-TTAAAGT
1 AAATGGCATAACGACAAAATTAATCCATAACATTTGAGTGTTTGATAATTTTG-GCCTTTAAAGT
* * *
24686163 TTTTTTAAATCACTTTTATATATAATTTTTTTTGTC
65 TTTTTTAAATCACTTTCATACATAATTTTTTTGGTC
* * * * ** * *
24686199 AAAT-GCATAACGATAAAATTAATCCCTAACGTTTGGGTGTTTTTTCATTTTGGCCTTTATAGTT
1 AAATGGCATAACGACAAAATTAATCCATAACATTTGAGTGTTTGATAATTTTGGCCTTTAAAGTT
* *
24686263 TTTTTGACTCACTTTCATACATAATTTTTTTGGTC
66 TTTTTAAATCACTTTCATACATAATTTTTTTGGTC
24686298 AAAT
1 AAAT
24686302 TGATCATTTT
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
98 2 0.02
99 78 0.93
100 4 0.05
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (100 bp):
AAATGGCATAACGACAAAATTAATCCATAACATTTGAGTGTTTGATAATTTTGGCCTTTAAAGTT
TTTTTAAATCACTTTCATACATAATTTTTTTGGTC
Found at i:24686463 original size:9 final size:9
Alignment explanation
Indices: 24686445--24686497 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
24686435 GTCAGCAAAT
24686445 AATT-TTAA
1 AATTATTAA
24686453 AATTATTAA
1 AATTATTAA
24686462 AATTATT--
1 AATTATTAA
24686469 --TT-TTAA
1 AATTATTAA
24686475 AA-TA-TAA
1 AATTATTAA
24686482 AATTATTAA
1 AATTATTAA
24686491 AATTATT
1 AATTATT
24686498 TTTTTGAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
4 2 0.05
5 2 0.05
7 6 0.16
8 6 0.16
9 21 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTATTAA
Found at i:24686469 original size:20 final size:20
Alignment explanation
Indices: 24686441--24686497 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
24686431 TCAAGTCAGC
*
24686441 AAATAATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
24686461 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
24686481 AAATTA--TTAAAATTATT
1 AAATTATTTTAAAATTATT
24686498 TTTTTGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 1 0.03
20 13 0.41
21 2 0.06
22 8 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:24686492 original size:29 final size:31
Alignment explanation
Indices: 24686450--24686522 Score: 123
Period size: 29 Copynumber: 2.4 Consensus size: 31
24686440 CAAATAATTT
24686450 TAAAATTATTAAAATTA-TTTTTTAAAAT-A
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
*
24686479 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
24686510 TAAAATTATTAAA
1 TAAAATTATTAAA
24686523 TAATTTTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 17 0.41
30 10 0.24
31 14 0.34
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTTTTTAAAATAA
Found at i:24686529 original size:30 final size:29
Alignment explanation
Indices: 24686450--24686529 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
24686440 CAAATAATTT
*
24686450 TAAAATTATTAAA-ATTATTTTTTAAAATA
1 TAAAATTATTAAATAAT-TTTTTTAAAATA
* *
24686479 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATT-AAATAATTTTTTTAAAAT-A
24686510 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATAATTTT
24686530 AATTTTCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 10 0.23
30 22 0.50
31 12 0.27
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TAAAATTATTAAATAATTTTTTTAAAATA
Found at i:24687233 original size:9 final size:9
Alignment explanation
Indices: 24687219--24687287 Score: 62
Period size: 9 Copynumber: 8.2 Consensus size: 9
24687209 TATTTCAAAA
24687219 AATAATTTT
1 AATAATTTT
24687228 AATAATTTT
1 AATAATTTT
24687237 AAAATAATTTT
1 --AATAATTTT
*
24687248 AGTAATTTT
1 AATAATTTT
24687257 -AT-ATTTT
1 AATAATTTT
24687264 AA-AA----
1 AATAATTTT
24687268 AATAATTTT
1 AATAATTTT
24687277 AATAATTTT
1 AATAATTTT
24687286 AA
1 AA
24687288 AATCATTTGC
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
7 5 0.10
8 3 0.06
9 28 0.57
11 9 0.18
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (9 bp):
AATAATTTT
Found at i:24687239 original size:49 final size:48
Alignment explanation
Indices: 24687186--24687295 Score: 166
Period size: 49 Copynumber: 2.2 Consensus size: 48
24687176 AAATTGGAAA
*
24687186 TTAAAATTATTTAATAATTTTATTATTTCAAAAAATAATTTTAATAATT
1 TTAAAATAATTTAATAATTTTA-TATTTCAAAAAATAATTTTAATAATT
* *
24687235 TTAAAATAATTTTAGTAATTTTATATTTTAAAAAATAATTTTAATAATT
1 TTAAAATAA-TTTAATAATTTTATATTTCAAAAAATAATTTTAATAATT
*
24687284 TTAAAATCATTT
1 TTAAAATAATTT
24687296 GCTGACGTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
48 3 0.05
49 41 0.73
50 12 0.21
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (48 bp):
TTAAAATAATTTAATAATTTTATATTTCAAAAAATAATTTTAATAATT
Found at i:24687240 original size:21 final size:21
Alignment explanation
Indices: 24687198--24687257 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
24687188 AAAATTATTT
* *
24687198 AATAATTTT-ATTATTTCAAAA
1 AATAATTTTAATAATTT-TAAA
24687219 AATAATTTTAATAATTTT-AA
1 AATAATTTTAATAATTTTAAA
*
24687239 AATAATTTTAGTAATTTTA
1 AATAATTTTAATAATTTTA
24687258 TATTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 19 0.56
21 9 0.26
22 6 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
AATAATTTTAATAATTTTAAA
Found at i:24687254 original size:29 final size:29
Alignment explanation
Indices: 24687219--24687287 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
24687209 TATTTCAAAA
24687219 AATAATTTTAATAATTTT-AAAATAATTTT
1 AATAATTTTAAT-ATTTTAAAAATAATTTT
*
24687248 AGTAATTTT-ATATTTTAAAAAATAATTTT
1 AATAATTTTAATATTTT-AAAAATAATTTT
24687277 AATAATTTTAA
1 AATAATTTTAA
24687288 AATCATTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.14
28 2 0.06
29 27 0.77
30 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
AATAATTTTAATATTTTAAAAATAATTTT
Found at i:24687273 original size:20 final size:22
Alignment explanation
Indices: 24687250--24687289 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24687240 ATAATTTTAG
24687250 TAATTTT-AT-ATTTTAAAAAA
1 TAATTTTAATAATTTTAAAAAA
24687270 TAATTTTAATAATTTTAAAA
1 TAATTTTAATAATTTTAAAA
24687290 TCATTTGCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATTTTAATAATTTTAAAAAA
Found at i:24687290 original size:20 final size:20
Alignment explanation
Indices: 24687217--24687257 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24687207 ATTATTTCAA
24687217 AAAATAATTTTAATAATTTT
1 AAAATAATTTTAATAATTTT
*
24687237 AAAATAATTTTAGTAATTTT
1 AAAATAATTTTAATAATTTT
24687257 A
1 A
24687258 TATTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
AAAATAATTTTAATAATTTT
Found at i:24689645 original size:24 final size:24
Alignment explanation
Indices: 24689618--24689682 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
24689608 AATAATTTGA
24689618 TGATGGTAATGAAGGTGGTGAGGG
1 TGATGGTAATGAAGGTGGTGAGGG
* *
24689642 TGATGGTAATAAAGGTGGTGATGG
1 TGATGGTAATGAAGGTGGTGAGGG
* **
24689666 TGAGGGTGTTGAAGGTG
1 TGATGGTAATGAAGGTG
24689683 AGGGTGAGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.25, C:0.00, G:0.48, T:0.28
Consensus pattern (24 bp):
TGATGGTAATGAAGGTGGTGAGGG
Found at i:24689673 original size:15 final size:15
Alignment explanation
Indices: 24689655--24689688 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24689645 TGGTAATAAA
*
24689655 GGTGGTGATGGTGAG
1 GGTGGTGAAGGTGAG
*
24689670 GGTGTTGAAGGTGAG
1 GGTGGTGAAGGTGAG
24689685 GGTG
1 GGTG
24689689 AGGGTGGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.59, T:0.26
Consensus pattern (15 bp):
GGTGGTGAAGGTGAG
Found at i:24689922 original size:33 final size:34
Alignment explanation
Indices: 24689885--24689961 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 34
24689875 AGGATGTTGA
* * *
24689885 TGTTGTTGTTAG-TGAAGGTGTTGAGGGT-CAGGG
1 TGTTGATGTTAGCTGAAGGT-TTAAGGGTGAAGGG
*
24689918 TGTTGAGGTT-GCTGAAGGTTTAAGGGTGAAGGG
1 TGTTGATGTTAGCTGAAGGTTTAAGGGTGAAGGG
24689951 TGTTGATGTTA
1 TGTTGATGTTA
24689962 CTGTTAGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.18, C:0.03, G:0.43, T:0.36
Consensus pattern (34 bp):
TGTTGATGTTAGCTGAAGGTTTAAGGGTGAAGGG
Found at i:24692807 original size:25 final size:25
Alignment explanation
Indices: 24692777--24692827 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
24692767 TAAGATTCAA
* *
24692777 AATTTTTTTATACA-ACATTCAGAG
1 AATTTTTTTAGACATACATTCAAAG
24692801 AATTTTTTTAGACATACATTCAAAG
1 AATTTTTTTAGACATACATTCAAAG
24692826 AA
1 AA
24692828 AATTCAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (25 bp):
AATTTTTTTAGACATACATTCAAAG
Found at i:24693095 original size:19 final size:19
Alignment explanation
Indices: 24693041--24693098 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
24693031 TATTTAGTTG
*
24693041 TTTATTTTGACATTTAATTTA
1 TTTA-TTTGTCATTT-ATTTA
* * **
24693062 TTGATTTTTTGTTTATTTA
1 TTTATTTGTCATTTATTTA
24693081 TTTATTTGTCATTTATTT
1 TTTATTTGTCATTTATTT
24693099 TCATGTCTTA
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
19 19 0.68
20 6 0.21
21 3 0.11
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69
Consensus pattern (19 bp):
TTTATTTGTCATTTATTTA
Found at i:24693180 original size:12 final size:12
Alignment explanation
Indices: 24693159--24693187 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24693149 AGCATTTAAT
24693159 TTTA-TTTTTTG
1 TTTATTTTTTTG
24693170 TTTATTTTTTTG
1 TTTATTTTTTTG
24693182 TTTATT
1 TTTATT
24693188 ATTTATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTATTTTTTTG
Found at i:24693199 original size:97 final size:100
Alignment explanation
Indices: 24693021--24693202 Score: 282
Period size: 97 Copynumber: 1.9 Consensus size: 100
24693011 TTCTTTTTTA
24693021 TTATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTGATTTTTTGTTTATTTATTTAT
1 TTATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTGATTTTTTGTTTATTTATTTAT
*
24693086 TTGTCATTTATTTTCATGTCTTATCCCAATTATTT
66 TTATCATTTATTTTCATGTCTTATCCCAATTATTT
* * *
24693121 TTATTATTTATATTTATTTGTTTATTTT-AGCATTTAA-TT-TT-ATTTTTTGTTTATTTTTTTG
1 TTATTATTTATATTTAGTTGTTTATTTTGA-CATTTAATTTATTGATTTTTTGTTTATTTATTTA
*
24693182 TTTATTATTTATTTTCATGTC
65 TTTATCATTTATTTTCATGTC
24693203 ATTTAATTGT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
97 37 0.49
98 2 0.03
99 3 0.04
100 34 0.45
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (100 bp):
TTATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTGATTTTTTGTTTATTTATTTAT
TTATCATTTATTTTCATGTCTTATCCCAATTATTT
Found at i:24693642 original size:14 final size:13
Alignment explanation
Indices: 24693625--24693654 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
24693615 GATTGTCTTC
24693625 ATTTAATTATTTAT
1 ATTTAATTATTT-T
24693639 ATTTAATTATTTT
1 ATTTAATTATTTT
24693652 ATT
1 ATT
24693655 ATTTTGCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTAATTATTTT
Found at i:24694856 original size:4 final size:4
Alignment explanation
Indices: 24694847--24694904 Score: 116
Period size: 4 Copynumber: 14.5 Consensus size: 4
24694837 TTATTGCTTC
24694847 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
24694895 TACA TACA TA
1 TACA TACA TA
24694905 ACAAATGCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:24695490 original size:3 final size:3
Alignment explanation
Indices: 24695482--24695510 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
24695472 GGCCCAAATT
24695482 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
24695511 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:24695515 original size:3 final size:3
Alignment explanation
Indices: 24695509--24695538 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24695499 CATCATCATC
24695509 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24695539 TTAATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24696220 original size:144 final size:142
Alignment explanation
Indices: 24695973--24696479 Score: 643
Period size: 143 Copynumber: 3.5 Consensus size: 142
24695963 TGTTTTGGGT
* * * **
24695973 TTTTTTTAA-TAATTTTGAAATAAAAGGTTTGATTTTTTTAAGCAAAATAAT-ATTTT-TAAAAA
1 TTTTTTTAACT-ATTTCGAAATAAAA-GTTTGA--TTTTTAAGTAAAATAGTGATTTTCT--TTA
* * *
24696035 AAAGAGAAAGTTTAGATTTCTAAAAAATAAAAATCTGTTTTTTAATTATTTTAAAGAAAAAGTTT
60 AAAGAGAAAGTTTATATTT-TAAAAAATAAAAATATGTTTTTTAGTTATTTTAAAGAAAAAGTTT
24696100 AAATTTTTACAAAGTTTTGA
124 AAATTTTTACAAA-TTTTGA
*
24696120 TTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTTTAGGTAAAATAGTGATTTT-TTTAAAAGA
1 TTTTTTTAACTATTTCGAAATAAAAGTTT-GATTTTTAAGTAAAATAGTGATTTTCTTTAAAAGA
* *
24696184 GAAAGTTTATATTTTTAAAAATAAAAATATGTTTTTTAGTTATTCTAAAGAAAAAGTTTAAATTT
65 GAAAGTTTATATTTTAAAAAATAAAAATATGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTT
*
24696249 TAACGAAATTTTGA
130 TTAC-AAATTTTGA
* * *
24696263 TTTTTTTAACTATTTCGAAATAAAAATTTGAATTTATAAGTAAAATAATGATTTTCTTTAAAAAA
1 TTTTTTTAACTATTTCGAAATAAAAGTTTG-ATTTTTAAGTAAAATAGTGATTTTCTTT--AAAA
24696328 GAGAAAGTTTATATTTTAAAAAATAAAAATTTAT-TTTTTTAGTTATTTT-AA-AAAAAGTTTAA
63 GAGAAAGTTTATATTTTAAAAAATAAAAA--TATGTTTTTTAGTTATTTTAAAGAAAAAGTTTAA
24696390 ATTTTTAACAAAATTTTGA
126 ATTTTT-AC-AAATTTTGA
24696409 TTTTTTTCTAACTATTTCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTCTTTAAAA
1 -TTTTTT-TAACTATTTCGAAATAAAAGTTT-GATTTTTAAGTAAAATAGTGATTTTCTTTAAAA
24696474 -AGAAAG
63 GAGAAAG
24696480 AGCTTTTTTT
Statistics
Matches: 323, Mismatches: 23, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
142 1 0.00
143 105 0.33
144 25 0.08
145 36 0.11
146 59 0.18
147 44 0.14
148 52 0.16
149 1 0.00
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (142 bp):
TTTTTTTAACTATTTCGAAATAAAAGTTTGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAGAG
AAAGTTTATATTTTAAAAAATAAAAATATGTTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTT
TACAAATTTTGA
Found at i:24696360 original size:22 final size:23
Alignment explanation
Indices: 24696319--24696366 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
24696309 AATGATTTTC
*
24696319 TTTAAAAAAGAGAAAGTTTATAT
1 TTTAAAAAAGAGAAAATTTATAT
* *
24696342 TTTAAAAAATA-AAAATTTATTT
1 TTTAAAAAAGAGAAAATTTATAT
24696364 TTT
1 TTT
24696367 TAGTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (23 bp):
TTTAAAAAAGAGAAAATTTATAT
Found at i:24696367 original size:23 final size:24
Alignment explanation
Indices: 24696313--24696368 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
24696303 TAAAATAATG
*
24696313 ATTTTCTTTAAAAAAGAGAAAGTTT
1 ATTTT-TTTAAAAAAGAGAAAATTT
* *
24696338 A-TATTTTAAAAAATA-AAAATTT
1 ATTTTTTTAAAAAAGAGAAAATTT
24696360 ATTTTTTTA
1 ATTTTTTTA
24696369 GTTATTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 7 0.27
23 16 0.62
24 2 0.08
25 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (24 bp):
ATTTTTTTAAAAAAGAGAAAATTT
Found at i:24696583 original size:123 final size:122
Alignment explanation
Indices: 24696361--24696588 Score: 377
Period size: 123 Copynumber: 1.9 Consensus size: 122
24696351 TAAAAATTTA
*
24696361 TTTTTTTAGTTATTTTAAAAAAAGTTTAAATTTTTAACAAAATTTTGATTTTTTTCTAACTATTT
1 TTTTTTTAGTTATTTTAAAAAAAATTTAAATTTTTAACAAAATTTTGATTTTTTTCTAACTATTT
* *
24696426 CGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAAGAAAGAGC
66 CGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAAGAAAGAGC
* *
24696483 TTTTTTTAGTTATTTTAAAGAAAAAATTTAAATTTTTAACAAAGTTTTGATTTTTTT-TAATTAT
1 TTTTTTTAGTTATTTT-AA-AAAAAATTTAAATTTTTAACAAAATTTTGATTTTTTTCTAACTAT
*
24696547 TTCGAAATAAAAATTTAGATTTTTAAGTAAATTAGTGATTTT
64 TTCGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGATTTT
24696589 TGTTTAATCA
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
122 16 0.16
123 47 0.48
124 35 0.36
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.49
Consensus pattern (122 bp):
TTTTTTTAGTTATTTTAAAAAAAATTTAAATTTTTAACAAAATTTTGATTTTTTTCTAACTATTT
CGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAAGAAAGAGC
Found at i:24696629 original size:123 final size:123
Alignment explanation
Indices: 24696361--24696630 Score: 354
Period size: 123 Copynumber: 2.2 Consensus size: 123
24696351 TAAAAATTTA
*
24696361 TTTTTTTAGTTA-TTTTAAAAAAAGTTTAAATTTTTAACAAAATTTTGATTTTTTTCTAACTATT
1 TTTTTTTAGTTATTTTTGAAAAAAGTTTAAATTTTTAACAAAATTTTGATTTTTTTCTAACTATT
* *
24696425 TCGAAATAAAAGTTTGGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAAGAAAGAGC
66 TCGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAAGAAAGAGC
* * *
24696483 TTTTTTTAGTTATTTTAAAGAAAAAA-TTTAAATTTTTAACAAAGTTTTGATTTTTTT-TAATTA
1 TTTTTTTAGTTATTTT--TGAAAAAAGTTTAAATTTTTAACAAAATTTTGATTTTTTTCTAACTA
* *
24696546 TTTCGAAATAAAAATTTAGATTTTTAAGTAAATTAGTGATTTTTGTTTAATCAAATG-AA-A-C
64 TTTCGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGA-TTTTCTTTAA--AAA-GAAAGAGC
*
24696607 TTTTATTTATTTATTTTTGAAAAA
1 TTTT-TTTAGTTATTTTTGAAAAA
24696631 GAAGAAAAAA
Statistics
Matches: 130, Mismatches: 10, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
122 12 0.09
123 50 0.38
124 44 0.34
125 18 0.14
126 5 0.04
127 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (123 bp):
TTTTTTTAGTTATTTTTGAAAAAAGTTTAAATTTTTAACAAAATTTTGATTTTTTTCTAACTATT
TCGAAATAAAAATTTAGATTTTTAAGTAAAATAGTGATTTTCTTTAAAAAGAAAGAGC
Found at i:24698056 original size:241 final size:238
Alignment explanation
Indices: 24697626--24698109 Score: 765
Period size: 241 Copynumber: 2.0 Consensus size: 238
24697616 AAATCTCTTA
*
24697626 AAATCATAATAATGATAAAAGATCGAATAAGTTGTAGATAAATTTTAATATTTCTCTTAATTCAT
1 AAATCAGAATAATGATAAAAGATCGAATAAGTTGTAGATAAATTTTAATATTTCTCTTAATTCAT
* * *
24697691 TAGTAACTTTTAGCCTTTTTTTTAGGATTTTAAAATAGAATTAATTTTAAAAATTGAATGTATTT
66 TAGTAACTTTTAG-CGTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAAAATTGAAAGTATTT
** *
24697756 TACTAGAATTATTTAGGTATTTTTTAGGGTTCTTATTAGGAGTAAAAATCTCTAATTTAAGTTTT
130 TACTAGAATTATTTAGGTATCCTTTAGGGTTCTTATTAGAAGTAAAAATCTCTAATTTAAGTTTT
* * * *
24697821 AAATTAGATAAGTTTA-GTGAATACGTTTTAGTCAAGTTACAAGT
195 AAATTAGATAAG-TTAGGTGAACACGTCTTAATCAAATTACAAGT
*
24697865 AAATCAGAGTAATGATAAAAGATCGAATAAGTTGTAGATAAATTTTAATATTTCTCTTAATTCAT
1 AAATCAGAATAATGATAAAAGATCGAATAAGTTGTAGATAAATTTTAATATTTCTCTTAATTCAT
*
24697930 TAGTAAATTTTTTTAG-GTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAAGAATTGAAAGTA
66 TAGT-AA--CTTTTAGCGTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAA-AATTGAAAGTA
*
24697994 TTTTACTAGAATTATTTAGGTATCCTTTAGGGTTCTTATTAGAAGTAAAAATCTTTAATTTAAGT
127 TTTTACTAGAATTATTTAGGTATCCTTTAGGGTTCTTATTAGAAGTAAAAATCTCTAATTTAAGT
*
24698059 TTTAAATTAGATAAGTTAGGTGAACATGTCTTAATCAAATTACAAGT
192 TTTAAATTAGATAAGTTAGGTGAACACGTCTTAATCAAATTACAAGT
24698106 AAAT
1 AAAT
24698110 TGGAGGCATT
Statistics
Matches: 225, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
239 67 0.30
240 39 0.17
241 113 0.50
242 6 0.03
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.42
Consensus pattern (238 bp):
AAATCAGAATAATGATAAAAGATCGAATAAGTTGTAGATAAATTTTAATATTTCTCTTAATTCAT
TAGTAACTTTTAGCGTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAAAATTGAAAGTATTTT
ACTAGAATTATTTAGGTATCCTTTAGGGTTCTTATTAGAAGTAAAAATCTCTAATTTAAGTTTTA
AATTAGATAAGTTAGGTGAACACGTCTTAATCAAATTACAAGT
Found at i:24704904 original size:48 final size:45
Alignment explanation
Indices: 24704849--24705055 Score: 148
Period size: 48 Copynumber: 4.2 Consensus size: 45
24704839 CGAAGTACTG
*
24704849 AACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACAGAAGTGCT---CAACAGAGAGCACACAAAGTGCTA
*
24704897 AACAGAGAGTACACA-AAGTACTGAGCACACAAAGTACTGAGCACACAAAGTGCTA
1 AACAGAGAG--CACAGAAGTGCT---CA-AC--AG-A--GAGCACACAAAGTGCTA
* * *
24704952 ATCAGAGAGCACACGAAGTGCT-AATCGGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACA-GAAGTGCTCAA-CAGAGAGCACACAAAGTGCT-A
* * *
24704999 TAACAGAGAGCACGAGACGTGCTAAACAGAGAGCACACACAGTGCTA
1 -AACAGAGAGCAC-AGAAGTGCTCAACAGAGAGCACACAAAGTGCTA
*
24705046 ATCAGAGAGC
1 AACAGAGAGC
24705056 GCGCTAGTGT
Statistics
Matches: 134, Mismatches: 10, Indels: 32
0.76 0.06 0.18
Matches are distributed among these distances:
46 24 0.18
47 2 0.01
48 47 0.35
49 14 0.10
50 7 0.05
51 2 0.01
52 2 0.01
53 5 0.04
55 31 0.23
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (45 bp):
AACAGAGAGCACAGAAGTGCTCAACAGAGAGCACACAAAGTGCTA
Done.