Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 84 of 205
Found at i:24989489 original size:22 final size:21
Alignment explanation
Indices: 24989445--24989490 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
24989435 TCATTCCCCC
24989445 TTTCCTCAAAAACATTCATCT
1 TTTCCTCAAAAACATTCATCT
*
24989466 TTTCCTCAAAAACATTCATCC
1 TTTCCTCAAAAACATTCATCT
24989487 TTTC
1 TTTC
24989491 GGTGAATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTCCTCAAAAACATTCATCT
Found at i:24999844 original size:67 final size:67
Alignment explanation
Indices: 24999736--24999867 Score: 237
Period size: 67 Copynumber: 2.0 Consensus size: 67
24999726 GTTTATATTA
*
24999736 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTATAAGAAATGAGATTCGCGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTATAAGAAATGAGATTCGCGCGAGTGTGCTCTCT
24999801 TG
66 TG
* *
24999803 CAGGGGATTTAGCCTGGATTGGTAATCCCGCTATAAGAAATGAGGTTCGCGCGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTATAAGAAATGAGATTCGCGCGAGTGTGCTCTCT
24999868 GAATTAGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (67 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGCTATAAGAAATGAGATTCGCGCGAGTGTGCTCTCT
TG
Found at i:25005026 original size:50 final size:51
Alignment explanation
Indices: 25004936--25005069 Score: 164
Period size: 50 Copynumber: 2.6 Consensus size: 51
25004926 AAAGTGATGG
* * * *
25004936 TCACTTGTGTAGTAATATGTGCAGGCTACTACGCGTACCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATAGA
* * * *
25004986 TCGCATGTGCAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATAGA
*
25005037 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
25005070 TGAACCGAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
50 37 0.52
51 33 0.46
52 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATAGA
Found at i:25005129 original size:45 final size:45
Alignment explanation
Indices: 25005073--25005164 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
25005063 TACTATGTGA
* * * *
25005073 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTATTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTACTATGTACTGAATCC
*
25005118 ACCGGACATCATTGATTAATAAGGTGGTTACTATGTACTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTACTATGTACTGAATCC
25005163 AC
1 AC
25005165 TGAGTATCTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTACTATGTACTGAATCC
Found at i:25005237 original size:23 final size:22
Alignment explanation
Indices: 25005211--25005254 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
25005201 AATTGACTAA
25005211 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
25005234 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
25005255 CAACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:25012177 original size:13 final size:13
Alignment explanation
Indices: 25012150--25012221 Score: 74
Period size: 13 Copynumber: 5.5 Consensus size: 13
25012140 ATTCATTTAA
* *
25012150 CATTTCACATTTC
1 CATTTCAAATATC
25012163 CATTTCAAGA-ATC
1 CATTTCAA-ATATC
25012176 CATTTCAAATATC
1 CATTTCAAATATC
* *
25012189 CATTTTCATATAAC
1 CA-TTTCAAATATC
*
25012203 CATTTCATATATC
1 CATTTCAAATATC
25012216 CATTTC
1 CATTTC
25012222 CACCTAATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
12 1 0.02
13 38 0.75
14 12 0.24
ACGTcount: A:0.32, C:0.25, G:0.01, T:0.42
Consensus pattern (13 bp):
CATTTCAAATATC
Found at i:25012205 original size:27 final size:27
Alignment explanation
Indices: 25012141--25012220 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
25012131 CCATCACATA
* * *
25012141 TTCATTTAA-CATTTCACATTTCCA-T
1 TTCATATAACCATTTCAAATATCCATT
*
25012166 TTCA-AGAATCCATTTCAAATATCCATT
1 TTCATATAA-CCATTTCAAATATCCATT
*
25012193 TTCATATAACCATTTCATATATCCATT
1 TTCATATAACCATTTCAAATATCCATT
25012220 T
1 T
25012221 CCACCTAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 2 0.04
25 4 0.09
26 13 0.29
27 23 0.51
28 3 0.07
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.44
Consensus pattern (27 bp):
TTCATATAACCATTTCAAATATCCATT
Found at i:25012299 original size:25 final size:25
Alignment explanation
Indices: 25012265--25012333 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
25012255 ACACGGGAAT
* *
25012265 AATGCTCACACAATCTATGACGTTA
1 AATGCTCACACAAGCTATGACGGTA
* *
25012290 AATGCTCACACGAGCTGTGACGGTA
1 AATGCTCACACAAGCTATGACGGTA
*
25012315 AATGCTCACACAAGTTATG
1 AATGCTCACACAAGCTATG
25012334 GGTTAGGATG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (25 bp):
AATGCTCACACAAGCTATGACGGTA
Found at i:25014255 original size:23 final size:22
Alignment explanation
Indices: 25014223--25014298 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 22
25014213 AATTTTCATG
* *
25014223 CGTGCAAGTGATAGTGACACTT
1 CGTGCAAGTGACAGTGGCACTT
25014245 CGATGCAAGTGACAGTGGCACTCT
1 CG-TGCAAGTGACAGTGGCACT-T
* *
25014269 TGTGCAAGTGACAATGGCACTT
1 CGTGCAAGTGACAGTGGCACTT
25014291 CGGTGCAA
1 C-GTGCAA
25014299 ATTATTTATT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.07
23 41 0.89
24 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (22 bp):
CGTGCAAGTGACAGTGGCACTT
Found at i:25018869 original size:21 final size:21
Alignment explanation
Indices: 25018845--25018904 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
25018835 CTGTAGAATT
*
25018845 CAAATCATGCTTAGCA-AATAA
1 CAAATCATACTTAGCATAAT-A
* *
25018866 CAAAGCATACTTAACATAATA
1 CAAATCATACTTAGCATAATA
*
25018887 CAGATCATACTTAGCATA
1 CAAATCATACTTAGCATA
25018905 TAGCATATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 29 0.91
22 3 0.09
ACGTcount: A:0.47, C:0.20, G:0.08, T:0.25
Consensus pattern (21 bp):
CAAATCATACTTAGCATAATA
Found at i:25018935 original size:24 final size:25
Alignment explanation
Indices: 25018890--25018937 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
25018880 CATAATACAG
* *
25018890 ATCATACTTAGCATATAGCATATTA
1 ATCATACGTAGCATAAAGCATATTA
*
25018915 ATCATACGTA-CATAAATCATATT
1 ATCATACGTAGCATAAAGCATATT
25018938 TAGCACTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (25 bp):
ATCATACGTAGCATAAAGCATATTA
Found at i:25022764 original size:27 final size:27
Alignment explanation
Indices: 25022733--25022818 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
25022723 CTAATAGATG
*
25022733 AAAATGACAAAAATACCCCCATAGGGT
1 AAAATGACAGAAATACCCCCATAGGGT
* * * *
25022760 AAAATAACTGAAATACTCCCATAAGGT
1 AAAATGACAGAAATACCCCCATAGGGT
25022787 AAAATGA-ATGAAATACCCCCATAGGGT
1 AAAATGACA-GAAATACCCCCATAGGGT
25022814 AAAAT
1 AAAAT
25022819 TACTATTATA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.19
Consensus pattern (27 bp):
AAAATGACAGAAATACCCCCATAGGGT
Found at i:25022832 original size:27 final size:27
Alignment explanation
Indices: 25022743--25022818 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
25022733 AAAATGACAA
25022743 AAATACCCCCATAGGGTAAAATAACTG
1 AAATACCCCCATAGGGTAAAATAACTG
* *
25022770 AAATACTCCCATAAGGTAAAATGAA-TG
1 AAATACCCCCATAGGGTAAAAT-AACTG
25022797 AAATACCCCCATAGGGTAAAAT
1 AAATACCCCCATAGGGTAAAAT
25022819 TACTATTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 42 0.95
28 2 0.05
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATAACTG
Found at i:25022844 original size:54 final size:54
Alignment explanation
Indices: 25022677--25022847 Score: 163
Period size: 54 Copynumber: 3.1 Consensus size: 54
25022667 CCAAAATAGG
* * * * * * *
25022677 TAAAATAACCAAAATACCCCTAAAGGGTAAAATGAA-TATTTTACCTCTAATAGA
1 TAAAATGACAAAAATACCCCCATAGGGTAAAAT-AACTATTATACCCCTAAGAGA
*
25022731 TGAAAATGACAAAAATACCCCCATAGGGTAAAATAACTGA-AATACTCCCATAAG-G-
1 T-AAAATGACAAAAATACCCCCATAGGGTAAAATAACT-ATTATAC-CCC-TAAGAGA
* *
25022786 TAAAATGA-ATGAAATACCCCCATAGGGTAAAATTACTATTATACCCCTAAGAGA
1 TAAAATGACA-AAAATACCCCCATAGGGTAAAATAACTATTATACCCCTAAGAGA
25022840 TAAAATGA
1 TAAAATGA
25022848 TTGTTATGGC
Statistics
Matches: 97, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
52 4 0.04
53 6 0.06
54 47 0.48
55 33 0.34
56 4 0.04
57 3 0.03
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (54 bp):
TAAAATGACAAAAATACCCCCATAGGGTAAAATAACTATTATACCCCTAAGAGA
Found at i:25023225 original size:28 final size:28
Alignment explanation
Indices: 25023184--25023251 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
25023174 TTATTGCACT
25023184 ACACTGTTACTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
*
25023212 ACACTGTTATTGTATTGGGCTAAGGCCC
1 ACACTGTTACTGTATTGGGCTAAGGCCC
25023240 ACACTG-TACTGT
1 ACACTGTTACTGT
25023252 CACTGAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 5 0.13
28 33 0.87
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (28 bp):
ACACTGTTACTGTATTGGGCTAAGGCCC
Found at i:25024261 original size:16 final size:18
Alignment explanation
Indices: 25024234--25024266 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25024224 TTTGAGGTAT
25024234 ATATCTATGAAA-TGATA
1 ATATCTATGAAAGTGATA
25024251 ATATC-ATGAAAGTGAT
1 ATATCTATGAAAGTGAT
25024267 TATGGTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (18 bp):
ATATCTATGAAAGTGATA
Found at i:25025885 original size:31 final size:30
Alignment explanation
Indices: 25025840--25025908 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
25025830 ATAATCACTT
*
25025840 TAATATTAAATTAATA-AAATATTATTAAGA
1 TAATATTAAATTAATATAAA-ATTATTAAAA
* *
25025870 TAAGTATTAATTTAATATTAAATTATTAAAA
1 TAA-TATTAAATTAATATAAAATTATTAAAA
25025901 TAATATTA
1 TAATATTA
25025909 TTTTTGGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.24
31 24 0.71
32 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TAATATTAAATTAATATAAAATTATTAAAA
Found at i:25027839 original size:15 final size:15
Alignment explanation
Indices: 25027816--25027857 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
25027806 TTTAATTTTA
*
25027816 AAATGTAACACCAAC
1 AAATGTAACAACAAC
*
25027831 AAATTTAACAACAAC
1 AAATGTAACAACAAC
*
25027846 AAAAGT-ACAACA
1 AAATGTAACAACA
25027858 TTAACAATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.60, C:0.21, G:0.05, T:0.14
Consensus pattern (15 bp):
AAATGTAACAACAAC
Found at i:25028612 original size:13 final size:13
Alignment explanation
Indices: 25028594--25028646 Score: 97
Period size: 13 Copynumber: 4.1 Consensus size: 13
25028584 AATTCTTCAT
25028594 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
25028607 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
25028620 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
25028633 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
25028646 T
1 T
25028647 TTGGTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:25044992 original size:23 final size:24
Alignment explanation
Indices: 25044965--25045019 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
25044955 AAAAAAGAGG
* *
25044965 GAAAGAAAGGAGAAGAAGGAG-AA
1 GAAAGAAAGGAAAAGAAGAAGAAA
25044988 GAAAGAAAGGAAAAGAAGAAGAAA
1 GAAAGAAAGGAAAAGAAGAAGAAA
25045012 GAAAGAAA
1 GAAAGAAA
25045020 AAGAGAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (24 bp):
GAAAGAAAGGAAAAGAAGAAGAAA
Found at i:25045026 original size:16 final size:20
Alignment explanation
Indices: 25044965--25045036 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
25044955 AAAAAAGAGG
*
25044965 GAAAGAAAGGAGAAGAAGGAGAA
1 GAAAGAAA-G-GAA-AAGAAGAA
25044988 GAAAGAAAGGAAAAGAAGAA
1 GAAAGAAAGGAAAAGAAGAA
*
25045008 GAAAGAAAGAAAAAG-AGAAA
1 GAAAGAAAGGAAAAGAAG-AA
25045028 GAAA-AAAGG
1 GAAAGAAAGG
25045037 TAATTAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 6 0.13
20 27 0.60
21 3 0.07
22 1 0.02
23 8 0.18
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGGAAAAGAAGAA
Found at i:25045304 original size:106 final size:107
Alignment explanation
Indices: 25045075--25045532 Score: 494
Period size: 107 Copynumber: 4.1 Consensus size: 107
25045065 TAATTTTTTA
* * *
25045075 TTTAGTTTAGTGTTTTGTGATTTGTTATGAAAGTAAATTTTTTATTTTTTAATTATTTTAAAGTT
1 TTTAGTTTAGTGTTTTGTGATTTCTTATGAATGTAAATTTTTTGTTTTTTAATTATTTTAAAGTT
* *
25045140 ATTTTTGTTAGTAATGTT-TTATTAGGTTATAAATTGTTTGTG
66 AATTTTGTTAGTAAT-TTATGATTAGGTTATAAATTGTTTGTG
* * * * * *
25045182 TTGAATTTAGTGTTTTGTGAATTT-TTATTAATTTACATTTTTTGTTTTCTTAATTATTTTATA-
1 TTTAGTTTAGTGTTTTGTG-ATTTCTTATGAATGTAAATTTTTTGTTTT-TTAATTATTTTAAAG
* *
25045245 TTAATTTTGTTAGTAATTT-TGATTATGTTATAAATTATTTGTG
64 TTAATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
*
25045288 TTTAGTTTAGTGTTTTGTGATTTCTTATGAATGTAATTTTTTTGTATTTTTAAATTATTTTAAAG
1 TTTAGTTTAGTGTTTTGTGATTTCTTATGAATGTAAATTTTTTGT-TTTTT-AATTATTTTAAAG
* * *
25045353 TT-ATTTTGCTATTAATTTATGGTTAGGTTATAAATTGTTTGTGTGTG
64 TTAATTTTGTTAGTAATTTATGATTAGGTTATAAATTG--T-T-TGTG
* * *
25045400 TTTAGTTTAATGTTTATTGTGATTTTTTATGAATGTAAAATTTTTTGTTTTTTTGTTTTTAATTG
1 TTTAGTTTAGTG-TT-TTGTGATTTCTTATGAATGT-AAATTTTTTG------T-TTTTTAATTA
* * *
25045465 TTTGAAAGTTTATTTTATTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
56 TTTTAAAGTTAATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
*
25045517 TTTAGTTTAGTATTTT
1 TTTAGTTTAGTGTTTT
25045533 TTAAATTAAT
Statistics
Matches: 294, Mismatches: 36, Indels: 34
0.81 0.10 0.09
Matches are distributed among these distances:
105 4 0.01
106 59 0.20
107 80 0.27
108 34 0.12
110 1 0.00
111 1 0.00
112 15 0.05
113 2 0.01
114 19 0.06
115 11 0.04
116 2 0.01
117 14 0.05
118 1 0.00
119 1 0.00
120 13 0.04
121 37 0.13
ACGTcount: A:0.24, C:0.01, G:0.15, T:0.60
Consensus pattern (107 bp):
TTTAGTTTAGTGTTTTGTGATTTCTTATGAATGTAAATTTTTTGTTTTTTAATTATTTTAAAGTT
AATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
Found at i:25045631 original size:75 final size:75
Alignment explanation
Indices: 25045469--25045642 Score: 314
Period size: 75 Copynumber: 2.3 Consensus size: 75
25045459 TAATTGTTTG
*
25045469 AAAGTTTATTTTATTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTATTTTT
1 AAAG-TTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTATTTTT
25045534 TAAATTAATTT
65 TAAATTAATTT
25045545 AAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTATTTTTT
1 AAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTATTTTTT
25045610 AAATTAATTT
66 AAATTAATTT
*
25045620 AAAGTTATTTTGTTA-TAAATTAT
1 AAAGTTATTTTGTTAGTAATTTAT
25045643 TTGTTTAATT
Statistics
Matches: 96, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
74 7 0.07
75 85 0.89
76 4 0.04
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (75 bp):
AAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTATTTTTT
AAATTAATTT
Found at i:25045986 original size:11 final size:12
Alignment explanation
Indices: 25045959--25045988 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25045949 ATTATGAGAT
*
25045959 TTTTTTATTGTG
1 TTTTTTACTGTG
25045971 TTTTTTACTGTG
1 TTTTTTACTGTG
25045983 TTTTTT
1 TTTTTT
25045989 GTTACTCGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.03, G:0.13, T:0.77
Consensus pattern (12 bp):
TTTTTTACTGTG
Found at i:25048137 original size:32 final size:32
Alignment explanation
Indices: 25048101--25048163 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
25048091 AATAAATAAG
* *
25048101 GAGGGCTTACAAGGCAATTAATCACATTTAAA
1 GAGGGCTTACAAAGCAATTAACCACATTTAAA
* *
25048133 GAGGGCTTATAAAGCAATTAGCCACATTTAA
1 GAGGGCTTACAAAGCAATTAACCACATTTAA
25048164 GGTTTGTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (32 bp):
GAGGGCTTACAAAGCAATTAACCACATTTAAA
Found at i:25048226 original size:29 final size:29
Alignment explanation
Indices: 25048189--25048261 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
25048179 AAAATGGAAA
25048189 ATTTCAGTTATTAATCTTGTGGGCATGCC
1 ATTTCAGTTATTAATCTTGTGGGCATGCC
*
25048218 ATTTTAGTTATTAATCTTGTGGGCATGCC
1 ATTTCAGTTATTAATCTTGTGGGCATGCC
25048247 ATTTCAGTTATTAAT
1 ATTTCAGTTATTAAT
25048262 TTTATTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (29 bp):
ATTTCAGTTATTAATCTTGTGGGCATGCC
Found at i:25053995 original size:25 final size:25
Alignment explanation
Indices: 25053949--25054007 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
25053939 CTTAAAATAA
*
25053949 AATAATATATAAAGTAACTTAAAAC
1 AATAATATATAAAGCAACTTAAAAC
* * * *
25053974 AATAATCTATGAAGCAATTTAAAAT
1 AATAATATATAAAGCAACTTAAAAC
25053999 AATAATATA
1 AATAATATA
25054008 CAAATTTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.31
Consensus pattern (25 bp):
AATAATATATAAAGCAACTTAAAAC
Found at i:25054028 original size:20 final size:21
Alignment explanation
Indices: 25053989--25054029 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25053979 TCTATGAAGC
25053989 AATTTAAAATAATAATATACA
1 AATTTAAAATAATAATATACA
* *
25054010 AATTTAACATTAT-ATATACA
1 AATTTAAAATAATAATATACA
25054030 TATATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTTAAAATAATAATATACA
Found at i:25054138 original size:14 final size:15
Alignment explanation
Indices: 25054114--25054145 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
25054104 TGGCTTAACT
25054114 AAATAATATATGAAA
1 AAATAATATATGAAA
25054129 AAAT-ATATATGAAA
1 AAATAATATATGAAA
25054143 AAA
1 AAA
25054146 GGTATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (15 bp):
AAATAATATATGAAA
Found at i:25056316 original size:20 final size:20
Alignment explanation
Indices: 25056272--25056318 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
25056262 TATTGGTTAT
*
25056272 ATTTT-TATATTTAAAATTT
1 ATTTTATATATTTAAAATTA
*
25056291 AGTTTATATATTT-AAATTAA
1 ATTTTATATATTTAAAATT-A
25056311 ATTTTATA
1 ATTTTATA
25056319 AATAATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTTTATATATTTAAAATTA
Found at i:25056318 original size:18 final size:19
Alignment explanation
Indices: 25056274--25056318 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25056264 TTGGTTATAT
* *
25056274 TTTTATATTTAAAATTTAG
1 TTTTATATTTAAAATTAAA
25056293 TTTATATATTT-AAATTAAA
1 TTT-TATATTTAAAATTAAA
25056312 TTTTATA
1 TTTTATA
25056319 AATAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 4 0.17
19 12 0.52
20 7 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTATATTTAAAATTAAA
Found at i:25056352 original size:25 final size:25
Alignment explanation
Indices: 25056318--25056365 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25056308 TAAATTTTAT
* *
25056318 AAATAATTAATATTTATTTTTTAAA
1 AAATAATTAAAATTTATATTTTAAA
*
25056343 AAATATTTAAAATTTATATTTTA
1 AAATAATTAAAATTTATATTTTA
25056366 TATATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
AAATAATTAAAATTTATATTTTAAA
Found at i:25058327 original size:16 final size:17
Alignment explanation
Indices: 25058306--25058343 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
25058296 AATTATTATG
*
25058306 TAAATTATAT-AAATAT
1 TAAATTATATCAAAAAT
*
25058322 TAAATTATGTCAAAAAT
1 TAAATTATATCAAAAAT
25058339 TAAAT
1 TAAAT
25058344 ATAGAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (17 bp):
TAAATTATATCAAAAAT
Found at i:25059058 original size:23 final size:24
Alignment explanation
Indices: 25058999--25059060 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
25058989 TCTAAATAAA
* *
25058999 AAATAAAAAATAATATTTAATTAT
1 AAATAAATAATAATATTAAATTAT
* *
25059023 ATTAGTAATTAATAATA-TAAATTAT
1 A--AATAAATAATAATATTAAATTAT
25059048 AAATAAATAATAA
1 AAATAAATAATAA
25059061 ACTTTAAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
23 10 0.33
24 1 0.03
25 8 0.27
26 11 0.37
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATAATAATATTAAATTAT
Found at i:25059081 original size:27 final size:28
Alignment explanation
Indices: 25059051--25059108 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
25059041 AAATTATAAA
*
25059051 TAAATAATAAACTTTAAATC-TAAATAT
1 TAAATAATAAACCTTAAATCATAAATAT
* *
25059078 TAAATACTAAACCTTAAATCATATATAT
1 TAAATAATAAACCTTAAATCATAAATAT
25059106 TAA
1 TAA
25059109 TTTAAAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.36
Consensus pattern (28 bp):
TAAATAATAAACCTTAAATCATAAATAT
Found at i:25059087 original size:14 final size:14
Alignment explanation
Indices: 25059051--25059096 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
25059041 AAATTATAAA
*
25059051 TAAATAATAAACTT
1 TAAATACTAAACTT
25059065 TAAAT-CTAAA-TAT
1 TAAATACTAAACT-T
*
25059078 TAAATACTAAACCT
1 TAAATACTAAACTT
25059092 TAAAT
1 TAAAT
25059097 CATATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 1 0.04
13 10 0.37
14 16 0.59
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAATACTAAACTT
Found at i:25075694 original size:48 final size:47
Alignment explanation
Indices: 25075637--25075922 Score: 185
Period size: 48 Copynumber: 5.9 Consensus size: 47
25075627 GGAGCAGGGT
* *
25075637 CACTTTACCACCTTCCGTAAGCCTTTCCCCATGCGTGTGGGAGTAGGT
1 CACTTTACCACCTTCCGTAAGCCTCT-CCCATGCGTGTGGGAGTAGGC
* ** * * * ** *
25075685 CACTCTACCACCTTCTATAAGCCTCTCCTATGCGTCTTGGAACAAGAC
1 CACTTTACCACCTTCCGTAAGCCTCTCCCATGCGT-GTGGGAGTAGGC
* * * * *
25075733 CACTTTACCACATTCTGTAAACCTTTTCCCATGCGTGTGGGAGTAGGT
1 CACTTTACCACCTTCCGTAAGCC-TCTCCCATGCGTGTGGGAGTAGGC
* * ** ** * * * **
25075781 CACTCTACTACCTTCTTTAAGCCTCTCCTTTGTGTCTAGGAACAGGGC
1 CACTTTACCACCTTCCGTAAGCCTCTCCCATGCGTGTGGGAGTA-GGC
* * * * * * *
25075829 CACTTTATCACCTTCCGTAAGCCTCTCCTCAGGTGTCTGAGAGCAATGC
1 CACTTTACCACCTTCCGTAAGCCTCTCC-CATGCGTGTGGGAG-TAGGC
* *
25075878 CACTTTACCACCTTCCGTAAACCTTTTCCCATGCGTGTGGGAGTA
1 CACTTTACCACCTTCCGTAAGCC-TCTCCCATGCGTGTGGGAGTA
25075923 AGACATTTGG
Statistics
Matches: 174, Mismatches: 58, Indels: 12
0.71 0.24 0.05
Matches are distributed among these distances:
47 21 0.12
48 97 0.56
49 51 0.29
50 5 0.03
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.30
Consensus pattern (47 bp):
CACTTTACCACCTTCCGTAAGCCTCTCCCATGCGTGTGGGAGTAGGC
Found at i:25075802 original size:96 final size:96
Alignment explanation
Indices: 25075637--25075848 Score: 307
Period size: 96 Copynumber: 2.2 Consensus size: 96
25075627 GGAGCAGGGT
* *
25075637 CACTTTACCACCTTCCGTAAGCCTTTCCCCATGCGTGTGGGAGTAGGTCACTCTACCACCTTCTA
1 CACTTTACCACATTCCGTAAACCTTTCCCCATGCGTGTGGGAGTAGGTCACTCTACCACCTTCTA
*
25075702 TAAGCCTCTCCTATGCGTCTTGGAACAAGAC
66 TAAGCCTCTCCTATGCGTCTAGGAACAAGAC
* * * *
25075733 CACTTTACCACATTCTGTAAACCTTTTCCCATGCGTGTGGGAGTAGGTCACTCTACTACCTTCTT
1 CACTTTACCACATTCCGTAAACCTTTCCCCATGCGTGTGGGAGTAGGTCACTCTACCACCTTCTA
* * * *
25075798 TAAGCCTCTCCTTTGTGTCTAGGAACAGGGC
66 TAAGCCTCTCCTATGCGTCTAGGAACAAGAC
* *
25075829 CACTTTATCACCTTCCGTAA
1 CACTTTACCACATTCCGTAA
25075849 GCCTCTCCTC
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 102 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (96 bp):
CACTTTACCACATTCCGTAAACCTTTCCCCATGCGTGTGGGAGTAGGTCACTCTACCACCTTCTA
TAAGCCTCTCCTATGCGTCTAGGAACAAGAC
Found at i:25076231 original size:23 final size:23
Alignment explanation
Indices: 25076205--25076256 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
25076195 AAGCTATATT
*
25076205 CAAACAGTAAGTGA-ACTTGTTTG
1 CAAACAGTAAG-CATACTTGTTTG
*
25076228 CAAACATTAAGCATACTTGTTTG
1 CAAACAGTAAGCATACTTGTTTG
*
25076251 CGAACA
1 CAAACA
25076257 TGATTGAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (23 bp):
CAAACAGTAAGCATACTTGTTTG
Found at i:25077564 original size:3 final size:3
Alignment explanation
Indices: 25077558--25077589 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
25077548 TGTTTCAAGC
*
25077558 TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25077590 TTTAATTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:25077830 original size:16 final size:17
Alignment explanation
Indices: 25077788--25077834 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
25077778 TTTTTCAATC
*
25077788 TAAAATATATTTTTATTA
1 TAAAATATA-TTTAATTA
*
25077806 TACAA-ATATTTAATTA
1 TAAAATATATTTAATTA
25077822 -AAAATATATTTAA
1 TAAAATATATTTAA
25077835 CATAATGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 15 0.60
17 3 0.12
18 4 0.16
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATATATTTAATTA
Found at i:25086113 original size:275 final size:272
Alignment explanation
Indices: 25085625--25086142 Score: 784
Period size: 275 Copynumber: 1.9 Consensus size: 272
25085615 AATGAGCTAC
* * * * *
25085625 TTACAGAATCACGTCTACGTAAAGAAGGAACACAACATGCTTTTGATAATGTTGACCTTACCAAG
1 TTACAGAATCACGTCTACCTAAAGAAGCAACACAACATACTTTTGATAATGTTGACATTACCAAC
* * * * ** *
25085690 CATGATGCGGGTGAGTTCCATGATGCTGATTCTGATCAGCAATGGCGGCAAGTATTTAAACCCTT
66 CATGATGCAGGTAAGTTCAATGATGCTGATACTGATCAGCAATGGCAACAAGTATTTAAACCATT
** * *
25085755 CTACAATGGTGAAGATGGTGCGTTATCAAAGCTTGAAGAAAACTCGTCATGGTTCTCTGGATACG
131 CTACAATGGTGAAGATCATGAGTTATCAAAGCTTGAAGAAAACTCGTCATGGTTCTCCGGATACG
25085820 ATCGTTGCAATATTTAGATCACATTTAACTGCAGAATCATGTATGTATTATTAGTAATAGTTTCT
196 ATCGTTGCAATATTTAGATCACATTTAACTGCAGAATCATGTATGTATTATTAGTAATAGTTTCT
25085885 CTCACGTTTTAT
261 CTCACGTTTTAT
* * * * *
25085897 TTACAGAATCATGTGTACCTAAAGAAGCAATACAACATACTTTTGATAATGTTGACATTGCCGAC
1 TTACAGAATCACGTCTACCTAAAGAAGCAACACAACATACTTTTGATAATGTTGACATTACCAAC
*
25085962 CATGATGCAGGTAAGTTCAATGATGCCAATGATACTGATCAGCAATGGCAACAAGTATTTGAACC
66 CATGATGCAGGTAAGTTCAATGATG-C--TGATACTGATCAGCAATGGCAACAAGTATTTAAACC
*
25086027 ATTCTATAATGGTGAAGATCATGAGTTATCAAAGCTTGAAGAAAACTCGTCATGGTTCTCCGGAT
128 ATTCTACAATGGTGAAGATCATGAGTTATCAAAGCTTGAAGAAAACTCGTCATGGTTCTCCGGAT
* *
25086092 ATGATCGTTGCAATATTTAGATCACGTTTAACTGCAGAATCATGTATGTAT
193 ACGATCGTTGCAATATTTAGATCACATTTAACTGCAGAATCATGTATGTAT
25086143 ACTAACAGTT
Statistics
Matches: 218, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
272 77 0.35
273 1 0.00
275 140 0.64
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (272 bp):
TTACAGAATCACGTCTACCTAAAGAAGCAACACAACATACTTTTGATAATGTTGACATTACCAAC
CATGATGCAGGTAAGTTCAATGATGCTGATACTGATCAGCAATGGCAACAAGTATTTAAACCATT
CTACAATGGTGAAGATCATGAGTTATCAAAGCTTGAAGAAAACTCGTCATGGTTCTCCGGATACG
ATCGTTGCAATATTTAGATCACATTTAACTGCAGAATCATGTATGTATTATTAGTAATAGTTTCT
CTCACGTTTTAT
Found at i:25090402 original size:20 final size:20
Alignment explanation
Indices: 25090371--25090419 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
25090361 AAGTTTACAA
25090371 ATAATT-TATATTTAAAATT
1 ATAATTCTATATTTAAAATT
25090390 ATAATTCTATATTTAAAATT
1 ATAATTCTATATTTAAAATT
25090410 A-ATATTCTAT
1 ATA-ATTCTAT
25090420 CACAAACGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATTCTATATTTAAAATT
Found at i:25090477 original size:43 final size:42
Alignment explanation
Indices: 25090414--25090506 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
25090404 AAAATTAATA
* ** *
25090414 TTCTATCACAAACGTTGCTAAAGACCATAACCTTTAGCGACGC
1 TTCTACCACAAACGCCGCTAAA-ACCATAACCTTTAGCGACAC
* * *
25090457 TTCTACCACAAACGCCGCTAAAATCATGACTTTTAGCGACAC
1 TTCTACCACAAACGCCGCTAAAACCATAACCTTTAGCGACAC
*
25090499 TTTTACCA
1 TTCTACCA
25090507 TTATAAAGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 23 0.55
43 19 0.45
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (42 bp):
TTCTACCACAAACGCCGCTAAAACCATAACCTTTAGCGACAC
Found at i:25103135 original size:11 final size:11
Alignment explanation
Indices: 25103119--25103143 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25103109 AACCAAACAC
25103119 GGGATTAAGTG
1 GGGATTAAGTG
25103130 GGGATTAAGTG
1 GGGATTAAGTG
25103141 GGG
1 GGG
25103144 CCTACTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.52, T:0.24
Consensus pattern (11 bp):
GGGATTAAGTG
Found at i:25105332 original size:23 final size:24
Alignment explanation
Indices: 25105296--25105340 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
25105286 AATGACGCCG
25105296 TTTTGCTCTGCTAAAAATTTTTTA
1 TTTTGCTCTGCTAAAAATTTTTTA
*
25105320 TTTTG-TCTGCTAACAATTTTT
1 TTTTGCTCTGCTAAAAATTTTT
25105341 AGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.56
Consensus pattern (24 bp):
TTTTGCTCTGCTAAAAATTTTTTA
Found at i:25106032 original size:7 final size:7
Alignment explanation
Indices: 25106020--25106046 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25106010 CTAATTAATG
25106020 TAAACCT
1 TAAACCT
25106027 TAAACCT
1 TAAACCT
25106034 TAAACCT
1 TAAACCT
25106041 TAAACC
1 TAAACC
25106047 CCTAACCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:25106053 original size:7 final size:7
Alignment explanation
Indices: 25106043--25106125 Score: 51
Period size: 7 Copynumber: 11.7 Consensus size: 7
25106033 TTAAACCTTA
25106043 AACCCCT
1 AACCCCT
25106050 AACCCCT
1 AACCCCT
*
25106057 ATCCCCT
1 AACCCCT
**
25106064 AAATCCT
1 AACCCCT
** *
25106071 AAATCGT
1 AACCCCT
*
25106078 AAACCCTT
1 -AACCCCT
*
25106086 AACCCTT
1 AACCCCT
25106093 AACCCCT
1 AACCCCT
*
25106100 AACCCAT
1 AACCCCT
*
25106107 AACCCTT
1 AACCCCT
25106114 AAACCCC-
1 -AACCCCT
25106121 AACCC
1 AACCC
25106126 TTATAACTGT
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
6 5 0.08
7 48 0.77
8 9 0.15
ACGTcount: A:0.34, C:0.46, G:0.01, T:0.19
Consensus pattern (7 bp):
AACCCCT
Found at i:25106103 original size:21 final size:21
Alignment explanation
Indices: 25106079--25106128 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
25106069 CTAAATCGTA
25106079 AACCCTTAACCCTT-AACCCC
1 AACCCTTAACCCTTAAACCCC
*
25106099 TAACCCATAACCCTTAAACCCC
1 -AACCCTTAACCCTTAAACCCC
25106121 AACCCTTA
1 AACCCTTA
25106129 TAACTGTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.34, C:0.46, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCTTAACCCTTAAACCCC
Found at i:25107317 original size:41 final size:41
Alignment explanation
Indices: 25107145--25107378 Score: 239
Period size: 40 Copynumber: 5.8 Consensus size: 41
25107135 AATATTTTTT
* **
25107145 GCGGCGCTTTTTCAAAAATGCCGCTAAA--AATAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCT-GAGCATTA
* * * *
25107185 GCGGTGCTTTTT-AGAAACGCCGCTAAAACCCTGAGTATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
25107225 GCGGCGCTTTTTCAAAAACGCCGCT-AAGCCTTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
25107265 GTGGTGATTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
25107306 GCGGTGCTTTTTCAAAAACGCCACTAAAGGCCCAT-A-CATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAA-GCCC-TGAGCATTA
** * *
25107347 GCAACGC-TTTTCAAAAAAGCCACTAAAGCCCT
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCT
25107379 CGAAAACTCA
Statistics
Matches: 166, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 17 0.10
40 82 0.49
41 60 0.36
42 5 0.03
43 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:25107322 original size:81 final size:80
Alignment explanation
Indices: 25107145--25107333 Score: 261
Period size: 81 Copynumber: 2.4 Consensus size: 80
25107135 AATATTTTTT
* * *
25107145 GCGGCGCTTTTTCAAAAATGCCGCTAAAAATAGAGCATTAGCGGTGCTTTTTAGAAACGCCGCTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAATAGAGCATTAGCGGTGATTTTTAAAAACGCCGCTA
*
25107210 AAACCCTGAGTATTA
66 AAACCCTGAGCATTA
*** * *
25107225 GCGGCGCTTTTTCAAAAACGCCGCTAAGCCTTGAGCATTAGTGGTGATTTTTCAAAAACGCCGCT
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAAATAGAGCATTAGCGGTGATTTTT-AAAAACGCCGCT
*
25107290 AAAGCCCTGAGCATTA
65 AAAACCCTGAGCATTA
* *
25107306 GCGGTGCTTTTTCAAAAACGCCACTAAA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAA
25107334 GGCCCATACA
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 45 0.47
81 50 0.53
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (80 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAAATAGAGCATTAGCGGTGATTTTTAAAAACGCCGCTA
AAACCCTGAGCATTA
Found at i:25107358 original size:81 final size:80
Alignment explanation
Indices: 25107145--25107378 Score: 213
Period size: 81 Copynumber: 2.9 Consensus size: 80
25107135 AATATTTTTT
* * ** *** * *
25107145 GCGGCGCTTTTTCAAAAATGCCGCTAA-AAATAGAGCATTAGCGGTGCTTTTTAGAAACGCCGCT
1 GCGGCGCTTTTTCAAAAACGCCACTAAGCCAT-GAGCATTAGCAACGCTTTTCAAAAACGCCGCT
* *
25107209 AAAACCCTGAGTATTA
65 AAAGCCCTGAGCATTA
* * **** *
25107225 GCGGCGCTTTTTCAAAAACGCCGCTAAGCCTTGAGCATTAGTGGTGATTTTTCAAAAACGCCGCT
1 GCGGCGCTTTTTCAAAAACGCCACTAAGCCATGAGCATTAGCAACG-CTTTTCAAAAACGCCGCT
25107290 AAAGCCCTGAGCATTA
65 AAAGCCCTGAGCATTA
* * *
25107306 GCGGTGCTTTTTCAAAAACGCCACTAAAGGCCCAT-A-CATTAGCAACGCTTTTCAAAAAAGCCA
1 GCGGCGCTTTTTCAAAAACGCCACT-AA-G-CCATGAGCATTAGCAACGCTTTTCAAAAACGCCG
25107369 CTAAAGCCCT
63 CTAAAGCCCT
25107379 CGAAAACTCA
Statistics
Matches: 129, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
80 39 0.30
81 76 0.59
82 9 0.07
83 2 0.02
84 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (80 bp):
GCGGCGCTTTTTCAAAAACGCCACTAAGCCATGAGCATTAGCAACGCTTTTCAAAAACGCCGCTA
AAGCCCTGAGCATTA
Found at i:25122344 original size:17 final size:17
Alignment explanation
Indices: 25122322--25122363 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
25122312 TTTGAAACCC
25122322 ATATCTTTCTGATACCT
1 ATATCTTTCTGATACCT
*
25122339 ATATCTTTCTGATACTT
1 ATATCTTTCTGATACCT
25122356 ATATCTTT
1 ATATCTTT
25122364 GACTTTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.52
Consensus pattern (17 bp):
ATATCTTTCTGATACCT
Found at i:25123077 original size:27 final size:27
Alignment explanation
Indices: 25123047--25123102 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
25123037 ATAGGCCACC
* * *
25123047 ATATCGTCAAAGCGAGCAGGCTTACGA
1 ATATCATCAAAGCAAGCAGGCATACGA
25123074 ATATCATCAAAGCAAGCAGGCATACGA
1 ATATCATCAAAGCAAGCAGGCATACGA
25123101 AT
1 AT
25123103 CTCTCTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (27 bp):
ATATCATCAAAGCAAGCAGGCATACGA
Found at i:25125952 original size:17 final size:17
Alignment explanation
Indices: 25125924--25125973 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
25125914 TCTCAGATTT
25125924 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
* *
25125941 TTATACCTATATCTTTC
1 TGATACCCATATCTTTC
25125958 TGATACCCATATCTTT
1 TGATACCCATATCTTT
25125974 GACTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.46
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:25126438 original size:25 final size:25
Alignment explanation
Indices: 25126379--25126428 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
25126369 TATTTGCAAA
25126379 GTATCATAGATCAAGTAAGAAAACT
1 GTATCATAGATCAAGTAAGAAAACT
25126404 GTATCATAGATCAAGTAAGAAAACT
1 GTATCATAGATCAAGTAAGAAAACT
25126429 TACTCTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (25 bp):
GTATCATAGATCAAGTAAGAAAACT
Found at i:25127157 original size:16 final size:16
Alignment explanation
Indices: 25127144--25127174 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25127134 GTTGTAATGT
25127144 AATAGAGCTATAATAG
1 AATAGAGCTATAATAG
*
25127160 AATAGAGCTGTAATA
1 AATAGAGCTATAATA
25127175 TAGATGTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (16 bp):
AATAGAGCTATAATAG
Found at i:25140017 original size:39 final size:39
Alignment explanation
Indices: 25139971--25140062 Score: 114
Period size: 39 Copynumber: 2.4 Consensus size: 39
25139961 CATATTCACG
25139971 TTTAAGCATATATCAC-ATCACACATATAATCACATAACA
1 TTTAAGCATATATCACAAT-ACACATATAATCACATAACA
* * ***
25140010 TTTAAGCATATAACACAATTCTTGTATAATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACATAACA
*
25140049 TTCAAGCATATATC
1 TTTAAGCATATATC
25140063 GCTATACTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 43 0.96
40 2 0.04
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACACATATAATCACATAACA
Found at i:25140896 original size:12 final size:12
Alignment explanation
Indices: 25140879--25140903 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25140869 CGGAAGTTCA
25140879 ACACAACAATGC
1 ACACAACAATGC
25140891 ACACAACAATGC
1 ACACAACAATGC
25140903 A
1 A
25140904 TTCAATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (12 bp):
ACACAACAATGC
Found at i:25149006 original size:16 final size:16
Alignment explanation
Indices: 25148985--25149033 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
25148975 TTCGCTCTAT
*
25148985 TGGAATAGAGGCGTAA
1 TGGAATAGAGGTGTAA
25149001 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
*
25149017 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
25149033 T
1 T
25149034 AGCAAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.35, C:0.02, G:0.37, T:0.27
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:25149063 original size:45 final size:44
Alignment explanation
Indices: 25149012--25149106 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 44
25149002 GGAATAGAGG
* *
25149012 TGTAATGGATTAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* * *
25149057 TGTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
25149101 TGTAAT
1 TGTAAT
25149107 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 22 0.50
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:25149284 original size:16 final size:16
Alignment explanation
Indices: 25149247--25149288 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25149237 TTAATCATAT
*
25149247 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
25149263 TT-AAATATATTATAA
1 TTAAAATATATTATAA
25149278 TTAAAATATAT
1 TTAAAATATAT
25149289 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:25149295 original size:14 final size:15
Alignment explanation
Indices: 25149256--25149297 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25149246 TTTAAACATA
*
25149256 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25149271 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25149285 A-TATAATTTAATA
1 ATTATAATTAAATA
25149298 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25149407 original size:17 final size:17
Alignment explanation
Indices: 25149387--25149420 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25149377 TTAATATCAA
*
25149387 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
25149404 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
25149421 TTAAAATTAT
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:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:25149563 original size:93 final size:92
Alignment explanation
Indices: 25149453--25149647 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
25149443 GATTATAGTT
* * *
25149453 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
25149516 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
25149546 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
25149611 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
25149638 TATGAATTTA
1 TATGAATTTA
25149648 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:25151067 original size:11 final size:11
Alignment explanation
Indices: 25151053--25151090 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
25151043 AAAAATCAAT
*
25151053 ACAAAAGTCTC
1 ACAAAAGTTTC
25151064 ACAAAAGTTTC
1 ACAAAAGTTTC
25151075 ACAAAAGTTTC
1 ACAAAAGTTTC
25151086 ACAAA
1 ACAAA
25151091 CTAATTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.50, C:0.21, G:0.08, T:0.21
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:25151339 original size:15 final size:15
Alignment explanation
Indices: 25151319--25151354 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
25151309 ATAATATGTA
25151319 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
25151334 TAATTGACCTAAAAT
1 TAATTGACCTAAAAT
25151349 TAATTG
1 TAATTG
25151355 TTGGTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (15 bp):
TAATTGACCTAAAAT
Found at i:25151714 original size:41 final size:41
Alignment explanation
Indices: 25151597--25151718 Score: 114
Period size: 41 Copynumber: 3.1 Consensus size: 41
25151587 ATTGATTAAT
*
25151597 TTTGCAATTATGATTGGAAAAGATTGAAATCTAGTATTGTA
1 TTTGCAATTATGATTGGAAAATATTGAAATCTAGTATTGTA
* ** * *
25151638 TTTAC-ATGTACAAAT---AATTATT-ATTAA--TAGTATTGTA
1 TTTGCAAT-TATGATTGGAAAATATTGA--AATCTAGTATTGTA
25151675 TTTGCAATTATGATTGGAAAATATTGAAATCTAGTATTGTA
1 TTTGCAATTATGATTGGAAAATATTGAAATCTAGTATTGTA
25151716 TTT
1 TTT
25151719 ACATGTACAA
Statistics
Matches: 60, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
37 19 0.32
38 7 0.12
39 4 0.07
40 8 0.13
41 22 0.37
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.43
Consensus pattern (41 bp):
TTTGCAATTATGATTGGAAAATATTGAAATCTAGTATTGTA
Found at i:25151905 original size:52 final size:51
Alignment explanation
Indices: 25151815--25151920 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 51
25151805 TATATATTAG
* *
25151815 TATCAAATTTGTATGTACTTTTTATATGTACTCTTTCACTAATAAATTATA
1 TATCAAATTTGTATGCACTTTTTATATGTACGCTTTCACTAATAAATTATA
25151866 TATCAAATTTGTAT-CACATTGATTT-TATGTACGCTTTCACTAATAAATTATA
1 TATCAAATTTGTATGCAC-TT--TTTATATGTACGCTTTCACTAATAAATTATA
25151918 TAT
1 TAT
25151921 TAGTAAAAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
50 2 0.04
51 16 0.32
52 29 0.58
53 3 0.06
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (51 bp):
TATCAAATTTGTATGCACTTTTTATATGTACGCTTTCACTAATAAATTATA
Found at i:25153536 original size:65 final size:65
Alignment explanation
Indices: 25153432--25153561 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
25153422 GGAGATTAAG
25153432 CATGCAGTAATTGCACAGTTCATTTTTCAACATTTCCTCTATTTTGCTTCTGTTTACTTTTGCTT
1 CATGCAGTAATTGCACAGTTCATTTTTCAACATTTCCTCTATTTTGCTTCTGTTTACTTTTGCTT
*
25153497 CATGCAGTAATTGCATAGTTCATTTTTCAACATTTCCTCTATTTTGCTTCTGTTTACTTTTGCTT
1 CATGCAGTAATTGCACAGTTCATTTTTCAACATTTCCTCTATTTTGCTTCTGTTTACTTTTGCTT
25153562 GGTGATAATA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (65 bp):
CATGCAGTAATTGCACAGTTCATTTTTCAACATTTCCTCTATTTTGCTTCTGTTTACTTTTGCTT
Found at i:25158918 original size:16 final size:16
Alignment explanation
Indices: 25158897--25158947 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 16
25158887 GTTTTAACTT
25158897 TTTTTTATCTATTTGG
1 TTTTTTATCTATTTGG
*
25158913 TTTTTTA--TATTTGA
1 TTTTTTATCTATTTGG
25158927 TTTATTT-TCTATTT-G
1 TTT-TTTATCTATTTGG
25158942 TTTTTT
1 TTTTTT
25158948 GGGCTGGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.40
15 6 0.20
16 12 0.40
ACGTcount: A:0.14, C:0.04, G:0.08, T:0.75
Consensus pattern (16 bp):
TTTTTTATCTATTTGG
Found at i:25162662 original size:16 final size:16
Alignment explanation
Indices: 25162641--25162691 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 16
25162631 GTTTTAACTT
25162641 TTTTTTATCTATTTGG
1 TTTTTTATCTATTTGG
*
25162657 TTTTTTA--TATTTGA
1 TTTTTTATCTATTTGG
25162671 TTTATTT-TCTATTT-G
1 TTT-TTTATCTATTTGG
25162686 TTTTTT
1 TTTTTT
25162692 GGGCTGGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.40
15 6 0.20
16 12 0.40
ACGTcount: A:0.14, C:0.04, G:0.08, T:0.75
Consensus pattern (16 bp):
TTTTTTATCTATTTGG
Found at i:25166402 original size:28 final size:28
Alignment explanation
Indices: 25166362--25166419 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
25166352 TTTTCTACAG
*
25166362 TACCTGACATCTGATTCTTCAGACTGAA
1 TACCTAACATCTGATTCTTCAGACTGAA
*
25166390 TACCTAACATCTGATTCTTCGGACTGAA
1 TACCTAACATCTGATTCTTCAGACTGAA
25166418 TA
1 TA
25166420 AAGACTTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (28 bp):
TACCTAACATCTGATTCTTCAGACTGAA
Found at i:25167819 original size:14 final size:14
Alignment explanation
Indices: 25167800--25167839 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25167790 TACACACCTA
25167800 GGGTTCGCACAT-G
1 GGGTTCGCACATAG
*
25167813 TGGGTTCGCACCTAG
1 -GGGTTCGCACATAG
25167828 GGGTTCGCACAT
1 GGGTTCGCACAT
25167840 CTAAGGTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 22 0.96
15 1 0.04
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (14 bp):
GGGTTCGCACATAG
Found at i:25167825 original size:27 final size:28
Alignment explanation
Indices: 25167770--25167839 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
25167760 CATACATAAA
*
25167770 TAGGGTTCGCATATATAGGGTACACACC
1 TAGGGTTCGCACATATAGGGTACACACC
* * *
25167798 TAGGGTTCGCACATGT-GGGTTCGCACC
1 TAGGGTTCGCACATATAGGGTACACACC
25167825 TAGGGGTTCGCACAT
1 TA-GGGTTCGCACAT
25167840 CTAAGGTTCG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 11 0.30
28 26 0.70
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (28 bp):
TAGGGTTCGCACATATAGGGTACACACC
Found at i:25167939 original size:22 final size:22
Alignment explanation
Indices: 25167879--25167943 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
25167869 ATATAGTTTG
* *
25167879 CATAATCAATAAATAGGGTTCA
1 CATAAACAATATATAGGGTTCA
* * * *
25167901 CATATACCACATGTAGGGTTCA
1 CATAAACAATATATAGGGTTCA
25167923 CATAAACAATATATAGGGTTC
1 CATAAACAATATATAGGGTTC
25167944 GTATATTTAA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (22 bp):
CATAAACAATATATAGGGTTCA
Found at i:25167986 original size:22 final size:22
Alignment explanation
Indices: 25167891--25167986 Score: 77
Period size: 22 Copynumber: 4.3 Consensus size: 22
25167881 TAATCAATAA
* *
25167891 ATAGGGTTCACATATACCACAT
1 ATAGGGTTCACATAAACAACAT
* *
25167913 GTAGGGTTCACATAAACAATAT
1 ATAGGGTTCACATAAACAACAT
* **
25167935 ATAGGGTTCGTATATTTA-AACAT
1 ATAGGGTTC--ACATAAACAACAT
* *
25167958 ATTGGGTTCACATAAATAACAT
1 ATAGGGTTCACATAAACAACAT
*
25167980 GTAGGGT
1 ATAGGGT
25167987 CCGCATAGTA
Statistics
Matches: 56, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
21 4 0.07
22 36 0.64
23 12 0.21
24 4 0.07
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (22 bp):
ATAGGGTTCACATAAACAACAT
Found at i:25171190 original size:16 final size:16
Alignment explanation
Indices: 25171171--25171228 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
25171161 ATAATAGATA
25171171 AATTTAATAAATATTT
1 AATTTAATAAATATTT
* *
25171187 AATTTAATAAAAAATT
1 AATTTAATAAATATTT
*
25171203 AA-TTAATTAAT-TTT
1 AATTTAATAAATATTT
25171217 AATTTAA-AAATA
1 AATTTAATAAATA
25171229 CATTAATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 7 0.21
15 11 0.32
16 16 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTTAATAAATATTT
Found at i:25171252 original size:27 final size:25
Alignment explanation
Indices: 25171221--25171280 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 25
25171211 AATTTTAATT
25171221 TAAAAATACATT-AATATTAGTTGTAA
1 TAAAAATA-ATTAAATATTA-TTGTAA
*
25171247 TAAAAATAATTAAAATATTATTTTAA
1 TAAAAATAATT-AAATATTATTGTAA
25171273 TAAAAATA
1 TAAAAATA
25171281 GGATTAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 3 0.10
26 21 0.68
27 7 0.23
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (25 bp):
TAAAAATAATTAAATATTATTGTAA
Found at i:25171385 original size:19 final size:20
Alignment explanation
Indices: 25171351--25171389 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
25171341 AACAGGATTC
25171351 AATAATTTAAATTTTATCAAA
1 AATAATTT-AATTTTATCAAA
25171372 AATAATTT-ATTTTATCAA
1 AATAATTTAATTTTATCAA
25171390 TTTAAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATTTAATTTTATCAAA
Found at i:25172115 original size:17 final size:17
Alignment explanation
Indices: 25172093--25172150 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
25172083 ATAGATGCTT
25172093 ATTTAACTATAAAAATA
1 ATTTAACTATAAAAATA
** * * *
25172110 ATTTAAAGATAGATACTT
1 ATTTAACTATA-AAAATA
25172128 ATTTAACTATAAAAATA
1 ATTTAACTATAAAAATA
25172145 ATTTAA
1 ATTTAA
25172151 GGGCTTCTTT
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTTAACTATAAAAATA
Found at i:25172119 original size:35 final size:35
Alignment explanation
Indices: 25172080--25172150 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
25172070 TAAAGATCAT
*
25172080 AAGATAGATGCTTATTTAACTATAAAAATAATTTA
1 AAGATAGATACTTATTTAACTATAAAAATAATTTA
25172115 AAGATAGATACTTATTTAACTATAAAAATAATTTA
1 AAGATAGATACTTATTTAACTATAAAAATAATTTA
25172150 A
1 A
25172151 GGGCTTCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.37
Consensus pattern (35 bp):
AAGATAGATACTTATTTAACTATAAAAATAATTTA
Found at i:25175952 original size:2 final size:2
Alignment explanation
Indices: 25175941--25175971 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
25175931 GAAAAAGCAA
25175941 AG AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
25175972 TGAGTGTGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25175980 original size:2 final size:2
Alignment explanation
Indices: 25175975--25176000 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25175965 GAGAGAGTGA
25175975 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
25176001 AGGAGTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:25190654 original size:26 final size:27
Alignment explanation
Indices: 25190597--25190661 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
25190587 GATAGCTATA
*
25190597 AGTTTTGTGTTACATTTTTAATAATTGT
1 AGTTTTAT-TTACATTTTTAATAATTGT
* *
25190625 -GTTTTATTTACTTTTTTAAT-ATTTT
1 AGTTTTATTTACATTTTTAATAATTGT
25190650 AGTTTTTATTTA
1 AG-TTTTATTTA
25190662 AAATTTTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 4 0.12
26 13 0.41
27 15 0.47
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.65
Consensus pattern (27 bp):
AGTTTTATTTACATTTTTAATAATTGT
Found at i:25193315 original size:10 final size:10
Alignment explanation
Indices: 25193298--25193327 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
25193288 TTTAAAACGT
25193298 TATA-AAAAA
1 TATATAAAAA
25193307 TATATAAAAA
1 TATATAAAAA
25193317 TATATAAAAA
1 TATATAAAAA
25193327 T
1 T
25193328 TTTCAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TATATAAAAA
Found at i:25193546 original size:21 final size:21
Alignment explanation
Indices: 25193517--25193562 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
25193507 TTTTTTATTT
* *
25193517 TTTATTATATTATTTTAAAATA
1 TTTATTATATT-TTTAAAAAAA
25193539 TTTA-TATATTTTTAAAAAAA
1 TTTATTATATTTTTAAAAAAA
25193559 TTTA
1 TTTA
25193563 GAGTCTGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 6 0.27
22 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATTATATTTTTAAAAAAA
Found at i:25197302 original size:16 final size:16
Alignment explanation
Indices: 25197281--25197348 Score: 93
Period size: 16 Copynumber: 4.2 Consensus size: 16
25197271 TTTGGTTCGC
25197281 TGTATTGAATTAGAGG
1 TGTATTGAATTAGAGG
*
25197297 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGG
* *
25197313 TGTATTGGATTAAAGG
1 TGTATTGAATTAGAGG
25197329 TGTATT-AGATTAGAGG
1 TGTATTGA-ATTAGAGG
25197345 TGTA
1 TGTA
25197349 ATAGCAAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (16 bp):
TGTATTGAATTAGAGG
Found at i:25197317 original size:32 final size:32
Alignment explanation
Indices: 25197281--25197348 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
25197271 TTTGGTTCGC
* *
25197281 TGTATTGAATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGAATTAAAGGTGTATTAGATTAGAGG
*
25197313 TGTATTGGATTAAAGGTGTATTAGATTAGAGG
1 TGTATTGAATTAAAGGTGTATTAGATTAGAGG
25197345 TGTA
1 TGTA
25197349 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.38
Consensus pattern (32 bp):
TGTATTGAATTAAAGGTGTATTAGATTAGAGG
Found at i:25197604 original size:16 final size:16
Alignment explanation
Indices: 25197564--25197618 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
25197554 TTAATCATAT
*
25197564 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
25197580 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
25197595 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
25197613 -TAAAAT
1 TTAAAAT
25197619 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:25197611 original size:18 final size:17
Alignment explanation
Indices: 25197584--25197618 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25197574 TTTTTATTAA
*
25197584 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25197602 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25197619 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25197725 original size:18 final size:17
Alignment explanation
Indices: 25197704--25197738 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25197694 TTATTATTAA
*
25197704 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25197722 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25197739 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25197784 original size:61 final size:60
Alignment explanation
Indices: 25197599--25197789 Score: 162
Period size: 61 Copynumber: 3.2 Consensus size: 60
25197589 TTTTAATTAA
* *
25197599 AATATATAATTTAATAAAATTCTTAATAATT-AATATTCTTATATTAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATAAATTTTCT-AAATCAT
* * * * * * * *
25197660 AATATATGATACT-GTAAAA-T-ATAA-ATTAACATAATTATTAT-TAAATATATT-TTAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATTCTTATATAAAT-T-TTCTAAATCAT
*
25197719 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCT-AAATCAT
25197780 AATATATAAT
1 AATATATAAT
25197790 ACTATGAAAT
Statistics
Matches: 98, Mismatches: 19, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 29 0.30
60 20 0.20
61 38 0.39
62 6 0.06
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCTAAATCAT
Found at i:25197867 original size:120 final size:120
Alignment explanation
Indices: 25197562--25197845 Score: 455
Period size: 120 Copynumber: 2.4 Consensus size: 120
25197552 ATTTAATCAT
*
25197562 ATTTAAACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * *
25197627 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
25197683 AATTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
25197748 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
25197803 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
25197846 TTTTCAATTA
Statistics
Matches: 152, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 14 0.09
120 135 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.45
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:25199781 original size:19 final size:19
Alignment explanation
Indices: 25199757--25199793 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25199747 ATAAAATATT
25199757 ATCGTTCAGGTACATATAC
1 ATCGTTCAGGTACATATAC
*
25199776 ATCGTTCAGGTGCATATA
1 ATCGTTCAGGTACATATA
25199794 GAGGTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
ATCGTTCAGGTACATATAC
Found at i:25201453 original size:23 final size:24
Alignment explanation
Indices: 25201413--25201460 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
25201403 TTTGTTCGCT
* *
25201413 TGTTTGATTTACTATTTGTAAACA
1 TGTTTGATTTAATATTTGCAAACA
*
25201437 TGTTTG-TTTAATGTTTGCAAACA
1 TGTTTGATTTAATATTTGCAAACA
25201460 T
1 T
25201461 ATAAACGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (24 bp):
TGTTTGATTTAATATTTGCAAACA
Found at i:25203623 original size:177 final size:178
Alignment explanation
Indices: 25203297--25203635 Score: 511
Period size: 177 Copynumber: 1.9 Consensus size: 178
25203287 TCATGTATTA
* * * **
25203297 GCGGCGTTTTCCCAAAGTGCCACAAAAGTTTTTTACCAAACGACCTTGTTTTCTTGTTGAGTTTT
1 GCGGCGCTTTCCCAAAGCGCCACAAAAGTATTTTACCAAACGACCTCATTTTCTTGTTGAGTTTT
* *
25203362 AGACACAATAGTGGCGCTTTAAAGAAAGCGCCACTGAAGTCAATCATTAGCGGCGCTTCAGAGGA
66 AGACACAATAGTGGCGCTTTAAAGAAAGCGCCACTGAAGTCAATCATTAGCGGCACTTCAGACGA
*
25203427 AGCGCCAGAAAATGTTTTAAGCATACGCCGTCTTTAGGGACAATAGTG
131 AGCGCCAGAAAAAGTTTTAAGCATACGCCGTCTTTAGGGACAATAGTG
** * *
25203475 GCGGCGCTTTCCTGAAGCGCCACAAAAG-ATTTTACCGAACGACGTCATTTTCTTGTTGAGTTTT
1 GCGGCGCTTTCCCAAAGCGCCACAAAAGTATTTTACCAAACGACCTCATTTTCTTGTTGAGTTTT
* * * *
25203539 AGGCACAATAGTGGCGCTTTAAAGAAATCGCCGCTGAAGTCAATCTTTAGCGGCACTTCAGACGA
66 AGACACAATAGTGGCGCTTTAAAGAAAGCGCCACTGAAGTCAATCATTAGCGGCACTTCAGACGA
25203604 AGCGCC-GCAAAAAGTTTTAAGCATACGCCGTC
131 AGCGCCAG-AAAAAGTTTTAAGCATACGCCGTC
25203636 GTTTTTTGTT
Statistics
Matches: 144, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
176 1 0.01
177 119 0.83
178 24 0.17
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (178 bp):
GCGGCGCTTTCCCAAAGCGCCACAAAAGTATTTTACCAAACGACCTCATTTTCTTGTTGAGTTTT
AGACACAATAGTGGCGCTTTAAAGAAAGCGCCACTGAAGTCAATCATTAGCGGCACTTCAGACGA
AGCGCCAGAAAAAGTTTTAAGCATACGCCGTCTTTAGGGACAATAGTG
Found at i:25204206 original size:14 final size:14
Alignment explanation
Indices: 25204184--25204254 Score: 76
Period size: 14 Copynumber: 5.3 Consensus size: 14
25204174 TTATATATGT
*
25204184 TTTATGATTTAGGG
1 TTTAGGATTTAGGG
25204198 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
* * *
25204212 TTT---ATATATGT
1 TTTAGGATTTAGGG
*
25204223 TTTATGATTTAGGG
1 TTTAGGATTTAGGG
25204237 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
25204251 TTTA
1 TTTA
25204255 TATATGTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
11 8 0.17
14 38 0.83
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:25204217 original size:39 final size:39
Alignment explanation
Indices: 25204172--25204279 Score: 207
Period size: 39 Copynumber: 2.8 Consensus size: 39
25204162 TAAGGTTATA
25204172 GTTTATATATGTTTTATGATTTAGGGTTTAGGATTTAGG
1 GTTTATATATGTTTTATGATTTAGGGTTTAGGATTTAGG
25204211 GTTTATATATGTTTTATGATTTAGGGTTTAGGATTTAGG
1 GTTTATATATGTTTTATGATTTAGGGTTTAGGATTTAGG
*
25204250 GTTTATATATGTTTTATGATTCAGGGTTTA
1 GTTTATATATGTTTTATGATTTAGGGTTTA
25204280 AAGAATATGG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.23, C:0.01, G:0.24, T:0.52
Consensus pattern (39 bp):
GTTTATATATGTTTTATGATTTAGGGTTTAGGATTTAGG
Found at i:25204355 original size:21 final size:21
Alignment explanation
Indices: 25204331--25204372 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
25204321 TAGTTGAGGT
*
25204331 TTAAAGTTTA-AGTGTTTAGGG
1 TTAAAGGTTAGAG-GTTTAGGG
*
25204352 TTAAGGGTTAGAGGTTTAGGG
1 TTAAAGGTTAGAGGTTTAGGG
25204373 GTTTAAGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (21 bp):
TTAAAGGTTAGAGGTTTAGGG
Found at i:25204581 original size:14 final size:14
Alignment explanation
Indices: 25204562--25204593 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25204552 TCCAAGTCAA
25204562 TTTAGGGTTAAGGG
1 TTTAGGGTTAAGGG
*
25204576 TTTAGGGTTTAGGG
1 TTTAGGGTTAAGGG
25204590 TTTA
1 TTTA
25204594 AGGTCTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTAAGGG
Found at i:25205538 original size:13 final size:13
Alignment explanation
Indices: 25205520--25205544 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25205510 TTTTCTGATC
25205520 TGAAATCCCTAAG
1 TGAAATCCCTAAG
25205533 TGAAATCCCTAA
1 TGAAATCCCTAA
25205545 CTCGTTTCAG
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:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (13 bp):
TGAAATCCCTAAG
Found at i:25208258 original size:19 final size:19
Alignment explanation
Indices: 25208231--25208269 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25208221 TTGAGTAATT
25208231 ATAAAAAAA-TATTTATAAA
1 ATAAAAAAATTA-TTATAAA
*
25208250 ATAATAAAATTATTATAAA
1 ATAAAAAAATTATTATAAA
25208269 A
1 A
25208270 ATATTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAAAATTATTATAAA
Found at i:25209876 original size:22 final size:22
Alignment explanation
Indices: 25209829--25209888 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
25209819 TCCACAAACT
*
25209829 AATTTTCTTTCAAATTTCCTCTC
1 AATTTTCTCTCAAA-TTCCTCTC
*
25209852 AATTTACTCTCAAATTCCT-TCC
1 AATTTTCTCTCAAATTCCTCT-C
25209874 AATTTTCTCTCAAAT
1 AATTTTCTCTCAAAT
25209889 CCATATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 20 0.61
23 12 0.36
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTTTCTCTCAAATTCCTCTC
Found at i:25209906 original size:51 final size:51
Alignment explanation
Indices: 25209850--25209947 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
25209840 AAATTTCCTC
*
25209850 TCAATTTACTCTCAAATTCCT-TCCAATTTTCTCTCAAATCCATATTTAATT
1 TCAATTTACTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAATT
* * * * *
25209901 TCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTACTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
25209948 TTAAATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.02, T:0.46
Consensus pattern (51 bp):
TCAATTTACTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAATT
Found at i:25211707 original size:18 final size:18
Alignment explanation
Indices: 25211680--25211719 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25211670 CAGGTGCGTT
* *
25211680 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
25211698 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
25211716 TCCT
1 TCCT
25211720 TTTTCGAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:25212005 original size:21 final size:21
Alignment explanation
Indices: 25211981--25212021 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
25211971 CCTACTGGAA
* *
25211981 GAACCAGAATCACCGCCGGAG
1 GAACCACAACCACCGCCGGAG
*
25212002 GAACCACAACCGCCGCCGGA
1 GAACCACAACCACCGCCGGA
25212022 AGCTGGATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.39, G:0.27, T:0.02
Consensus pattern (21 bp):
GAACCACAACCACCGCCGGAG
Found at i:25212235 original size:9 final size:8
Alignment explanation
Indices: 25212212--25212237 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
25212202 ACTAATTTTT
25212212 TTTAAAAA
1 TTTAAAAA
25212220 TTTAAAAA
1 TTTAAAAA
25212228 TTTAAAAA
1 TTTAAAAA
25212236 TT
1 TT
25212238 ATAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TTTAAAAA
Found at i:25212298 original size:21 final size:22
Alignment explanation
Indices: 25212264--25213097 Score: 539
Period size: 22 Copynumber: 37.0 Consensus size: 22
25212254 TTTAATTGAC
* *
25212264 AAACCTTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAA
*
25212286 AAACCCTAACCCTAACCCTAAACTTAA
1 AAACCCT-A----AACCCTTAACTTAA
* *
25212313 AAACCTTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
25212335 AAACACT-AACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
25212356 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
25212378 AAA-CTTCAAACCCTTAAATTAA
1 AAACCCT-AAACCCTTAACTTAA
* *
25212400 AAACCTTAAA-CCTTAAAACCCTAA
1 AAACCCTAAACCCTT--AA-CTTAA
*
25212424 AAA-CCAAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
25212445 AAACCATAAACGCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
25212467 AAACCCTAAACCGTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* *
25212489 AAACCTTAAACCCTAAAACCTT-A
1 AAACCCTAAACCCT-TAA-CTTAA
* *
25212512 AAACCCTAAA-TCTATAAATTAA
1 AAACCCTAAACCCT-TAACTTAA
*
25212534 AAA-CCTTAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
25212555 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
25212577 AAACCCTAAACCC-TAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
25212598 AAACCCTAAACCTTTAAACTGT-A
1 AAACCCTAAACCCTT-AACT-TAA
* *
25212621 AAACCGTAAAACCTTAAACCCTTAAATTAA
1 AAACCCTAAACCCTT-AA--C-----TTAA
*
25212651 AAACCCT-AACTCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* *
25212672 AAATCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * *
25212694 AAACCGTAAACCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
25212716 AAACCTTAAA-CCTTAAAACCTT--
1 AAACCCTAAACCCTT--AA-CTTAA
* * *
25212738 TAA-CTTAAAAACCCTAAACCCTTAACTTTA
1 AAACCCT--AAACCCTTAA--CTT-A----A
* *
25212768 AAATCCTAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAACTTAA
* *
25212790 AAATCCTAAAACCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*** *
25212812 AAAATGT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
* *
25212833 AAACCCT-AACCCTTAATTTTA
1 AAACCCTAAACCCTTAACTTAA
*
25212854 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
** * * *
25212876 AAACAGTATACCTTTAAATTAA
1 AAACCCTAAACCCTTAACTTAA
*
25212898 AAACCTTAAA-CCTTAAAACCTTAAAA
1 AAACCCTAAACCCTT--AA-CTT--AA
25212924 CCCTAAACCCTAAACCCTTAACTT-A
1 ----AAACCCTAAACCCTTAACTTAA
25212949 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
* * **
25212971 AAACCAT-AACCATTAACTTTT
1 AAACCCTAAACCCTTAACTTAA
25212992 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
** *
25213014 AAACTGT-AACCCATAACTTTAA
1 AAACCCTAAACCCTTAAC-TTAA
* * *
25213036 AATCGC--AACCCTTAA-ATAA
1 AAACCCTAAACCCTTAACTTAA
*
25213055 AAACCCT-AACACTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
25213076 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
25213097 A
1 A
25213098 TATAATTTGA
Statistics
Matches: 646, Mismatches: 105, Indels: 123
0.74 0.12 0.14
Matches are distributed among these distances:
19 7 0.01
20 8 0.01
21 201 0.31
22 283 0.44
23 53 0.08
24 20 0.03
25 2 0.00
26 4 0.01
27 21 0.03
28 5 0.01
29 17 0.03
30 19 0.03
31 6 0.01
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.26
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Found at i:25212353 original size:43 final size:43
Alignment explanation
Indices: 25212264--25213097 Score: 632
Period size: 43 Copynumber: 18.5 Consensus size: 43
25212254 TTTAATTGAC
*
25212264 AAACCTTAAACCCTTAACCTAAAAACCCTAACCCTAACCCTAAACTTAA
1 AAACCTTAAACCCTTAACTTAAAAACCCTAACCCT-----T-AACTTAA
* * *
25212313 AAACCTTAAACTCTTAACTTAAAAACACTAACTCTTAACTTAA
1 AAACCTTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * *
25212356 AAACCCTAAACCCTTAACTTAAAAACTTCAAACCCTTAAATTAA
1 AAACCTTAAACCCTTAACTTAAAAAC-CCTAACCCTTAACTTAA
* **
25212400 AAACCTTAAA-CCTTAAAACCCTAAAAACCAAAACCCTTAACTTAA
1 AAACCTTAAACCCTT--AA-CTTAAAAACCCTAACCCTTAACTTAA
* * * *
25212445 AAACCATAAACGCTTAACTTAAAAACCCTAAACCGTTAAATTAA
1 AAACCTTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* ** *
25212489 AAACCTTAAACCCTAAAACCTT-AAAACCCTAAATCTATAAATTAA
1 AAACCTTAAACCCT-TAA-CTTAAAAACCCTAACCCT-TAACTTAA
25212534 AAACCTT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCTTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* *
25212577 AAACCCTAAACCC-TAACTTAAAAACCCTAAACCTTTAAACTGTAAAACCGTA
1 AAACCTTAAACCCTTAACTTAAAAACCCT-AACCCTT-AACT-T---A----A
* *
25212629 AAACCTTAAACCCTTAAATTAAAAACCCTAACTCTTAACTTAA
1 AAACCTTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* * * *
25212672 AAATCC-TAAACCTTTAACTTAAAAACCGTAAACCTTTAAATTAA
1 AAA-CCTTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
25212716 AAACCTTAAACCTTAAAACCTTTAACTTAAAAACCCTAAACCCTTAACTTTAA
1 AAACCTTAAA-C------CC-TTAACTTAAAAACCCT-AACCCTTAAC-TTAA
* * * *
25212769 AATCC-TAAACCCTTAACTTTAAAATCCTAAAACCTTAACTTAA
1 AAACCTTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
* * * *
25212812 AAA-ATGT-AACCCTTAAATTAAAAACCCTAACCCTTAATTTTA
1 AAACCT-TAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
** * *
25212854 AAACCTTAAACCCTTAACTTAAAAACAGTATACCTTTAAATTAA
1 AAACCTTAAACCCTTAACTTAAAAACCCTA-ACCCTTAACTTAA
25212898 AAACCTTAAA-CCTTAAAACCTTAAAACCCTAAACCCTAAACCCTTAACTT-A
1 AAACCTTAAACCCTT--AA-CTT--AA----AAACCCT-AACCCTTAACTTAA
* * * **
25212949 AAACCCTAAACCCTTAACTTAAAAACCATAACCATTAACTTTT
1 AAACCTTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* ** * *
25212992 AAACCCTAAACCCTTAACTTAAAAACTGTAACCCATAACTTTA
1 AAACCTTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
* ** * *
25213035 AAATC-GCAACCCTTAA-ATAAAAACCCTAACACTTAACTTAA
1 AAACCTTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
*
25213076 AAACCCT-AACCCTTAACTTAAA
1 AAACCTTAAACCCTTAACTTAAA
25213098 TATAATTTGA
Statistics
Matches: 640, Mismatches: 92, Indels: 113
0.76 0.11 0.13
Matches are distributed among these distances:
41 32 0.05
42 42 0.07
43 211 0.33
44 136 0.21
45 56 0.09
46 17 0.03
47 3 0.00
48 3 0.00
49 34 0.05
50 3 0.00
51 16 0.03
52 64 0.10
53 23 0.04
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.26
Consensus pattern (43 bp):
AAACCTTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAA
Found at i:25212440 original size:110 final size:109
Alignment explanation
Indices: 25212310--25213091 Score: 486
Period size: 117 Copynumber: 7.0 Consensus size: 109
25212300 ACCCTAAACT
* *
25212310 TAAAAACCTTAAACTCTTAACTTAAAAACACT-AACTCTTAACTTAAAAACCCTAAACCCTTAAC
1 TAAAAACC-TAAACCCTTAACTTAAAAAC-CTAAAC-CTTAACTTAAAAACCCTAAACCCTTAAA
25212374 TTAAAAA-CTTCAAACCCTTAAA-TTAAAAACCTTAAACCTTAAAACCC
63 TTAAAAACCTT-AAACCCTTAAACTT-AAAACCTTAAACCTTAAAACCC
* *
25212421 TAAAAACCAAAACCCTTAACTTAAAAACCATAAACGCTTAACTTAAAAACCCTAAACCGTTAAAT
1 TAAAAACCTAAACCCTTAACTTAAAAACC-TAAAC-CTTAACTTAAAAACCCTAAACCCTTAAAT
* * * *
25212486 TAAAAACCTTAAACCCTAAAACCTTAAAACCCTAAATC-TATAAA--T
64 TAAAAACCTTAAACCCTTAAA-CTTAAAACCTTAAACCTTA-AAACCC
* *
25212531 TAAAAACCTTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCC-TAACT
1 TAAAAACCTAAACCCTTAACTTAAAAA-CCTAAA-CCTTAACTTAAAAACCCTAAACCCTTAAAT
* * *
25212595 TAAAAACCCTAAACCTTTAAACTGTAAAACCGTAAAACCTT-AAACCC
64 TAAAAACCTTAAACCCTTAAACT-TAAAACC-TTAAACCTTAAAACCC
* *
25212642 TTAAATTAAAAACCCT-AACTCTTAACTTAAAAATCCTAAACCTTTAACTTAAAAACCGTAAACC
1 ------TAAAAA-CCTAAACCCTTAACTTAAAAA-CCTAAACC-TTAACTTAAAAACCCTAAACC
* * *
25212706 TTTAAATTAAAAACCTTAAA-CCTTAAAACCTT-TAA-CTTAAAAACCCT-AAACCC
57 CTTAAATTAAAAACCTTAAACCCTT-AAA-CTTAAAACCTT--AAACCTTAAAACCC
* ***
25212759 TTAACTTTAAAATCCTAAACCCTTAACTTTAAAATCCTAAAACCTTAACTTAAAAAATGT-AACC
1 -T-A----AAAA-CCTAAACCCTTAAC-TTAAAAACCT-AAACCTTAACTTAAAAACCCTAAACC
* ** *
25212823 CTTAAATTAAAAACCCT-AACCCTTAATTTTAAAACCTTAAACCCTT--AA-CT
57 CTTAAATTAAAAACCTTAAACCCTTAAACTTAAAACCTTAAA-CCTTAAAACCC
* * * *
25212873 TAAAAACAGTATACCTTTAAATTAAAAACCTTAAACCTTAAAACCTTAAAACCCTAAACCCTAAA
1 TAAAAAC-CTAAACCCTTAACTTAAAAACC-TAAACCTT--AA-CTT--AA----AAACCCTAAA
* * * **
25212938 CCCTTAACTT-AAAACCCTAAACCCTT-AACTTAAAAACCAT-AACCATT--AACTT
55 CCCTTAAATTAAAAACCTTAAACCCTTAAACTT-AAAACCTTAAACC-TTAAAACCC
* * * * * * *
25212990 TTAAACCCTAAACCCTTAACTTAAAAACTGTAACCCATAACTTTAAAATCGC--AACCCTTAAA-
1 TAAAAACCTAAACCCTTAACTTAAAAAC-CTAAACCTTAAC-TTAAAAACCCTAAACCCTTAAAT
* * * *
25213052 TAAAAACCCT-AACACTT-AACTTAAAAACCCTAACCCTTAA
64 TAAAAACCTTAAACCCTTAAACTT-AAAACCTTAAACCTTAA
25213092 CTTAAATATA
Statistics
Matches: 541, Mismatches: 70, Indels: 124
0.74 0.10 0.17
Matches are distributed among these distances:
105 22 0.04
106 20 0.04
107 16 0.03
108 20 0.04
109 35 0.06
110 77 0.14
111 60 0.11
112 24 0.04
113 5 0.01
114 5 0.01
115 10 0.02
116 56 0.10
117 129 0.24
118 49 0.09
119 13 0.02
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.26
Consensus pattern (109 bp):
TAAAAACCTAAACCCTTAACTTAAAAACCTAAACCTTAACTTAAAAACCCTAAACCCTTAAATTA
AAAACCTTAAACCCTTAAACTTAAAACCTTAAACCTTAAAACCC
Found at i:25212447 original size:15 final size:15
Alignment explanation
Indices: 25212385--25212449 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
25212375 TAAAAACTTC
25212385 AAACCCTTAAATTAA
1 AAACCCTTAAATTAA
25212400 AAA-CCTTAAACCTT-A
1 AAACCCTTAAA--TTAA
* ***
25212415 AAACCCTAAAAACCA
1 AAACCCTTAAATTAA
*
25212430 AAACCCTTAACTTAA
1 AAACCCTTAAATTAA
25212445 AAACC
1 AAACC
25212450 ATAAACGCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
14 7 0.18
15 23 0.61
16 8 0.21
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (15 bp):
AAACCCTTAAATTAA
Found at i:25212455 original size:89 final size:88
Alignment explanation
Indices: 25212264--25213097 Score: 414
Period size: 89 Copynumber: 9.2 Consensus size: 88
25212254 TTTAATTGAC
*
25212264 AAACCTTAAACCCTTAACCTAAAAACCCT-AACCCTAACCCTAAACTTAAAAACCTTAAACTCTT
1 AAACC-TAAACCCTTAACTTAAAAACCCTAAACCCT-----TAAA-TTAAAAACCTTAAAC-CTT
*
25212328 --AA-CTTAAAAA-CACTAACTCTTAACTTAA
58 AAAACCTTAAAAACCA-AAACTCTTAACTTAA
*
25212356 AAACCCTAAACCCTTAACTTAAAAA-CTTCAAACCCTTAAATTAAAAACCTTAAACCTTAAAACC
1 AAA-CCTAAACCCTTAACTTAAAAACCCT-AAACCCTTAAATTAAAAACCTTAAACCTTAAAACC
* *
25212420 CTAAAAACCAAAACCCTTAACTTAA
64 TTAAAAACCAAAACTCTTAACTTAA
* * *
25212445 AAACCATAAACGCTTAACTTAAAAACCCTAAACCGTTAAATTAAAAACCTTAAACCCTAAAACCT
1 AAACC-TAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCTTAAACCTTAAAACCT
* * *
25212510 TAAAACCCTAAA-TCTATAAATTAA
65 TAAAAACCAAAACTCT-TAACTTAA
* * * *
25212534 AAACCTTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAAACCCT--AA-CTT
1 AAACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCTTAAACCTTAAAACCTT
*
25212596 AAAAACCCTAAAC-CTTTAAACTGTAAAACCGTA
66 AAAAA-CCAAAACTC-TT-AACT-T---A----A
* * * *
25212629 AAACCTTAAACCCTTAAATTAAAAACCCT-AACTCTTAACTTAAAAATCC-TAAACCTT-TAA-C
1 AAACC-TAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAA-CCTTAAACCTTAAAACC
* *
25212690 TTAAAAACCGTAAAC-CTTTAAATTAA
64 TTAAAAACC-AAAACTC-TTAACTTAA
* *
25212716 AAACCTTAAACCTTAAAACCTTTAACTTAAAAACCCTAAACCCTTAACTTTAAAATCC-TAAACC
1 AAACC-TAAA-C------CC-TTAACTTAAAAACCCTAAACCCTTAA-ATTAAAAACCTTAAA-C
* *
25212780 CTT--AACTTTAAAATCCTAAAAC-CTTAACTTAA
55 CTTAAAACCTTAAAAACC-AAAACTCTTAACTTAA
* * * * *
25212812 AAA-ATGTAACCCTTAAATTAAAAACCCT-AACCCTTAATTTTAAAACCTTAAACCCTT--AA-C
1 AAACCT-AAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCTTAAA-CCTTAAAACC
* *
25212872 TTAAAAA-CAGTATAC-CTTTAAATTAA
64 TTAAAAACCA--AAACTC-TTAACTTAA
* *
25212898 AAACCTTAAA-CCTTAAAACCTTAAAACCCTAAACCCTAAACCCTTAACTT-AAAACCCTAAACC
1 AAACC-TAAACCCTT--AA-CTT--AA----AAACCCTAAACCCTTAAATTAAAAACCTTAAA-C
* *
25212961 CTT--AA-CTTAAAAACCATAAC-CATTAACTTTTA
55 CTTAAAACCTTAAAAACCAAAACTC-TTAAC-TTAA
* ** * * * * ** *
25212993 AACCCTAAACCCTTAACTTAAAAACTGT-AACCCATAACTTTAAAATCGCAACCCTT-AAA---T
1 AAACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCTTAAACCTTAAAACCTT
** *
25213053 AAAAACCCTAACACTTAACTTAA
66 AAAAACCAAAACTCTTAACTTAA
25213076 AAACCCT-AACCCTTAACTTAAA
1 AAA-CCTAAACCCTTAACTTAAA
25213098 TATAATTTGA
Statistics
Matches: 615, Mismatches: 65, Indels: 133
0.76 0.08 0.16
Matches are distributed among these distances:
83 21 0.03
84 21 0.03
85 41 0.07
86 62 0.10
87 47 0.08
88 64 0.10
89 98 0.16
90 6 0.01
91 6 0.01
92 24 0.04
93 10 0.02
94 16 0.03
95 94 0.15
96 82 0.13
97 23 0.04
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.26
Consensus pattern (88 bp):
AAACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCTTAAACCTTAAAACCTT
AAAAACCAAAACTCTTAACTTAA
Found at i:25212529 original size:16 final size:16
Alignment explanation
Indices: 25212488--25212521 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
25212478 CGTTAAATTA
25212488 AAAACCTT-AAACCCT
1 AAAACCTTAAAACCCT
25212503 AAAACCTTAAAACCCT
1 AAAACCTTAAAACCCT
25212519 AAA
1 AAA
25212522 TCTATAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAACCTTAAAACCCT
Found at i:25212639 original size:52 final size:51
Alignment explanation
Indices: 25212576--25212784 Score: 190
Period size: 52 Copynumber: 4.2 Consensus size: 51
25212566 CCTTAACTTA
*
25212576 AAAACCCTAAACCCTAACTTAAAAACCCTAAACCTTTAAACTGT-AAAA-CCGT
1 AAAACCTTAAACCCTAACTTAAAAACCCTAAACCTTT-AACT-TAAAAATCC-T
*
25212628 AAAACCTTAAACCCTTAAATTAAAAACCCT-AA-CTCTTAACTTAAAAATCCT
1 AAAACCTTAAACCC-TAACTTAAAAACCCTAAACCT-TTAACTTAAAAATCCT
* *
25212679 -AAACCTT------TAACTTAAAAACCGTAAACCTTTAAATTAAAAA-CCT
1 AAAACCTTAAACCCTAACTTAAAAACCCTAAACCTTTAACTTAAAAATCCT
* * * *
25212722 TAAACCTTAAAACCTTTAACTTAAAAACCCTAAACCCTTAACTTTAAAATCCT
1 AAAACCTT-AAACC-CTAACTTAAAAACCCTAAACCTTTAACTTAAAAATCCT
*
25212775 AAACCCTTAA
1 AAAACCTTAA
25212785 CTTTAAAATC
Statistics
Matches: 130, Mismatches: 11, Indels: 32
0.75 0.06 0.18
Matches are distributed among these distances:
43 16 0.12
44 20 0.15
45 2 0.02
50 8 0.06
51 11 0.08
52 50 0.38
53 23 0.18
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (51 bp):
AAAACCTTAAACCCTAACTTAAAAACCCTAAACCTTTAACTTAAAAATCCT
Found at i:25212654 original size:117 final size:115
Alignment explanation
Indices: 25212293--25212876 Score: 489
Period size: 117 Copynumber: 5.1 Consensus size: 115
25212283 TAAAAACCCT
* * * *
25212293 AACCCT-AACCCTAAACTTAAAAACCTTAAACTCTTAACTTAAAAACACT-AACTCTTAACTTAA
1 AACCCTAAACCTTAAA-TTAAAAACC-TAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* *
25212356 AAACCCTAAACC-CTTAACTTAAAAA-CTTCAAACCCTTAAA-TTAAAAACCTT-A
64 AAACCCTAAACCGC-TAAATTAAAAACCCT-AAA-CCTTAAACTT-AAAACCTTAA
* * * * *
25212408 AACCTTAAAACC-----CTAAAAACCAAAACCCTTAACTTAAAAACCATAAACGCTTAACTTAAA
1 AACCCT-AAACCTTAAATTAAAAACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
25212468 AACCCTAAACCGTTAAATTAAAAACCTTAAACC-----C-TAAAACCTTAA
65 AACCCTAAACCGCTAAATTAAAAACCCTAAACCTTAAACTTAAAACCTTAA
* *
25212513 AACCCTAAATCTATAAATTAAAAACCTTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCT-TAAATTAAAAACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
* *
25212578 AACCCTAAACC-CTAACTTAAAAACCCTAAACCTTTAAACTGTAAAACCGTAA
65 AACCCTAAACCGCTAAATTAAAAACCCTAAACC-TTAAACT-TAAAACCTTAA
* * * *
25212630 AACCTTAAACCCTTAAATTAAAAACCCT-AACTCTTAACTTAAAAATCCTAAACCTTTAACTTAA
1 AACCCTAAA-CCTTAAATTAAAAA-CCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
* ** * *
25212694 AAACCGTAAACCTTTAAATTAAAAACCTTAAACCTTAAAACCTT-TAA-CTTAAA
64 AAACCCTAAACCGCTAAATTAAAAACCCTAAACCTT-AAA-CTTAAAACCTT-AA
* * * * *
25212747 AACCCTAAACCCTTAACTTTAAAATCCTAAACCCTTAACTTTAAAATCCTAAAACCTTAACTTAA
1 AACCCTAAA-CCTTAA-ATTAAAAACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAA
*** * **
25212812 AAAATGT-AACC-CTTAAATTAAAAACCCTAACCCTTAATTTTAAAACCTT-A
64 AAACCCTAAACCGC-TAAATTAAAAACCCTAAACCTTAAACTTAAAACCTTAA
*
25212862 AACCCTTAA-CTTAAA
1 AACCCTAAACCTTAAA
25212877 AACAGTATAC
Statistics
Matches: 389, Mismatches: 48, Indels: 67
0.77 0.10 0.13
Matches are distributed among these distances:
104 12 0.03
105 7 0.02
109 18 0.05
110 75 0.19
111 46 0.12
112 3 0.01
113 5 0.01
115 17 0.04
116 6 0.02
117 128 0.33
118 70 0.18
119 2 0.01
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.26
Consensus pattern (115 bp):
AACCCTAAACCTTAAATTAAAAACCTAAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAA
ACCCTAAACCGCTAAATTAAAAACCCTAAACCTTAAACTTAAAACCTTAA
Found at i:25212721 original size:15 final size:15
Alignment explanation
Indices: 25212701--25212750 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
25212691 TAAAAACCGT
25212701 AAACCTTTAAATTAA
1 AAACCTTTAAATTAA
25212716 AAACC-TTAAACCTT-A
1 AAACCTTTAAA--TTAA
*
25212731 AAACCTTTAACTTAA
1 AAACCTTTAAATTAA
25212746 AAACC
1 AAACC
25212751 CTAAACCCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 7 0.23
15 17 0.57
16 6 0.20
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (15 bp):
AAACCTTTAAATTAA
Found at i:25212725 original size:74 final size:73
Alignment explanation
Indices: 25212577--25213059 Score: 217
Period size: 74 Copynumber: 7.0 Consensus size: 73
25212567 CTTAACTTAA
* * * *
25212577 AAACCCTAAACC-CTAACTTAAAAACCCTAAACCTTTAAACTGT-AAAACCGTAAAACCTTAAAC
1 AAACCCTAAACCTTTAACTTAAAAACCCTAAACCCTT-AACTTTAAAAACC-TAAACCCTTAAA-
25212640 CCTT--AAA--TT
63 --TTAAAAACCTT
* * *
25212649 AAAAACCCT-AA-CTCTTAACTTAAAAATCCTAAACCTTTAAC-TTAAAAACCGTAAACCTTTAA
1 --AAACCCTAAACCT-TTAACTTAAAAACCCTAAACCCTTAACTTTAAAAACC-TAAACCCTTAA
25212711 ATTAAAAACCTT
62 ATTAAAAACCTT
* * *
25212723 AAACCTTAAAACCTTTAACTTAAAAACCCTAAACCCTTAACTTTAAAATCCTAAACCCTTAACTT
1 AAACCCT-AAACCTTTAACTTAAAAACCCTAAACCCTTAACTTTAAAAACCTAAACCCTTAAATT
*
25212788 TAAAA---T
65 AAAAACCTT
*** * *
25212794 ----CCTAAAACC-TTAACTTAAAAAATGT-AACCCTTAA-ATTAAAAACCCT-AACCCTTAATT
1 AAACCCT-AAACCTTTAACTTAAAAACCCTAAACCCTTAACTTTAAAAA-CCTAAACCCTTAAAT
*
25212851 TTAAAACCTT
64 TAAAAACCTT
** * * *
25212861 AAA--C----CC-TTAACTTAAAAACAGTATACCTTTAA-ATTAAAAACCTTAAA-CCTTAAAAC
1 AAACCCTAAACCTTTAACTTAAAAACCCTAAACCCTTAACTTTAAAAACC-TAAACCCTT-AAA-
*
25212917 CTT-AAAACCCT
63 -TTAAAAACCTT
* * *
25212928 AAACCCTAAACCCTTAACTT-AAAACCCTAAACCCTTAAC-TTAAAAACC-ATAACCATTAACTT
1 AAACCCTAAACCTTTAACTTAAAAACCCTAAACCCTTAACTTTAAAAACCTA-AACCCTTAAATT
25212990 -------TT
65 AAAAACCTT
* ** * *
25212992 AAACCCTAAACCCTTAACTTAAAAACTGT-AACCCATAACTTTAAAATCGC--AACCCTTAAA-T
1 AAACCCTAAACCTTTAACTTAAAAACCCTAAACCCTTAACTTTAAAAAC-CTAAACCCTTAAATT
25213053 AAAAACC
65 AAAAACC
25213060 CTAACACTTA
Statistics
Matches: 327, Mismatches: 38, Indels: 92
0.72 0.08 0.20
Matches are distributed among these distances:
63 1 0.00
64 78 0.24
65 45 0.14
66 18 0.06
67 19 0.06
68 2 0.01
69 2 0.01
70 4 0.01
71 2 0.01
72 15 0.05
73 50 0.15
74 81 0.25
75 10 0.03
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (73 bp):
AAACCCTAAACCTTTAACTTAAAAACCCTAAACCCTTAACTTTAAAAACCTAAACCCTTAAATTA
AAAACCTT
Found at i:25212737 original size:30 final size:31
Alignment explanation
Indices: 25212701--25212762 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
25212691 TAAAAACCGT
*
25212701 AAACCTTTAAATTAAAAACCTTAAA-CCTTA
1 AAACCTTTAAATTAAAAACCCTAAACCCTTA
*
25212731 AAACCTTTAACTTAAAAACCCTAAACCCTTA
1 AAACCTTTAAATTAAAAACCCTAAACCCTTA
25212762 A
1 A
25212763 CTTTAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (31 bp):
AAACCTTTAAATTAAAAACCCTAAACCCTTA
Found at i:25212840 original size:182 final size:180
Alignment explanation
Indices: 25212293--25212989 Score: 606
Period size: 182 Copynumber: 3.9 Consensus size: 180
25212283 TAAAAACCCT
* * * *
25212293 AACCCTAACCCTAAACTTAAAAACCTTAAACTCTTAACTTAAAAACACT-AA-CTCTTAACTTAA
1 AACCCTAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAAAAACAGTAAACCT-TTAAATTAA
* * * * *
25212356 AAACCCTAAACCCTT--AA-CTTAAAA-ACT----TC-AAACCCTTAAATTAAAAACCTTAAA-C
65 AAACCTTAAA-CCTTAAAACCTTAAAACCCTAAACCCTAAACCCTTAACTT-AAAACCCTAAACC
* * * * *
25212411 CTTAAAACCCTAAAAACCAAAACCCTTAACTTAAAAACCAT-AAACGCTTAACTTAAA
128 CTT--AA-CTTAAAAACCAAAACCATTAACTTAAAAA--ATGTAACCCTTAAATTAAA
* * * ** * *
25212468 AACCCTAAACCGTTAAATTAAAAACCTTAAACCCTAAAACCTT-AAAACCCTAAATCTATAAATT
1 AACCCT-AACCCTTAACTTAAAAACCTTAAACCCT-TAA-CTTAAAAACAGTAAACCTTTAAATT
*
25212532 AAAAACCTTAACCCTT--AA-CTT--AA----AAACCCTAAACCCTTAACTTAAAAACCCTAAAC
63 AAAAACCTTAAACCTTAAAACCTTAAAACCCTAAACCCTAAACCCTTAACTT-AAAACCCTAAAC
* *
25212588 CC-TAACTTAAAAACCCTAAACCTTTAAACTGTAAAACCGTAAAACCT-TAAACCCTTAAATTAA
127 CCTTAACTTAAAAA-CCAAAACCATT-AACT-T--AA----AAAA--TGT-AACCCTTAAATTAA
25212651 A
180 A
* * *
25212652 AACCCTAACTCTTAACTTAAAAATCC-TAAACCTTTAACTTAAAAACCGTAAACCTTTAAATTAA
1 AACCCTAACCCTTAACTTAAAAA-CCTTAAACCCTTAACTTAAAAACAGTAAACCTTTAAATTAA
* * *
25212716 AAACCTTAAACCTTAAAACCTT-TAA-CTTAAAAACCCTAAACCCTTAACTTTAAAATCCTAAAC
65 AAACCTTAAACCTTAAAACCTTAAAACCCT--AAACCCTAAACCCTTAAC-TTAAAACCCTAAAC
*
25212779 CCTTAACTTTAAAATCCTAAAACC-TTAACTTAAAAAATGTAACCCTTAAATTAAA
127 CCTTAAC-TTAAAAACC-AAAACCATTAACTTAAAAAATGTAACCCTTAAATTAAA
* * *
25212834 AACCCTAACCCTTAATTTTAAAACCTTAAACCCTTAACTTAAAAACAGTATACCTTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAAAAACAGTAAACCTTTAAATTAAA
25212899 AACCTTAAACCTTAAAACCTTAAAACCCTAAACCCTAAACCCTTAACTTAAAACCCTAAACCCTT
66 AACCTTAAACCTTAAAACCTTAAAACCCTAAACCCTAAACCCTTAACTTAAAACCCTAAACCCTT
*
25212964 AACTTAAAAACCATAACCATTAACTT
131 AACTTAAAAACCAAAACCATTAACTT
25212990 TTAAACCCTA
Statistics
Matches: 437, Mismatches: 42, Indels: 81
0.78 0.08 0.14
Matches are distributed among these distances:
174 7 0.02
175 19 0.04
176 29 0.07
177 43 0.10
178 22 0.05
179 9 0.02
180 15 0.03
181 26 0.06
182 146 0.33
183 28 0.06
184 29 0.07
185 3 0.01
186 2 0.00
188 2 0.00
190 1 0.00
191 35 0.08
192 10 0.02
193 11 0.03
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.26
Consensus pattern (180 bp):
AACCCTAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAAAAACAGTAAACCTTTAAATTAAA
AACCTTAAACCTTAAAACCTTAAAACCCTAAACCCTAAACCCTTAACTTAAAACCCTAAACCCTT
AACTTAAAAACCAAAACCATTAACTTAAAAAATGTAACCCTTAAATTAAA
Done.