Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 73 of 279
Found at i:24161702 original size:27 final size:26
Alignment explanation
Indices: 24161658--24161709 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
24161648 CTCGCTGCAA
*
24161658 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
24161685 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
24161710 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:24161777 original size:26 final size:27
Alignment explanation
Indices: 24161748--24161807 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
24161738 CCACATATAT
*
24161748 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
24161774 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
24161801 ATATCTG
1 ATATCTG
24161808 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:24166792 original size:27 final size:27
Alignment explanation
Indices: 24166730--24166841 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
24166720 AGCATGGTTG
* * * *
24166730 CCAGAACAGATA-ATGTGACATAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
24166756 CCAGATACAGATATTTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
24166784 CC-GAAACAGGTATTTGTGGCAGAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
* *
24166811 CCAGAACAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
24166838 CCAG
1 CCAG
24166842 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.07
27 55 0.74
28 14 0.19
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:24168388 original size:50 final size:50
Alignment explanation
Indices: 24168313--24168412 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
24168303 TCAAACTCTT
*
24168313 CCTGACAGAGTTCCACTTGAGTTCCATCACATCCCCTTTCTGTACTTAAA
1 CCTGACAGAGTTCCACTTGAGTTCCATCACATCCCCTTTCTGTACATAAA
24168363 CCTGACAGAGTTCCACTTGAGTTCCATCACATCCCCTTTCTGTACATAAA
1 CCTGACAGAGTTCCACTTGAGTTCCATCACATCCCCTTTCTGTACATAAA
24168413 AATTAATACT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.31
Consensus pattern (50 bp):
CCTGACAGAGTTCCACTTGAGTTCCATCACATCCCCTTTCTGTACATAAA
Found at i:24169973 original size:40 final size:40
Alignment explanation
Indices: 24169892--24170060 Score: 234
Period size: 40 Copynumber: 4.2 Consensus size: 40
24169882 CTAAGATCCA
* * * * *
24169892 AAGGTATTTGTGCGAGATATTAATTCCGGGCTAAG-CCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
* *
24169931 AAGGCATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
24169971 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
* *
24170011 AAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCG
1 AAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCG
24170051 AAGGCATTTG
1 AAGGCATTTG
24170061 AACGAGGAGC
Statistics
Matches: 117, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 28 0.24
40 87 0.74
41 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCG
Found at i:24169986 original size:79 final size:80
Alignment explanation
Indices: 24169836--24170060 Score: 242
Period size: 80 Copynumber: 2.8 Consensus size: 80
24169826 TTGAATGAAG
* * * * * * * * *
24169836 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCAAAGGTAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
* *
24169899 TTGTGCGAGATATTAAT
64 TTGTGCGAGATACTAAA
* *
24169916 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCTGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATT
*
24169979 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * *
24169995 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
24170060 G
66 G
24170061 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
78 2 0.02
79 53 0.44
80 64 0.53
81 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:24170074 original size:40 final size:40
Alignment explanation
Indices: 24169837--24170060 Score: 219
Period size: 40 Copynumber: 5.6 Consensus size: 40
24169827 TGAATGAAGT
* * * * *
24169837 CCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
24169877 CCGGACTAAGAT-CCAAAGGTATTTGTGCGAGATA-T-TAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24169915 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
24169955 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24169995 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
24170036 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
24170061 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 20, Indels: 18
0.80 0.10 0.09
Matches are distributed among these distances:
38 2 0.01
39 27 0.17
40 116 0.75
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:24170078 original size:80 final size:80
Alignment explanation
Indices: 24169916--24170093 Score: 211
Period size: 80 Copynumber: 2.2 Consensus size: 80
24169906 AGATATTAAT
* * *
24169916 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
24169980 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
24169995 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
24170059 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
24170075 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
24170094 TACGTGATTT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 25 0.29
80 58 0.68
81 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:24171402 original size:24 final size:24
Alignment explanation
Indices: 24171370--24171427 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
24171360 CTGTTAACAC
*
24171370 CTCGTGTTCGACTCCGGTGTCGGT
1 CTCGGGTTCGACTCCGGTGTCGGT
24171394 CTCGGGTTCGACTCCGGTGTCGGT
1 CTCGGGTTCGACTCCGGTGTCGGT
24171418 CTCGGGTTCG
1 CTCGGGTTCG
24171428 GAGTTTTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.03, C:0.29, G:0.36, T:0.31
Consensus pattern (24 bp):
CTCGGGTTCGACTCCGGTGTCGGT
Found at i:24178265 original size:86 final size:86
Alignment explanation
Indices: 24178120--24178291 Score: 308
Period size: 86 Copynumber: 2.0 Consensus size: 86
24178110 TCGGTTAGTG
* *
24178120 CCATACGATACGGAGCTATCGAAATTGGCGCAGTTCCAGGTACAAGCTCAATACCAAACTCTACC
1 CCATACGATACGGAGCGATCAAAATTGGCGCAGTTCCAGGTACAAGCTCAATACCAAACTCTACC
24178185 TCCCGAACAGGTGGCAAACCC
66 TCCCGAACAGGTGGCAAACCC
* *
24178206 CCATACGATACGGAGCGATCAAAATTGGCGTAGTTCTAGGTACAAGCTCAATACCAAACTCTACC
1 CCATACGATACGGAGCGATCAAAATTGGCGCAGTTCCAGGTACAAGCTCAATACCAAACTCTACC
24178271 TCCCGAACAGGTGGCAAACCC
66 TCCCGAACAGGTGGCAAACCC
24178292 GGTAGGTCTT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (86 bp):
CCATACGATACGGAGCGATCAAAATTGGCGCAGTTCCAGGTACAAGCTCAATACCAAACTCTACC
TCCCGAACAGGTGGCAAACCC
Found at i:24181623 original size:27 final size:27
Alignment explanation
Indices: 24181593--24181770 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
24181583 ATATCGAGTC
* *
24181593 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
24181620 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
24181647 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
24181675 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
24181702 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
24181729 CACACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
24181756 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24181771 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24181735 original size:82 final size:81
Alignment explanation
Indices: 24181614--24181769 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
24181604 TGCTATATAA
* * *
24181614 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAA-TCGCA
24181679 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24181696 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCACACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCA
24181760 CACTTAGTGC
65 CACTTAGTGC
24181770 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCACACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24188193 original size:22 final size:22
Alignment explanation
Indices: 24188165--24188240 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
24188155 AAGTCTATAT
24188165 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * * *
24188187 ATGTGATGAATG-TGAAAGTCTATA
1 ATGTGAT-AAGGCCGAATGGC--CA
24188211 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
24188234 ATGTGAT
1 ATGTGAT
24188241 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 19 0.49
23 4 0.10
24 4 0.10
25 12 0.31
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:24188279 original size:49 final size:47
Alignment explanation
Indices: 24188147--24188309 Score: 263
Period size: 47 Copynumber: 3.4 Consensus size: 47
24188137 CGCGACCCAC
24188147 GAATGTGAAAGTCTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTCTATATATGTGATAAGGCCGAATGGCCAATGTGAT
24188194 GAATGTGAAAGTCTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTCTATATATGTGATAAGGCCGAATGGCCAATGTGAT
* ** *
24188241 GAATGTGAAAGTGTATATATAAGTGATAAGGCTTAATGGCCGATGTGAT
1 GAATGTGAAAGTCTATATAT--GTGATAAGGCCGAATGGCCAATGTGAT
*
24188290 GAATGTGAAAGTGTATATAT
1 GAATGTGAAAGTCTATATAT
24188310 CGATGTGATG
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
47 66 0.60
49 44 0.40
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTCTATATATGTGATAAGGCCGAATGGCCAATGTGAT
Found at i:24188323 original size:29 final size:29
Alignment explanation
Indices: 24188281--24188338 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
24188271 GCTTAATGGC
24188281 CGATGTGATGAATGTGAAAGTGTATATAT
1 CGATGTGATGAATGTGAAAGTGTATATAT
24188310 CGATGTGATGAATGTGAAAGTGTATATAT
1 CGATGTGATGAATGTGAAAGTGTATATAT
24188339 GTGATAAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.34
Consensus pattern (29 bp):
CGATGTGATGAATGTGAAAGTGTATATAT
Found at i:24188365 original size:47 final size:47
Alignment explanation
Indices: 24188312--24188583 Score: 418
Period size: 47 Copynumber: 5.7 Consensus size: 47
24188302 GTATATATCG
*
24188312 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
*
24188359 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCA
* * *
24188408 ATGTGATGAATGTGGAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
*
24188455 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
* * *
24188502 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
* * *
24188549 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
24188584 TCCCGAAGGG
Statistics
Matches: 209, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 165 0.79
49 44 0.21
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
Found at i:24188369 original size:76 final size:75
Alignment explanation
Indices: 24188234--24188392 Score: 257
Period size: 76 Copynumber: 2.1 Consensus size: 75
24188224 CGAATGGCCA
* * *
24188234 ATGTGATGAATGTGAAAGTGTATATATAAGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATAT-AGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAA
24188299 AGTGTATATAT
65 AGTGTATATAT
24188310 CGATGTGATGAATGTGAAAGTGTATATAT-GTGATAAGGCCTAATAGCCAATGTGATGAATGTGA
1 --ATGTGATGAATGTGAAAGTGTATATATAGTGATAAGGCCTAATAGCCAATGTGATGAATGTGA
24188374 AAGTGTATATAT
64 AAGTGTATATAT
24188386 ATGTGAT
1 ATGTGAT
24188393 AAGGCCTAAT
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
74 7 0.09
76 44 0.56
78 27 0.35
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (75 bp):
ATGTGATGAATGTGAAAGTGTATATATAGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAA
GTGTATATAT
Found at i:24188392 original size:125 final size:126
Alignment explanation
Indices: 24188187--24188572 Score: 481
Period size: 125 Copynumber: 3.0 Consensus size: 126
24188177 CGAATGGCCA
*
24188187 ATGTGATGAATGTGAAAGTCTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
24188252 TGTATATATAAGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT-CG
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCG
* *
24188312 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
* *
24188377 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATGTG
66 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCG
24188438 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAA
1 AT---G-----T----GA--T---GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAA
* * * * * *
24188503 TGTGATGAATGTGAAAGTG--TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAA
49 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
24188566 GTGTATA
114 GTGTATA
24188573 AATGTGATAA
Statistics
Matches: 227, Mismatches: 16, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
125 117 0.52
126 3 0.01
129 1 0.00
134 1 0.00
138 2 0.01
140 1 0.00
141 44 0.19
143 58 0.26
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (126 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCG
Found at i:24190159 original size:27 final size:27
Alignment explanation
Indices: 24190129--24190197 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
24190119 ATATTGAGTC
* * *
24190129 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
24190156 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
24190183 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24190198 GTACAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:24190210 original size:27 final size:26
Alignment explanation
Indices: 24190129--24190210 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
24190119 ATATTGAGTC
* * * *
24190129 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCT-TACAATTAAAT
*
24190156 CGCACACTTAGTGC-TACGTAATCAAAT
1 CGCACACTTAGTGCTTAC--AATTAAAT
*
24190183 CGCACACTTAGTGCTGTACAATTTAAT
1 CGCACACTTAGTGCT-TACAATTAAAT
24190210 C
1 C
24190211 CCGCGCACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
25 2 0.04
27 41 0.89
29 3 0.07
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (26 bp):
CGCACACTTAGTGCTTACAATTAAAT
Found at i:24193415 original size:40 final size:40
Alignment explanation
Indices: 24193360--24193764 Score: 666
Period size: 40 Copynumber: 10.1 Consensus size: 40
24193350 GAGAATTGAG
24193360 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
24193400 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
24193440 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
24193480 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
24193520 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
24193560 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
24193600 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
24193640 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
24193680 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
24193720 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
24193760 AGTGA
1 AGTGA
24193765 CGTGTATTTG
Statistics
Matches: 336, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 336 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:24196943 original size:47 final size:47
Alignment explanation
Indices: 24196625--24196940 Score: 434
Period size: 47 Copynumber: 6.7 Consensus size: 47
24196615 AATCTATATT
*
24196625 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCCAATGGCCGA
*
24196672 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCCAATGGACGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCCAATGGCCGA
* * *
24196719 TGTGATAAATGTGAAAGTGTATATATGTTATAAGGCCCAATGGACGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCCAATGGCCGA
*
24196766 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCCAATGGCCGA
* * * * *
24196813 TGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCCAATGGCCGA
* * * * * * * *
24196860 CGTGATGGATGTGGAAGTGTATAAATGTGATAAGTCCGAGTGGCCAA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCCAATGGCCGA
* * *
24196907 CGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAG
24196941 TCCCGAAGGG
Statistics
Matches: 248, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 248 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCCAATGGCCGA
Found at i:24201740 original size:37 final size:38
Alignment explanation
Indices: 24201694--24201768 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
24201684 TGCCCCTTCA
* *
24201694 AATTCGCTTGTGTTTT-ACATGAGCCCTTAAGCAAAGT
1 AATTCGCTTGTGTTTTAACACGAACCCTTAAGCAAAGT
*
24201731 AATTTGCTTGTGTTTTAACACGAACCCTTAAGCAAAGT
1 AATTCGCTTGTGTTTTAACACGAACCCTTAAGCAAAGT
24201769 GAAGTGATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 15 0.44
38 19 0.56
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (38 bp):
AATTCGCTTGTGTTTTAACACGAACCCTTAAGCAAAGT
Found at i:24203661 original size:24 final size:24
Alignment explanation
Indices: 24203598--24203662 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
24203588 ATGAGAGGTA
***
24203598 GGAGTGATTTATGGAGTGTATCAT
1 GGAGTGATTTATGGAGAAAATCAT
*
24203622 GGAGAGATATTA-GGAGAAAATCAAT
1 GGAGTGAT-TTATGGAGAAAATC-AT
24203647 -GAGTGATTTATGGAGA
1 GGAGTGATTTATGGAGA
24203663 GATTTAAGGA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
23 3 0.09
24 25 0.76
25 5 0.15
ACGTcount: A:0.35, C:0.03, G:0.32, T:0.29
Consensus pattern (24 bp):
GGAGTGATTTATGGAGAAAATCAT
Found at i:24205042 original size:27 final size:27
Alignment explanation
Indices: 24205003--24205183 Score: 177
Period size: 27 Copynumber: 6.7 Consensus size: 27
24204993 CCAAACTATT
* *
24205003 TAAAATTACCGAAATACCCTTGAATTG
1 TAAAATTATCGAAATACCCTCGAATTG
24205030 TAAAATTATCGAAATACCCTCGAATTG
1 TAAAATTATCGAAATACCCTCGAATTG
** * *
24205057 TAAAATTATTAAAATACCC-CTAGTTTG
1 TAAAATTATCGAAATACCCTCGA-ATTG
* * *
24205084 TAAAATTACCGAAATACCCTCAAATTT
1 TAAAATTATCGAAATACCCTCGAATTG
* * * *
24205111 TAAAATTACCGATATACCC-CCAGTTTG
1 TAAAATTATCGAAATACCCTCGA-ATTG
* * * *
24205138 TAAAGTTATCGAAATACCCTTGTAGTG
1 TAAAATTATCGAAATACCCTCGAATTG
24205165 TAAAATTATCGAAATACCC
1 TAAAATTATCGAAATACCC
24205184 CTGTAGGGTA
Statistics
Matches: 125, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.03
27 119 0.95
28 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTCGAATTG
Found at i:24205085 original size:54 final size:54
Alignment explanation
Indices: 24205003--24205185 Score: 215
Period size: 54 Copynumber: 3.4 Consensus size: 54
24204993 CCAAACTATT
* * *
24205003 TAAAATTACCGAAATA-CCCTTGAATTGTAAAATTATCGAAATACCCTCGAATTG
1 TAAAATTATCGAAATACCCCTAG-TTTGTAAAATTATCGAAATACCCTCGAATTG
** * * *
24205057 TAAAATTATTAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCAAATTT
1 TAAAATTATCGAAATACCCCTAGTTTGTAAAATTATCGAAATACCCTCGAATTG
* * * * * * *
24205111 TAAAATTACCGATATACCCCCAGTTTGTAAAGTTATCGAAATACCCTTGTAGTG
1 TAAAATTATCGAAATACCCCTAGTTTGTAAAATTATCGAAATACCCTCGAATTG
24205165 TAAAATTATCGAAATACCCCT
1 TAAAATTATCGAAATACCCCT
24205186 GTAGGGTAAA
Statistics
Matches: 105, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
54 100 0.95
55 5 0.05
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
TAAAATTATCGAAATACCCCTAGTTTGTAAAATTATCGAAATACCCTCGAATTG
Found at i:24205139 original size:81 final size:81
Alignment explanation
Indices: 24205003--24205183 Score: 213
Period size: 81 Copynumber: 2.2 Consensus size: 81
24204993 CCAAACTATT
** * * *
24205003 TAAAATTACCGAAATACCCTTGAATTGTAAAATTATCGAAATACCCTCGAATTGTAAAATTATTA
1 TAAAATTACCGAAATACCCTCAAATTGTAAAATTACCGAAATACCCCCGAATTGTAAAATTATCA
*
24205068 AAATACCCCTAGT-TTG
66 AAATA-CCCTAGTAGTG
* * * *
24205084 TAAAATTACCGAAATACCCTCAAATTTTAAAATTACCGATATACCCCC-AGTTTGTAAAGTTATC
1 TAAAATTACCGAAATACCCTCAAATTGTAAAATTACCGAAATACCCCCGA-ATTGTAAAATTATC
* *
24205148 GAAATACCCTTGTAGTG
65 AAAATACCCTAGTAGTG
*
24205165 TAAAATTATCGAAATACCC
1 TAAAATTACCGAAATACCC
24205184 CTGTAGGGTA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 7 0.08
81 78 0.92
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (81 bp):
TAAAATTACCGAAATACCCTCAAATTGTAAAATTACCGAAATACCCCCGAATTGTAAAATTATCA
AAATACCCTAGTAGTG
Found at i:24205600 original size:27 final size:27
Alignment explanation
Indices: 24205565--24205638 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
24205555 GCTTTGTGCA
*
24205565 AATCTTATTTACCAATGGCTATATGCC
1 AATCATATTTACCAATGGCTATATGCC
* * * * * *
24205592 TATCATATTTATCGATGACTCTATGTC
1 AATCATATTTACCAATGGCTATATGCC
*
24205619 AATCATATTTACCCATGGCT
1 AATCATATTTACCAATGGCT
24205639 GTGTGCCGAT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (27 bp):
AATCATATTTACCAATGGCTATATGCC
Found at i:24205993 original size:27 final size:27
Alignment explanation
Indices: 24205926--24205993 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
24205916 TGTTACTAAG
* * ** *
24205926 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATAATGTA
* *
24205952 ATGGGCTGTGACCCAAATGATAATGTA
1 ATGGGCTTTGGCCCAAATGATAATGTA
24205979 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
24205994 CTTATGCTCT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATAATGTA
Found at i:24215526 original size:53 final size:53
Alignment explanation
Indices: 24215455--24215560 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
24215445 TTCCTCTTTC
24215455 CCCTTTTGTTTCGGCTTTGCAAGAAGGTAAGGAAGATGAACACACTCTTACCT
1 CCCTTTTGTTTCGGCTTTGCAAGAAGGTAAGGAAGATGAACACACTCTTACCT
* *
24215508 CCCTTTTGTTTTGGCTTTGCAAGAAGGTAAGGAAGATGAATACACTCTTACCT
1 CCCTTTTGTTTCGGCTTTGCAAGAAGGTAAGGAAGATGAACACACTCTTACCT
24215561 TTATTTCTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (53 bp):
CCCTTTTGTTTCGGCTTTGCAAGAAGGTAAGGAAGATGAACACACTCTTACCT
Found at i:24226586 original size:20 final size:20
Alignment explanation
Indices: 24226487--24226579 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
24226477 ACAGGATTAA
* *
24226487 ACTTCGGTCCCTTTGTTTGC
1 ACTTCGGTGCCTCTGTTTGC
*
24226507 ACTTTGGTGCCTCTGTTTGC
1 ACTTCGGTGCCTCTGTTTGC
* * *
24226527 ACTTCAGTGCCTCT-ATTAC
1 ACTTCGGTGCCTCTGTTTGC
* ** *
24226546 ACTTTGGTGTTTATGTTTGC
1 ACTTCGGTGCCTCTGTTTGC
24226566 ACTTCGGTGCCTCT
1 ACTTCGGTGCCTCT
24226580 TATTGCAGAA
Statistics
Matches: 54, Mismatches: 18, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
19 12 0.22
20 42 0.78
ACGTcount: A:0.10, C:0.26, G:0.20, T:0.44
Consensus pattern (20 bp):
ACTTCGGTGCCTCTGTTTGC
Found at i:24228163 original size:24 final size:25
Alignment explanation
Indices: 24228136--24228185 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
24228126 ATCAAACTAT
*
24228136 TGTCATTCTCT-GCGTTGG-GTTTTG
1 TGTCATTCGCTCGCG-TGGTGTTTTG
*
24228160 TGTCTTTCGCTCGCGTGGTGTTTTG
1 TGTCATTCGCTCGCGTGGTGTTTTG
24228185 T
1 T
24228186 AAGTGCTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.02, C:0.18, G:0.30, T:0.50
Consensus pattern (25 bp):
TGTCATTCGCTCGCGTGGTGTTTTG
Found at i:24234421 original size:46 final size:45
Alignment explanation
Indices: 24234359--24234526 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 45
24234349 TCTCGTAGCT
*
24234359 GATGCATGTCCTAGACATGTCTTACACTGACTTACGTCTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGACTT-CGTCTTGAGGCC
** * **
24234405 GATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCAATGTT
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACTTCGTCTTGAGGCC
* * * ** *
24234451 GATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACT-TCGTCTTGAGGCC
*
24234499 GATGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
24234527 AGTTCACAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
46 49 0.51
47 28 0.29
48 20 0.21
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTTCGTCTTGAGGCC
Found at i:24234475 original size:94 final size:92
Alignment explanation
Indices: 24234358--24234528 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
24234348 ATCTCGTAGC
* **
24234358 TGATGCATGTCCTAGACATGTCTTACACTGACT-TACGTCTTGAGGCCGATGCATGTCCCAGACA
1 TGATGCATGTCCTAGACATGTCTTACACTGACTCT-CATAATGAGGCCGATGCATGTCCCAGACA
24234422 TGTCTTACACTAGCACTCGTCTCAATGT
65 TGTCTTACACTAGCACTCGTCTCAATGT
* * *
24234450 TGATGCCATGT-CTCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCTAGA
1 TGATG-CATGTCCT-AGACAT-GTCTTACACTGACTCTCATAATGAGGCCGATGCATGTCCCAGA
24234514 CATGTCTTACACTAG
63 CATGTCTTACACTAG
24234529 TTCACAATAA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
92 7 0.10
93 11 0.16
94 50 0.72
95 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (92 bp):
TGATGCATGTCCTAGACATGTCTTACACTGACTCTCATAATGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCACTCGTCTCAATGT
Found at i:24235597 original size:18 final size:18
Alignment explanation
Indices: 24235563--24235597 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24235553 GACTTTTGCA
* *
24235563 TTTTATGCGATTTAGTCC
1 TTTTATGCAATTAAGTCC
24235581 TTTTATGCAATTAAGTC
1 TTTTATGCAATTAAGTC
24235598 ACAAACACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (18 bp):
TTTTATGCAATTAAGTCC
Found at i:24246078 original size:18 final size:18
Alignment explanation
Indices: 24246057--24246091 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24246047 AGGCCAATCT
*
24246057 GGGCGTGTGGGCCCATAG
1 GGGCATGTGGGCCCATAG
24246075 GGGCATGTGGGCCCATA
1 GGGCATGTGGGCCCATA
24246092 ATTCTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.17
Consensus pattern (18 bp):
GGGCATGTGGGCCCATAG
Found at i:24251477 original size:40 final size:39
Alignment explanation
Indices: 24251393--24251577 Score: 171
Period size: 40 Copynumber: 4.6 Consensus size: 39
24251383 TTGAATGATG
* * *
24251393 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT
* *
24251432 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* *
24251473 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACT-AAT
* *
24251513 T-CGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* *
24251551 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
24251578 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:24251599 original size:79 final size:79
Alignment explanation
Indices: 24251446--24251610 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
24251436 GGACTAAGAT
* ** *
24251446 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
*
24251511 ATTCGGGTTAAGTC
66 ATTCCGGTTAAGTC
* * * *
24251525 CCGATGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
* * *
24251588 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAGTC
24251604 CCGAAGG
1 CCGAAGG
24251611 TACGTGATGT
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.67
80 21 0.30
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATTCCGGTTAAGTC
Found at i:24254942 original size:23 final size:23
Alignment explanation
Indices: 24254912--24254957 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
24254902 TTTATTATTC
24254912 AAATTCTCCCCTATTTTGCTGTT
1 AAATTCTCCCCTATTTTGCTGTT
24254935 AAATTCTCCCCTATTTTGCTGTT
1 AAATTCTCCCCTATTTTGCTGTT
24254958 TGACAGCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.26, G:0.09, T:0.48
Consensus pattern (23 bp):
AAATTCTCCCCTATTTTGCTGTT
Found at i:24255627 original size:49 final size:49
Alignment explanation
Indices: 24255552--24255788 Score: 258
Period size: 49 Copynumber: 4.8 Consensus size: 49
24255542 TAGCAAAAGC
* * *
24255552 TATCTGGTACGCATAGTAGCCCGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* ** *
24255601 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* ** * * * *
24255651 CATCTAATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * *
24255702 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
** *
24255751 TATCCAGTACACATAATAGCCTGCACTTAGTACTACAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACAC
24255789 CCCTAACCTC
Statistics
Matches: 156, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 75 0.48
50 46 0.29
51 35 0.22
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:24257317 original size:46 final size:46
Alignment explanation
Indices: 24257249--24257376 Score: 202
Period size: 46 Copynumber: 2.8 Consensus size: 46
24257239 ATTTGGGCAT
* *
24257249 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
24257295 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
24257341 CCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24257377 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:24259062 original size:47 final size:46
Alignment explanation
Indices: 24258993--24259165 Score: 176
Period size: 47 Copynumber: 3.7 Consensus size: 46
24258983 GCCCATAAGC
*
24258993 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCT-GTTACATCTCAT
* * *
24259040 GAACTCAGACTCAACTCAACGAGTTCGGA---C-GTTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTGTT-ACAT-C-TCA-T
* * *
24259086 GAACTCGGACTCAACTAAACGAGCTCGGATGCCTTGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCC-TGTTACATCTCAT
*
24259133 GAACTC-GAGCTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGA-CTCAACTCAACGAGCTCGGATGCC
24259166 CAAATATCTA
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 2 0.02
46 29 0.28
47 54 0.52
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTGTTACATCTCAT
Found at i:24259146 original size:93 final size:93
Alignment explanation
Indices: 24258985--24259161 Score: 284
Period size: 93 Copynumber: 1.9 Consensus size: 93
24258975 TGTAACCCGC
* *
24258985 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCATGAACTCAGAC
1 CCATAAGCGAACTCGGACTCAACTAAACGAGCTCAGATGCCTAGTTACATCTCACGAACTCAGAC
24259050 TCAACTCAACGAGTTCGGACGTTCACAT
66 TCAACTCAACGAGTTCGGACGTTCACAT
* * * *
24259078 CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGATGCCTTGTTACATTTCACGAACTC-GAG
1 CCATAAGCGAACTCGGACTCAACTAAACGAGCTCAGATGCCTAGTTACATCTCACGAACTCAGA-
24259142 CTCAACTCAACGAGTTCGGA
65 CTCAACTCAACGAGTTCGGA
24259162 TGCCCAAATA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 75 0.97
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CCATAAGCGAACTCGGACTCAACTAAACGAGCTCAGATGCCTAGTTACATCTCACGAACTCAGAC
TCAACTCAACGAGTTCGGACGTTCACAT
Found at i:24267248 original size:27 final size:26
Alignment explanation
Indices: 24267218--24267309 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 26
24267208 GGGGCAAAAT
* * *
24267218 GGTAATTTTACCTCACAAGGGTATCTC
1 GGTAATTCTACCT-ACAGGGGTATTTC
24267245 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACC-TACAGGGGTATTTC
* *
24267272 GATAATTCTATCCTACAGGGGTATTTT
1 GGTAATTCTA-CCTACAGGGGTATTTC
24267299 GGTAATTCTAC
1 GGTAATTCTAC
24267310 AACTTATCCA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.02
27 53 0.93
28 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (26 bp):
GGTAATTCTACCTACAGGGGTATTTC
Found at i:24271954 original size:12 final size:12
Alignment explanation
Indices: 24271937--24271962 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24271927 AAAAGTGTAG
24271937 AACTAAAAAGTT
1 AACTAAAAAGTT
24271949 AACTAAAAAGTT
1 AACTAAAAAGTT
24271961 AA
1 AA
24271963 GTGGTAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (12 bp):
AACTAAAAAGTT
Found at i:24273437 original size:10 final size:10
Alignment explanation
Indices: 24273424--24273463 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
24273414 CATATATGAA
24273424 CATATCATGG
1 CATATCATGG
*
24273434 CATATCAGGTG
1 CATATCATG-G
24273445 CATATCATGG
1 CATATCATGG
24273455 CATATCATG
1 CATATCATG
24273464 TACAAAACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATATCATGG
Found at i:24273531 original size:25 final size:25
Alignment explanation
Indices: 24273503--24273553 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
24273493 ATAACATATC
*
24273503 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGTAAAATGGTCATTTTCA
24273528 CCTAGGGGTAAAATGGTCATTTTCA
1 CCTAGGGGTAAAATGGTCATTTTCA
24273553 C
1 C
24273554 ATTATAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (25 bp):
CCTAGGGGTAAAATGGTCATTTTCA
Found at i:24274134 original size:34 final size:34
Alignment explanation
Indices: 24274096--24274282 Score: 108
Period size: 34 Copynumber: 5.1 Consensus size: 34
24274086 TTACCACCAT
24274096 TCTTAGTCTACGCAACATGCTAATCAAACCCAAA
1 TCTTAGTCTACGCAACATGCTAATCAAACCCAAA
* * * * * * *
24274130 TCTTAGTCTCCCACGGAAACCTAC-AATTATTTACCACCAT
1 TCTTAGTCT---AC-GCAACATGCTAATCA--AACC-CAAA
24274170 TCTTAGTCTACGCAACATGCTAATCAAACCCAAA
1 TCTTAGTCTACGCAACATGCTAATCAAACCCAAA
* * * * * * *
24274204 TCTTAGTCTCCCACGGAAACCTAC-AATTATTTACCACCAT
1 TCTTAGTCT---AC-GCAACATGCTAATCA--AACC-CAAA
24274244 TCTTAGTCTACGCAACATGCTAATCAAACCCAAA
1 TCTTAGTCTACGCAACATGCTAATCAAACCCAAA
24274278 TCTTA
1 TCTTA
24274283 CCTTACCAAA
Statistics
Matches: 109, Mismatches: 28, Indels: 32
0.64 0.17 0.19
Matches are distributed among these distances:
34 27 0.25
35 6 0.06
36 12 0.11
37 24 0.22
38 12 0.11
39 6 0.06
40 22 0.20
ACGTcount: A:0.34, C:0.30, G:0.08, T:0.27
Consensus pattern (34 bp):
TCTTAGTCTACGCAACATGCTAATCAAACCCAAA
Found at i:24274181 original size:74 final size:74
Alignment explanation
Indices: 24274060--24274282 Score: 428
Period size: 74 Copynumber: 3.0 Consensus size: 74
24274050 TCGCCAATAA
* *
24274060 AGTCTCTCACGGCAACCTACAATTATTTACCACCATTCTTAGTCTACGCAACATGCTAATCAAAC
1 AGTCTCCCACGGAAACCTACAATTATTTACCACCATTCTTAGTCTACGCAACATGCTAATCAAAC
24274125 CCAAATCTT
66 CCAAATCTT
24274134 AGTCTCCCACGGAAACCTACAATTATTTACCACCATTCTTAGTCTACGCAACATGCTAATCAAAC
1 AGTCTCCCACGGAAACCTACAATTATTTACCACCATTCTTAGTCTACGCAACATGCTAATCAAAC
24274199 CCAAATCTT
66 CCAAATCTT
24274208 AGTCTCCCACGGAAACCTACAATTATTTACCACCATTCTTAGTCTACGCAACATGCTAATCAAAC
1 AGTCTCCCACGGAAACCTACAATTATTTACCACCATTCTTAGTCTACGCAACATGCTAATCAAAC
24274273 CCAAATCTT
66 CCAAATCTT
24274282 A
1 A
24274283 CCTTACCAAA
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 147 1.00
ACGTcount: A:0.34, C:0.31, G:0.08, T:0.27
Consensus pattern (74 bp):
AGTCTCCCACGGAAACCTACAATTATTTACCACCATTCTTAGTCTACGCAACATGCTAATCAAAC
CCAAATCTT
Found at i:24274815 original size:5 final size:5
Alignment explanation
Indices: 24274805--24274830 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24274795 AGAGAAGAAG
24274805 AAAGA AAAGA AAAGA AAAGA AAAGA A
1 AAAGA AAAGA AAAGA AAAGA AAAGA A
24274831 TAATCCTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:24280492 original size:46 final size:46
Alignment explanation
Indices: 24280439--24280614 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
24280429 TATTTGGTCA
24280439 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
24280485 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * * * * **
24280532 TCTGAGCTCGTTGAGTTAAGCCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
24280578 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24280615 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 62 0.61
47 28 0.27
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:24282432 original size:6 final size:6
Alignment explanation
Indices: 24282414--24282448 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
24282404 AAGAAACATT
24282414 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAG
24282449 GTGACAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 25 0.93
7 1 0.04
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:24282923 original size:27 final size:27
Alignment explanation
Indices: 24282873--24283095 Score: 257
Period size: 27 Copynumber: 8.3 Consensus size: 27
24282863 GGGGCAAAAT
* * * **
24282873 GGTAATTTTACCCCACAAGAGTATCCC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
24282900 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
24282927 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
24282954 AGTAATTCTACCTTACAGGGGTATTAC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
24282981 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
24283008 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
24283035 GGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
24283062 AATAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
24283089 GGTAATT
1 GGTAATT
24283096 TCAAAAATCA
Statistics
Matches: 162, Mismatches: 34, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:24283110 original size:27 final size:27
Alignment explanation
Indices: 24283080--24283211 Score: 142
Period size: 27 Copynumber: 4.9 Consensus size: 27
24283070 TACCCTACAA
* *
24283080 GGGTATTTTGGTAATTTCAAAAATCAG
1 GGGTATTTTGGTAATTTTATAAATCAG
*
24283107 GGGTATTTTGGTAATTTTACAAA-CAAG
1 GGGTATTTTGGTAATTTTATAAATC-AG
**
24283134 GGGTATTTTGGTAATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTATAAATCAG
* *
24283160 AGGGTATTTTGGTAATTTTATAAACCAA
1 -GGGTATTTTGGTAATTTTATAAATCAG
** *
24283188 GGGTATTTCAGTAATTTTGTAAAT
1 GGGTATTTTGGTAATTTTATAAAT
24283212 TGAGGGTAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.02
27 85 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCAG
Found at i:24283111 original size:81 final size:82
Alignment explanation
Indices: 24282902--24283126 Score: 294
Period size: 81 Copynumber: 2.8 Consensus size: 82
24282892 AGTATCCCGG
* * * * *
24282902 TAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACCCTACAAGGGTATTTTAGTAATTCTACC
1 TAATTCTACCCTACAAGGGTATTTTGGTAATTTCTACCATACAAGGGTATTTTGGTAATTTTACC
* *
24282966 TTACAGGGGTATTACAG
66 CTACAGGGGTATTACAA
* *
24282983 TAATTCTACCCTACAAGGGTATTTTGGTAA-TTCTACCTTACAAGGGTATTTCGGTAATTTTACC
1 TAATTCTACCCTACAAGGGTATTTTGGTAATTTCTACCATACAAGGGTATTTTGGTAATTTTACC
* *
24283047 CTATAGGGGTATTTCAA
66 CTACAGGGGTATTACAA
* ** *
24283064 TAATTCTACCCTACAAGGGTATTTTGGTAATTTCAAAAAT-CAGGGGTATTTTGGTAATTTTAC
1 TAATTCTACCCTACAAGGGTATTTTGGTAATTTCTACCATACAAGGGTATTTTGGTAATTTTAC
24283127 AAACAAGGGG
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
81 120 0.95
82 6 0.05
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (82 bp):
TAATTCTACCCTACAAGGGTATTTTGGTAATTTCTACCATACAAGGGTATTTTGGTAATTTTACC
CTACAGGGGTATTACAA
Found at i:24283165 original size:54 final size:53
Alignment explanation
Indices: 24282999--24283205 Score: 166
Period size: 54 Copynumber: 3.8 Consensus size: 53
24282989 TACCCTACAA
* ** * ***
24282999 GGGTATTTTGGTAATTCTACCTTACAAGGGTATTTCGGTAATTTTACCCTAT-AG
1 GGGTATTTTGGTAATTTTA-CAAACAAGGGTATTTTGGTAATTTTA-AAAATCAG
*** * ** *
24283053 GGGTATTTCAATAATTCTACCCTACAAGGGTATTTTGGTAATTTCAAAAATCAG
1 GGGTATTTTGGTAATTTTA-CAAACAAGGGTATTTTGGTAATTTTAAAAATCAG
***
24283107 GGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTGGTAATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTACAAACAA-GGGTATTTTGGTAATTTTAAAAATCAG
* **
24283160 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAGTAATTTT
1 -GGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTTGGTAATTTT
24283206 GTAAATTGAG
Statistics
Matches: 127, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
53 8 0.06
54 116 0.91
55 3 0.02
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACAAGGGTATTTTGGTAATTTTAAAAATCAG
Found at i:24283217 original size:54 final size:53
Alignment explanation
Indices: 24283076--24283246 Score: 155
Period size: 54 Copynumber: 3.2 Consensus size: 53
24283066 ATTCTACCCT
** * * *
24283076 ACAAGGGTATTTTGGTAATTTCAAAAATC-AGGGGTATTTTGGTAATTTTACAA
1 ACAAGGGTATTTCAGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTATAA
** **
24283129 ACAAGGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTATAA
1 ACAA-GGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAA
* * *** *
24283183 ACCAAGGGTATTTCAGTAATTTTGTAAATTGAGGGTAAAATGGTAATTCTATAA
1 A-CAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAA
*
24283237 ATCGAGGGTA
1 A-CAAGGGTA
24283247 AAATGGTAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.04
54 90 0.92
55 4 0.04
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (53 bp):
ACAAGGGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTATAA
Found at i:24283219 original size:81 final size:81
Alignment explanation
Indices: 24283079--24283427 Score: 231
Period size: 81 Copynumber: 4.3 Consensus size: 81
24283069 CTACCCTACA
* * * *** * ***
24283079 AGGGTATTTTGGTAATTTCAAAAATCAGGGGTATTTTGGTAATTTTACAAA-CAAGGGGTATTTT
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCAATAATTTTGCAAATCAA-GGGTAAAAT
* **
24283143 GGTAATTTTATTGATCG
65 GGTAATTCTATAAATCG
* * * **
24283160 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTCAGTAATTTTGTAAATTGAGGGTAAAATG
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCAATAATTTTGCAAATCAAGGGTAAAATG
24283225 GTAATTCTATAAATCG
66 GTAATTCTATAAATCG
*** * * * *** *
24283241 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAGACAATAATTTTGTAAATCAAGGGTAAAATG
1 AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCAATAATTTTGCAAATCAAGGGTAAAATG
**
24283306 GTAATTCTAT-CTTAC-
66 GTAATTCTATAAAT-CG
* * * ** * **
24283321 AGGACTATTTTAGTAATTTTACAAATTGAGGGTATTTCAATAATTTTGCAAA-CTGAGGGT-ATT
1 AGG-GTATTTTGGTAATTTTATAAATCAAGGGTATTTCAATAATTTTGCAAATC-AAGGGTAAAA
* * *
24283384 TCGATAATTTTACAAATCG
64 T-GGTAATTCTATAAATCG
* *
24283403 AGGATATTTGGGTAATTTTATAAAT
1 AGGGTATTTTGGTAATTTTATAAAT
24283428 TGAGGGTACT
Statistics
Matches: 205, Mismatches: 56, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
80 7 0.03
81 193 0.94
82 5 0.02
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCAATAATTTTGCAAATCAAGGGTAAAATG
GTAATTCTATAAATCG
Found at i:24283228 original size:27 final size:27
Alignment explanation
Indices: 24283198--24283313 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
24283188 GGGTATTTCA
* *
24283198 GTAATTTTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
24283225 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* **
24283252 GTAATTCTGTAAATCGAGGGTAAGACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
24283279 ATAATTTTGTAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
24283306 GTAATTCT
1 GTAATTCT
24283314 ATCTTACAGG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:24283356 original size:27 final size:27
Alignment explanation
Indices: 24283326--24283474 Score: 154
Period size: 27 Copynumber: 5.5 Consensus size: 27
24283316 CTTACAGGAC
*
24283326 TATTTTAGTAATTTTACAAATTGAGGG
1 TATTTTGGTAATTTTACAAATTGAGGG
*** * *
24283353 TATTTCAATAATTTTGCAAACTGAGGG
1 TATTTTGGTAATTTTACAAATTGAGGG
* * * *
24283380 TATTTCGATAATTTTACAAATCGAGGA
1 TATTTTGGTAATTTTACAAATTGAGGG
* *
24283407 TATTTGGGTAATTTTATAAATTGAGGG
1 TATTTTGGTAATTTTACAAATTGAGGG
* * *
24283434 TACTTTGGTAATTTTACAAGTCGAGGG
1 TATTTTGGTAATTTTACAAATTGAGGG
*
24283461 TATTTGGGTAATTT
1 TATTTTGGTAATTT
24283475 GGTAAACTAA
Statistics
Matches: 101, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAATTGAGGG
Found at i:24283466 original size:54 final size:54
Alignment explanation
Indices: 24283333--24283474 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 54
24283323 GACTATTTTA
* *** *
24283333 GTAATTTTACAAATTGAGGGTATTTCAATAATTTTGCAAACTGAGGGTATTTCG
1 GTAATTTTACAAATCGAGGGTATTTGGGTAATTTTACAAACTGAGGGTATTTCG
* * * *
24283387 ATAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATTGAGGGTACTTT-G
1 GTAATTTTACAAATCGAGGGTATTTGGGTAATTTTACAAACTGAGGGTA-TTTCG
*
24283441 GTAATTTTACAAGTCGAGGGTATTTGGGTAATTT
1 GTAATTTTACAAATCGAGGGTATTTGGGTAATTT
24283475 GGTAAACTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
54 72 0.96
55 3 0.04
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTATTTGGGTAATTTTACAAACTGAGGGTATTTCG
Found at i:24286192 original size:25 final size:25
Alignment explanation
Indices: 24286164--24286233 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
24286154 CTCTTTTAAT
*
24286164 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
24286189 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
24286214 AATTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
24286234 GCACTTCTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:24286292 original size:10 final size:10
Alignment explanation
Indices: 24286279--24286318 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
24286269 CATATATGAA
24286279 CATATCATGG
1 CATATCATGG
*
24286289 CATATCAGGTG
1 CATATCATG-G
24286300 CATATCATGG
1 CATATCATGG
24286310 CATATCATG
1 CATATCATG
24286319 TACAAAACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATATCATGG
Found at i:24287521 original size:11 final size:11
Alignment explanation
Indices: 24287495--24287533 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
24287485 TCAGCTAGAG
24287495 AAGAAGAAAGAA
1 AAGAA-AAAGAA
24287507 AAG-AAAAGAAA
1 AAGAAAAAG-AA
24287518 AAGAAAAAGAA
1 AAGAAAAAGAA
24287529 AAGAA
1 AAGAA
24287534 TAATCCTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.16
11 13 0.52
12 8 0.32
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:24287525 original size:17 final size:17
Alignment explanation
Indices: 24287495--24287533 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
24287485 TCAGCTAGAG
24287495 AAGAAGAAAGAAAAGAA
1 AAGAAGAAAGAAAAGAA
24287512 AAGAA-AAAGAAAAAGAA
1 AAGAAGAAAG-AAAAGAA
24287529 AAGAA
1 AAGAA
24287534 TAATCCTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAGAAAAGAA
Found at i:24294011 original size:20 final size:20
Alignment explanation
Indices: 24293986--24294069 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
24293976 TTGAAATTCG
* *
24293986 GTGCCTTTGTTTGCACTTTA
1 GTGCCTCTGTTTGCACTTCA
* *
24294006 GTGCCTCTGTTTGGACTT-T
1 GTGCCTCTGTTTGCACTTCA
*
24294025 GATGCCTCTG-TTACACTTCA
1 G-TGCCTCTGTTTGCACTTCA
* *
24294045 GTGTCTATGTTTGCACTTCA
1 GTGCCTCTGTTTGCACTTCA
24294065 GTGCC
1 GTGCC
24294070 ACTAATTGCA
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 13 0.25
20 38 0.75
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (20 bp):
GTGCCTCTGTTTGCACTTCA
Found at i:24297162 original size:11 final size:12
Alignment explanation
Indices: 24297146--24297176 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
24297136 CGAGATAGAA
24297146 ATAATTATTTT-
1 ATAATTATTTTG
24297157 ATAATTATTTTG
1 ATAATTATTTTG
24297169 ATAATTAT
1 ATAATTAT
24297177 GATATGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
ATAATTATTTTG
Found at i:24298490 original size:47 final size:47
Alignment explanation
Indices: 24298421--24299201 Score: 1435
Period size: 47 Copynumber: 16.6 Consensus size: 47
24298411 GATGCAAATG
24298421 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298468 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298515 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298562 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298609 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298656 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298703 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298750 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298797 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298844 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298891 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298938 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24298985 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
24299032 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
* * * * *
24299079 TCCGAACTCGTTGAGTTGAGTCCCGAGTTCACTTATGGATGCAA--ATG--
1 TCCGAACTCGTTGAGTTGAGT-CCGAGTTC-GTGA--CATGTAACTAGGCA
*
24299126 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
*
24299173 TCCGAACTCGTCGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
24299202 ATTTATGGAT
Statistics
Matches: 716, Mismatches: 10, Indels: 16
0.96 0.01 0.02
Matches are distributed among these distances:
43 6 0.01
45 4 0.01
46 8 0.01
47 681 0.95
48 8 0.01
49 4 0.01
51 5 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGACATGTAACTAGGCA
Found at i:24299247 original size:46 final size:46
Alignment explanation
Indices: 24299080--24299252 Score: 181
Period size: 47 Copynumber: 3.7 Consensus size: 46
24299070 AACTAGGCAT
* *
24299080 CCGAACTCGTTGAGTTGAGTCCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGT-CCGAGTTCACTTATGGATGCAAACGC
* * * *
24299127 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* * *
24299172 ATCCGAACTCGTCGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
24299220 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24299253 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 37 0.36
47 47 0.45
48 5 0.05
50 5 0.05
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:24315980 original size:34 final size:34
Alignment explanation
Indices: 24315937--24316007 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
24315927 AGGAGGTTTT
* **
24315937 AAATAGCAATTTGACCAATTTTAAGTTCATGGAC
1 AAATAGCAATTTAAAAAATTTTAAGTTCATGGAC
24315971 AAATAGCAATTTAAAAAATTTTAAGTTCATGGAC
1 AAATAGCAATTTAAAAAATTTTAAGTTCATGGAC
24316005 AAA
1 AAA
24316008 ATTAGGACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (34 bp):
AAATAGCAATTTAAAAAATTTTAAGTTCATGGAC
Found at i:24317063 original size:46 final size:46
Alignment explanation
Indices: 24317013--24317185 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
24317003 TGGTTGAGCA
* *
24317013 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
24317059 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
24317106 TCCGAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
24317152 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24317186 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:24317169 original size:93 final size:93
Alignment explanation
Indices: 24317010--24317180 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
24317000 GGATGGTTGA
* * * *
24317010 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
24317075 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
24317103 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
24317168 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24317181 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24321131 original size:24 final size:24
Alignment explanation
Indices: 24321103--24321150 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
24321093 AAGGTCGAAG
24321103 CTGTCAGATAGCAGAACAGGGGTA
1 CTGTCAGATAGCAGAACAGGGGTA
24321127 CTGTCAGATAGCAGAACAGGGGTA
1 CTGTCAGATAGCAGAACAGGGGTA
24321151 AGTTTGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.33, T:0.17
Consensus pattern (24 bp):
CTGTCAGATAGCAGAACAGGGGTA
Found at i:24336362 original size:17 final size:17
Alignment explanation
Indices: 24336340--24336412 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
24336330 TGTTAATCAA
24336340 TTGTAAAAAATTCAAGC
1 TTGTAAAAAATTCAAGC
* *
24336357 TTGTAAAAAATACATACC
1 TTGTAAAAAATTCA-AGC
* *
24336375 AAATTGGAAAAAAAT-AAGC
1 ---TTGTAAAAAATTCAAGC
24336394 TTGTAAAAAATTCAAGC
1 TTGTAAAAAATTCAAGC
24336411 TT
1 TT
24336413 CCATGCCTAG
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
16 10 0.23
17 19 0.44
18 2 0.05
19 2 0.05
20 1 0.02
21 9 0.21
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (17 bp):
TTGTAAAAAATTCAAGC
Found at i:24344187 original size:19 final size:19
Alignment explanation
Indices: 24344159--24344203 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
24344149 AAATCCCTAG
24344159 TTTTCCCTTTTTCTT-TTTC
1 TTTTCCC-TTTTCTTCTTTC
*
24344178 TTTTCTCTTTTCTTCTTTC
1 TTTTCCCTTTTCTTCTTTC
24344197 -TTTCCCT
1 TTTTCCCT
24344204 GCTAACCGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCCCTTTTCTTCTTTC
Found at i:24344249 original size:13 final size:13
Alignment explanation
Indices: 24344231--24344255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24344221 TTCTTTCCTT
24344231 TTTCTTTATTTCA
1 TTTCTTTATTTCA
24344244 TTTCTTTATTTC
1 TTTCTTTATTTC
24344256 TTTTATTTTA
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:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:24344528 original size:19 final size:20
Alignment explanation
Indices: 24344499--24344536 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24344489 CATTATACTT
*
24344499 AATTATTCTTAGTTAAGCTA
1 AATTATTCTTAATTAAGCTA
24344519 AATT-TTCTTAATTAAGCT
1 AATTATTCTTAATTAAGCT
24344537 TTAATTGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (20 bp):
AATTATTCTTAATTAAGCTA
Found at i:24346549 original size:76 final size:76
Alignment explanation
Indices: 24346462--24346608 Score: 249
Period size: 76 Copynumber: 1.9 Consensus size: 76
24346452 TGCATATCCC
* * *
24346462 TCTTTTGATATGGGCAATGATTTGGATGAAACTTATTTAGATGGAATCATGAAACCTTGCATGTT
1 TCTTTTGATATGGGCAATGATTTGGATGAAACTTATTTAGATGAAAGCATGAAACCTTGCATGGT
24346527 TTTTTTTATTG
66 TTTTTTTATTG
* *
24346538 TCTTTTGATATGGGCAATGTTTTGGATGAAACTTATTTGGATGAAAGCATGAAACCTTGCATGGT
1 TCTTTTGATATGGGCAATGATTTGGATGAAACTTATTTAGATGAAAGCATGAAACCTTGCATGGT
24346603 TTTTTT
66 TTTTTT
24346609 ACTGCTTTGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.44
Consensus pattern (76 bp):
TCTTTTGATATGGGCAATGATTTGGATGAAACTTATTTAGATGAAAGCATGAAACCTTGCATGGT
TTTTTTTATTG
Found at i:24346623 original size:76 final size:76
Alignment explanation
Indices: 24346462--24346635 Score: 244
Period size: 76 Copynumber: 2.3 Consensus size: 76
24346452 TGCATATCCC
* * *
24346462 TCTTTTGATATGGGCAATGATTTGGATGAAACTTATTTAGATGGAATCATGAAACCTTGCATGTT
1 TCTTTTGATATGGGCAATGATTTGGATGAAACTTATTTAGATGAAAGCATGAAACCTTGCATGTG
*
24346527 TTTTTTTATTG
66 TTTTTTTACTG
* *
24346538 TCTTTTGATATGGGCAATGTTTTGGATGAAACTTATTTGGATGAAAGCATGAAACCTTGCATG-G
1 TCTTTTGATATGGGCAATGATTTGGATGAAACTTATTTAGATGAAAGCATGAAACCTTGCATGTG
24346602 TTTTTTTACTG
66 TTTTTTTACTG
*
24346613 -CTTTGATGATATGTGGCTATGAT
1 TCTTT--TGATATG-GGCAATGAT
24346636 ATAAGTTTGA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
74 4 0.05
75 10 0.11
76 66 0.76
77 7 0.08
ACGTcount: A:0.25, C:0.10, G:0.22, T:0.43
Consensus pattern (76 bp):
TCTTTTGATATGGGCAATGATTTGGATGAAACTTATTTAGATGAAAGCATGAAACCTTGCATGTG
TTTTTTTACTG
Found at i:24348498 original size:13 final size:12
Alignment explanation
Indices: 24348464--24348516 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
24348454 TATAAATTAT
24348464 AAAA-ATTTTAA
1 AAAATATTTTAA
24348475 ATAAA-ATTTTAA
1 A-AAATATTTTAA
24348487 AAAATATATTTATTA
1 AAAATAT-TTTA--A
24348502 AAAATATTTTAA
1 AAAATATTTTAA
24348514 AAA
1 AAA
24348517 TAAAGTCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.11
12 17 0.46
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATATTTTAA
Found at i:24348533 original size:27 final size:28
Alignment explanation
Indices: 24348474--24348533 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 28
24348464 AAAAATTTTA
* *
24348474 AATAAA-ATTTTAAAAAATATATTTATT
1 AATAAATATTTTAAAAAATAAATCTATT
24348501 AA-AAATATTTT-AAAAATAAAGTCTA-T
1 AATAAATATTTTAAAAAATAAA-TCTATT
24348527 AATAAAT
1 AATAAAT
24348534 TTGGACAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
AATAAATATTTTAAAAAATAAATCTATT
Found at i:24348815 original size:12 final size:12
Alignment explanation
Indices: 24348798--24348823 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24348788 AAAAAACATA
24348798 TTTTGAATTTTT
1 TTTTGAATTTTT
24348810 TTTTGAATTTTT
1 TTTTGAATTTTT
24348822 TT
1 TT
24348824 CTAACATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTGAATTTTT
Found at i:24358691 original size:21 final size:21
Alignment explanation
Indices: 24358639--24358691 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
24358629 AACAATGGTG
*
24358639 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTGGATACTATA
** *
24358660 GTAGTGAGATTGGATGCTATA
1 GCGGTGAGATTGGATACTATA
*
24358681 GCGGTGTGATT
1 GCGGTGAGATT
24358692 AGAAACAACA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.08, G:0.38, T:0.32
Consensus pattern (21 bp):
GCGGTGAGATTGGATACTATA
Found at i:24364952 original size:225 final size:221
Alignment explanation
Indices: 24364489--24364925 Score: 696
Period size: 225 Copynumber: 2.0 Consensus size: 221
24364479 GCATCGTAGT
*
24364489 TTCATTATTATTACCAATATGGCTGATGCTAAAACTACTAGAAAATTCAGACTGTGCTGCTTCAA
1 TTCAATATTATTACCAATATGGCTGATGCTAAAACTACTAGAAAATTCAGACTGTGCTGCTTCAA
* *
24364554 CTGTTCATTCTGACGGAAATACCTGTATTCAACACATTTCGACATATATATAGGGATAGGACCCC
66 CTGTTCATTCTGACGGAAATAACTGTATTCAACACATTTCGACATATATATACGGATAGG---CC
* * * *
24364619 AAGAACCCACCAAATACATGAAAAACTGAACTCAAACTCATCCAAATCCGAATAACATAGTATTC
128 AAGAACCCACCAAATACATGAAAAACTGAACACAAACTCACCCAAATCCGAAGAACATAGGATTC
*
24364684 AAATTTCTTGTTTTGTTGAATAACATAGGA
193 AAATTTCTTATTTTGTTGAATAACATA-GA
* *
24364714 TTCATTATTATTACCAATATGGCTGGTGCTAAAACTACTAGAAAATTCAGACTGTGCTGCTTCAA
1 TTCAATATTATTACCAATATGGCTGATGCTAAAACTACTAGAAAATTCAGACTGTGCTGCTTCAA
*
24364779 CTGTTCATTCTGACTGAAATAACTGTATTCAACACATTTCGACATATATATACGGATAGG-CAAG
66 CTGTTCATTCTGACGGAAATAACTGTATTCAACACATTTCGACATATATATACGGATAGGCCAAG
* * * *
24364843 AACCTACCAAATATATGAAAAACTGAACACAGACTCACCCAAATCCGAAGAACATAGGATTCAGA
131 AACCCACCAAATACATGAAAAACTGAACACAAACTCACCCAAATCCGAAGAACATAGGATTCAAA
24364908 TTTCTTATTTTGTTGAAT
196 TTTCTTATTTTGTTGAAT
24364926 GATCTAATTA
Statistics
Matches: 199, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
221 78 0.39
225 121 0.61
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (221 bp):
TTCAATATTATTACCAATATGGCTGATGCTAAAACTACTAGAAAATTCAGACTGTGCTGCTTCAA
CTGTTCATTCTGACGGAAATAACTGTATTCAACACATTTCGACATATATATACGGATAGGCCAAG
AACCCACCAAATACATGAAAAACTGAACACAAACTCACCCAAATCCGAAGAACATAGGATTCAAA
TTTCTTATTTTGTTGAATAACATAGA
Found at i:24367642 original size:5 final size:5
Alignment explanation
Indices: 24367632--24367659 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
24367622 TTGTGTGTTC
24367632 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
24367660 TACAAATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:24372936 original size:14 final size:14
Alignment explanation
Indices: 24372917--24372943 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24372907 AGCAAACAAG
24372917 AAAAATTAAAAAAC
1 AAAAATTAAAAAAC
24372931 AAAAATTAAAAAA
1 AAAAATTAAAAAA
24372944 AAGTAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATTAAAAAAC
Found at i:24376453 original size:40 final size:40
Alignment explanation
Indices: 24376370--24376589 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
24376360 ACCCAAGTAT
** * *
24376370 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
24376408 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
24376448 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
24376488 CTTCGGGTCTTAGCCCGGATAT-GGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
24376528 CTTCGGATCTTAGTCCGGATATAGTCATTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
24376568 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
24376590 CATTCGAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 17 0.11
40 122 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:24378646 original size:46 final size:46
Alignment explanation
Indices: 24378493--24378717 Score: 158
Period size: 46 Copynumber: 4.8 Consensus size: 46
24378483 AGGGTATAAT
* *
24378493 GCCGATGCCATATCCCAGACATGGTCTTACACTGACTCAT--TCATCAA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCGTCA-CAAG
* * * * * *
24378540 GTCGATACCATGTCTCAGACATGGTCTTACACTGACACATC-TCA-TA-
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTGGCTC-TCGTCACAAG
* * * *
24378586 GCCAATGCATGTCCCAGGCATGTCTTACACTGGCT-TATGTCACGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCACAAG
* * * *
24378632 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCACAAG
*
24378678 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC
24378718 ATAATGTGTC
Statistics
Matches: 143, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
42 1 0.01
44 15 0.10
45 13 0.09
46 48 0.34
47 48 0.34
48 18 0.13
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCACAAG
Found at i:24381095 original size:46 final size:46
Alignment explanation
Indices: 24381028--24381199 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
24381018 AACCCGCCCC
*
24381028 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
24381074 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * * *
24381122 TCA-CGAACTCTGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
24381167 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
24381200 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 58 0.57
47 26 0.25
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:24381141 original size:93 final size:93
Alignment explanation
Indices: 24381033--24381203 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
24381023 GCCCCTAAGT
* * *
24381033 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
24381098 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
24381126 GAACTCTGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
24381191 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24381204 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:24381661 original size:30 final size:30
Alignment explanation
Indices: 24381627--24381686 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
24381617 ATTTAATACG
24381627 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
24381657 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
24381687 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:24388673 original size:46 final size:46
Alignment explanation
Indices: 24388606--24388777 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
24388596 AACCCGCTCC
*
24388606 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
24388652 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
24388700 TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
24388745 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
24388778 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 59 0.57
47 27 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:24388718 original size:93 final size:93
Alignment explanation
Indices: 24388611--24388781 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
24388601 GCTCCTAAGT
* *
24388611 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24388676 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
24388704 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
24388769 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24388782 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:24388797 original size:46 final size:47
Alignment explanation
Indices: 24388603--24388797 Score: 156
Period size: 46 Copynumber: 4.2 Consensus size: 47
24388593 TGTAACCCGC
* ** * *
24388603 TCCTAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCA
1 TCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCA
24388648 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CA
1 TCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCA
* * * * *** *
24388698 T-TTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTC--GCA
1 TCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCA
24388741 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCA
1 TCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCA
24388789 TCCT-AGTGA
1 TCCTAAGTGA
24388798 CATGTCACTT
Statistics
Matches: 117, Mismatches: 19, Indels: 27
0.72 0.12 0.17
Matches are distributed among these distances:
43 3 0.03
45 6 0.05
46 68 0.58
47 29 0.25
48 8 0.07
50 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (47 bp):
TCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCA
Found at i:24390496 original size:22 final size:22
Alignment explanation
Indices: 24390453--24390500 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
24390443 TTATTAATTA
**
24390453 TTAATTAAGCTAATTATTACCC
1 TTAATTAAGCTAATTACCACCC
* *
24390475 TTAATTAAGTTATTTACCACCC
1 TTAATTAAGCTAATTACCACCC
24390497 TTAA
1 TTAA
24390501 CTAACAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (22 bp):
TTAATTAAGCTAATTACCACCC
Found at i:24397387 original size:11 final size:11
Alignment explanation
Indices: 24397373--24397412 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
24397363 TGACATCATC
24397373 ATTTTAAAAAT
1 ATTTTAAAAAT
*
24397384 ATTTAAAAAAT
1 ATTTTAAAAAT
*
24397395 ATTTTAAAAAA
1 ATTTTAAAAAT
24397406 ATTTTAA
1 ATTTTAA
24397413 CTTTCTCCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:24398761 original size:19 final size:19
Alignment explanation
Indices: 24398733--24398779 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
24398723 AACCAGTCAG
* *
24398733 TTAACAGAATTTTTTTGAT
1 TTAACCGAATTTTTTCGAT
*
24398752 TTAACCGAATTTTTTCGGT
1 TTAACCGAATTTTTTCGAT
24398771 TTAACCGAA
1 TTAACCGAA
24398780 AAAATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (19 bp):
TTAACCGAATTTTTTCGAT
Found at i:24398895 original size:18 final size:18
Alignment explanation
Indices: 24398872--24398909 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
24398862 AATATATATT
24398872 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
24398890 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
24398908 AA
1 AA
24398910 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:24398902 original size:13 final size:13
Alignment explanation
Indices: 24398886--24398910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24398876 CAAGTACCCA
24398886 ACCCAACCCAATT
1 ACCCAACCCAATT
24398899 ACCCAACCCAAT
1 ACCCAACCCAAT
24398911 CATAAAAATT
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:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:24398983 original size:9 final size:9
Alignment explanation
Indices: 24398969--24399036 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
24398959 TTTATACAGA
*
24398969 TAATTCAGT
1 TAATTCGGT
*
24398978 TAATTCTGT
1 TAATTCGGT
* *
24398987 TAATTTGGA
1 TAATTCGGT
24398996 TAATTCAGG-
1 TAATTC-GGT
* *
24399005 TAATTTGGG
1 TAATTCGGT
24399014 TAATTCGGT
1 TAATTCGGT
24399023 TAATTCGGT
1 TAATTCGGT
24399032 TAATT
1 TAATT
24399037 TTATACTTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 2 0.04
9 45 0.92
10 2 0.04
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:24400103 original size:15 final size:15
Alignment explanation
Indices: 24400083--24400114 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
24400073 CTAAATGGAG
24400083 GTCTTTGGATTATTT
1 GTCTTTGGATTATTT
24400098 GTCTTTGGATTATTT
1 GTCTTTGGATTATTT
24400113 GT
1 GT
24400115 TGGAGTTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.22, T:0.59
Consensus pattern (15 bp):
GTCTTTGGATTATTT
Found at i:24402011 original size:17 final size:17
Alignment explanation
Indices: 24401973--24402004 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
24401963 GGTTGTATTC
24401973 TCTTTGCAAGTCTCAAG
1 TCTTTGCAAGTCTCAAG
24401990 TCTTTG-AAG-CTCAAG
1 TCTTTGCAAGTCTCAAG
24402005 ATTCTTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (17 bp):
TCTTTGCAAGTCTCAAG
Found at i:24402884 original size:24 final size:23
Alignment explanation
Indices: 24402830--24402907 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
24402820 GGATAATTAA
**
24402830 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
24402853 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
24402877 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
24402898 GAAATAGTAT
1 GAAATGGTAT
24402908 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:24402892 original size:21 final size:21
Alignment explanation
Indices: 24402866--24402932 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
24402856 TTGGTATTTG
24402866 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
24402887 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
24402908 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
24402931 GG
1 GG
24402933 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:24414981 original size:20 final size:22
Alignment explanation
Indices: 24414936--24414981 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
24414926 TTAGATGTTT
* *
24414936 AATACATTCTTTAATTGTGCTC
1 AATACATTCTTTAAATGTACTC
24414958 -ATACA-TCTTTAAATGTAC-C
1 AATACATTCTTTAAATGTACTC
24414977 AATAC
1 AATAC
24414982 GTAAGTTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.05
20 15 0.71
21 5 0.24
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.39
Consensus pattern (22 bp):
AATACATTCTTTAAATGTACTC
Found at i:24419565 original size:15 final size:15
Alignment explanation
Indices: 24419545--24419601 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
24419535 CGATGAATTT
*
24419545 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
24419560 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
24419575 ATTGAAATTATATTG
1 ATTGAAATTATATTG
24419590 ATTG-AATTATAT
1 ATTGAAATTATAT
24419602 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:24420021 original size:21 final size:21
Alignment explanation
Indices: 24419973--24420081 Score: 128
Period size: 21 Copynumber: 5.1 Consensus size: 21
24419963 GGCTTTATCG
**
24419973 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
24419994 ATTTCAGGCACTTCGTGTGTCGT
1 A--TCAGGCACTTCGTGTGTCGT
*
24420017 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
*
24420038 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
* * **
24420059 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
24420080 AT
1 AT
24420082 ACTGATCAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
21 58 0.75
23 19 0.25
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.37
Consensus pattern (21 bp):
ATCAGGCACTTCGTGTGTCGT
Found at i:24424837 original size:17 final size:16
Alignment explanation
Indices: 24424815--24424846 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
24424805 TAAGGTTCTA
24424815 TAGCTATTAGACACTTT
1 TAGCTATTAGA-ACTTT
24424832 TAGCTATTAGAACTT
1 TAGCTATTAGAACTT
24424847 AAGTTTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (16 bp):
TAGCTATTAGAACTTT
Found at i:24428221 original size:40 final size:40
Alignment explanation
Indices: 24427889--24428214 Score: 591
Period size: 40 Copynumber: 8.2 Consensus size: 40
24427879 AACCCAAGTA
* * * *
24427889 CCTTCGGGATTTA-ACCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
24427928 CCTTCGGGACTTAGCCCGGATATAATAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
24427968 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
24428008 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
24428048 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
24428088 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
24428128 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
24428168 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
24428208 CCTTCGG
1 CCTTCGG
24428215 ATCTTAGTCC
Statistics
Matches: 279, Mismatches: 7, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
39 12 0.04
40 267 0.96
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:24429606 original size:13 final size:13
Alignment explanation
Indices: 24429588--24429613 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24429578 ATTTTTATTT
24429588 TTAACATAAAATA
1 TTAACATAAAATA
24429601 TTAACATAAAATA
1 TTAACATAAAATA
24429614 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:24437019 original size:30 final size:30
Alignment explanation
Indices: 24436983--24437042 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
24436973 TTTGGTATGC
24436983 TTGAATATGGAATTGAGTGGTTGAAATGTT
1 TTGAATATGGAATTGAGTGGTTGAAATGTT
24437013 TTGAATATGGAATTGAGTGGTTGAAATGTT
1 TTGAATATGGAATTGAGTGGTTGAAATGTT
24437043 AGTGAATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (30 bp):
TTGAATATGGAATTGAGTGGTTGAAATGTT
Found at i:24439335 original size:27 final size:27
Alignment explanation
Indices: 24439305--24439482 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24439295 ATATTGAGTC
* * * *
24439305 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24439332 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24439359 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24439387 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24439414 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24439441 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24439468 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24439483 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24439444 original size:82 final size:81
Alignment explanation
Indices: 24439326--24439481 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24439316 TGCTATATAA
* *
24439326 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24439391 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24439408 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24439472 CACTTAGTGC
65 CACTTAGTGC
24439482 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24447526 original size:27 final size:27
Alignment explanation
Indices: 24447496--24447673 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24447486 ATATTGAGTC
* * * *
24447496 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24447523 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24447550 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24447578 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24447605 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24447632 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24447659 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24447674 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24447635 original size:82 final size:81
Alignment explanation
Indices: 24447517--24447672 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24447507 TGCTATATAA
* *
24447517 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24447582 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24447599 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24447663 CACTTAGTGC
65 CACTTAGTGC
24447673 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24453880 original size:3 final size:3
Alignment explanation
Indices: 24453872--24453900 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
24453862 CAATGAATCA
24453872 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24453901 ATTTATCCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24454037 original size:38 final size:38
Alignment explanation
Indices: 24453995--24454068 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
24453985 TTGATAAACC
*
24453995 AAAATTTGTGAGATAAACATGTGAAAAACAGATAAAAG
1 AAAATTTGTGAGATAAACATGTAAAAAACAGATAAAAG
*
24454033 AAAATTTGTGGGATAAACATGTAAAAAACAGATAAA
1 AAAATTTGTGAGATAAACATGTAAAAAACAGATAAA
24454069 GTTTGTAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.22
Consensus pattern (38 bp):
AAAATTTGTGAGATAAACATGTAAAAAACAGATAAAAG
Found at i:24454727 original size:20 final size:21
Alignment explanation
Indices: 24454697--24454740 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
24454687 ATTAATCATA
*
24454697 TAGGCAATTTT-GGTTTATTAT
1 TAGGCAATTTTAGATTT-TTAT
24454718 TAGG-AATTTTAGATTTTTAT
1 TAGGCAATTTTAGATTTTTAT
24454738 TAG
1 TAG
24454741 ATAACGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.52
Consensus pattern (21 bp):
TAGGCAATTTTAGATTTTTAT
Found at i:24455902 original size:14 final size:16
Alignment explanation
Indices: 24455870--24455904 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
24455860 TATAAAGTTT
24455870 TTATAAATGTTATATA
1 TTATAAATGTTATATA
24455886 TTATAAAT-TTA-ATA
1 TTATAAATGTTATATA
24455900 TTATA
1 TTATA
24455905 TTAAACTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 3 0.16
16 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TTATAAATGTTATATA
Found at i:24465288 original size:26 final size:26
Alignment explanation
Indices: 24465252--24465306 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
24465242 ATAACGTCTA
24465252 GCCGGGTTTAGGATGTTACAACTAAG
1 GCCGGGTTTAGGATGTTACAACTAAG
* *
24465278 GCCGGGTTTAGGGTGTTACATCTAAG
1 GCCGGGTTTAGGATGTTACAACTAAG
24465304 GCC
1 GCC
24465307 CGGGATAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (26 bp):
GCCGGGTTTAGGATGTTACAACTAAG
Done.