Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 92 of 250
Found at i:29806222 original size:49 final size:50
Alignment explanation
Indices: 29806144--29806389 Score: 316
Period size: 49 Copynumber: 4.9 Consensus size: 50
29806134 AGCTATTGTG
29806144 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
29806194 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
29806244 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
29806294 AGGTCACGTTTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
29806344 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
29806390 GCTTCTGCTA
Statistics
Matches: 166, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 82 0.49
50 46 0.28
51 38 0.23
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:29809168 original size:16 final size:15
Alignment explanation
Indices: 29809130--29809168 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
29809120 TGGATTCTCG
*
29809130 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
29809145 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
29809160 TATTCTTGG
1 TA-TCTTGG
29809169 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:29811245 original size:30 final size:30
Alignment explanation
Indices: 29811209--29811268 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
29811199 TTCCCGAGCC
29811209 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
29811239 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
29811269 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:29812086 original size:50 final size:49
Alignment explanation
Indices: 29811916--29812159 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
29811906 GCTATTGTGA
29811916 GGTCACG-GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * *
29811964 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCTGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
29812014 CGATCACGTGTGTAGTAATAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
29812064 AGGTCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
29812114 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
29812160 GCTTCAGCTA
Statistics
Matches: 163, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
48 5 0.03
49 75 0.46
50 47 0.29
51 36 0.22
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:29812418 original size:16 final size:16
Alignment explanation
Indices: 29812397--29812436 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
29812387 TTAGTAGTAA
*
29812397 AACAGTGTTGGACAGC
1 AACAGTGCTGGACAGC
29812413 AACAGTGCTGGACAGC
1 AACAGTGCTGGACAGC
29812429 AACAGTGC
1 AACAGTGC
29812437 ATGAATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.30, T:0.15
Consensus pattern (16 bp):
AACAGTGCTGGACAGC
Found at i:29818193 original size:32 final size:32
Alignment explanation
Indices: 29818157--29818223 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
29818147 ATTAATTCTC
*
29818157 TATTTTCAAGAGTTTATGAGTATAGATCGAAT
1 TATTTTCAAGAGTTTATGAGTATAGATCAAAT
*
29818189 TATTTTCAGGAGTTTATGAGTATAGATCAAAT
1 TATTTTCAAGAGTTTATGAGTATAGATCAAAT
29818221 TAT
1 TAT
29818224 AAATTTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (32 bp):
TATTTTCAAGAGTTTATGAGTATAGATCAAAT
Found at i:29821157 original size:42 final size:42
Alignment explanation
Indices: 29821103--29821221 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
29821093 CTCATAGCAC
* * *
29821103 CATACCAATGCCATATCCCAGATATGGCCTTACAT-AGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGAAG-TCT
* *
29821145 CATATCGATGCCAATAGCCCA-ACTATGGTCTTACATGAAGTCT
1 CATATCAATGCC-ATATCCCAGA-TATGGTCTTACATGAAGTCT
29821188 CATATCAATGCCATATCCCAGATATGGTCTTACA
1 CATATCAATGCCATATCCCAGATATGGTCTTACA
29821222 CGTAATCTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 30 0.45
43 34 0.52
44 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGAAGTCT
Found at i:29821231 original size:42 final size:41
Alignment explanation
Indices: 29821103--29821231 Score: 138
Period size: 42 Copynumber: 3.0 Consensus size: 41
29821093 CTCATAGCAC
* *
29821103 CATACCAATGCCATATCCCAGATATGGCCTTACA-TAGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACAGTA--ATCT
* *
29821145 CATATCGATGCCAATAGCCCA-ACTATGGTCTTACA-TGAAGTCT
1 CATATCAATGCC-ATATCCCAGA-TATGGTCTTACAGT-AA-TCT
29821188 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACA-GTAATCT
29821230 CA
1 CA
29821232 AATACCCCTA
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
42 36 0.49
43 36 0.49
44 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (41 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACAGTAATCT
Found at i:29841246 original size:30 final size:30
Alignment explanation
Indices: 29841212--29841271 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
29841202 ATTTAATATG
29841212 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
29841242 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
29841272 GGCTCAGGAA
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:29842561 original size:16 final size:16
Alignment explanation
Indices: 29842540--29842570 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
29842530 TAGATGAATG
29842540 GGGGACGCATAAGCCA
1 GGGGACGCATAAGCCA
29842556 GGGGACGCATAAGCC
1 GGGGACGCATAAGCC
29842571 GAGAAGACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.39, T:0.06
Consensus pattern (16 bp):
GGGGACGCATAAGCCA
Found at i:29851882 original size:28 final size:28
Alignment explanation
Indices: 29851849--29851907 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
29851839 CTTTTGCACT
*
29851849 TTTTTGAATGAAAATCTTT-CGATCTGAAA
1 TTTTGGAATG-AAAT-TTTCCGATCTGAAA
29851878 TTTTGGAATGAAATTTTCCGATCTGAAA
1 TTTTGGAATGAAATTTTCCGATCTGAAA
29851906 TT
1 TT
29851908 CAGTCTCCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 3 0.11
28 16 0.57
29 9 0.32
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (28 bp):
TTTTGGAATGAAATTTTCCGATCTGAAA
Found at i:29851906 original size:15 final size:14
Alignment explanation
Indices: 29851860--29851907 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
29851850 TTTTGAATGA
29851860 AAATCTTTCGATCTG
1 AAAT-TTTCGATCTG
* *
29851875 AAATTTTGGA-ATG
1 AAATTTTCGATCTG
29851888 AAATTTTCCGATCTG
1 AAATTTT-CGATCTG
29851903 AAATT
1 AAATT
29851908 CAGTCTCCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 9 0.33
14 7 0.26
15 11 0.41
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (14 bp):
AAATTTTCGATCTG
Found at i:29856591 original size:27 final size:26
Alignment explanation
Indices: 29856551--29856656 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 26
29856541 AGGAAGCGTC
*
29856551 CTGGTGGCTATGCCACAATCATCTGAT
1 CTGGTGGCTCTGCCACAAT-ATCTGAT
* *
29856578 CTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
* * *
29856605 CTGGTGGCTCTACCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-AATATCT-GAT
* * *
29856633 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACAATATCTG
29856657 TTCTAGCAGC
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
27 47 0.73
28 17 0.27
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:29857743 original size:11 final size:10
Alignment explanation
Indices: 29857715--29857748 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
29857705 AGCCTGTAAG
29857715 TATTCTGAAT
1 TATTCTGAAT
*
29857725 TTTTCTGAAT
1 TATTCTGAAT
29857735 ATATTCTGAAT
1 -TATTCTGAAT
29857746 TAT
1 TAT
29857749 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:29864292 original size:27 final size:26
Alignment explanation
Indices: 29864252--29864357 Score: 86
Period size: 27 Copynumber: 3.9 Consensus size: 26
29864242 AGGAAGCGTC
* *
29864252 CTGGTGTCTATGCCACAATCATCTGAT
1 CTGGTGGCTCTGCCACAAT-ATCTGAT
* *
29864279 CTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
* *
29864306 CTGGTGGCTCTACCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-AATATCTG-AT
* * * *
29864334 CTAGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACAATATCTG
29864358 TTCTAGCAGC
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
27 48 0.75
28 16 0.25
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:29874002 original size:9 final size:9
Alignment explanation
Indices: 29873983--29874011 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
29873973 CAAAAAGACC
29873983 TCTTC-TTT
1 TCTTCTTTT
29873991 TCTTCTTTT
1 TCTTCTTTT
29874000 TCTTCTTTT
1 TCTTCTTTT
29874009 TCT
1 TCT
29874012 CCTTGCTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
TCTTCTTTT
Found at i:29875237 original size:14 final size:15
Alignment explanation
Indices: 29875220--29875248 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
29875210 TAGAGTTTAG
29875220 AAAGAAAAA-AAGAA
1 AAAGAAAAAGAAGAA
29875234 AAAGAAAAAGAAGAA
1 AAAGAAAAAGAAGAA
29875249 GAGGAAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAA
Found at i:29875268 original size:2 final size:2
Alignment explanation
Indices: 29875261--29875299 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
29875251 GGAAAAGCAA
29875261 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
29875300 AATGGCGGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:29878619 original size:67 final size:65
Alignment explanation
Indices: 29878481--29878688 Score: 210
Period size: 64 Copynumber: 3.2 Consensus size: 65
29878471 ATATAGTTCG
* * * * *
29878481 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGT-TTATCTCG
1 GCTCTCTTGT-CTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACA-TCATATCTCG
29878542 TA
64 TA
* * * *
29878544 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACAT-ATATCCC
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATCATATCTC
29878608 GTA
63 GTA
* *
29878611 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCAT-A--TCTC
29878676 GTA
63 GTA
29878679 GCTCTCTTGT
1 GCTCTCTTGT
29878689 ACACATGATG
Statistics
Matches: 121, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
64 29 0.24
65 2 0.02
66 24 0.20
67 29 0.24
68 18 0.15
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATCATATCTCGTA
Found at i:29880597 original size:40 final size:40
Alignment explanation
Indices: 29880425--29880590 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
29880415 AACCCAAGTA
* * *
29880425 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
29880464 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
29880504 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
29880544 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
29880584 CCTTCGG
1 CCTTCGG
29880591 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 13 0.11
40 106 0.89
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:29885682 original size:11 final size:11
Alignment explanation
Indices: 29885656--29885688 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
29885646 GGGATTGATT
29885656 TGTAAAAA-TA
1 TGTAAAAATTA
29885666 -GTAAAAATTA
1 TGTAAAAATTA
29885676 TGTAAAAATTA
1 TGTAAAAATTA
29885687 TG
1 TG
29885689 AAATAAGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.33
10 2 0.10
11 12 0.57
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (11 bp):
TGTAAAAATTA
Found at i:29886211 original size:38 final size:38
Alignment explanation
Indices: 29886141--29886229 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
29886131 TTTATGCCGA
* *
29886141 TGTTATTTAGGCTTTGTGCCTAGTAGGATTTGTGCCAC
1 TGTTATTTAGGCTCTGTGCCTAATAGGATTTGTGCCAC
* *
29886179 TGTTATTTAGGCTCTGTGTCTAATA-GACTTTGTGCCAG
1 TGTTATTTAGGCTCTGTGCCTAATAGGA-TTTGTGCCAC
* *
29886217 TATTATGTAGGCT
1 TGTTATTTAGGCT
29886230 TTTTGCTGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
37 2 0.05
38 42 0.95
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.43
Consensus pattern (38 bp):
TGTTATTTAGGCTCTGTGCCTAATAGGATTTGTGCCAC
Found at i:29887018 original size:12 final size:12
Alignment explanation
Indices: 29887001--29887026 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29886991 GCAGTTACAC
29887001 GGCCTAGCACAT
1 GGCCTAGCACAT
29887013 GGCCTAGCACAT
1 GGCCTAGCACAT
29887025 GG
1 GG
29887027 GCGTGTGAGG
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (12 bp):
GGCCTAGCACAT
Found at i:29898142 original size:35 final size:35
Alignment explanation
Indices: 29898103--29898175 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
29898093 ACACATTCTT
29898103 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
29898138 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAGATCAATCTCACATAAATAATATA
29898173 TAT
1 TAT
29898176 ATCACATACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (35 bp):
TATTCTCGTCAGATCAATCTCACATAAATAATATA
Found at i:29901813 original size:37 final size:37
Alignment explanation
Indices: 29901758--29901896 Score: 224
Period size: 37 Copynumber: 3.8 Consensus size: 37
29901748 GATGAAATAT
* * * *
29901758 CACACGAAGTTATAGGGTCTTACCCAGACAAAATCTC
1 CACACGTAGTCATCGGGTCTTACCCAGACATAATCTC
*
29901795 CACACGTAGTCATCGGGTCTTACCCGGACATAATCTC
1 CACACGTAGTCATCGGGTCTTACCCAGACATAATCTC
*
29901832 CACACGTAGTCATCGGGTCTTACCCGGACATAATCTC
1 CACACGTAGTCATCGGGTCTTACCCAGACATAATCTC
29901869 CACACGTAGTCATCGGGTCTTACCCAGA
1 CACACGTAGTCATCGGGTCTTACCCAGA
29901897 ATATATTTCC
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
CACACGTAGTCATCGGGTCTTACCCAGACATAATCTC
Found at i:29902163 original size:48 final size:48
Alignment explanation
Indices: 29902043--29902478 Score: 694
Period size: 48 Copynumber: 9.0 Consensus size: 48
29902033 ACACATCGCC
*
29902043 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
29902093 TATATATTTCACATT-GACCATTCGGCTTTACCACATATTCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
29902141 TATATATTTCACATTAGTCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * *
29902193 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
29902241 TGCATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
29902289 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
29902337 TACATATTTCACATTAGCCATCCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
29902385 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
29902433 TACATATTTCACATTAGCCATTCGACTTTACCACGTATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
29902479 AATGCATCAA
Statistics
Matches: 363, Mismatches: 17, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
48 274 0.75
49 2 0.01
50 42 0.12
52 45 0.12
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:29904909 original size:28 final size:27
Alignment explanation
Indices: 29904878--29904975 Score: 97
Period size: 29 Copynumber: 3.4 Consensus size: 27
29904868 ACTGACCGAT
29904878 CTCGCACACATAGTGCTCGGTTGAAGAA
1 CTCGCACACATAGTGCTCGGTT-AAGAA
* ** * *
29904906 CTCGCACACACAGTGCCTCAATTACCGAT
1 CTCGCACACATAGTG-CTCGGTTA-AGAA
29904935 CTCGCACACATAGTGCTCGGTTAAAGGAA
1 CTCGCACACATAGTGCTCGGTT-AA-GAA
*
29904964 TTCGCACACATA
1 CTCGCACACATA
29904976 ATGCCCATAT
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
28 20 0.36
29 35 0.64
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (27 bp):
CTCGCACACATAGTGCTCGGTTAAGAA
Found at i:29904943 original size:29 final size:30
Alignment explanation
Indices: 29904854--29904950 Score: 96
Period size: 28 Copynumber: 3.4 Consensus size: 30
29904844 TCTCATTTCA
* *
29904854 CACACTTAGTGCC-C-ACTGACCGATCTCG
1 CACACATAGTGCCTCAATTGACCGATCTCG
** * *
29904882 CACACATAGTG-CTCGGTTGA-AGAACTCG
1 CACACATAGTGCCTCAATTGACCGATCTCG
*
29904910 CACACACAGTGCCTCAATT-ACCGATCTCG
1 CACACATAGTGCCTCAATTGACCGATCTCG
29904939 CACACATAGTGC
1 CACACATAGTGC
29904951 TCGGTTAAAG
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
27 1 0.02
28 28 0.52
29 25 0.46
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.21
Consensus pattern (30 bp):
CACACATAGTGCCTCAATTGACCGATCTCG
Found at i:29905172 original size:43 final size:43
Alignment explanation
Indices: 29905123--29905461 Score: 552
Period size: 43 Copynumber: 7.9 Consensus size: 43
29905113 CACCGGTATT
*
29905123 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
*
29905166 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
*
29905209 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
*
29905252 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCATCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
**
29905295 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCATTGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
** * *
29905338 AAGCCTGCTAGGCACGAAGGCCTTAGTACACATCATCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* *
29905381 AAGCCTGCTAGGCACGAAGGCCTGAGTACACATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
* *
29905424 AAGCTTGCTAGGCACGAAGGCCCCAATACACATCACCG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCG
29905462 AGTTTCATGC
Statistics
Matches: 281, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 281 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACG
Found at i:29908364 original size:35 final size:35
Alignment explanation
Indices: 29908316--29908385 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
29908306 AGAGGCCAAT
29908316 GAAGCCTTCTTCCAAATAATGAAAGAATGGTTTAC
1 GAAGCCTTCTTCCAAATAATGAAAGAATGGTTTAC
* **
29908351 GAAGCCTTTTTCCAGGTAATGAAAGAATGGTTTAC
1 GAAGCCTTCTTCCAAATAATGAAAGAATGGTTTAC
29908386 TGAGTATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (35 bp):
GAAGCCTTCTTCCAAATAATGAAAGAATGGTTTAC
Found at i:29912369 original size:120 final size:119
Alignment explanation
Indices: 29912130--29912362 Score: 358
Period size: 120 Copynumber: 1.9 Consensus size: 119
29912120 AAGATATGCT
* * * *
29912130 TCGTTGTTGTGTTTTAAAGTTTGAAGGTAATCGGGAAAATATTTATCTTTTGTTGAATTTGCATA
1 TCGTTGTTGTGTTTTAAAGTTTGAAGGTAACCGGGAAAATATTTACCTTTAGTTGAATTCGCATA
* **
29912195 TAATAATAATTTTCAATCGAGCATAAAGATGGCGTCGTATGAAGCATTGTATGG
66 TAATAATAATTTTCAATCAAGCATAAAGATGGCACCGTATGAAGCATTGTATGG
**
29912249 TCGTTGTTGTGTTTTAGGGTTTGAAGGTAACCGGGAAAAATATTTACCTTTAGTTGAATTCGCAT
1 TCGTTGTTGTGTTTTAAAGTTTGAAGGTAACCGGG-AAAATATTTACCTTTAGTTGAATTCGCAT
* *
29912314 ATAATAATATTTTTCGATCAAGCATAAAGATGGCACCGTATGAAGCATT
65 ATAATAATAATTTTCAATCAAGCATAAAGATGGCACCGTATGAAGCATT
29912363 AGATGGTTGT
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
119 32 0.31
120 70 0.69
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.38
Consensus pattern (119 bp):
TCGTTGTTGTGTTTTAAAGTTTGAAGGTAACCGGGAAAATATTTACCTTTAGTTGAATTCGCATA
TAATAATAATTTTCAATCAAGCATAAAGATGGCACCGTATGAAGCATTGTATGG
Found at i:29915012 original size:57 final size:57
Alignment explanation
Indices: 29914935--29915091 Score: 156
Period size: 57 Copynumber: 2.8 Consensus size: 57
29914925 TATAGACAAT
* * *
29914935 AGGATTACCAGTCCATGCTAAATCCTGTCTACAATATATTCTC-AATAGAGCTTAGTC
1 AGGATTACCAGTCCAGGCTAAATCCTGTCTACAACATATGCTCTAA-AGAGCTTAGTC
* * * *
29914992 AGGATTACTAGTCTAGGCTAAATCCTTTTTACAACATATGCTCTAAAGAGCTT-GATC
1 AGGATTACCAGTCCAGGCTAAATCCTGTCTACAACATATGCTCTAAAGAGCTTAG-TC
* * * ** * *
29915049 TGGATTTCCCGTCCAGGCTAAATCCAATCCATAACATATGCTC
1 AGGATTACCAGTCCAGGCTAAATCCTGTCTACAACATATGCTC
29915092 GAGAGGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
56 1 0.01
57 78 0.96
58 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCTGTCTACAACATATGCTCTAAAGAGCTTAGTC
Found at i:29916766 original size:47 final size:47
Alignment explanation
Indices: 29916697--29916864 Score: 166
Period size: 47 Copynumber: 3.5 Consensus size: 47
29916687 AATGCTGATG
*
29916697 CCATGTCCCAAACATGGTCTTACACTTGCTCTCACAT-T-AAGTCGATT
1 CCATGTCCCAGACAT-GTCTTACACTTGCTCTCACATATCAAGTCGA-T
* *
29916744 CCATGTCCCAGACATCGTCTTACAC-TGACTCTCACATATCCATGTCGAAG
1 CCATGTCCCAGACAT-GTCTTACACTTG-CTCTCACATAT-CAAGTCG-AT
* * * *
29916794 CCATGTCCCAGACATGTCTTACACTGGCT-T-ACATCTCGAGGCCGAT
1 CCATGTCCCAGACATGTCTTACACTTGCTCTCACATATC-AAGTCGAT
*
29916840 GCATGTCCCAGACATGTCTTACACT
1 CCATGTCCCAGACATGTCTTACACT
29916865 AGCGTACAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
46 28 0.27
47 41 0.39
48 2 0.02
49 11 0.11
50 21 0.20
51 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.28
Consensus pattern (47 bp):
CCATGTCCCAGACATGTCTTACACTTGCTCTCACATATCAAGTCGAT
Found at i:29919771 original size:46 final size:45
Alignment explanation
Indices: 29919721--29919890 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
29919711 TTGAGCATCT
*
29919721 GAACTCGTTGAGTTGAATCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCC
* * * *
29919767 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G--TCC
* * *
29919814 AAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCC
* *
29919860 GAGCTCGTTGAGTTGAGTCCGAGTGCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
29919891 GGGGAGGGTT
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 54 0.54
47 27 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGTCC
Found at i:29927357 original size:46 final size:46
Alignment explanation
Indices: 29927304--29927476 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
29927294 TGGTTGAGCA
29927304 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
29927350 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
29927395 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
29927443 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
29927477 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:29927460 original size:93 final size:93
Alignment explanation
Indices: 29927301--29927471 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
29927291 GGATGGTTGA
* * *
29927301 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29927366 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
29927394 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
29927459 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
29927472 ACTTAGGGGC
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:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:29932997 original size:99 final size:96
Alignment explanation
Indices: 29932829--29933004 Score: 273
Period size: 99 Copynumber: 1.8 Consensus size: 96
29932819 TAATGTCGAT
* *
29932829 GCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
1 GCCATGTCCTAGACATGGTCTTACACTAGCTCATCCATCAAGCCGATGCCATGTCCCAGACATGG
29932894 TCTTACACTGACTATCGAAATCGAGGCCGAC
66 TCTTACACTGACTATCGAAATCGAGGCCGAC
* *
29932925 GCCATGTCCTGGACATGGTCTTACACTAGCTC-TCACATATCCATGCCGATGCCATGTCCCAGAC
1 GCCATGTCCTAGACATGGTCTTACACTAGCTCATC-C--AT-CAAGCCGATGCCATGTCCCAGAC
29932989 ATGGTCTTACACTGAC
62 ATGGTCTTACACTGAC
29933005 ACATCGCGTA
Statistics
Matches: 72, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
95 2 0.03
96 31 0.43
98 2 0.03
99 37 0.51
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (96 bp):
GCCATGTCCTAGACATGGTCTTACACTAGCTCATCCATCAAGCCGATGCCATGTCCCAGACATGG
TCTTACACTGACTATCGAAATCGAGGCCGAC
Found at i:29933055 original size:46 final size:44
Alignment explanation
Indices: 29932969--29933191 Score: 142
Period size: 46 Copynumber: 4.8 Consensus size: 44
29932959 ACATATCCAT
29932969 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCGCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCGCG-AG
* * * *
29933015 GCCGATTCATGTCCCAGGCATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCGCGAG
* * * * * * * *
29933061 GCTGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACACATCGCGAG
* * * * *** *
29933107 GCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACT-G-ACACATCGCGAG
* *
29933155 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACACA
29933192 CAAGTAACCC
Statistics
Matches: 142, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
44 15 0.11
45 15 0.11
46 61 0.43
47 28 0.20
48 23 0.16
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCGCGAG
Found at i:29933134 original size:94 final size:94
Alignment explanation
Indices: 29932825--29933186 Score: 329
Period size: 94 Copynumber: 3.9 Consensus size: 94
29932815 GGTATAATGT
* * *
29932825 CGATGCCATGTCCTAGACATGGTCTTACACTGG--CTCATCCATCAAGTC-GATGCCATGTCCCA
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT-AATCGAGGCTGATGCCATGTCCCA
* *
29932887 GACATGGTCTTACACTGACTATCGAAATCGAGGC
65 GACATGGTCTTACACTGACTCTCG--CTC-A-GC
* * * * * * *
29932921 CGACGCCATGTCCTGGACATGGTCTTACACTAGCTCTCACATATCCATGCCGATGCCATGTCCCA
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATA-ATCGAGGCTGATGCCATGTCCCA
*
29932986 GACATGGTCTTACACTGACACATCGCGT-AGC
65 GACATGGTCTTACACTGACTC-TCGC-TCAGC
* * * * *
29933017 CGAT-TCATGTCCCAGGCAT-GTCTTACACTGGCT-TACAT-CTCGAGGCTGATG-CATGTCCTA
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAATCGAGGCTGATGCCATGTCCCA
29933077 GACAT-GTCTTACACT-AGCTCTCGTCTCAATGC
65 GACATGGTCTTACACTGA-CTCTCG-CTC-A-GC
* *
29933109 CAATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTGATG-CATGTCCCAG
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATCGAGGCTGATGCCATGTCCCAG
29933172 ACAT-GTCTTACACTG
66 ACATGGTCTTACACTG
29933187 GCACACAAGT
Statistics
Matches: 218, Mismatches: 31, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
89 5 0.02
90 13 0.06
91 14 0.06
92 14 0.06
93 13 0.06
94 64 0.29
95 13 0.06
96 35 0.16
97 1 0.00
98 9 0.04
99 34 0.16
100 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATCGAGGCTGATGCCATGTCCCAG
ACATGGTCTTACACTGACTCTCGCTCAGC
Found at i:29933179 original size:140 final size:141
Alignment explanation
Indices: 29932827--29933188 Score: 398
Period size: 140 Copynumber: 2.5 Consensus size: 141
29932817 TATAATGTCG
29932827 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCATCCATCAAGT-CGATGCCATGTCCCAGACA
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTC-T-CAT-AAGTGCGATG-CATGTCCCAGACA
* *
29932891 TGGTCTTACACTGACTATCGAAATCGAGGCCGACGCCATGTCCTGGACATGGTCTTACACTAGCT
62 T-GTCTTACACTGGCTATCGAAATCGAGGCCGACGCCATGTCCTAGACATGGTCTTACACTAGCT
* *
29932956 CTCACATATCCATGCCG
126 CT-ACATATCAATGCCA
* * * * * * *
29932973 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCGCGT-AG-CCGATTCATGTCCCAGGCAT
1 ATGCCATGTCCTAGACATGGTCTTACACTG--GC-TCTCATAAGTGCGATGCATGTCCCAGACAT
** * *
29933036 GTCTTACACTGGCT-TAC-ATCTCGAGGCTGATG-CATGTCCTAGACAT-GTCTTACACTAGCTC
63 GTCTTACACTGGCTAT-CGAAATCGAGGCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTC
* *
29933097 T-CGTCTCAATGCCA
127 TACATATCAATGCCA
29933111 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATGTCCCAGACAT
1 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAA-GT-GC-GATGCATGTCCCAGACAT
29933176 GTCTTACACTGGC
63 GTCTTACACTGGC
29933189 ACACAAGTAA
Statistics
Matches: 183, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
135 4 0.02
136 2 0.01
137 1 0.01
138 38 0.21
139 1 0.01
140 45 0.25
141 13 0.07
142 12 0.07
143 14 0.08
144 13 0.07
145 6 0.03
146 29 0.16
147 2 0.01
148 1 0.01
149 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (141 bp):
ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAGTGCGATGCATGTCCCAGACATGTC
TTACACTGGCTATCGAAATCGAGGCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTACA
TATCAATGCCA
Found at i:29940342 original size:43 final size:43
Alignment explanation
Indices: 29940205--29940368 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 43
29940195 ATTGGATTTC
* * * *
29940205 CGATATGTGATTTTGTGAAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAG-TGGCAT
* * * * * *
29940248 TGAT-TTGAGATTTACGTGTAAGACAATGTCTAGGACA-TCAGAAT
1 CGATATT-TGATTT-CGTGTAAGACCATGTCTGGGACAGT-GGCAT
*
29940292 CG-TATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
* * *
29940334 CGATATTTGATTACATGTAAGACCATGTTTGGGAC
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGAC
29940369 GTTGGTATTG
Statistics
Matches: 93, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
42 26 0.28
43 44 0.47
44 23 0.25
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:29943409 original size:40 final size:40
Alignment explanation
Indices: 29943362--29943603 Score: 337
Period size: 40 Copynumber: 6.0 Consensus size: 40
29943352 CGGGCTTTAA
* * *
29943362 CCGGATATAGCCACTCGCTCAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* *
29943402 CCGGATATAGT-AGTTCGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAGTCA-CTCGCACAAATGCCTTCGGGACTTAGC
*
29943442 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
29943482 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG-
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
* * *
29943521 CCTGAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
*
29943562 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGC
29943602 CC
1 CC
29943604 AGAATTATCA
Statistics
Matches: 186, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 6 0.03
40 175 0.94
41 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:29946567 original size:21 final size:21
Alignment explanation
Indices: 29946538--29946578 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
29946528 TTATCTAGTT
* *
29946538 ATTATACCTATTCAAATCATC
1 ATTAAACCTACTCAAATCATC
29946559 ATTAAACCTACTCAAATCAT
1 ATTAAACCTACTCAAATCAT
29946579 GCCAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTAAACCTACTCAAATCATC
Found at i:29950947 original size:26 final size:26
Alignment explanation
Indices: 29950911--29950972 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
29950901 TTAGCTCGTA
*
29950911 TGAGCATCCCGATTAAA-GCCTCTTTG
1 TGAGCTTCCCG-TTAAATGCCTCTTTG
*
29950937 TGAGCTTCCCGTTAAATTGGCTCTTTG
1 TGAGCTTCCCGTTAAA-TGCCTCTTTG
29950964 TGAGCTTCC
1 TGAGCTTCC
29950973 TGATAGTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 5 0.16
26 10 0.31
27 17 0.53
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (26 bp):
TGAGCTTCCCGTTAAATGCCTCTTTG
Found at i:29952961 original size:43 final size:43
Alignment explanation
Indices: 29952900--29953113 Score: 222
Period size: 43 Copynumber: 5.0 Consensus size: 43
29952890 GAGCTTCCGA
* *
29952900 GATATATGATATCGTGTAAGACCCTATCTGGGACAGTGGCATC
1 GATATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
*
29952943 GATATATGATTTCATGTAAGACCAC-GTCTGGGAC-GTTGGCATC
1 GATATATGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATC
* * *
29952986 GATTTGA-GATTTTCGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATAT-ATGA-TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
* * *
29953030 -ATATTTAATTTCGTGTAAGACCCTGTCTGGGACAATGGCATC
1 GATATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
* * * * *
29953072 GATATTTGATTACATGTAAGACCAC-GTCTAGGACATTGGCAT
1 GATATATGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCAT
29953114 TGTATGAGTT
Statistics
Matches: 145, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
42 33 0.23
43 80 0.55
44 32 0.22
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
GATATATGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATC
Found at i:29956291 original size:43 final size:43
Alignment explanation
Indices: 29956230--29956543 Score: 448
Period size: 43 Copynumber: 7.3 Consensus size: 43
29956220 CATAAAATTT
*
29956230 TCGATGTGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * *
29956273 TCGATATGTGATTACGTGTAAGACAACGTCTAGGACATTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* *
29956316 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACATTGGAA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* *
29956359 TCGATATGTGATTACGTGTAAGACCATGTCTGGGATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* *
29956402 TCAATATGTGATTACGTGTAAGACCACGTTTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * *
29956445 TCGATATGTGATTACGTGTAAGATCATGTCTGGGACATTAGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * ***
29956488 TCGGTATGTGATTACGAGTAAGACCACGTTTAATACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
29956531 TCGATATGTGATT
1 TCGATATGTGATT
29956544 CTGATATGTG
Statistics
Matches: 239, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 239 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:29956578 original size:56 final size:56
Alignment explanation
Indices: 29956492--29956624 Score: 171
Period size: 56 Copynumber: 2.4 Consensus size: 56
29956482 TTAGCATCGG
*
29956492 TATGTGAT-TACGAGTAAGACCACGTTTAATACGTTGGCATCGATAT-GTGATTCTGA
1 TATGTG-TGTACGAGTAAGACCACGTTTAATACGTTGGCATCAAT-TGGTGATTCTGA
* * * * *
29956548 TATGTGTGTGCGAGCAAGACCACGTTTAATACTTTGGTATCAATTGGTGATTTTGA
1 TATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCAATTGGTGATTCTGA
*
29956604 TATGTGTTTACGAGTAAGACC
1 TATGTGTGTACGAGTAAGACC
29956625 CTTTCTAGGA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 2 0.03
56 64 0.97
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (56 bp):
TATGTGTGTACGAGTAAGACCACGTTTAATACGTTGGCATCAATTGGTGATTCTGA
Found at i:29959418 original size:27 final size:27
Alignment explanation
Indices: 29959376--29959499 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
29959366 ACCTCACAAC
* *
29959376 AGGGGTATTACCGTCATTTTACCCTAT
1 AGGGGTATTTCGGTCATTTTACCCTAT
* * *
29959403 AGGGGTATTTCAGTCATTTTATCCAAT
1 AGGGGTATTTCGGTCATTTTACCCTAT
*
29959430 -GAGGGTATTTCGGTCATTTAACCCTAT
1 AG-GGGTATTTCGGTCATTTTACCCTAT
** *
29959457 TTGGGTATTTCGGTCATTTTACCTTAT
1 AGGGGTATTTCGGTCATTTTACCCTAT
*
29959484 GGGGGTATTT-GGTCAT
1 AGGGGTATTTCGGTCAT
29959500 CATTTCAGCC
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.09
27 75 0.91
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTCGGTCATTTTACCCTAT
Found at i:29959446 original size:54 final size:54
Alignment explanation
Indices: 29959355--29959499 Score: 150
Period size: 54 Copynumber: 2.6 Consensus size: 54
29959345 GTAGGACAAA
** * * *
29959355 TCAGTCATTTTACCTCACAACAGGGGTATTACCGTCATTTTACCCTATAGGGGTATT
1 TCAGTCATTTTACCT-A-ATGA-GGGTATTTCGGTCATTTAACCCTATAGGGGTATT
**
29959412 TCAGTCATTTTATCC-AATGAGGGTATTTCGGTCATTTAACCCTATTTGGGTATT
1 TCAGTCATTTTA-CCTAATGAGGGTATTTCGGTCATTTAACCCTATAGGGGTATT
* * *
29959466 TCGGTCATTTTACCTTATGGGGGTATTT-GGTCAT
1 TCAGTCATTTTACCTAATGAGGGTATTTCGGTCAT
29959500 CATTTCAGCC
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
53 8 0.11
54 51 0.67
55 2 0.03
56 1 0.01
57 12 0.16
58 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (54 bp):
TCAGTCATTTTACCTAATGAGGGTATTTCGGTCATTTAACCCTATAGGGGTATT
Found at i:29965116 original size:16 final size:15
Alignment explanation
Indices: 29965087--29965120 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
29965077 ACTAGATCGG
29965087 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
*
29965102 CAAAATGCCGGAAAGC
1 CAAAA-GCCGAAAAGC
29965118 CAA
1 CAA
29965121 CATTTTGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.26, G:0.21, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:29965773 original size:20 final size:20
Alignment explanation
Indices: 29965730--29965777 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
29965720 GCTGTTTTGT
29965730 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
29965750 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
29965769 TAT-GGCCAA
1 TATGGGCCAA
29965778 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:29970471 original size:443 final size:443
Alignment explanation
Indices: 29969642--29970526 Score: 1743
Period size: 443 Copynumber: 2.0 Consensus size: 443
29969632 GAATTTAAAT
29969642 GGAAGATTTATACCGAAATGCACTCATTCGGCCATAGAAAATAAGTGCCATTTATTTTTGGCCTT
1 GGAAGATTTATACCGAAATGCACTCATTCGGCCATAGAAAATAAGTGCCATTTATTTTTGGCCTT
29969707 TATGATTCATTTTTTTTCTCTTCTCTTTTTCATTCTCTTGCTCTCTTAATTCTTCAAGCCGAGGC
66 TATGATTCATTTTTTTTCTCTTCTCTTTTTCATTCTCTTGCTCTCTTAATTCTTCAAGCCGAGGC
29969772 CATTAAACCATTCCTCTCCTTTCTTTTATCGTCATCTTCCTATCTTCTTTGCTTCACCAATCATA
131 CATTAAACCATTCCTCTCCTTTCTTTTATCGTCATCTTCCTATCTTCTTTGCTTCACCAATCATA
29969837 AAAGAAAAAAACCTCTCCCATTCAATCACCTTAACTGAACACTCACAAAAGCCGAAACCTTCATA
196 AAAGAAAAAAACCTCTCCCATTCAATCACCTTAACTGAACACTCACAAAAGCCGAAACCTTCATA
29969902 AGTCATAGTGATTCGGGAATTAATATCTAGTTCTATTCACTACTCGCATTTTAAGATTGGATTCA
261 AGTCATAGTGATTCGGGAATTAATATCTAGTTCTATTCACTACTCGCATTTTAAGATTGGATTCA
29969967 CTGTGGATCTGAGATTAGGGAAGTGTTTGAAACACTCTTGACAAGTACATCATTAGGGGTAAGTA
326 CTGTGGATCTGAGATTAGGGAAGTGTTTGAAACACTCTTGACAAGTACATCATTAGGGGTAAGTA
29970032 CTTGGAATCTAATTTCCATTCTTTATTTCGGAACTTAAAGAAAAGCTGAAAAA
391 CTTGGAATCTAATTTCCATTCTTTATTTCGGAACTTAAAGAAAAGCTGAAAAA
*
29970085 GGAAGATTTATACCGAAATGCACTCATTCGGCCATAGATAATAAGTGCCATTTATTTTTGGCCTT
1 GGAAGATTTATACCGAAATGCACTCATTCGGCCATAGAAAATAAGTGCCATTTATTTTTGGCCTT
29970150 TATGATTCATTTTTTTTCTCTTCTCTTTTTCATTCTCTTGCTCTCTTAATTCTTCAAGCCGAGGC
66 TATGATTCATTTTTTTTCTCTTCTCTTTTTCATTCTCTTGCTCTCTTAATTCTTCAAGCCGAGGC
29970215 CATTAAACCATTCCTCTCCTTTCTTTTATCGTCATCTTCCTATCTTCTTTGCTTCACCAATCATA
131 CATTAAACCATTCCTCTCCTTTCTTTTATCGTCATCTTCCTATCTTCTTTGCTTCACCAATCATA
29970280 AAAGAAAAAAACCTCTCCCATTCAATCACCTTAACTGAACACTCACAAAAGCCGAAACCTTCATA
196 AAAGAAAAAAACCTCTCCCATTCAATCACCTTAACTGAACACTCACAAAAGCCGAAACCTTCATA
29970345 AGTCATAGTGATTCGGGAATTAATATCTAGTTCTATTCACTACTCGCATTTTAAGATTGGATTCA
261 AGTCATAGTGATTCGGGAATTAATATCTAGTTCTATTCACTACTCGCATTTTAAGATTGGATTCA
*
29970410 CTGTGGATCTGAGATTAGGGAAGTGTTTGAAACACTCTTGACAAGTACATCATTGGGGGTAAGTA
326 CTGTGGATCTGAGATTAGGGAAGTGTTTGAAACACTCTTGACAAGTACATCATTAGGGGTAAGTA
*
29970475 CTTGGAATCTAATTTCCATTCTTTATTTCGGGACTTAAAGAAAAGCTGAAAA
391 CTTGGAATCTAATTTCCATTCTTTATTTCGGAACTTAAAGAAAAGCTGAAAA
29970527 CCCCTATATG
Statistics
Matches: 439, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
443 439 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (443 bp):
GGAAGATTTATACCGAAATGCACTCATTCGGCCATAGAAAATAAGTGCCATTTATTTTTGGCCTT
TATGATTCATTTTTTTTCTCTTCTCTTTTTCATTCTCTTGCTCTCTTAATTCTTCAAGCCGAGGC
CATTAAACCATTCCTCTCCTTTCTTTTATCGTCATCTTCCTATCTTCTTTGCTTCACCAATCATA
AAAGAAAAAAACCTCTCCCATTCAATCACCTTAACTGAACACTCACAAAAGCCGAAACCTTCATA
AGTCATAGTGATTCGGGAATTAATATCTAGTTCTATTCACTACTCGCATTTTAAGATTGGATTCA
CTGTGGATCTGAGATTAGGGAAGTGTTTGAAACACTCTTGACAAGTACATCATTAGGGGTAAGTA
CTTGGAATCTAATTTCCATTCTTTATTTCGGAACTTAAAGAAAAGCTGAAAAA
Found at i:29970891 original size:16 final size:15
Alignment explanation
Indices: 29970862--29970895 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
29970852 ACTAGATCGG
29970862 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
*
29970877 CAAAATGCCGGAAAGC
1 CAAAA-GCCGAAAAGC
29970893 CAA
1 CAA
29970896 CATTTTGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.50, C:0.26, G:0.21, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:29971548 original size:20 final size:20
Alignment explanation
Indices: 29971505--29971552 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
29971495 GCTGTTTTGT
29971505 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
29971525 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
29971544 TAT-GGCCAA
1 TATGGGCCAA
29971553 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:29973680 original size:25 final size:25
Alignment explanation
Indices: 29973652--29973728 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 25
29973642 AAAAAATTGA
29973652 TAAAAAAGTCAAATAAGGATTATAT
1 TAAAAAAGTCAAATAAGGATTATAT
* *
29973677 TAAAAAA-T-AGA-AA--ATTTTAT
1 TAAAAAAGTCAAATAAGGATTATAT
* *
29973697 AAAAAAAGTCAAATAGGGATTATAT
1 TAAAAAAGTCAAATAAGGATTATAT
29973722 TAAAAAA
1 TAAAAAA
29973729 TAGAAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
20 12 0.30
21 1 0.03
22 4 0.10
23 3 0.08
24 1 0.03
25 19 0.47
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.27
Consensus pattern (25 bp):
TAAAAAAGTCAAATAAGGATTATAT
Found at i:29973691 original size:26 final size:25
Alignment explanation
Indices: 29973662--29973736 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 25
29973652 TAAAAAAGTC
29973662 AAATAAGGATTATATTAAAAAATAGA
1 AAAT-AGGATTATATTAAAAAATAGA
*
29973688 AAAT----TT-TA-TAAAAAA-AGTC
1 AAATAGGATTATATTAAAAAATAG-A
29973707 AAATAGGGATTATATTAAAAAATAGA
1 AAATA-GGATTATATTAAAAAATAGA
29973733 AAAT
1 AAAT
29973737 TTTACATGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
18 2 0.05
19 11 0.29
20 2 0.05
21 2 0.05
24 2 0.05
25 2 0.05
26 15 0.39
27 2 0.05
ACGTcount: A:0.60, C:0.01, G:0.11, T:0.28
Consensus pattern (25 bp):
AAATAGGATTATATTAAAAAATAGA
Found at i:29973708 original size:45 final size:45
Alignment explanation
Indices: 29973653--29973740 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
29973643 AAAAATTGAT
29973653 AAAAAAGTCAAATAAGGATTATATTAAAAAATAGAAAATTTTATA
1 AAAAAAGTCAAATAAGGATTATATTAAAAAATAGAAAATTTTATA
*
29973698 AAAAAAGTCAAATAGGGATTATATTAAAAAATAGAAAATTTTA
1 AAAAAAGTCAAATAAGGATTATATTAAAAAATAGAAAATTTTA
29973741 CATGGTGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.28
Consensus pattern (45 bp):
AAAAAAGTCAAATAAGGATTATATTAAAAAATAGAAAATTTTATA
Found at i:29981614 original size:34 final size:34
Alignment explanation
Indices: 29981574--29981671 Score: 142
Period size: 34 Copynumber: 2.9 Consensus size: 34
29981564 GTGAAAACAT
* * * *
29981574 TCTGGGCCTAAGCCCATATCAGTGACAGTAGTAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
29981608 TTTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
*
29981642 TCTGGGCTTTAGCCCATTTCAGTAACAGTA
1 TCTGGGCCTTAGCCCATTTCAGTAACAGTA
29981672 ATCAGTGCAG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (34 bp):
TCTGGGCCTTAGCCCATTTCAGTAACAGTAGCAG
Found at i:29981684 original size:18 final size:18
Alignment explanation
Indices: 29981661--29981716 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
29981651 TAGCCCATTT
29981661 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
* * *
29981679 CAGTAACCA-TGATCAATA
1 CAGTAA-CAGTAATCAGTG
*
29981697 CAGTAACAGTAATCGGTG
1 CAGTAACAGTAATCAGTG
29981715 CA
1 CA
29981717 ATATGCAACC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 2 0.07
18 25 0.86
19 2 0.07
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTG
Found at i:29982103 original size:27 final size:27
Alignment explanation
Indices: 29982061--29982128 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
29982051 GAATAAATCT
*
29982061 GTCATTTTACCTTACAAGGGTATTACA
1 GTCATTTTACCCTACAAGGGTATTACA
* **
29982088 GTCATTTTACCCTACAATGGTATTTTA
1 GTCATTTTACCCTACAAGGGTATTACA
*
29982115 GTCATTCTACCCTA
1 GTCATTTTACCCTA
29982129 TGGGGGTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTACA
Found at i:29982146 original size:27 final size:27
Alignment explanation
Indices: 29982116--29982174 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
29982106 GGTATTTTAG
* **
29982116 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTCTACCCTATGAGGAAATTTCGA
* *
29982143 TCATTTTACCTTATGAGGAAATTTCGA
1 TCATTCTACCCTATGAGGAAATTTCGA
29982170 TCATT
1 TCATT
29982175 TGATCACATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (27 bp):
TCATTCTACCCTATGAGGAAATTTCGA
Found at i:29982227 original size:81 final size:78
Alignment explanation
Indices: 29982142--29982393 Score: 281
Period size: 81 Copynumber: 3.1 Consensus size: 78
29982132 GGGTATTTCG
* * *
29982142 ATCATTTTACCTTATGAGGAAATTTCGATCATTTGATCACATAAGGGAAAAATCAACATTTTATC
1 ATCATTTTACCATATGAGGAAA--TCG-TCATTTTATCACATAAGGGAAAAATCATCATTTTATC
*
29982207 ACACAAGGGTAAAATC
63 ACATAAGGGTAAAATC
*
29982223 ATCATTTTATCACATAAG-GGCCAAATCGTCATTTTATCACATAAGGGAAAAATCATCATTTTAT
1 ATCATTTTA-C-CATATGAGG--AAATCGTCATTTTATCACATAAGGGAAAAATCATCATTTTAT
* *
29982287 CACATGAGGGAAAAATC
62 CACATAAGGGTAAAATC
* * * * * *
29982304 ATTATTTTATCACATGAGGACAAAATCGTCATTTTATCACATGAGGGCAAAATCGTCATTTTATC
1 ATCATTTTACCATATGAGG---AAATCGTCATTTTATCACATAAGGGAAAAATCATCATTTTATC
29982369 ACATAAGGGTAAAATC
63 ACATAAGGGTAAAATC
*
29982385 GTCATTTTA
1 ATCATTTTA
29982394 TCACATGTGG
Statistics
Matches: 146, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
79 4 0.03
80 2 0.01
81 127 0.87
82 6 0.04
83 4 0.03
84 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (78 bp):
ATCATTTTACCATATGAGGAAATCGTCATTTTATCACATAAGGGAAAAATCATCATTTTATCACA
TAAGGGTAAAATC
Found at i:29982394 original size:81 final size:81
Alignment explanation
Indices: 29982170--29982400 Score: 345
Period size: 81 Copynumber: 2.9 Consensus size: 81
29982160 GAAATTTCGA
* * *
29982170 TCATTTGATCACATAAGGGAAAAATCAACATTTTATCACACAAGGGTAAAATCATCATTTTATCA
1 TCATTTTATCACATAAGGGAAAAATCATCATTTTATCACATAAGGGTAAAATCATCATTTTATCA
* * *
29982235 CATAAGGGCCAAATCG
66 CATGAGGACAAAATCG
* * *
29982251 TCATTTTATCACATAAGGGAAAAATCATCATTTTATCACATGAGGGAAAAATCATTATTTTATCA
1 TCATTTTATCACATAAGGGAAAAATCATCATTTTATCACATAAGGGTAAAATCATCATTTTATCA
29982316 CATGAGGACAAAATCG
66 CATGAGGACAAAATCG
* * * *
29982332 TCATTTTATCACATGAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCA
1 TCATTTTATCACATAAGGGAAAAATCATCATTTTATCACATAAGGGTAAAATCATCATTTTATCA
29982397 CATG
66 CATG
29982401 TGGGTTCAGG
Statistics
Matches: 134, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 134 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (81 bp):
TCATTTTATCACATAAGGGAAAAATCATCATTTTATCACATAAGGGTAAAATCATCATTTTATCA
CATGAGGACAAAATCG
Found at i:29982405 original size:27 final size:27
Alignment explanation
Indices: 29982169--29982399 Score: 302
Period size: 27 Copynumber: 8.6 Consensus size: 27
29982159 GGAAATTTCG
*
29982169 ATCATTTGATCACATAAGGGAAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
* * *
29982196 AACATTTTATCACACAAGGGTAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
**
29982223 ATCATTTTATCACATAAGGGCCAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
*
29982250 GTCATTTTATCACATAAGGGAAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
*
29982277 ATCATTTTATCACATGAGGGAAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
* *
29982304 ATTATTTTATCACATGA-GGACAAAATC
1 ATCATTTTATCACATAAGGGA-AAAATC
* * *
29982331 GTCATTTTATCACATGAGGGCAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
* *
29982358 GTCATTTTATCACATAAGGGTAAAATC
1 ATCATTTTATCACATAAGGGAAAAATC
*
29982385 GTCATTTTATCACAT
1 ATCATTTTATCACAT
29982400 GTGGGTTCAG
Statistics
Matches: 183, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 3 0.02
27 178 0.97
28 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (27 bp):
ATCATTTTATCACATAAGGGAAAAATC
Found at i:29984454 original size:46 final size:46
Alignment explanation
Indices: 29984274--29984454 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 46
29984264 TGTAACCCGC
* * *
29984274 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
29984320 CCATAAGTGAACTCGGACTCAACTCAACG-G-TCCGA-GTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
29984363 GCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 -CC-A--TA-A-GT---GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
29984418 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29984455 TGCTCAACCA
Statistics
Matches: 114, Mismatches: 9, Indels: 24
0.78 0.06 0.16
Matches are distributed among these distances:
43 7 0.06
44 5 0.04
45 2 0.02
46 57 0.50
47 2 0.02
48 1 0.01
49 2 0.02
50 1 0.01
51 2 0.02
52 21 0.18
53 2 0.02
54 6 0.05
55 6 0.05
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:29986122 original size:125 final size:125
Alignment explanation
Indices: 29985896--29986142 Score: 377
Period size: 125 Copynumber: 2.0 Consensus size: 125
29985886 TCACTTACCC
* * * **
29985896 AAAACGCAGAGTCTAGATTTAGGAGGGAAGAACAATCGGCTCTTACCCATACAAGTTGAGAGTAC
1 AAAACGCAGAGTCCAAATTTAGGAGGGAAGAACAATCAGCTCTTACCCATACAAGTCAAGAGTAC
*
29985961 AAACAGAATGATAGGGGCGCCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACACTG
66 AAACAGAATGATAGAGGCGCCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACACTG
* *
29986021 AAAACGCAGAGTCCAAATTTAGGAGGGAAGAACAATCAGTTCTTTCCCATACAAGTCAAGAGTAC
1 AAAACGCAGAGTCCAAATTTAGGAGGGAAGAACAATCAGCTCTTACCCATACAAGTCAAGAGTAC
* * * * *
29986086 ATATAGAATGATAGAGGCGCCCCCAATATCAGAGAACACTTGCAAAAGTCGAAAACA
66 AAACAGAATGATAGAGGCGCCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACA
29986143 GAGTGGGGAG
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 109 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (125 bp):
AAAACGCAGAGTCCAAATTTAGGAGGGAAGAACAATCAGCTCTTACCCATACAAGTCAAGAGTAC
AAACAGAATGATAGAGGCGCCCCCAATATCAAAGAACACTTGCAAAAGCCAAAAACACTG
Found at i:29989056 original size:23 final size:23
Alignment explanation
Indices: 29989007--29989056 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
29988997 ACCCCATGCA
*
29989007 ATGCAACGTAATATCATACATGG
1 ATGCAACATAATATCATACATGG
29989030 ATGCAACATACATAT-A-ACATGG
1 ATGCAACATA-ATATCATACATGG
29989052 CATGC
1 -ATGC
29989057 TCAAATGCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (23 bp):
ATGCAACATAATATCATACATGG
Found at i:29989164 original size:27 final size:27
Alignment explanation
Indices: 29989106--29989183 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
29989096 TTTAACTTAT
*
29989106 AGGGGTATTATAGTCATTTTA-CCCTG
1 AGGGGTATTTTAGTCATTTTACCCCTG
*
29989132 CAGGGGTATTTTAGTCATTCTACCCCATG
1 -AGGGGTATTTTAGTCATTTTACCCC-TG
**
29989161 -GGGGTATTTCGGTCATTTTACCC
1 AGGGGTATTTTAGTCATTTTACCC
29989184 TATGAGGGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
27 39 0.89
28 3 0.07
29 2 0.05
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (27 bp):
AGGGGTATTTTAGTCATTTTACCCCTG
Found at i:29989196 original size:27 final size:27
Alignment explanation
Indices: 29989145--29989205 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
29989135 GGGTATTTTA
* * *
29989145 GTCATTCTACCCCATGGGGGTATTTCG
1 GTCATTTTACCCCATGAGGGAATTTCG
*
29989172 GTCATTTTACCCTATGAGGGAATTTCG
1 GTCATTTTACCCCATGAGGGAATTTCG
*
29989199 ATCATTT
1 GTCATTT
29989206 GATCATATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCCATGAGGGAATTTCG
Found at i:29989283 original size:27 final size:27
Alignment explanation
Indices: 29989200--29989457 Score: 299
Period size: 27 Copynumber: 9.7 Consensus size: 27
29989190 GGAATTTCGA
* *
29989200 TCATTTGATCATATAA-GGCAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCG
* *
29989226 TCATTTTATCACATAA-GGTAAAATTG
1 TCATTTTATCACATAAGGGCAAAATCG
* * *
29989252 TCATTTTATCATATAAGGGAAAAATCT
1 TCATTTTATCACATAAGGGCAAAATCG
*
29989279 TCATTTTATCACATAAGGGAAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCG
* * *
29989306 TCATTTTATCATATGAGGGCAAAATTG
1 TCATTTTATCACATAAGGGCAAAATCG
* * *
29989333 TCATTTTATCATATGAGGGTAAAATCG
1 TCATTTTATCACATAAGGGCAAAATCG
* *
29989360 TCATTTTATCAC--AAGGACAAAATCA
1 TCATTTTATCACATAAGGGCAAAATCG
* *
29989385 TCATTTTATCACATAAGGGCGAAACCG
1 TCATTTTATCACATAAGGGCAAAATCG
*
29989412 TCATTTTATCACATAAGGGCAAAACCG
1 TCATTTTATCACATAAGGGCAAAATCG
* *
29989439 TCATTTTTTCACATGAGGG
1 TCATTTTATCACATAAGGG
29989458 TTCAGGTACG
Statistics
Matches: 201, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
25 21 0.10
26 37 0.18
27 143 0.71
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (27 bp):
TCATTTTATCACATAAGGGCAAAATCG
Found at i:29989382 original size:106 final size:106
Alignment explanation
Indices: 29989200--29989458 Score: 335
Period size: 106 Copynumber: 2.4 Consensus size: 106
29989190 GGAATTTCGA
* * * *
29989200 TCATTTGATCATATAAGGCAAAATCGTCATTTTATCACAT-AAGGTAAAATTGTCATTTTATCAT
1 TCATTTTATCATATAGGGCAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTTATCA-
* * *
29989264 ATAAGGGAAAAATCTTCATTTTATCACATAAGGGAAAAATCG
65 ACAAGGGAAAAATCATCATTTTATCACATAAGGGAAAAACCG
* *
29989306 TCATTTTATCATATGAGGGCAAAATTGTCATTTTATCATATGAGGGTAAAATCGTCATTTTATC-
1 TCATTTTATCATAT-AGGGCAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTTATCA
**
29989370 ACAA-GGACAAAATCATCATTTTATCACATAAGGGCGAAACCG
65 ACAAGGGA-AAAATCATCATTTTATCACATAAGGGAAAAACCG
* * *
29989412 TCATTTTATCACATAAGGGCAAAACCGTCATTTTTTCACATGAGGGT
1 TCATTTTATCATAT-AGGGCAAAATCGTCATTTTATCACATGAGGGT
29989459 TCAGGTACGC
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
105 3 0.02
106 87 0.65
107 23 0.17
108 20 0.15
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (106 bp):
TCATTTTATCATATAGGGCAAAATCGTCATTTTATCACATGAGGGTAAAATCGTCATTTTATCAA
CAAGGGAAAAATCATCATTTTATCACATAAGGGAAAAACCG
Found at i:29989441 original size:79 final size:79
Alignment explanation
Indices: 29989214--29989451 Score: 302
Period size: 79 Copynumber: 3.0 Consensus size: 79
29989204 TTGATCATAT
*
29989214 AAGG-CAAAATCGTCATTTTATCACATAA-GGTAAAATTGTCATTTTATCATATAAGGGAAAAAT
1 AAGGACAAAATCGTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCATATAAGGGAAAAAT
*
29989277 CTTCATTTTATCAC
66 CGTCATTTTATCAC
* * * *
29989291 ATAAGGGA-AAAATCGTCATTTTATCATATGAGGGCAAAATTGTCATTTTATCATATGAGGGTAA
1 --AA-GGACAAAATCGTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCATATAAGGGAAA
29989355 AATCGTCATTTTATCAC
63 AATCGTCATTTTATCAC
* * ** * * *
29989372 AAGGACAAAATCATCATTTTATCACATAAGGGCGAAACCGTCATTTTATCACATAAGGGCAAAAC
1 AAGGACAAAATCGTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCATATAAGGGAAAAAT
*
29989437 CGTCATTTTTTCAC
66 CGTCATTTTATCAC
29989451 A
1 A
29989452 TGAGGGTTCA
Statistics
Matches: 138, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.02
79 67 0.49
80 23 0.17
81 45 0.33
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (79 bp):
AAGGACAAAATCGTCATTTTATCACATAAGGGCAAAATTGTCATTTTATCATATAAGGGAAAAAT
CGTCATTTTATCAC
Found at i:29992806 original size:44 final size:43
Alignment explanation
Indices: 29992740--29992911 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
29992730 CATAGGATTC
* *
29992740 CGATATGTGATTTCGTGTAAGACCATGTCTGGGATGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
* * *
29992783 CGAT-TTGAGATTTACGTGTAAGACCATGTCTGGGACATGGGCAT
1 CGATATT-TGATTT-CGTGTAAGACCATGTCTGGGACGTTGGCAT
* * * * *
29992827 C-ATATTTGATTTTGTCTAAAACCCTGTCTGGGA-TTGTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACGT-TGGCAT
* * * *
29992869 TGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
29992912 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 21, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 23 0.23
43 47 0.46
44 31 0.30
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:30001200 original size:8 final size:8
Alignment explanation
Indices: 30001183--30001212 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
30001173 GAGGAACAGC
30001183 AAAAGCTG
1 AAAAGCTG
*
30001191 AAAAGTTG
1 AAAAGCTG
30001199 AAAAGCTG
1 AAAAGCTG
30001207 AAAAGC
1 AAAAGC
30001213 CAAAAGCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.10, G:0.23, T:0.13
Consensus pattern (8 bp):
AAAAGCTG
Found at i:30009623 original size:18 final size:18
Alignment explanation
Indices: 30009597--30009639 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
30009587 GAATTATGGG
*
30009597 CCCATATGCCCATGTGGC
1 CCCACATGCCCATGTGGC
**
30009615 CCCACATGCCTGTGTGGC
1 CCCACATGCCCATGTGGC
30009633 CCACACA
1 CC-CACA
30009640 CTCAGATTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.19, C:0.42, G:0.21, T:0.19
Consensus pattern (18 bp):
CCCACATGCCCATGTGGC
Found at i:30024902 original size:50 final size:50
Alignment explanation
Indices: 30024825--30024998 Score: 267
Period size: 50 Copynumber: 3.5 Consensus size: 50
30024815 GTCCATCGGC
* * *
30024825 CCACAGTCGTCTCGTGCGACCCATGTGACCTTAACAGATAAATACTAGAT
1 CCACAGTCGTCTCGTACGACCCGTGTGACCTTAACAGATAAATACTGGAT
*
30024875 CCACAGTCGTCTCATACGACCCGTGTGACCTTAACAGATAAATACTGGAT
1 CCACAGTCGTCTCGTACGACCCGTGTGACCTTAACAGATAAATACTGGAT
* **
30024925 CCACAGTCGTCTTGTACGACCCGTGTGACCTTAATGGATAAATACTGGAT
1 CCACAGTCGTCTCGTACGACCCGTGTGACCTTAACAGATAAATACTGGAT
* *
30024975 CCACAATCGTCTCGTGCGACCCGT
1 CCACAGTCGTCTCGTACGACCCGT
30024999 ACGATCCTAT
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 113 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (50 bp):
CCACAGTCGTCTCGTACGACCCGTGTGACCTTAACAGATAAATACTGGAT
Found at i:30025275 original size:26 final size:27
Alignment explanation
Indices: 30025246--30025306 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
30025236 CAAAACAGTC
*
30025246 ATTTTACCCTACAAGGGTA-TTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
30025272 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
30025299 ATTTTACA
1 ATTTTACA
30025307 AATTGGGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:30025422 original size:54 final size:53
Alignment explanation
Indices: 30025286--30025450 Score: 213
Period size: 54 Copynumber: 3.1 Consensus size: 53
30025276 TACACTACAA
* * * *
30025286 GGGTATTTCGATAATTTTACAAATTGGGGGTATTTTAGTAATTTTACAAGTAG
1 GGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATAG
* * * *
30025339 GGGTATTTCAGTAATTTCAAAAATTGAGGGTATTTCAGTAATTTCACAAATGAG
1 GGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAAT-AG
* * *
30025393 GGGTATTTCGGTAATTTTGCAACTCGAGGGTATTTCAGTAATTTTACAAATCAG
1 GGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAAT-AG
30025447 GGGT
1 GGGT
30025451 CTTCAACTGA
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 43 0.45
54 52 0.55
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAATAG
Found at i:30025450 original size:27 final size:26
Alignment explanation
Indices: 30025286--30025450 Score: 170
Period size: 27 Copynumber: 6.2 Consensus size: 26
30025276 TACACTACAA
*
30025286 GGGTATTTC-GATAATTTTACAAATTGG
1 GGGTATTTCAG-TAATTTTACAAA-TAG
* *
30025313 GGGTATTTTAGTAATTTTACAAGTAG
1 GGGTATTTCAGTAATTTTACAAATAG
* * *
30025339 GGGTATTTCAGTAATTTCAAAAATTG
1 GGGTATTTCAGTAATTTTACAAATAG
*
30025365 AGGGTATTTCAGTAATTTCACAAATGAG
1 -GGGTATTTCAGTAATTTTACAAAT-AG
* * * *
30025393 GGGTATTTCGGTAATTTTGCAACTCG
1 GGGTATTTCAGTAATTTTACAAATAG
30025419 AGGGTATTTCAGTAATTTTACAAATCAG
1 -GGGTATTTCAGTAATTTTACAAAT-AG
30025447 GGGT
1 GGGT
30025451 CTTCAACTGA
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
26 24 0.21
27 87 0.76
28 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTTACAAATAG
Found at i:30028036 original size:28 final size:29
Alignment explanation
Indices: 30027996--30028051 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
30027986 CCAGGTTTTT
30027996 GGACACGGGCGTGT-CT-AGGCCGTGTGAG
1 GGACACGGGCGTGTGCTCA-GCCGTGTGAG
30028024 GGACACGGGCGTGTGCTCAGCCGTGTGA
1 GGACACGGGCGTGTGCTCAGCCGTGTGA
30028052 AAACTCCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 14 0.54
29 11 0.42
30 1 0.04
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTCAGCCGTGTGAG
Found at i:30042024 original size:56 final size:56
Alignment explanation
Indices: 30041964--30042093 Score: 208
Period size: 56 Copynumber: 2.3 Consensus size: 56
30041954 TCCCAGATAG
30041964 GGTCTTACTCGCACACATATATTAG-AGTCACATATCGATGCCAACGTATAAAACAT
1 GGTCTTACTCGCACACATATA-TAGAAGTCACATATCGATGCCAACGTATAAAACAT
* * *
30042020 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTTTAAAACGT
1 GGTCTTACTCGCACACATATATAGAAGTCACATATCGATGCCAACGTATAAAACAT
*
30042076 GGTCTTACTCGTACACAT
1 GGTCTTACTCGCACACAT
30042094 TAATCGATGC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 2 0.03
56 67 0.97
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATAGAAGTCACATATCGATGCCAACGTATAAAACAT
Found at i:30043533 original size:35 final size:33
Alignment explanation
Indices: 30043465--30043531 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
30043455 AAATACATGG
30043465 AAAAACTATATAAAACATGTTTCACACACATAT
1 AAAAACTATATAAAACATGTTTCACACACATAT
30043498 AAAAACTATATAAAACATGTTTCACACACATAT
1 AAAAACTATATAAAACATGTTTCACACACATAT
30043531 A
1 A
30043532 TATATACACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (33 bp):
AAAAACTATATAAAACATGTTTCACACACATAT
Found at i:30044656 original size:56 final size:56
Alignment explanation
Indices: 30044591--30044722 Score: 192
Period size: 56 Copynumber: 2.4 Consensus size: 56
30044581 TCCTAGACAG
* *
30044591 GGTCTTACTCGTAAACACATATCGGAATCACCTATCGATACCAACTCATTAAACGT
1 GGTCTTACTCATAAACACATATCGGAATCACATATCGATACCAACTCATTAAACGT
* * * *
30044647 GGTCTTACTCATACACACATATCGGAATCACATATCGATGCCAACTTATTAAATGT
1 GGTCTTACTCATAAACACATATCGGAATCACATATCGATACCAACTCATTAAACGT
* *
30044703 GGTTTTACTCATAATCACAT
1 GGTCTTACTCATAAACACAT
30044723 GTCGATGCCA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCATAAACACATATCGGAATCACATATCGATACCAACTCATTAAACGT
Found at i:30044761 original size:43 final size:43
Alignment explanation
Indices: 30044672--30044941 Score: 303
Period size: 43 Copynumber: 6.3 Consensus size: 43
30044662 CACATATCGG
* *** * * * *
30044672 AATCACATATCGATGCCAACTTATTAAATGTGGTTTTACTCAT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACAT
* * *
30044715 AATCACATGTCGATGCCAACGTCCCAGACGTGCTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACAT
* * *
30044758 AATCAAATATCGATGTCAACGTCCTAGACGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACAT
*
30044801 ACTCACATA-CTGATGCCAACGTCCCAGACGTGGTCTTACACAT
1 AATCACATATC-GATGCCAACGTCCCAGACGTGGTCTTACACAT
* **
30044844 AATCACATATC-ATGCCAACGTCCCTA-ATGTGGTCTTACATGT
1 AATCACATATCGATGCCAACGTCCC-AGACGTGGTCTTACACAT
* * * *
30044886 CATCACATATCGATGCCAACATCCCAAATGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACAT
30044929 AATCACATATCGA
1 AATCACATATCGA
30044942 AAATCCGATG
Statistics
Matches: 192, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
42 38 0.20
43 153 0.80
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACAT
Found at i:30044919 original size:128 final size:129
Alignment explanation
Indices: 30044701--30044937 Score: 325
Period size: 128 Copynumber: 1.8 Consensus size: 129
30044691 CTTATTAAAT
* * *
30044701 GTGGTTTTACTCATAATCACATGTCGATGCCAACGTCCCAGACGTGCTCTTACACGTAATCAAAT
1 GTGGTCTTACACATAATCACATATCGATGCCAACGTCCCAGACGTGCTCTTACACGTAATCAAAT
* * * * *
30044766 ATCGATGTCAACGTCCTAGACGTGGTCTTACACATACTCACATACTGATGCCAACGTCCCAGAC
66 ATCGATGCCAACATCCCAAACGTGGTCTTACACATAATCACATACTGATGCCAACGTCCCAGAC
* * * * *
30044830 GTGGTCTTACACATAATCACATATC-ATGCCAACGTCCCTA-ATGTGGTCTTACATGTCATCACA
1 GTGGTCTTACACATAATCACATATCGATGCCAACGTCCC-AGACGTGCTCTTACACGTAATCAAA
*
30044893 TATCGATGCCAACATCCCAAATGTGGTCTTACACATAATCACATA
65 TATCGATGCCAACATCCCAAACGTGGTCTTACACATAATCACATA
30044938 TCGAAAATCC
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
128 70 0.75
129 23 0.25
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (129 bp):
GTGGTCTTACACATAATCACATATCGATGCCAACGTCCCAGACGTGCTCTTACACGTAATCAAAT
ATCGATGCCAACATCCCAAACGTGGTCTTACACATAATCACATACTGATGCCAACGTCCCAGAC
Found at i:30053720 original size:13 final size:14
Alignment explanation
Indices: 30053683--30053722 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 14
30053673 TTTAAATTTA
30053683 TAAATAATATATATT
1 TAAATAATAT-TATT
30053698 TGAAATAATATTATT
1 T-AAATAATATTATT
30053713 TAAA-AATATT
1 TAAATAATATT
30053723 CAAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.25
14 3 0.12
15 6 0.25
16 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
TAAATAATATTATT
Found at i:30062061 original size:20 final size:21
Alignment explanation
Indices: 30062017--30062064 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
30062007 GGACTAATTT
* * *
30062017 GAAACAATTTGGAAAGTTTAG
1 GAAACAATTTGCAAAATTTAC
30062038 GAAACAA-TTGCAAAATTTAC
1 GAAACAATTTGCAAAATTTAC
30062058 GAAACAA
1 GAAACAA
30062065 GGGTCACACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (21 bp):
GAAACAATTTGCAAAATTTAC
Found at i:30066066 original size:93 final size:93
Alignment explanation
Indices: 30065907--30066078 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
30065897 GGATGATTGA
* *
30065907 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAGT
*
30065972 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
* * *
30066000 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAGT
30066065 TGAGTCCGAATTCG
66 TGAGTCCGAATTCG
30066079 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAATTCGTGAGATGTAACTAG
Found at i:30066083 original size:46 final size:46
Alignment explanation
Indices: 30065911--30066085 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
30065901 GATTGAGCAT
* * *
30065911 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
30065957 CCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
30066002 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
30066050 CCGAGCTCGTTGAGTTGAGTCCGAATTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30066086 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.56
47 27 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:30072830 original size:46 final size:46
Alignment explanation
Indices: 30072780--30072955 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
30072770 TGGTTGAGCA
30072780 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30072826 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30072871 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
30072919 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30072956 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30072936 original size:93 final size:93
Alignment explanation
Indices: 30072777--30072948 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30072767 GGATGGTTGA
* *
30072777 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30072842 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
30072870 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30072935 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
30072949 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:30077596 original size:27 final size:26
Alignment explanation
Indices: 30077514--30077620 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 26
30077504 CATGGCTGCA
* *
30077514 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
* *
30077540 AAATACAGATAATCGTGGCAGAACCACC
1 AGA-ACAGATAAT-GTGGCAGAGCCACC
30077568 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* * *
30077595 AGATCAAATAATTTGTGGCATAGCCA
1 AGAACAGATAA--TGTGGCAGAGCCA
30077621 TCAGGACGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
26 3 0.04
27 37 0.55
28 27 0.40
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:30079112 original size:24 final size:24
Alignment explanation
Indices: 30079043--30079113 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
30079033 CTAGATTTCC
** *
30079043 TCCCTTATCTGCTCCTAAATCATA
1 TCCCTTATCAACTCCTAAATCCTA
*
30079067 TCCCTTATCAACTCCTGAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30079091 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
30079114 CTCCTGACAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.25, C:0.37, G:0.03, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:30085358 original size:27 final size:26
Alignment explanation
Indices: 30085266--30085375 Score: 96
Period size: 27 Copynumber: 4.0 Consensus size: 26
30085256 CAGCATGGCT
* * * *
30085266 ACCAGAACAGATAATATGACAGAGTC
1 ACCAGATCAGATAATGTGGCAGAGCC
*
30085292 ACCAGATACAGATAATCGTGGCAGAACC
1 ACCAGAT-CAGATAAT-GTGGCAGAGCC
*
30085320 ACCAAAAT-AGATATATGTGGCAGAGCC
1 ACC-AGATCAGATA-ATGTGGCAGAGCC
*
30085347 ACCAGATCAGATAATTTGTGGCATAGCC
1 ACCAGATCAGATAA--TGTGGCAGAGCC
30085375 A
1 A
30085376 TCAGGACGCT
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
26 10 0.15
27 31 0.46
28 24 0.35
29 3 0.04
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (26 bp):
ACCAGATCAGATAATGTGGCAGAGCC
Found at i:30085374 original size:28 final size:28
Alignment explanation
Indices: 30085285--30085375 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 28
30085275 GATAATATGA
* *
30085285 CAGAGTCACCAGATACAGATAA-TCGTGG
1 CAGAGCCACCAGAT-CAGATAATTTGTGG
* * *
30085313 CAGAACCACCAAAAT-AGAT-ATATGTGG
1 CAGAGCCACC-AGATCAGATAATTTGTGG
30085340 CAGAGCCACCAGATCAGATAATTTGTGG
1 CAGAGCCACCAGATCAGATAATTTGTGG
*
30085368 CATAGCCA
1 CAGAGCCA
30085376 TCAGGACGCT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
26 4 0.08
27 21 0.42
28 22 0.44
29 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (28 bp):
CAGAGCCACCAGATCAGATAATTTGTGG
Found at i:30086827 original size:24 final size:24
Alignment explanation
Indices: 30086800--30086870 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
30086790 CTAGATTTCC
**
30086800 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
30086824 TCCCTTATCAACTCCTTAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30086848 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
30086871 CTCCTGACAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.24, C:0.38, G:0.01, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:30089988 original size:43 final size:43
Alignment explanation
Indices: 30089942--30090139 Score: 218
Period size: 43 Copynumber: 4.6 Consensus size: 43
30089932 TGGTATATTC
* * *
30089942 GATGATGCATTGTGTGTGCCAGTATAGTTACTTCAGAATATCC
1 GATGATGCACTGTGTGTGCCAGTATAGTTACTTCGGAATATCT
* * *
30089985 GATGATGCATTGTGTGTGCCAGTATAGTTACTTTGGGATATCT
1 GATGATGCACTGTGTGTGCCAGTATAGTTACTTCGGAATATCT
* * * ** * *
30090028 GATGATGCACTATTTGTGCCAGTATAATTGTTTCGGGATATTT
1 GATGATGCACTGTGTGTGCCAGTATAGTTACTTCGGAATATCT
* * * *
30090071 GATGATGCACTGTGTGTACCTGTATAGTTGCTT-TGATATATCT
1 GATGATGCACTGTGTGTGCCAGTATAGTTACTTCGGA-ATATCT
*
30090114 AATGATGCACTGTGTGTGCCAGTATA
1 GATGATGCACTGTGTGTGCCAGTATA
30090140 TGTGATTCGG
Statistics
Matches: 130, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
42 1 0.01
43 129 0.99
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (43 bp):
GATGATGCACTGTGTGTGCCAGTATAGTTACTTCGGAATATCT
Found at i:30090075 original size:86 final size:86
Alignment explanation
Indices: 30089927--30090139 Score: 257
Period size: 86 Copynumber: 2.5 Consensus size: 86
30089917 GTATAGGTTA
* *
30089927 TACTTTGGTATAT-TCGATGATGCATTGTGTGTGCCAGTATAGTTACTTCAGAATATCCGATGAT
1 TACTTTGGTATATCT-GATGATGCACTGTGTGTGCCAGTATAATTACTTCAGAATATCCGATGAT
* *
30089991 GCATTGTGTGTGCCAGTATAGT
65 GCACTGTGTGTACCAGTATAGT
* * * ** * * **
30090013 TACTTTGGGATATCTGATGATGCACTATTTGTGCCAGTATAATTGTTTCGGGATATTTGATGATG
1 TACTTTGGTATATCTGATGATGCACTGTGTGTGCCAGTATAATTACTTCAGAATATCCGATGATG
*
30090078 CACTGTGTGTACCTGTATAGT
66 CACTGTGTGTACCAGTATAGT
* * *
30090099 TGCTTTGATATATCTAATGATGCACTGTGTGTGCCAGTATA
1 TACTTTGGTATATCTGATGATGCACTGTGTGTGCCAGTATA
30090140 TGTGATTCGG
Statistics
Matches: 106, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
86 105 0.99
87 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (86 bp):
TACTTTGGTATATCTGATGATGCACTGTGTGTGCCAGTATAATTACTTCAGAATATCCGATGATG
CACTGTGTGTACCAGTATAGT
Found at i:30090149 original size:86 final size:86
Alignment explanation
Indices: 30089943--30090168 Score: 249
Period size: 86 Copynumber: 2.6 Consensus size: 86
30089933 GGTATATTCG
* * * * *
30089943 ATGATGCATTGTGTGTGCCAGTATA-GTTACTTCAGAATATCCGATGATGCATTGTGTGTGCCAG
1 ATGATGCACTGTGTGTGCCAGTATATGTGA-TTCGGAATATCCGATGATGCACTGTGTGTACCAG
* *
30090007 TATAGTTACTTTGGGATATCTG
65 TATAGTTACTTTGAGATATCTA
* * * * ** *
30090029 ATGATGCACTATTTGTGCCAGTATAAT-TGTTTCGGGATATTTGATGATGCACTGTGTGTACCTG
1 ATGATGCACTGTGTGTGCCAGTAT-ATGTGATTCGGAATATCCGATGATGCACTGTGTGTACCAG
* *
30090093 TATAGTTGCTTTGATATATCTA
65 TATAGTTACTTTGAGATATCTA
**
30090115 ATGATGCACTGTGTGTGCCAGTATATGTGATTCGGTTTCATCCGATGATGCACT
1 ATGATGCACTGTGTGTGCCAGTATATGTGATTCGGAAT-ATCCGATGATGCACT
30090169 TACGTGCCAG
Statistics
Matches: 113, Mismatches: 23, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
85 2 0.02
86 96 0.85
87 15 0.13
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (86 bp):
ATGATGCACTGTGTGTGCCAGTATATGTGATTCGGAATATCCGATGATGCACTGTGTGTACCAGT
ATAGTTACTTTGAGATATCTA
Found at i:30090176 original size:129 final size:129
Alignment explanation
Indices: 30089936--30090180 Score: 298
Period size: 129 Copynumber: 1.9 Consensus size: 129
30089926 ATACTTTGGT
* * * *
30089936 ATATTCGATGATGCATTGTGTGTGCCAGTATAGTTACTTCAGAATATCCGATGATGCATTGTGTG
1 ATATTCGATGATGCACTGTGTGTACCAGTATAGTTACTTCAGAATATCCAATGATGCACTGTGTG
* * * **
30090001 TGCCAGTATAGTTACTTTGGGATATCTGATGATGCACTATTTGTGCCAGTATAATTGTTTCGGG
66 TGCCAGTATAGTGACTTCGGGATATCCGATGATGCACTATACGTGCCAGTATAATTGTTTCGGG
* * * * *
30090065 ATATTTGATGATGCACTGTGTGTACCTGTATAGTTGCTT-TGATATATCTAATGATGCACTGTGT
1 ATATTCGATGATGCACTGTGTGTACCAGTATAGTTACTTCAGA-ATATCCAATGATGCACTGTGT
**
30090129 GTGCCAGTATATGTGA-TTCGGTTTCATCCGATGATGCACT-TACGTGCCAGTA
65 GTGCCAGTATA-GTGACTTCGGGAT-ATCCGATGATGCACTATACGTGCCAGTA
30090181 CATGTGTGTC
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
128 2 0.02
129 78 0.80
130 17 0.18
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.38
Consensus pattern (129 bp):
ATATTCGATGATGCACTGTGTGTACCAGTATAGTTACTTCAGAATATCCAATGATGCACTGTGTG
TGCCAGTATAGTGACTTCGGGATATCCGATGATGCACTATACGTGCCAGTATAATTGTTTCGGG
Found at i:30092568 original size:33 final size:33
Alignment explanation
Indices: 30092531--30092639 Score: 121
Period size: 34 Copynumber: 3.3 Consensus size: 33
30092521 TGGCCTTGCC
* * *
30092531 ATGGTCTTA-CACTCGTAGTGCCATAACCCAGTT
1 ATGGTCTTATCACTAGGA-TGCCATAGCCCAGTT
*
30092564 ATGGTCTTATCATTAGGATGCCATAGCCCAGCTT
1 ATGGTCTTATCACTAGGATGCCATAGCCCAG-TT
* * * *
30092598 ATAGTCTTATCATTAGGATGTCATAGCCCAGCT
1 ATGGTCTTATCACTAGGATGCCATAGCCCAGTT
30092631 ATGGTCTTA
1 ATGGTCTTA
30092640 CACGTATATT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
33 30 0.45
34 36 0.55
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (33 bp):
ATGGTCTTATCACTAGGATGCCATAGCCCAGTT
Found at i:30092610 original size:34 final size:34
Alignment explanation
Indices: 30092549--30092639 Score: 141
Period size: 34 Copynumber: 2.7 Consensus size: 34
30092539 ACACTCGTAG
*
30092549 TGCCATAACCCAG-TTATGGTCTTATCATTAGGA
1 TGCCATAGCCCAGCTTATGGTCTTATCATTAGGA
*
30092582 TGCCATAGCCCAGCTTATAGTCTTATCATTAGGA
1 TGCCATAGCCCAGCTTATGGTCTTATCATTAGGA
*
30092616 TGTCATAGCCCAGC-TATGGTCTTA
1 TGCCATAGCCCAGCTTATGGTCTTA
30092640 CACGTATATT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 21 0.40
34 32 0.60
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (34 bp):
TGCCATAGCCCAGCTTATGGTCTTATCATTAGGA
Found at i:30092705 original size:33 final size:33
Alignment explanation
Indices: 30092668--30092743 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
30092658 TGGTCCAACC
* *
30092668 ATGGTCTTACGTTCAC-AGTGCCATAACCCAGTT
1 ATGGTCTTAC-TTCACAAATGCCATAACCCAGCT
30092701 ATGGTCTT--TTCACTAAAATGCCATAACCCAGCT
1 ATGGTCTTACTTCAC--AAATGCCATAACCCAGCT
30092734 ATGGTCTTAC
1 ATGGTCTTAC
30092744 ATTTAAACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
30 5 0.14
33 31 0.86
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACTTCACAAATGCCATAACCCAGCT
Found at i:30096561 original size:17 final size:17
Alignment explanation
Indices: 30096541--30096576 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
30096531 TTTATCATTT
30096541 TTACGTTTTTCCAATTG
1 TTACGTTTTTCCAATTG
*
30096558 TTACGTTTTTCTAATTG
1 TTACGTTTTTCCAATTG
30096575 TT
1 TT
30096577 GCTTAGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.58
Consensus pattern (17 bp):
TTACGTTTTTCCAATTG
Found at i:30106268 original size:46 final size:44
Alignment explanation
Indices: 30106141--30106405 Score: 187
Period size: 46 Copynumber: 5.7 Consensus size: 44
30106131 TTGTGTGTGA
*
30106141 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGA-GA-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG---C-TTGA-GACGAT
*** *
30106187 GCCAACATAAGACCATGTCTGGGACATCACATCAGCATTGAGACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-TTGAGACGA-T
* * * *
30106235 GCTAGTGTAAGACATGTCTAGGATATGCATCAGCCTCGAGAC-AT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTTGAGACGAT
* * *
30106279 AAGCCAGTGTAAGACATGTCTGGGACATGCGTCGGCTTCGAGACGTAA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTT-GAGACG-AT
* * *
30106327 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGAAATGAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCT-TGAGACGAT
* *
30106372 AGTCAGTGTAAGACCGTGTCTGGGACATGGCATC
1 -GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
30106406 GGCACCTTAC
Statistics
Matches: 177, Mismatches: 26, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
44 1 0.01
45 10 0.06
46 106 0.60
47 41 0.23
48 19 0.11
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCTTGAGACGAT
Found at i:30123294 original size:112 final size:113
Alignment explanation
Indices: 30123092--30123322 Score: 403
Period size: 112 Copynumber: 2.1 Consensus size: 113
30123082 CCCATACCTG
* * *
30123092 TATCCTACAGCGTGACGGAATATGAGGCGTTACCTCACTTAAACTCGTGCTTACAACCATTTTCG
1 TATCCTACACCGTGACGGAATACGAGGCGTTACCTCACTTAAACTCATGCTTACAACCATTTTCG
30123157 AGTCCCCATGACTTGGACAAATTTAAAACTTTCTCAAACATACCAACA
66 AGTCCCCATGACTTGGACAAATTTAAAACTTTCTCAAACATACCAACA
*
30123205 TATCCTACACCGTGACGG-ATACGAGGCGTTACTTCACTTAAACTCATGCTTACAACCATTTTCG
1 TATCCTACACCGTGACGGAATACGAGGCGTTACCTCACTTAAACTCATGCTTACAACCATTTTCG
30123269 AGTCCCCATGACTTGGA-AAATTTTAAAACTTTCTCAAACATACCAACA
66 AGTCCCCATGACTTGGACAAA-TTTAAAACTTTCTCAAACATACCAACA
30123317 TATCCT
1 TATCCT
30123323 TAATATAGGC
Statistics
Matches: 113, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
111 3 0.03
112 93 0.82
113 17 0.15
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.29
Consensus pattern (113 bp):
TATCCTACACCGTGACGGAATACGAGGCGTTACCTCACTTAAACTCATGCTTACAACCATTTTCG
AGTCCCCATGACTTGGACAAATTTAAAACTTTCTCAAACATACCAACA
Found at i:30123443 original size:21 final size:21
Alignment explanation
Indices: 30123417--30123456 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
30123407 CACTTGACAT
30123417 AGGGGCACACGCCCGTGTGAA
1 AGGGGCACACGCCCGTGTGAA
30123438 AGGGGCACACGCCCGTGTG
1 AGGGGCACACGCCCGTGTG
30123457 GCCAATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGAA
Found at i:30125443 original size:13 final size:13
Alignment explanation
Indices: 30125425--30125515 Score: 131
Period size: 13 Copynumber: 7.5 Consensus size: 13
30125415 AGATTTTTCT
30125425 TAAATATTATCAC
1 TAAATATTATCAC
30125438 TAAATA--ATC-C
1 TAAATATTATCAC
30125448 TAAATATTATCAC
1 TAAATATTATCAC
30125461 TAAATATTATCAC
1 TAAATATTATCAC
30125474 TAAATATTATCAC
1 TAAATATTATCAC
*
30125487 TAAATA--AT-TC
1 TAAATATTATCAC
30125497 TAAATATTATCAC
1 TAAATATTATCAC
30125510 TAAATA
1 TAAATA
30125516 ATTCAAATTT
Statistics
Matches: 70, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
10 14 0.20
11 5 0.07
12 5 0.07
13 46 0.66
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:30125455 original size:23 final size:23
Alignment explanation
Indices: 30125425--30125517 Score: 150
Period size: 23 Copynumber: 3.9 Consensus size: 23
30125415 AGATTTTTCT
30125425 TAAATATTATCACTAAATAATCC
1 TAAATATTATCACTAAATAATCC
30125448 TAAATATTATCACTAAATATTATCAC
1 TAAATATTATCACTAAATA--ATC-C
*
30125474 TAAATATTATCACTAAATAATTC
1 TAAATATTATCACTAAATAATCC
30125497 TAAATATTATCACTAAATAAT
1 TAAATATTATCACTAAATAAT
30125518 TCAAATTTAA
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
23 41 0.62
24 2 0.03
25 3 0.05
26 20 0.30
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATCC
Found at i:30126042 original size:7 final size:7
Alignment explanation
Indices: 30126030--30126068 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
30126020 GATTAATGTT
30126030 AAAATTA
1 AAAATTA
30126037 AAAATTA
1 AAAATTA
30126044 AAAATT-
1 AAAATTA
30126050 AAAA-TA
1 AAAATTA
30126056 AAATATTA
1 AAA-ATTA
30126064 AAAAT
1 AAAAT
30126069 AATTTATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 1 0.03
6 7 0.24
7 16 0.55
8 5 0.17
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATTA
Found at i:30126053 original size:20 final size:20
Alignment explanation
Indices: 30126028--30126068 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
30126018 GAGATTAATG
30126028 TTAAAATTAAAA-ATTAAAAA
1 TTAAAA-TAAAATATTAAAAA
30126048 TTAAAATAAAATATTAAAAA
1 TTAAAATAAAATATTAAAAA
30126068 T
1 T
30126069 AATTTATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TTAAAATAAAATATTAAAAA
Found at i:30127770 original size:18 final size:18
Alignment explanation
Indices: 30127730--30127773 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
30127720 ACTTCATGTT
*
30127730 TTTTTTTAATTTTATGAA
1 TTTTTTTAATTTTATAAA
*
30127748 TTTTTTTATTTTTA-AAA
1 TTTTTTTAATTTTATAAA
*
30127765 TATTTTTAA
1 TTTTTTTAA
30127774 AGTAAACCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTTTTAATTTTATAAA
Found at i:30129517 original size:18 final size:17
Alignment explanation
Indices: 30129481--30129519 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
30129471 TAATGCATGA
30129481 TATTTAAAATTGTTTAT
1 TATTTAAAATTGTTTAT
* *
30129498 TATTTAGAATTTTATTAT
1 TATTTAAAATTGT-TTAT
30129516 TATT
1 TATT
30129520 AATGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
TATTTAAAATTGTTTAT
Found at i:30132978 original size:28 final size:27
Alignment explanation
Indices: 30132942--30132997 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 27
30132932 GTTAATAATG
30132942 AAGGTTAAATAAGTAATTTAGTAGAATA
1 AAGGTTAAATAAGTAATTTAGTA-AATA
30132970 AAGGTTAAATAAGTAATTTAGTAAATA
1 AAGGTTAAATAAGTAATTTAGTAAATA
30132997 A
1 A
30132998 GTATAGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (27 bp):
AAGGTTAAATAAGTAATTTAGTAAATA
Found at i:30135000 original size:29 final size:29
Alignment explanation
Indices: 30134967--30135036 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
30134957 ATAAAGGGAT
*
30134967 TAAATTTTTAAAAATATAACTACAATGAC
1 TAAATTTTTAAAAATATAACTACAATAAC
* *
30134996 TAAATTCTTT-AAAATATAATTACATTAAC
1 TAAATT-TTTAAAAATATAACTACAATAAC
30135025 TAAATTTTTAAA
1 TAAATTTTTAAA
30135037 TTTCAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.08
29 30 0.83
30 3 0.08
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (29 bp):
TAAATTTTTAAAAATATAACTACAATAAC
Found at i:30135687 original size:18 final size:19
Alignment explanation
Indices: 30135661--30135704 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
30135651 TAATCATATG
30135661 TTTAGTTATTTTT-TTTAA
1 TTTAGTTATTTTTGTTTAA
* *
30135679 TTTATTTATTTTTGTTTTA
1 TTTAGTTATTTTTGTTTAA
30135698 TTTAGTT
1 TTTAGTT
30135705 TTTCACATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (19 bp):
TTTAGTTATTTTTGTTTAA
Found at i:30135697 original size:15 final size:15
Alignment explanation
Indices: 30135666--30135707 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
30135656 ATATGTTTAG
30135666 TTATTT-TTTTTAAT
1 TTATTTATTTTTAAT
**
30135680 TTATTTATTTTTGTT
1 TTATTTATTTTTAAT
30135695 TTATTTAGTTTTT
1 TTATTTA-TTTTT
30135708 CACATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 6 0.25
15 13 0.54
16 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (15 bp):
TTATTTATTTTTAAT
Found at i:30135944 original size:31 final size:31
Alignment explanation
Indices: 30135872--30135944 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
30135862 ATTTTCAAAA
* *
30135872 TATAGATATCACATTAGACATTTTATGAAGG
1 TATAGATACCACATTAGACATTTTATGAAAG
* *
30135903 TACATG-TACCATATTAGACATTTTATGAAAG
1 TATA-GATACCACATTAGACATTTTATGAAAG
30135934 TATAGATACCA
1 TATAGATACCA
30135945 AATATGGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 1 0.03
31 33 0.94
32 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (31 bp):
TATAGATACCACATTAGACATTTTATGAAAG
Found at i:30141549 original size:23 final size:23
Alignment explanation
Indices: 30141499--30141549 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
30141489 TCCAAGTTCA
30141499 TTAAAAAATTAATTTTTTAAATT
1 TTAAAAAATTAATTTTTTAAATT
*
30141522 ATAAAAAA-T-ATTTTTATGAAATT
1 TTAAAAAATTAATTTTT-T-AAATT
30141545 TTAAA
1 TTAAA
30141550 TTTTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 6 0.25
22 2 0.08
23 16 0.67
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TTAAAAAATTAATTTTTTAAATT
Found at i:30141887 original size:11 final size:11
Alignment explanation
Indices: 30141871--30141895 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30141861 TGTCATACAA
30141871 TGATGTCATAG
1 TGATGTCATAG
30141882 TGATGTCATAG
1 TGATGTCATAG
30141893 TGA
1 TGA
30141896 CATCATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (11 bp):
TGATGTCATAG
Done.