Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 52 of 103
Found at i:19523002 original size:43 final size:43
Alignment explanation
Indices: 19522954--19523072 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 43
19522944 TCACCAGCTC
** * *
19522954 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
19522997 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
* *
19523040 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
19523073 ACATAATTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTT
Found at i:19526317 original size:37 final size:36
Alignment explanation
Indices: 19526266--19526355 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 36
19526256 CCTGTGTGTG
*
19526266 ATGTGGGGGTTGCACATGATGGCATTAGCTATGCGCA
1 ATGTGGGGG-TGCACACGATGGCATTAGCTATGCGCA
* *
19526303 ATGTAGGGGGTGCACACGATGGCATTAGCTGTGCGCG
1 ATGT-GGGGGTGCACACGATGGCATTAGCTATGCGCA
19526340 ATGTGGGGGTGCACAC
1 ATGTGGGGGTGCACAC
19526356 AATGACTCCA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
36 12 0.24
37 32 0.65
38 5 0.10
ACGTcount: A:0.20, C:0.18, G:0.39, T:0.23
Consensus pattern (36 bp):
ATGTGGGGGTGCACACGATGGCATTAGCTATGCGCA
Found at i:19526355 original size:36 final size:36
Alignment explanation
Indices: 19526265--19526390 Score: 137
Period size: 36 Copynumber: 3.4 Consensus size: 36
19526255 GCCTGTGTGT
*
19526265 GATGTGGGGGTTGCACATGATGGCATTAGCTATGCGC
1 GATGTGGGGG-TGCACACGATGGCATTAGCTATGCGC
* *
19526302 AATGTAGGGGGTGCACACGATGGCATTAGCTGTGCGC
1 GATGT-GGGGGTGCACACGATGGCATTAGCTATGCGC
* * * *
19526339 GATGTGGGGGTGCACACAATGAC-TCCAGCTATGTGC
1 GATGTGGGGGTGCACACGATGGCAT-TAGCTATGCGC
* *
19526375 GGTGTGGGAGTGCACA
1 GATGTGGGGGTGCACA
19526391 TGAGTTGGGT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.01
36 38 0.50
37 32 0.42
38 5 0.07
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.23
Consensus pattern (36 bp):
GATGTGGGGGTGCACACGATGGCATTAGCTATGCGC
Found at i:19529213 original size:20 final size:20
Alignment explanation
Indices: 19529190--19529231 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19529180 ACTTCAAAAC
*
19529190 AGAAAGAACTTAATCGACTA
1 AGAAAAAACTTAATCGACTA
* *
19529210 AGAAAAAAGTTAGTCGACTA
1 AGAAAAAACTTAATCGACTA
19529230 AG
1 AG
19529232 TGCTCACTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.19, T:0.19
Consensus pattern (20 bp):
AGAAAAAACTTAATCGACTA
Found at i:19532873 original size:55 final size:56
Alignment explanation
Indices: 19532778--19532939 Score: 222
Period size: 55 Copynumber: 2.9 Consensus size: 56
19532768 ATGTATACAA
* *
19532778 CCACCAGCTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGA-AATCATCAT
1 CCACCAG-TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAAGAATCATCAC
* * ** *
19532834 CCACTAGTCATCAGCTCATGTGCACTCCCATACTACACATAG-AAAGAATCATCAC
1 CCACCAGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAAGAATCATCAC
*
19532889 CCACCGGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCT-AGAATCA
1 CCACCAGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAAGAATCA
19532940 CCTGTCATCA
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
54 1 0.01
55 84 0.92
56 6 0.07
ACGTcount: A:0.30, C:0.37, G:0.13, T:0.20
Consensus pattern (56 bp):
CCACCAGTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAAGAATCATCAC
Found at i:19541293 original size:43 final size:43
Alignment explanation
Indices: 19541246--19541351 Score: 126
Period size: 43 Copynumber: 2.5 Consensus size: 43
19541236 CAGCTCATGT
** *
19541246 GCACTCCCTACTCGCACAT-GGCTGAGTCATCAC-CGGGTTATGC
1 GCACTCCCTACTCGCACATAAAC-GAGTCATC-CTCGGCTTATGC
* * *
19541289 GCACTCCTTACTCACACATAAACGAGTCATCCTTGGCTTATGC
1 GCACTCCCTACTCGCACATAAACGAGTCATCCTCGGCTTATGC
19541332 GCACTCCCTACTCGCACATA
1 GCACTCCCTACTCGCACATA
19541352 GCCGAATCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.02
43 51 0.96
44 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.25
Consensus pattern (43 bp):
GCACTCCCTACTCGCACATAAACGAGTCATCCTCGGCTTATGC
Found at i:19543274 original size:176 final size:176
Alignment explanation
Indices: 19542978--19543332 Score: 638
Period size: 176 Copynumber: 2.0 Consensus size: 176
19542968 GTAGCCTCTA
* *
19542978 GATGGCAATATGTTTTACATGTTTTCATAAATGAATTCTTATGATGGCTCTAGAGCCTAGTTTAG
1 GATGGCAATATGTTTTACATGTTTTCACAAATGAATTCTTATGATGGCTCGAGAGCCTAGTTTAG
*
19543043 CACTATATAATGCATATGCATGTTCTTATGAGATATTTCATGAGTAATGCTATATAAACATCGAT
66 CACTATAGAATGCATATGCATGTTCTTATGAGATATTTCATGAGTAATGCTATATAAACATCGAT
* *
19543108 TTACATGATTGATAGCATTTTATGATGTAAAATTCCATAATGTTGT
131 TTACATGATCGATAGCATTTTATGACGTAAAATTCCATAATGTTGT
19543154 GATGGCAATATGTTTTACATGTTTTCACAAATGAATTCTTATGATGGCTCGAGAGCCTAGTTTAG
1 GATGGCAATATGTTTTACATGTTTTCACAAATGAATTCTTATGATGGCTCGAGAGCCTAGTTTAG
*
19543219 CACTATAGAATGCATATGCATGTTCTTATGAGATATTTCATGAGTAATTCTATATAAACATCGAT
66 CACTATAGAATGCATATGCATGTTCTTATGAGATATTTCATGAGTAATGCTATATAAACATCGAT
* *
19543284 TTACATGATCGATAGCATTTTGTGACGTAGAATTCCATAATGTTGT
131 TTACATGATCGATAGCATTTTATGACGTAAAATTCCATAATGTTGT
19543330 GAT
1 GAT
19543333 TAGACCTGTC
Statistics
Matches: 171, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
176 171 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (176 bp):
GATGGCAATATGTTTTACATGTTTTCACAAATGAATTCTTATGATGGCTCGAGAGCCTAGTTTAG
CACTATAGAATGCATATGCATGTTCTTATGAGATATTTCATGAGTAATGCTATATAAACATCGAT
TTACATGATCGATAGCATTTTATGACGTAAAATTCCATAATGTTGT
Found at i:19554226 original size:48 final size:48
Alignment explanation
Indices: 19554165--19554258 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
19554155 AACGAAATCT
* * * *
19554165 AGAGCAAGGGTTAAGGCCATTCACCCGAGAGTTTCTCCCTGCAGTGAG
1 AGAGCAAGGGTTAAGGCCATCCACCCAAGAGTTTCTCACTACAGTGAG
19554213 AGAGCAAGGGTTAAGGCCATCCACCCAAGAGTTTCTCACTACAGTG
1 AGAGCAAGGGTTAAGGCCATCCACCCAAGAGTTTCTCACTACAGTG
19554259 GGAAAGCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.20
Consensus pattern (48 bp):
AGAGCAAGGGTTAAGGCCATCCACCCAAGAGTTTCTCACTACAGTGAG
Found at i:19554632 original size:36 final size:36
Alignment explanation
Indices: 19554510--19554632 Score: 183
Period size: 36 Copynumber: 3.4 Consensus size: 36
19554500 AGCCAGAGTT
*
19554510 ATCGTGTGCACCCCTACATCGCGCACAGCTAATACC
1 ATCGTGTGCACCCCCACATCGCGCACAGCTAATACC
* * * *
19554546 ATTGTGTGCACCCTCACATCGCGCACAACTAATGCC
1 ATCGTGTGCACCCCCACATCGCGCACAGCTAATACC
* *
19554582 ATCATGTGCACCCCCACATCACGCACAGCTAATACC
1 ATCGTGTGCACCCCCACATCGCGCACAGCTAATACC
19554618 ATCGTGTGCACCCCC
1 ATCGTGTGCACCCCC
19554633 GTACCTCGCC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 75 1.00
ACGTcount: A:0.25, C:0.40, G:0.15, T:0.20
Consensus pattern (36 bp):
ATCGTGTGCACCCCCACATCGCGCACAGCTAATACC
Found at i:19556767 original size:28 final size:28
Alignment explanation
Indices: 19556735--19556789 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
19556725 GATTGAATTT
*
19556735 TTATTTATGTTT-GATGTAATTTATTTGC
1 TTATTTATGTTTAG-CGTAATTTATTTGC
19556763 TTATTTATGTTTAGCGTAATTTATTTG
1 TTATTTATGTTTAGCGTAATTTATTTG
19556790 TTTTTAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.22, C:0.04, G:0.15, T:0.60
Consensus pattern (28 bp):
TTATTTATGTTTAGCGTAATTTATTTGC
Found at i:19565450 original size:46 final size:43
Alignment explanation
Indices: 19565313--19565448 Score: 159
Period size: 43 Copynumber: 3.2 Consensus size: 43
19565303 TTGTGTGATA
** * *
19565313 ATGATGACCCAACTATGTGCGA-TATGGAAGTGCACATGAGCTG
1 ATGATGACCCGGCTATGTGCGAGTAAGG-AGTGCACATAAGCTG
* * * *
19565356 ATGATGACCTGGTTATGTGCGAGT-AGAGAGTGCTCATAAGCCG
1 ATGATGACCCGGCTATGTGCGAGTAAG-GAGTGCACATAAGCTG
*
19565399 ATGATGACCCGGCTATGTGCGAGTAAGGAGTGCGCATAAGCTG
1 ATGATGACCCGGCTATGTGCGAGTAAGGAGTGCACATAAGCTG
19565442 ATGATGA
1 ATGATGA
19565449 TGACCCGGCT
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
43 74 0.95
44 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.24
Consensus pattern (43 bp):
ATGATGACCCGGCTATGTGCGAGTAAGGAGTGCACATAAGCTG
Found at i:19565792 original size:22 final size:22
Alignment explanation
Indices: 19565735--19565794 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
19565725 CCAGCCTTGT
* *
19565735 TTCTCGCTACAGCAAAAAAGAA
1 TTCTCGCTGCAGCGAAAAAGAA
* *
19565757 TTCTTGCTGCAGCGAAAATGAA
1 TTCTCGCTGCAGCGAAAAAGAA
*
19565779 TTGTCGCTGCAGCGAA
1 TTCTCGCTGCAGCGAA
19565795 GAACTCTCGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (22 bp):
TTCTCGCTGCAGCGAAAAAGAA
Found at i:19572773 original size:21 final size:21
Alignment explanation
Indices: 19572749--19572802 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
19572739 TATGTTGGTA
19572749 TGTGTATATATGAAT-ATGTGT
1 TGTG-ATATATGAATAATGTGT
*
19572770 TGTGCAT-TGATGAATAATGTTT
1 TGTG-ATAT-ATGAATAATGTGT
19572792 TGTGATA-ATGA
1 TGTGATATATGA
19572803 TGACCTAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 5 0.18
21 14 0.50
22 9 0.32
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (21 bp):
TGTGATATATGAATAATGTGT
Found at i:19572847 original size:43 final size:43
Alignment explanation
Indices: 19572799--19572934 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
19572789 TTTTGTGATA
* * *
19572799 ATGATGACCTAG-CTATGTGCGA-TATGGGGGCGCACATGAGCTG
1 ATGATGACC-AGACTATGTGCGAGTA-GAGAGCGCACATAAGCTG
* *
19572842 ATGATGACCCGACTATGTGCGAGTAGAGAGTGCACATAAGCTG
1 ATGATGACCAGACTATGTGCGAGTAGAGAGCGCACATAAGCTG
* * * * * *
19572885 ATGATGACCCGACTATGTGCAAGTAGAGAGTGCGCATAGGCCG
1 ATGATGACCAGACTATGTGCGAGTAGAGAGCGCACATAAGCTG
19572928 ATGATGA
1 ATGATGA
19572935 TGACCCAGCT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 79 0.96
44 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.21
Consensus pattern (43 bp):
ATGATGACCAGACTATGTGCGAGTAGAGAGCGCACATAAGCTG
Found at i:19572936 original size:46 final size:43
Alignment explanation
Indices: 19572830--19572934 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
19572820 ATATGGGGGC
* *
19572830 GCACATGAGCTGATGATGACCCGACTATGTGCGAGTAGAGAGT
1 GCACATAAGCTGATGATGACCCGACTATGTGCAAGTAGAGAGT
19572873 GCACATAAGCTGATGATGACCCGACTATGTGCAAGTAGAGAGT
1 GCACATAAGCTGATGATGACCCGACTATGTGCAAGTAGAGAGT
* * *
19572916 GCGCATAGGCCGATGATGA
1 GCACATAAGCTGATGATGA
19572935 TGACCCAGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.30, C:0.19, G:0.31, T:0.20
Consensus pattern (43 bp):
GCACATAAGCTGATGATGACCCGACTATGTGCAAGTAGAGAGT
Found at i:19585644 original size:25 final size:25
Alignment explanation
Indices: 19585597--19585645 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
19585587 TCTAGTAAAC
*
19585597 TTTATTATTCAACTATTAGTTTTAG
1 TTTATTATTCAACTATTACTTTTAG
*
19585622 TTTATTAATTCAA-TTTTACTTTTA
1 TTTATT-ATTCAACTATTACTTTTA
19585646 ATTAATTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTATTATTCAACTATTACTTTTAG
Found at i:19587247 original size:73 final size:73
Alignment explanation
Indices: 19587071--19587335 Score: 257
Period size: 73 Copynumber: 3.6 Consensus size: 73
19587061 GTTCAGAAAT
* * * * * * * *
19587071 GAGAAGACTCAGTCGACTAAGAAGTATCGTTAGTCAACTAAGAGCTTATTGCCAGAAATCT-GGA
1 GAGAAGACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAAAGCTTACTGCCA-AAAACTGGGT
19587135 TTACGAGACA
65 TTA-GAGACA
* * * *
19587145 GAAAAAACTTAATCGACTAAAAAGCATTGTTAGTCAACCAAAAGCTTACTGCCAAAAACTGGGTT
1 GAGAAGACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAAAGCTTACTGCCAAAAACTGGGTT
19587210 TAGAGACTA
66 TAGAGAC-A
* * * * * * *
19587219 -AGATGGCTTAATCGACTAAGAAGTATTGTTAGTCGACTAAGAGCTCACTGCC-AGAACTTGGGT
1 GAGAAGACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAAAGCTTACTGCCAAAAAC-TGGGT
*
19587282 TTAGAGAAA
65 TTAGAGACA
* * * *
19587291 GAGACGACTTAATCGACTGAGAAGCATAGTTAGTCGACTAAAAGC
1 GAGAAGACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAAAGC
19587336 ATTCTGTCTG
Statistics
Matches: 157, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
72 5 0.03
73 102 0.65
74 50 0.32
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (73 bp):
GAGAAGACTTAATCGACTAAGAAGCATTGTTAGTCAACTAAAAGCTTACTGCCAAAAACTGGGTT
TAGAGACA
Found at i:19587758 original size:35 final size:35
Alignment explanation
Indices: 19587714--19587844 Score: 135
Period size: 35 Copynumber: 3.8 Consensus size: 35
19587704 GTTAGTTTTG
*
19587714 GGTTTTGGTTGATCTTGTGAAAAACCATTATTAAA
1 GGTTGTGGTTGATCTTGTGAAAAACCATTATTAAA
* * *
19587749 GGTTGTGGTTGAGCCTT-TGAAAAGCCATT-TT--G
1 GGTTGTGGTTGA-TCTTGTGAAAAACCATTATTAAA
* **
19587781 GGTTTTGGTTGATCCCGTGAAAAACCATTATTAAA
1 GGTTGTGGTTGATCTTGTGAAAAACCATTATTAAA
* * *
19587816 GGTTGTGGCTGAGCTTGTGAAAAGCCATT
1 GGTTGTGGTTGATCTTGTGAAAAACCATT
19587845 GTAAAAGCTT
Statistics
Matches: 75, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
31 1 0.01
32 22 0.29
33 2 0.03
34 2 0.03
35 45 0.60
36 3 0.04
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (35 bp):
GGTTGTGGTTGATCTTGTGAAAAACCATTATTAAA
Found at i:19587792 original size:67 final size:67
Alignment explanation
Indices: 19587709--19587844 Score: 229
Period size: 67 Copynumber: 2.0 Consensus size: 67
19587699 GAAAAGTTAG
** *
19587709 TTTTGGGTTTTGGTTGATCTTGTGAAAAACCATTATTAAAGGTTGTGGTTGAGCCTT-TGAAAAG
1 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTATTAAAGGTTGTGGCTGAG-CTTGTGAAAAG
19587773 CCA
65 CCA
19587776 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTATTAAAGGTTGTGGCTGAGCTTGTGAAAAGC
1 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTATTAAAGGTTGTGGCTGAGCTTGTGAAAAGC
19587841 CA
66 CA
19587843 TT
1 TT
19587845 GTAAAAGCTT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 3 0.05
67 62 0.95
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.38
Consensus pattern (67 bp):
TTTTGGGTTTTGGTTGATCCCGTGAAAAACCATTATTAAAGGTTGTGGCTGAGCTTGTGAAAAGC
CA
Found at i:19587802 original size:32 final size:32
Alignment explanation
Indices: 19587709--19587809 Score: 112
Period size: 32 Copynumber: 3.1 Consensus size: 32
19587699 GAAAAGTTAG
*
19587709 TTTTGGGTTTTGGTTGATCTTGTGAAAAACCA
1 TTTTGGGTTTTGGTTGATCCTGTGAAAAACCA
* * * * *
19587741 TTATTAAAGGTTGTGGTTGAGCCTTTGAAAAGCCA
1 TT-TT--GGGTTTTGGTTGATCCTGTGAAAAACCA
*
19587776 TTTTGGGTTTTGGTTGATCCCGTGAAAAACCA
1 TTTTGGGTTTTGGTTGATCCTGTGAAAAACCA
19587808 TT
1 TT
19587810 ATTAAAGGTT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
32 26 0.48
33 2 0.04
34 2 0.04
35 24 0.44
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.40
Consensus pattern (32 bp):
TTTTGGGTTTTGGTTGATCCTGTGAAAAACCA
Found at i:19596782 original size:28 final size:28
Alignment explanation
Indices: 19596497--19596802 Score: 337
Period size: 29 Copynumber: 10.7 Consensus size: 28
19596487 TGGACAAAAA
* *
19596497 AAAACATGTTTGTCGTAATATTAGATAAG
1 AAAACATGTTTGTCTTAAT-TTAGACAAG
* * *
19596526 AAAACATCTTTGTCTTAATTTAGATAAT
1 AAAACATGTTTGTCTTAATTTAGACAAG
* * * *
19596554 AAAACATTTTTGGTCTTACTTTTGACAAT
1 AAAACATGTTT-GTCTTAATTTAGACAAG
* *
19596583 AAAACACGGTTGTCTTAATTTAGACAAG
1 AAAACATGTTTGTCTTAATTTAGACAAG
19596611 AAAACATGTTTTGTCTTAATTTCA-ACAAG
1 AAAACATG-TTTGTCTTAATTT-AGACAAG
19596640 AAAACATGTTTTGTCTTAATTTAGACAAG
1 AAAACATG-TTTGTCTTAATTTAGACAAG
* *
19596669 AAAACATGTTTTATCTTAATTAAGACAAG
1 AAAACATG-TTTGTCTTAATTTAGACAAG
* *
19596698 AAAACATGTTTTGTTTTAATTTAGAAAAG
1 AAAACATG-TTTGTCTTAATTTAGACAAG
* * *
19596727 AAAA-ATATTTATCTTAATTTAGATAAG
1 AAAACATGTTTGTCTTAATTTAGACAAG
*
19596754 AAAACATGTTTGTCTCAATTTAGACAAG
1 AAAACATGTTTGTCTTAATTTAGACAAG
* *
19596782 ATAACATGTTTTGTTTTAATT
1 AAAACATG-TTTGTCTTAATT
19596803 AAAGATAAAA
Statistics
Matches: 239, Mismatches: 32, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
27 21 0.09
28 68 0.28
29 149 0.62
30 1 0.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (28 bp):
AAAACATGTTTGTCTTAATTTAGACAAG
Found at i:19609327 original size:11 final size:11
Alignment explanation
Indices: 19609311--19609345 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
19609301 TAAGTTAATA
19609311 ATGTTATTTTT
1 ATGTTATTTTT
*
19609322 ATGTTATTTAT
1 ATGTTATTTTT
19609333 AT-TTATTTTT
1 ATGTTATTTTT
19609343 ATG
1 ATG
19609346 CTTTTGTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (11 bp):
ATGTTATTTTT
Found at i:19623458 original size:13 final size:13
Alignment explanation
Indices: 19623440--19623465 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19623430 GGGAGAAATT
19623440 ATGATTTTATAAA
1 ATGATTTTATAAA
19623453 ATGATTTTATAAA
1 ATGATTTTATAAA
19623466 TTTTTTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:19626644 original size:21 final size:21
Alignment explanation
Indices: 19626619--19626664 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
19626609 CTCTTAAAAT
19626619 AATTAAAAC-AAAATAACATTA
1 AATTAAAACTAAAATAAC-TTA
19626640 AATT-AAACTAAAATAACTTA
1 AATTAAAACTAAAATAACTTA
19626660 AATTA
1 AATTA
19626665 CATACTTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (21 bp):
AATTAAAACTAAAATAACTTA
Found at i:19633714 original size:36 final size:36
Alignment explanation
Indices: 19633673--19633749 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
19633663 AGGTTACTCT
* * *
19633673 TGATCCTAGTAAAAGGCATGTTGTGAAAGTGACACC
1 TGATCCAAGTAAAAGGCATGGTGTAAAAGTGACACC
* * * *
19633709 TGATCCAAGTTAGAGGCATGGTGTAAAAGTTACGCC
1 TGATCCAAGTAAAAGGCATGGTGTAAAAGTGACACC
19633745 TGATC
1 TGATC
19633750 TTGTTGAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (36 bp):
TGATCCAAGTAAAAGGCATGGTGTAAAAGTGACACC
Found at i:19638107 original size:37 final size:37
Alignment explanation
Indices: 19638057--19638171 Score: 196
Period size: 37 Copynumber: 3.1 Consensus size: 37
19638047 CATATGCATT
* *
19638057 CATCATCATGTGTGCACTCCCTACTCGTACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
19638094 CATCATCATGTGTGCACTCCCTACTTGCACAC-TCTAA
1 CATCATCATGTGTGCACTCCCTACTTGCACACTTC-AA
19638131 CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
19638168 CATC
1 CATC
19638172 CTCACACAAC
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
36 2 0.03
37 70 0.95
38 2 0.03
ACGTcount: A:0.24, C:0.36, G:0.10, T:0.30
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTTGCACACTTCAA
Found at i:19658423 original size:220 final size:220
Alignment explanation
Indices: 19658024--19658438 Score: 636
Period size: 220 Copynumber: 1.9 Consensus size: 220
19658014 GGGGCGGCTC
* * *
19658024 TCTGGGCAGCCTTTTCCTCCTTCAATGGTGGTAACAAAGGATACCTATCAGAGCACTATAGGGCA
1 TCTGGGCAGCCCTTTCCTCCTTCAACGGTGGCAACAAAGGATACCTATCAGAGCACTATAGGGCA
* * *
19658089 GCTTCACACTCACAAATAGAGGTAGCTCTTTCCTCTATAGCCCTTAGGCGGAGAGTCATGCTTCG
66 GCTCCACACTCACAAATAGAGGTAGCCCTTTCCTCTATAGCCCCTAGGCGGAGAGTCATGCTTCG
* * *
19658154 CCCACTGTTCACATGCGAGAGTTCCCAAGAATTGTGGTACAACACTTTGCTCTGCTACCAACTTT
131 CCCACTGTTCACATGCGAGAGTTCCCAAGAATCGTGGTAAAACACTTTGCTCTGATACCAACTTT
19658219 GTCAATAGGGGTGGCTCCAACCCTT
196 GTCAATAGGGGTGGCTCCAACCCTT
* * * *
19658244 TCTGGGTAGCCCTTTCTTCCTTCAACGGTGGCAACAAAGGTTACCTATCAGAGCACTATAGGG-T
1 TCTGGGCAGCCCTTTCCTCCTTCAACGGTGGCAACAAAGGATACCTATCAGAGCACTATAGGGCA
** * *
19658308 GACTCCACACTCACTGATAGAGGTATCCCTTTCCTCTATAGCCCCTGGGCGGAGAGTCATGC-TC
66 G-CTCCACACTCACAAATAGAGGTAGCCCTTTCCTCTATAGCCCCTAGGCGGAGAGTCATGCTTC
*
19658372 AGCCCACTGTTCACATGCGAGAGTTCCCAAGGATCGTGGTAAAACACTTTGCTCTGATACCAACT
130 -GCCCACTGTTCACATGCGAGAGTTCCCAAGAATCGTGGTAAAACACTTTGCTCTGATACCAACT
19658437 TT
194 TT
19658439 ATCACAGTCT
Statistics
Matches: 175, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
219 3 0.02
220 172 0.98
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (220 bp):
TCTGGGCAGCCCTTTCCTCCTTCAACGGTGGCAACAAAGGATACCTATCAGAGCACTATAGGGCA
GCTCCACACTCACAAATAGAGGTAGCCCTTTCCTCTATAGCCCCTAGGCGGAGAGTCATGCTTCG
CCCACTGTTCACATGCGAGAGTTCCCAAGAATCGTGGTAAAACACTTTGCTCTGATACCAACTTT
GTCAATAGGGGTGGCTCCAACCCTT
Found at i:19664197 original size:43 final size:43
Alignment explanation
Indices: 19664148--19664270 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
19664138 CACATCATCA
* ** *
19664148 TCATCACCGGCTCATGCGCACTCCCTACTCGCACATGGTTGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAATTAGG
* * * *
19664191 TCATCACTGGGTTATGCACACTCCCTATTCGCACATAATTAGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAATTAGG
* * *
19664234 TCATC-CTCGACTTATGTGCACTCCCTACTCACACATA
1 TCATCAC-CGGCTTATGCGCACTCCCTACTCGCACATA
19664271 GCCGAGTCAA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.22, C:0.34, G:0.16, T:0.28
Consensus pattern (43 bp):
TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAATTAGG
Found at i:19667999 original size:69 final size:68
Alignment explanation
Indices: 19667924--19668059 Score: 166
Period size: 69 Copynumber: 2.0 Consensus size: 68
19667914 AATATTGTAG
* * * * * *
19667924 GGTTAAGT-TAGGCATTATACCACTTTTCTCCTTCTTATGAGTCCTAGTGTGGGGGTAAGAATAC
1 GGTTAAGTGT-GGCATCATACCACTTTTCCCCTCCTTATGAGT-CTAGTGTAGGGATAAAAATAC
19667988 CACAA
64 CACAA
* * *
19667993 GGTTAAGTGTGGTATCATAGCACTTTTCCCCTCCTTATGAGTCTCGTGTAGGGATAAAAATACCA
1 GGTTAAGTGTGGCATCATACCACTTTTCCCCTCCTTATGAGTCTAGTGTAGGGATAAAAATACCA
19668058 CA
66 CA
19668060 GGGATGAGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
68 21 0.37
69 35 0.61
70 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (68 bp):
GGTTAAGTGTGGCATCATACCACTTTTCCCCTCCTTATGAGTCTAGTGTAGGGATAAAAATACCA
CAA
Found at i:19669888 original size:19 final size:19
Alignment explanation
Indices: 19669850--19669888 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
19669840 AAAAATTTAA
**
19669850 AATAAAATAATATTTTATT
1 AATAAAATAATATTAAATT
19669869 AATAAAATAATATTAAATT
1 AATAAAATAATATTAAATT
19669888 A
1 A
19669889 TTAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATAAAATAATATTAAATT
Found at i:19685574 original size:5 final size:5
Alignment explanation
Indices: 19685556--19685612 Score: 73
Period size: 5 Copynumber: 11.6 Consensus size: 5
19685546 CTCTTTCTTT
* *
19685556 TTTTC TTTTTC TTTCC TTTCC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTC
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
19685606 -TTTC TTT
1 TTTTC TTT
19685613 CACCATCCAG
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
4 8 0.17
5 35 0.73
6 5 0.10
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:19685579 original size:10 final size:10
Alignment explanation
Indices: 19685547--19685609 Score: 60
Period size: 10 Copynumber: 6.6 Consensus size: 10
19685537 CCATGCCCAC
19685547 TCTTT-CTTT
1 TCTTTCCTTT
*
19685556 T-TTTCTTTT
1 TCTTTCCTTT
19685565 TCTTTCCTTT
1 TCTTTCCTTT
* *
19685575 CCTTTTCTTT
1 TCTTTCCTTT
*
19685585 TCTTTTCTTT
1 TCTTTCCTTT
*
19685595 TCTTTTC-TT
1 TCTTTCCTTT
19685604 TCTTTC
1 TCTTTC
19685610 TTTCACCATC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 3 0.07
9 12 0.26
10 31 0.67
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TCTTTCCTTT
Found at i:19685810 original size:34 final size:34
Alignment explanation
Indices: 19685772--19685851 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
19685762 TATTGACTTC
*
19685772 AAAATCAGCAGC-TAAGCTGCTCTATTTCTC-CTCA
1 AAAATCAGCAGCTTAA-CTGCACTA-TTCTCACTCA
19685806 AAAATCAGCAGCTTAACTGCACTATTCTCACTCA
1 AAAATCAGCAGCTTAACTGCACTATTCTCACTCA
*
19685840 AAAATTAGCAGC
1 AAAATCAGCAGC
19685852 CAAAGCCACA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 5 0.12
34 34 0.81
35 3 0.07
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (34 bp):
AAAATCAGCAGCTTAACTGCACTATTCTCACTCA
Found at i:19685929 original size:35 final size:35
Alignment explanation
Indices: 19685890--19685973 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
19685880 TGCACCTTTT
*
19685890 AGCCTTCAAAATTAGTAACTAAAACCATAC-C-ATTC
1 AGCCTTCAAAATCAGTAAC-AAAACC-TACACTATTC
* * *
19685925 AGCCTTCAAAATCAGTAGCAAAATCTACACTTTTC
1 AGCCTTCAAAATCAGTAACAAAACCTACACTATTC
19685960 AGCCTTCAAAATCA
1 AGCCTTCAAAATCA
19685974 ACAGCAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 3 0.07
34 6 0.14
35 34 0.79
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.26
Consensus pattern (35 bp):
AGCCTTCAAAATCAGTAACAAAACCTACACTATTC
Found at i:19686225 original size:2 final size:2
Alignment explanation
Indices: 19686218--19686244 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19686208 CTTATTCAAT
19686218 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19686245 TTTCTTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19694273 original size:20 final size:19
Alignment explanation
Indices: 19694234--19694298 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
19694224 AAATGGTTGA
19694234 TTTAGATACCTAAATT-TATT
1 TTTAGATA--TAAATTATATT
19694254 TTTAGATATAAATGTATATT
1 TTTAGATATAAAT-TATATT
** *
19694274 TTTCATTTATATATTATATT
1 TTT-AGATATAAATTATATT
19694294 TTTAG
1 TTTAG
19694299 CAAGTTTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.13
19 2 0.05
20 24 0.63
21 7 0.18
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (19 bp):
TTTAGATATAAATTATATT
Found at i:19698390 original size:57 final size:57
Alignment explanation
Indices: 19698302--19698414 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
19698292 TGCACAGTTA
* *
19698302 GGCTCCACTCATAAGGGACGACCTTCGCTACAAGCAGCCCTTTCCACCTTCAGCGGC
1 GGCTCCACTCATAAGGGACAACCTTCGCTACAAGCAACCCTTTCCACCTTCAGCGGC
* *
19698359 GGCTCCACTCGTAAGGGACAACCCTT-GCTACAAGCAACCCTTTCCTCCTTCAGCGG
1 GGCTCCACTCATAAGGGACAA-CCTTCGCTACAAGCAACCCTTTCCACCTTCAGCGG
19698415 TGGCAACAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 47 0.92
58 4 0.08
ACGTcount: A:0.21, C:0.38, G:0.20, T:0.20
Consensus pattern (57 bp):
GGCTCCACTCATAAGGGACAACCTTCGCTACAAGCAACCCTTTCCACCTTCAGCGGC
Found at i:19699861 original size:28 final size:28
Alignment explanation
Indices: 19699829--19699883 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
19699819 TTGGAGTATA
*
19699829 GGGGTAAAATC-GTAATTTTTTCACCTTG
1 GGGGT-AAATCGGTAAATTTTTCACCTTG
*
19699857 GGGGTAAATCGGTAAATTTTTCGCCTT
1 GGGGTAAATCGGTAAATTTTTCACCTT
19699884 AGCACTTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (28 bp):
GGGGTAAATCGGTAAATTTTTCACCTTG
Found at i:19700528 original size:42 final size:42
Alignment explanation
Indices: 19700469--19700605 Score: 202
Period size: 42 Copynumber: 3.3 Consensus size: 42
19700459 TGTTGATTTG
* * *
19700469 GACCCGGCTATGTGCGAGTAGAAGTGCACATAAGCCTTTGTT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
19700511 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * * *
19700553 GACCCAGCTATGTGTGAGTGGGAGTGCACATAAGTCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
19700595 GACCCTGCTAT
1 GACCCGGCTAT
19700606 ATGCACATAA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.22, C:0.23, G:0.31, T:0.25
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:19703812 original size:21 final size:21
Alignment explanation
Indices: 19703768--19703812 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
19703758 TATTAATGTG
* *
19703768 AATATGAGAAAATGAATTTGA
1 AATATAAGAAAATGAATTTAA
19703789 AATATAAGAAAATG-ATTTCAA
1 AATATAAGAAAATGAATTT-AA
19703810 AAT
1 AAT
19703813 TTAATGTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.29
Consensus pattern (21 bp):
AATATAAGAAAATGAATTTAA
Found at i:19729537 original size:26 final size:26
Alignment explanation
Indices: 19729508--19729593 Score: 63
Period size: 26 Copynumber: 3.2 Consensus size: 26
19729498 TGCACTCCCA
19729508 CACCGCACATAGCTAGAATCATCATC
1 CACCGCACATAGCTAGAATCATCATC
*
19729534 CACCG-ATCATCAGCTCATG--TGCACTC-CC
1 CACCGCA-CAT-AGCT-A-GAAT-CA-TCATC
*
19729562 ACACCGCACATAGCTACAATCATCATC
1 -CACCGCACATAGCTAGAATCATCATC
19729589 CACCG
1 CACCG
19729594 ATCATCAACT
Statistics
Matches: 46, Mismatches: 3, Indels: 22
0.65 0.04 0.31
Matches are distributed among these distances:
25 1 0.02
26 15 0.33
27 9 0.20
28 9 0.20
29 11 0.24
30 1 0.02
ACGTcount: A:0.30, C:0.40, G:0.12, T:0.19
Consensus pattern (26 bp):
CACCGCACATAGCTAGAATCATCATC
Found at i:19729638 original size:55 final size:55
Alignment explanation
Indices: 19729430--19729638 Score: 348
Period size: 55 Copynumber: 3.8 Consensus size: 55
19729420 AACCACCGGC
*
19729430 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCT-GAAATCATCATCCACCAA
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAG-AATCATCATCCACCGA
19729485 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACCGA
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACCGA
*
19729540 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTACAATCATCATCCACCGA
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACCGA
* * * *
19729595 TCATCAACTCATGTGCACTCCCACATCGTACATAGCTGGAATCA
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCA
19729639 CTCGTCATCA
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
55 145 0.99
56 1 0.01
ACGTcount: A:0.30, C:0.37, G:0.12, T:0.21
Consensus pattern (55 bp):
TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCATCCACCGA
Found at i:19732470 original size:13 final size:13
Alignment explanation
Indices: 19732454--19732480 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19732444 TCGTAACTTT
19732454 TTTTATTTATTTA
1 TTTTATTTATTTA
19732467 TTTTATTTATTTA
1 TTTTATTTATTTA
19732480 T
1 T
19732481 ATTTCTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:19732695 original size:20 final size:20
Alignment explanation
Indices: 19732670--19732708 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
19732660 GGGGGATGTT
19732670 TTTGTTTGTTTTTCTTTATC
1 TTTGTTTGTTTTTCTTTATC
19732690 TTTGTTTGTTTTTCTTTAT
1 TTTGTTTGTTTTTCTTTAT
19732709 TATTTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.08, G:0.10, T:0.77
Consensus pattern (20 bp):
TTTGTTTGTTTTTCTTTATC
Found at i:19734020 original size:26 final size:27
Alignment explanation
Indices: 19733968--19734020 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
19733958 ATTTTTAATT
**
19733968 ATAATTTAGTTATTTTTAGTTGTTTTA
1 ATAATTTAGTTATTTTTAGTTAATTTA
19733995 ATAA-TTAGTTTATTTTTA-TTAATTTA
1 ATAATTTAG-TTATTTTTAGTTAATTTA
19734021 TTTTAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (27 bp):
ATAATTTAGTTATTTTTAGTTAATTTA
Found at i:19738332 original size:31 final size:31
Alignment explanation
Indices: 19738283--19738362 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
19738273 CACGTCATAG
*
19738283 GGACTAAATTAAACAAAAATATATAGTACAA
1 GGACTAAATTGAACAAAAATATATAGTACAA
* * *
19738314 GGATTAAATTGAATAAAAATATATAGTACAG
1 GGACTAAATTGAACAAAAATATATAGTACAA
19738345 GGACTAAATTGAACAAAA
1 GGACTAAATTGAACAAAA
19738363 TTGAGATGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.24
Consensus pattern (31 bp):
GGACTAAATTGAACAAAAATATATAGTACAA
Found at i:19743203 original size:20 final size:20
Alignment explanation
Indices: 19743151--19743203 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 20
19743141 CTCCATTCTG
19743151 TAATTAAAAAATAATATTTTT
1 TAATT-AAAAATAATATTTTT
19743172 T-ATTATATAAAT-ATATTTTT
1 TAATTA-A-AAATAATATTTTT
19743192 TAAATTAAAAAT
1 T-AATTAAAAAT
19743204 GTGAGTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
19 1 0.04
20 17 0.61
21 6 0.21
22 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTAAAAATAATATTTTT
Found at i:19745310 original size:2 final size:2
Alignment explanation
Indices: 19745305--19745356 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
19745295 ACACACACAC
19745305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19745347 AT AT AT AT AT
1 AT AT AT AT AT
19745357 GAGAATTAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19745451 original size:19 final size:20
Alignment explanation
Indices: 19745414--19745451 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
19745404 ACTTGGAGTT
*
19745414 TACAATAAAATAAATCCAAG
1 TACAATAAAATAAACCCAAG
*
19745434 TACAA-AAAATAACCCCAA
1 TACAATAAAATAAACCCAA
19745452 TAAAATGTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.61, C:0.21, G:0.03, T:0.16
Consensus pattern (20 bp):
TACAATAAAATAAACCCAAG
Found at i:19746161 original size:45 final size:45
Alignment explanation
Indices: 19746122--19746345 Score: 188
Period size: 45 Copynumber: 5.0 Consensus size: 45
19746112 ATTATGTAAT
* *
19746122 TGATTCCACTTGTTGAGAGATTAGTCCAGGTGATGATTATGCTTG
1 TGATTCCACTCGTTGAGAGATTACTCCAGGTGATGATTATGCTTG
* * * *
19746167 TGATTCCACTCGTTGGGAGATTACTCTAGGTGATAACTATGCTTG
1 TGATTCCACTCGTTGAGAGATTACTCCAGGTGATGATTATGCTTG
** *** *
19746212 TGATTCCAC-CTGTCAAGAGATTACTTTGGGTGATGACTATGCTTG
1 TGATTCCACTC-GTTGAGAGATTACTCCAGGTGATGATTATGCTTG
* ** * * * *
19746257 TAAGGCCACT-ATCGGGAGATTACTCCAAGTGATGATTATG-TTG
1 TGATTCCACTCGTTGAGAGATTACTCCAGGTGATGATTATGCTTG
* ** *
19746300 TGATACCACTAATCGAGAGATTACTCC-GAGTGATGATTATG-TTG
1 TGATTCCACTCGTTGAGAGATTACTCCAG-GTGATGATTATGCTTG
19746344 TG
1 TG
19746346 GTGCCACTTG
Statistics
Matches: 147, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
43 10 0.07
44 55 0.37
45 82 0.56
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (45 bp):
TGATTCCACTCGTTGAGAGATTACTCCAGGTGATGATTATGCTTG
Found at i:19746333 original size:88 final size:88
Alignment explanation
Indices: 19746136--19746370 Score: 217
Period size: 88 Copynumber: 2.6 Consensus size: 88
19746126 TCCACTTGTT
* ** * * *
19746136 GAGAGATTAGTCC-AGGTGATGATTATGCTTGTGATTCCACTCGTTGGGAGATTACTCTAGGTGA
1 GAGAGATTACTCCGA-GTGATGATTATGCTTGT-AGGCCACT-GTCGGGAGATTACTCCAAGTGA
* *
19746200 TAACTATGCTTGTGATTCCACCTGTC
63 TAACTATGCTTGTGATACCACCTATC
* ** * * * *
19746226 AAGAGATTACTTTGGGTGATGACTATGCTTGTAAGGCCACTATCGGGAGATTACTCCAAGTGATG
1 GAGAGATTACTCCGAGTGATGATTATGCTTGT-AGGCCACTGTCGGGAGATTACTCCAAGTGATA
*
19746291 ATTATG-TTGTGATACCA-CTAATC
65 ACTATGCTTGTGATACCACCT-ATC
* *
19746314 GAGAGATTACTCCGAGTGATGATTATG-TTGTGGTGCCACTTGTCGGGAGACTACTCC
1 GAGAGATTACTCCGAGTGATGATTATGCTTGTAG-GCCAC-TGTCGGGAGATTACTCC
19746371 GGATGACGAC
Statistics
Matches: 116, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
86 1 0.01
87 11 0.09
88 49 0.42
89 24 0.21
90 31 0.27
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (88 bp):
GAGAGATTACTCCGAGTGATGATTATGCTTGTAGGCCACTGTCGGGAGATTACTCCAAGTGATAA
CTATGCTTGTGATACCACCTATC
Found at i:19746371 original size:44 final size:44
Alignment explanation
Indices: 19746138--19746371 Score: 152
Period size: 44 Copynumber: 5.3 Consensus size: 44
19746128 CACTTGTTGA
* * ** *
19746138 GAGATTAGTCC-AGGTGATGATTATGCTTGTGATTCCACTCGTTGG
1 GAGATTACTCCGA-GTGATGATTATG-TTGTGATACCACTAATCGG
* * * * * **
19746183 GAGATTACT-CTAGGTGATAACTATGCTTGTGATTCCACCT-GTCAA
1 GAGATTACTCCGA-GTGATGATTATG-TTGTGATACCA-CTAATCGG
** * * * **
19746228 GAGATTACTTTGGGTGATGACTATGCTTGTAAGGCCACT-ATCGG
1 GAGATTACTCCGAGTGATGATTATG-TTGTGATACCACTAATCGG
* *
19746272 GAGATTACTCCAAGTGATGATTATGTTGTGATACCACTAATCGA
1 GAGATTACTCCGAGTGATGATTATGTTGTGATACCACTAATCGG
* * **
19746316 GAGATTACTCCGAGTGATGATTATGTTGTGGTGCCACTTGTCGG
1 GAGATTACTCCGAGTGATGATTATGTTGTGATACCACTAATCGG
*
19746360 GAGACTACTCCG
1 GAGATTACTCCG
19746372 GATGACGACC
Statistics
Matches: 153, Mismatches: 32, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
43 10 0.07
44 78 0.51
45 63 0.41
46 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (44 bp):
GAGATTACTCCGAGTGATGATTATGTTGTGATACCACTAATCGG
Found at i:19746986 original size:22 final size:23
Alignment explanation
Indices: 19746954--19747000 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
19746944 ATATAAAATT
*
19746954 ATTTGGGCTTAATTTTTATAATA
1 ATTTGGGCTTAATTCTTATAATA
* *
19746977 ATTT-GGCTTAGTTCTTATAGTA
1 ATTTGGGCTTAATTCTTATAATA
19746999 AT
1 AT
19747001 GCATAGAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.28, C:0.06, G:0.15, T:0.51
Consensus pattern (23 bp):
ATTTGGGCTTAATTCTTATAATA
Found at i:19752314 original size:17 final size:17
Alignment explanation
Indices: 19752292--19752328 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
19752282 AAATGAGGAT
19752292 TGCTCCCCCTAAGTGTG
1 TGCTCCCCCTAAGTGTG
*
19752309 TGCTCCCCCTTAGTGTG
1 TGCTCCCCCTAAGTGTG
19752326 TGC
1 TGC
19752329 ATATTTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.08, C:0.35, G:0.24, T:0.32
Consensus pattern (17 bp):
TGCTCCCCCTAAGTGTG
Found at i:19752739 original size:25 final size:25
Alignment explanation
Indices: 19752693--19752742 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
19752683 AATATTCAAT
* * * *
19752693 TATCAACATTCGAATAATATAAACA
1 TATCAACATCCCAAAAACATAAACA
19752718 TATCAACATCCCAAAAACATAAACA
1 TATCAACATCCCAAAAACATAAACA
19752743 ACAAAGTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.54, C:0.22, G:0.02, T:0.22
Consensus pattern (25 bp):
TATCAACATCCCAAAAACATAAACA
Found at i:19755120 original size:20 final size:20
Alignment explanation
Indices: 19755091--19755129 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19755081 AGATAGAATG
19755091 CTCTTAGTTGACTAAGTGCT
1 CTCTTAGTTGACTAAGTGCT
*
19755111 CTCTTCGTTGACTAAGTGC
1 CTCTTAGTTGACTAAGTGC
19755130 CTACTGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (20 bp):
CTCTTAGTTGACTAAGTGCT
Found at i:19759073 original size:14 final size:14
Alignment explanation
Indices: 19759025--19759084 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
19759015 AGGCCATATA
*
19759025 AAAGAAAAGAAATG
1 AAAGAAAAGAAAAG
*
19759039 AATG-AAAGATGAAAG
1 AAAGAAAAGA--AAAG
*
19759054 ATAGAAAA-AACAAG
1 AAAGAAAAGAA-AAG
19759068 AAAGAAAAGAAAAG
1 AAAGAAAAGAAAAG
19759082 AAA
1 AAA
19759085 AGTCAAAGTC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
13 6 0.17
14 19 0.53
15 8 0.22
16 3 0.08
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.07
Consensus pattern (14 bp):
AAAGAAAAGAAAAG
Found at i:19761360 original size:22 final size:20
Alignment explanation
Indices: 19761314--19761367 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
19761304 GAAGAGATAA
19761314 AATAAACAAATAGTAAAAAT
1 AATAAACAAATAGTAAAAAT
* *
19761334 AATAATACAAATATGTATATAT
1 AATAA-ACAAATA-GTAAAAAT
*
19761356 AATAAAAAAATA
1 AATAAACAAATA
19761368 ACTAAAGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.17
21 13 0.45
22 11 0.38
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (20 bp):
AATAAACAAATAGTAAAAAT
Found at i:19761636 original size:2 final size:2
Alignment explanation
Indices: 19761629--19761655 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19761619 NNNNNNNNNA
19761629 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
19761656 AAAATTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19761966 original size:35 final size:35
Alignment explanation
Indices: 19761894--19761990 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 35
19761884 GAGAAGCAAC
*
19761894 TTTTGCTGCTGATTTTGAAGGCTGAAAAGTGCAGT
1 TTTTGCTGCTGATTTTGAAGGCTGAAAAGTACAGT
** ** **
19761929 TTTTGCTATTGATTTTGAAGGCTGAACGGTATGGT
1 TTTTGCTGCTGATTTTGAAGGCTGAAAAGTACAGT
* * *
19761964 TTTAGTTGCTAATTTTGAAGGCTGAAA
1 TTTTGCTGCTGATTTTGAAGGCTGAAA
19761991 GGTGCGATTT
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.40
Consensus pattern (35 bp):
TTTTGCTGCTGATTTTGAAGGCTGAAAAGTACAGT
Found at i:19762103 original size:34 final size:34
Alignment explanation
Indices: 19762028--19762103 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 34
19762018 GGCTTTGGTT
19762028 CTGATTTTTGAGGGAGAATAGTACAGTTAAGCTG
1 CTGATTTTTGAGGGAGAATAGTACAGTTAAGCTG
*
19762062 CTAATTTTTGA-GGAGAAATAG-AGCAGCTT-AGCTG
1 CTGATTTTTGAGGGAG-AATAGTA-CAG-TTAAGCTG
*
19762096 TTGATTTT
1 CTGATTTT
19762104 GAAGTCAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
33 5 0.14
34 29 0.81
35 2 0.06
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.36
Consensus pattern (34 bp):
CTGATTTTTGAGGGAGAATAGTACAGTTAAGCTG
Found at i:19762283 original size:5 final size:5
Alignment explanation
Indices: 19762261--19762335 Score: 102
Period size: 5 Copynumber: 15.4 Consensus size: 5
19762251 TTGGACGGTG
*
19762261 AAAG- AAAG- AAAG- AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGG
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
*
19762308 AAAGA AAAGAA AAAGA AAAAA AAAGA AA
1 AAAGA AAAG-A AAAGA AAAGA AAAGA AA
19762336 TAGTGGGCAT
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
4 12 0.18
5 48 0.74
6 5 0.08
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:19775254 original size:26 final size:28
Alignment explanation
Indices: 19775211--19775262 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
19775201 CAAGTGCTGG
*
19775211 GGCAAAAAATTTACCGA-TTTGCCCCCA
1 GGCAAAAAAATTACCGATTTTGCCCCCA
19775238 GGCAAAAAAATTA-CGATTTTGCCCC
1 GGCAAAAAAATTACCGATTTTGCCCC
19775263 TATACTCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (28 bp):
GGCAAAAAAATTACCGATTTTGCCCCCA
Found at i:19780626 original size:42 final size:42
Alignment explanation
Indices: 19780542--19780676 Score: 209
Period size: 42 Copynumber: 3.2 Consensus size: 42
19780532 ACCATCCCAC
*
19780542 CATCATCAACTCATGTGCACTCCCTACTCGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCC-ACTCGCACATAGCTGGGT
* *
19780585 CATCATCAGCTCATTTGCACTCCCACTCGCACATGGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACTCGCACATAGCTGGGT
*
19780627 CATCATCAGCTCATGTGCACTCCTACAT-GCACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCAC-TCGCACATAGCTGGGT
19780669 CATCATCA
1 CATCATCA
19780677 TCACACAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
42 62 0.73
43 23 0.27
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (42 bp):
CATCATCAGCTCATGTGCACTCCCACTCGCACATAGCTGGGT
Found at i:19783056 original size:2 final size:2
Alignment explanation
Indices: 19783049--19783083 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
19783039 TATGACATAG
* *
19783049 TA TA TA TA TA TA TA TA TA TA TA AA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19783084 CAACATTCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:19784849 original size:42 final size:42
Alignment explanation
Indices: 19784782--19784907 Score: 173
Period size: 42 Copynumber: 3.0 Consensus size: 42
19784772 GTAATGATAT
* *
19784782 TGACCTGGCTATGTGTGAGTAGGAGTGCGCATAAGCTGATGC
1 TGACCTGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
* *
19784824 TGACCTGGCTATGTACGAGTGGGAGTGCGCATAAGCCGATGC
1 TGACCTGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
* *
19784866 TGA-CTCGGTTATGTGCGAGTAAGGAATGCGCATAAGCCGATG
1 TGACCT-GGCTATGTGCGAGT-AGGAGTGCGCATAAGCCGATG
19784908 ATGATGATGA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 2 0.03
42 53 0.72
43 19 0.26
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (42 bp):
TGACCTGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
Found at i:19802379 original size:17 final size:17
Alignment explanation
Indices: 19802357--19802392 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
19802347 AAGTAAAATA
19802357 AGCACACACTAAGGGGG
1 AGCACACACTAAGGGGG
*
19802374 AGCACACACTTAGGGGG
1 AGCACACACTAAGGGGG
19802391 AG
1 AG
19802393 AAATCCTCAT
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:0.33, C:0.22, G:0.36, T:0.08
Consensus pattern (17 bp):
AGCACACACTAAGGGGG
Found at i:19810931 original size:38 final size:38
Alignment explanation
Indices: 19810880--19810985 Score: 167
Period size: 38 Copynumber: 2.8 Consensus size: 38
19810870 ATATTACCCG
*
19810880 TGTGCACGATGTGGGGGCATGTACAGGATGGCATTAAC
1 TGTGCACGATGTGGGGGCATGTACACGATGGCATTAAC
* *
19810918 TGTGCATGATGTGGGGGGATGTACACGATGGCATTAAC
1 TGTGCACGATGTGGGGGCATGTACACGATGGCATTAAC
* *
19810956 TGTGCACGATGTGGGGGGATGCACACGATG
1 TGTGCACGATGTGGGGGCATGTACACGATG
19810986 ACTATGGCTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGCATGTACACGATGGCATTAAC
Found at i:19811011 original size:40 final size:38
Alignment explanation
Indices: 19810880--19811020 Score: 160
Period size: 38 Copynumber: 3.7 Consensus size: 38
19810870 ATATTACCCG
* * * *
19810880 TGTGCACGATGTGGGGGCATGTACAGGATGGCATTAAC
1 TGTGCACGATGTGGGGGGATGCACACGATGACATTAAC
* * *
19810918 TGTGCATGATGTGGGGGGATGTACACGATGGCATTAAC
1 TGTGCACGATGTGGGGGGATGCACACGATGACATTAAC
19810956 TGTGCACGATGTGGGGGGATGCACACGATGACTATGGCT-A-
1 TGTGCACGATGTGGGGGGATGCACACGATGAC-AT---TAAC
*
19810996 TGTGCACGATGTGGGGGGACGCACA
1 TGTGCACGATGTGGGGGGATGCACA
19811021 TGAGCTGAGT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
38 64 0.70
39 2 0.02
40 24 0.26
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.38, T:0.23
Consensus pattern (38 bp):
TGTGCACGATGTGGGGGGATGCACACGATGACATTAAC
Found at i:19811053 original size:54 final size:54
Alignment explanation
Indices: 19810991--19811148 Score: 232
Period size: 54 Copynumber: 2.9 Consensus size: 54
19810981 CGATGACTAT
*
19810991 GGCTATGTGCACGATGTGGGGGGACGCACATGAGCTGAGTGAGATGGGGTGTCC
1 GGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGAGTGAGATGGGGTGTCC
* *
19811045 GGCTATGTGCATGATGTGGGGGGATGCACATGTGCT-AGGTGAGATGGGGTGTCC
1 GGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGA-GTGAGATGGGGTGTCC
* *
19811099 AGCTATGTGCACGATGT-GGGGGATGCACATGAGCTG-GATGAGATGTGGTG
1 GGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGAG-TGAGATGGGGTG
19811149 GTATACTAAT
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
52 1 0.01
53 29 0.31
54 64 0.68
ACGTcount: A:0.19, C:0.14, G:0.44, T:0.23
Consensus pattern (54 bp):
GGCTATGTGCACGATGTGGGGGGATGCACATGAGCTGAGTGAGATGGGGTGTCC
Found at i:19818141 original size:14 final size:15
Alignment explanation
Indices: 19818124--19818157 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
19818114 AGCACCAAAG
19818124 CAATAGCAGAAAC-T
1 CAATAGCAGAAACTT
*
19818138 CAATGGCAGAAACTT
1 CAATAGCAGAAACTT
19818153 CAATA
1 CAATA
19818158 AGAAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.18
Consensus pattern (15 bp):
CAATAGCAGAAACTT
Found at i:19824555 original size:61 final size:61
Alignment explanation
Indices: 19824402--19824690 Score: 420
Period size: 61 Copynumber: 4.8 Consensus size: 61
19824392 GTGACAAATG
* * *
19824402 CAACCGTGCATGTGTGGAGTGGGCAATGCACATGCCGGTAATGATGCTGTCGTGATAA-TA
1 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
*
19824462 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCTGGTAATGATGCTGTCATGATAATTA
1 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
* *** * * *
19824523 CAATCGTGCATGTATAGAGTGGGTAGTGCACATGCCGGTAATGGTGATGT-AGTGATAATTA
1 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCA-TGATAATTA
* *
19824584 TAACCGTGCATGTGCGAAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
1 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
* *
19824645 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCTGGTGATGATG
1 CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATG
19824691 TACATGAGCT
Statistics
Matches: 201, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
60 55 0.27
61 145 0.72
62 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (61 bp):
CAACCGTGCATGTGCGGAGTGGGCAGTGCACATGCCGGTAATGATGCTGTCATGATAATTA
Found at i:19836392 original size:19 final size:20
Alignment explanation
Indices: 19836368--19836407 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
19836358 TTGAGATGGA
*
19836368 TCAAACAAATTCTAA-AATT
1 TCAAACAAAGTCTAACAATT
*
19836387 TCAAACATAGTCTAACAATT
1 TCAAACAAAGTCTAACAATT
19836407 T
1 T
19836408 GCATTCACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (20 bp):
TCAAACAAAGTCTAACAATT
Found at i:19837862 original size:43 final size:43
Alignment explanation
Indices: 19837796--19837958 Score: 229
Period size: 43 Copynumber: 3.8 Consensus size: 43
19837786 TGTGATAATT
* *
19837796 ATGACCCAGCTAT-TCGCGATGTAGGAGTGCACATGAGCTGATC
1 ATGACCCAGCTATGT-GCGGTGTAGGAGTGCACATGAGCTGATG
*
19837839 ATGACCCAGCTATGTGCGGTGTAGGAGTGCGCATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* * *
19837882 ATGACCTAGCCATGTGCGGTGTAGAAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* * *
19837925 ATGACCCAGTTATGTGCGGTGTGGGAGTACACAT
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACAT
19837959 AAGTTGAGAG
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
43 105 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (43 bp):
ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTGATG
Found at i:19840574 original size:21 final size:20
Alignment explanation
Indices: 19840541--19840579 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
19840531 AGTTGAGTAG
19840541 TTAATTTAAGTTATTTTAAT
1 TTAATTTAAGTTATTTTAAT
*
19840561 TTAATTTTATGTTATTTTA
1 TTAA-TTTAAGTTATTTTA
19840580 TTATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTAATTTAAGTTATTTTAAT
Found at i:19864658 original size:31 final size:31
Alignment explanation
Indices: 19864620--19864681 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
19864610 ATGCTCACCT
19864620 AAGGATTTTCTTAACTTATCGTTTACATTAA
1 AAGGATTTTCTTAACTTATCGTTTACATTAA
19864651 AAGGATTTTCTTAACTTATCGTTTACATTAA
1 AAGGATTTTCTTAACTTATCGTTTACATTAA
19864682 GGTAGGCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (31 bp):
AAGGATTTTCTTAACTTATCGTTTACATTAA
Found at i:19874802 original size:2 final size:2
Alignment explanation
Indices: 19874795--19874826 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
19874785 GATTTTGGTC
*
19874795 AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19874827 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19874831 original size:2 final size:2
Alignment explanation
Indices: 19874826--19874874 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
19874816 TATATATATA
19874826 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T- TG T-
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
19874866 TG TG TG TG T
1 TG TG TG TG T
19874875 CAAGCCTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:19879920 original size:42 final size:42
Alignment explanation
Indices: 19879759--19879887 Score: 224
Period size: 42 Copynumber: 3.1 Consensus size: 42
19879749 ATGTGGGCTT
19879759 GGCTATGTGCGAGT-AGGAGTGCACATAAGCCATTGCTGACCC
1 GGCTATGTGCGAGTGA-GAGTGCACATAAGCCATTGCTGACCC
19879801 GGCTATGTGCGAGTGAGAGTGCACATAAGCCATTGCTGACCC
1 GGCTATGTGCGAGTGAGAGTGCACATAAGCCATTGCTGACCC
* *
19879843 GGCTATGTGCGAGTGAGAGTGCACATAAGTCGTTGCTGACCC
1 GGCTATGTGCGAGTGAGAGTGCACATAAGCCATTGCTGACCC
19879885 GGC
1 GGC
19879888 CATGCACGAG
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
42 83 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.22
Consensus pattern (42 bp):
GGCTATGTGCGAGTGAGAGTGCACATAAGCCATTGCTGACCC
Found at i:19904275 original size:86 final size:87
Alignment explanation
Indices: 19904124--19904340 Score: 255
Period size: 86 Copynumber: 2.5 Consensus size: 87
19904114 AGAGCTATTC
* * * * * * * *
19904124 ACAACAAAATCATGTGAA-GTGAAGACCTACCCAATCCAC-TTTACAACA--AAATCATGGGAAG
1 ACAACAAAATCATGAGAATGTGGAGACCTTCTCAATCAACATTCACAACACCCAA-CATGGGAAA
19904185 TGGAGACATACTCAATCCACTTT
65 TGGAGACATACTCAATCCACTTT
* * *
19904208 ACATCAAAATCATGGGAATGTGGAGGCCTTCTCAATCAACA-TCACAACACCCAACATGGGAAAT
1 ACAACAAAATCATGAGAATGTGGAGACCTTCTCAATCAACATTCACAACACCCAACATGGGAAAT
*
19904272 GGAGACATGCTCAATCCACTTT
66 GGAGACATACTCAATCCACTTT
* * *
19904294 ACAACAAAATCATTAGAATGTGGAGACCTTCTTAATCCACATTCACA
1 ACAACAAAATCATGAGAATGTGGAGACCTTCTCAATCAACATTCACA
19904341 GTACTTATAT
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
84 16 0.14
85 23 0.21
86 65 0.59
87 7 0.06
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (87 bp):
ACAACAAAATCATGAGAATGTGGAGACCTTCTCAATCAACATTCACAACACCCAACATGGGAAAT
GGAGACATACTCAATCCACTTT
Found at i:19904298 original size:43 final size:42
Alignment explanation
Indices: 19904124--19904320 Score: 207
Period size: 42 Copynumber: 4.6 Consensus size: 42
19904114 AGAGCTATTC
* * * *
19904124 ACAACAAAATCATGTGAAGTGAAGACCTACCCAATCCACTTT
1 ACAACAAAATCATGGGAAGTGGAGACATACTCAATCCACTTT
19904166 ACAACAAAATCATGGGAAGTGGAGACATACTCAATCCACTTT
1 ACAACAAAATCATGGGAAGTGGAGACATACTCAATCCACTTT
* * * * * * *
19904208 ACATCAAAATCATGGGAATGTGGAGGCCTTCTCAATCAACATC
1 ACAACAAAATCATGGGAA-GTGGAGACATACTCAATCCACTTT
* * *
19904251 ACAACACCCAA-CATGGGAAATGGAGACATGCTCAATCCACTTT
1 ACAACA--AAATCATGGGAAGTGGAGACATACTCAATCCACTTT
**
19904294 ACAACAAAATCATTAGAATGTGGAGAC
1 ACAACAAAATCATGGGAA-GTGGAGAC
19904321 CTTCTTAATC
Statistics
Matches: 126, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 61 0.48
43 53 0.42
44 8 0.06
45 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (42 bp):
ACAACAAAATCATGGGAAGTGGAGACATACTCAATCCACTTT
Found at i:19904331 original size:43 final size:42
Alignment explanation
Indices: 19904124--19904333 Score: 215
Period size: 43 Copynumber: 4.9 Consensus size: 42
19904114 AGAGCTATTC
* * *
19904124 ACAACAAAATCATGTGAAGTGAAGACCTACCCAATCCACTTT
1 ACAACAAAATCATGGGAAGTGGAGACCTACTCAATCCACTTT
*
19904166 ACAACAAAATCATGGGAAGTGGAGACATACTCAATCCACTTT
1 ACAACAAAATCATGGGAAGTGGAGACCTACTCAATCCACTTT
* * * * * *
19904208 ACATCAAAATCATGGGAATGTGGAGGCCTTCTCAATCAACATC
1 ACAACAAAATCATGGGAA-GTGGAGACCTACTCAATCCACTTT
* * * *
19904251 ACAACACCCAA-CATGGGAAATGGAGACATGCTCAATCCACTTT
1 ACAACA--AAATCATGGGAAGTGGAGACCTACTCAATCCACTTT
** * *
19904294 ACAACAAAATCATTAGAATGTGGAGACCTTCTTAATCCAC
1 ACAACAAAATCATGGGAA-GTGGAGACCTACTCAATCCAC
19904334 ATTCACAGTA
Statistics
Matches: 136, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.01
42 61 0.45
43 63 0.46
44 8 0.06
45 2 0.01
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (42 bp):
ACAACAAAATCATGGGAAGTGGAGACCTACTCAATCCACTTT
Found at i:19905482 original size:16 final size:16
Alignment explanation
Indices: 19905458--19905488 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19905448 AAAAATATAA
19905458 AAAAAAATCAAAATCC
1 AAAAAAATCAAAATCC
*
19905474 AAAACAATCAAAATC
1 AAAAAAATCAAAATC
19905489 TAAATTTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.19, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAAATCAAAATCC
Found at i:19912326 original size:28 final size:28
Alignment explanation
Indices: 19912272--19912325 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
19912262 TTGGAGTATA
* * *
19912272 AGGGCGAAATGGTAATTTTGTCACCCCG
1 AGGGCAAAACGGTAATTTTGACACCCCG
19912300 AGGGCAAAACGGTAATTTT-ACACCCC
1 AGGGCAAAACGGTAATTTTGACACCCC
19912326 CAAAGCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (28 bp):
AGGGCAAAACGGTAATTTTGACACCCCG
Found at i:19913346 original size:15 final size:16
Alignment explanation
Indices: 19913315--19913348 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19913305 ATAAAATATT
*
19913315 ATGTTTTTCAATTAAA
1 ATGTTTTTCAATAAAA
19913331 ATGTTTTT-AATAAAA
1 ATGTTTTTCAATAAAA
19913346 ATG
1 ATG
19913349 AGATTTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (16 bp):
ATGTTTTTCAATAAAA
Found at i:19922147 original size:13 final size:13
Alignment explanation
Indices: 19922129--19922153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19922119 TTCCAGAAAA
19922129 TTTATAAAATCAT
1 TTTATAAAATCAT
19922142 TTTATAAAATCA
1 TTTATAAAATCA
19922154 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:19928352 original size:13 final size:13
Alignment explanation
Indices: 19928334--19928358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19928324 TTCCATAAAA
19928334 TTTATAAAATCAT
1 TTTATAAAATCAT
19928347 TTTATAAAATCA
1 TTTATAAAATCA
19928359 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:19932209 original size:2 final size:2
Alignment explanation
Indices: 19932204--19932243 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
19932194 TTATAAATAA
19932204 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19932244 CTATGTGTGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19932284 original size:2 final size:2
Alignment explanation
Indices: 19932279--19932305 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19932269 TATATATGTA
19932279 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
19932306 TGAATTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:19935655 original size:22 final size:22
Alignment explanation
Indices: 19935621--19935662 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
19935611 TACTAATAAT
19935621 AATAACAATAAATGAATAAATA
1 AATAACAATAAATGAATAAATA
19935643 AATAA-AATGAAATGAATAAA
1 AATAACAAT-AAATGAATAAA
19935663 GAAAAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAACAATAAATGAATAAATA
Found at i:19936188 original size:36 final size:36
Alignment explanation
Indices: 19936147--19936245 Score: 157
Period size: 36 Copynumber: 2.8 Consensus size: 36
19936137 TTGCTACCAA
19936147 TTTAAGGAGGAAAAAGGAGGCTTTGTGCTGTCGATT
1 TTTAAGGAGGAAAAAGGAGGCTTTGTGCTGTCGATT
* *
19936183 TTTAAGGAGGAAAAAGCAGGCTTTGTGTTGTCGATT
1 TTTAAGGAGGAAAAAGGAGGCTTTGTGCTGTCGATT
*
19936219 TTTGA-GAGGAAAAAGG-GGCTTTGTGCT
1 TTTAAGGAGGAAAAAGGAGGCTTTGTGCT
19936246 ACTGGATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 10 0.17
35 10 0.17
36 38 0.66
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (36 bp):
TTTAAGGAGGAAAAAGGAGGCTTTGTGCTGTCGATT
Found at i:19942446 original size:2 final size:2
Alignment explanation
Indices: 19942439--19942473 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
19942429 NNNNNNNNNN
19942439 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19942474 GCAATAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19942663 original size:21 final size:22
Alignment explanation
Indices: 19942630--19942680 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
19942620 AGTGTTCTGT
* *
19942630 TTCTTGCTATAGCGAAAA-TCA
1 TTCTCGCTATAGCAAAAATTCA
*
19942651 TTCTCGCTCTAGCAAAAATTCA
1 TTCTCGCTATAGCAAAAATTCA
19942673 TTCTCGCT
1 TTCTCGCT
19942681 GCAACATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (22 bp):
TTCTCGCTATAGCAAAAATTCA
Found at i:19944391 original size:15 final size:15
Alignment explanation
Indices: 19944361--19944413 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
19944351 TATTGTAAGG
*
19944361 TAATATCTCTATAAAT
1 TAATA-CTCGATAAAT
19944377 TAATACTCGATAAAT
1 TAATACTCGATAAAT
19944392 TAATGACTTCGATTAAA-
1 TAAT-AC-TCGA-TAAAT
19944409 TAATA
1 TAATA
19944414 TTTTTATCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 13 0.39
16 8 0.24
17 8 0.24
18 4 0.12
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (15 bp):
TAATACTCGATAAAT
Found at i:19953342 original size:37 final size:37
Alignment explanation
Indices: 19953221--19953324 Score: 190
Period size: 37 Copynumber: 2.8 Consensus size: 37
19953211 CTCAATGCAA
*
19953221 TATCATCATCATGTGTGCACTCCCTACTCACACACTC
1 TATCATCATCATGTGTGCACTCCCTACTCGCACACTC
*
19953258 TATCATCATCATGTGTGCACTCCCTACTTGCACACTC
1 TATCATCATCATGTGTGCACTCCCTACTCGCACACTC
19953295 TATCATCATCATGTGTGCACTCCCTACTCG
1 TATCATCATCATGTGTGCACTCCCTACTCG
19953325 TATACTTCAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.22, C:0.36, G:0.11, T:0.32
Consensus pattern (37 bp):
TATCATCATCATGTGTGCACTCCCTACTCGCACACTC
Found at i:19958617 original size:2 final size:2
Alignment explanation
Indices: 19958610--19958639 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
19958600 TTCATTTAAG
19958610 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19958640 TCATATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19962662 original size:42 final size:42
Alignment explanation
Indices: 19962586--19962698 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
19962576 CAGCTCCTAT
* * * * *
19962586 GCACTCCCCACTAGCACATGGCTGAGTCATCATCGGCTTATAC
1 GCACT-CCCACTCGCACATAGCTGGGTCAGCATCGACTTATAC
* * **
19962629 GTACTCCCACTCGCACATAGTTGGGTCAGCATCGACTTATGT
1 GCACTCCCACTCGCACATAGCTGGGTCAGCATCGACTTATAC
*
19962671 GCACTCCCACTCACACATAGCTGGGTCA
1 GCACTCCCACTCGCACATAGCTGGGTCA
19962699 ATATCATTAC
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (42 bp):
GCACTCCCACTCGCACATAGCTGGGTCAGCATCGACTTATAC
Found at i:19963328 original size:37 final size:37
Alignment explanation
Indices: 19963278--19963353 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
19963268 TGTAATTGGA
19963278 TTCCTCCTCAAGAATTCCCAAACTATTATAAAAAGTC
1 TTCCTCCTCAAGAATTCCCAAACTATTATAAAAAGTC
19963315 TTCCTCCTCAAGAATTCCCAAACTATTATAAAAAGTC
1 TTCCTCCTCAAGAATTCCCAAACTATTATAAAAAGTC
19963352 TT
1 TT
19963354 TTTTCTCTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (37 bp):
TTCCTCCTCAAGAATTCCCAAACTATTATAAAAAGTC
Found at i:19965077 original size:18 final size:19
Alignment explanation
Indices: 19965056--19965095 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
19965046 TTTTGGAGAT
19965056 AAATATTTTTAATTA-TTA
1 AAATATTTTTAATTATTTA
*
19965074 AAATTTTTTTAATTATTTA
1 AAATATTTTTAATTATTTA
19965093 AAA
1 AAA
19965096 GGAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AAATATTTTTAATTATTTA
Found at i:19976494 original size:21 final size:22
Alignment explanation
Indices: 19976469--19976515 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
19976459 TTGCCAAAAC
19976469 AGAATG-TTTCTCGCTGCAGCG
1 AGAATGCTTTCTCGCTGCAGCG
* *
19976490 AGAATGCTTTCTCGTTGCAGTG
1 AGAATGCTTTCTCGCTGCAGCG
19976512 AGAA
1 AGAA
19976516 GCAGGGCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (22 bp):
AGAATGCTTTCTCGCTGCAGCG
Found at i:19990928 original size:28 final size:27
Alignment explanation
Indices: 19990892--19990967 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
19990882 GTGGGTTAAG
*
19990892 GTATCCATCTACTTTTGGTGCGTTGAAA
1 GTATACATCTACTTTTGGTG-GTTGAAA
* **
19990920 GTATTCATCTA-TTTGTGGTAGGTTTCAA
1 GTATACATCTACTTT-TGGT-GGTTGAAA
*
19990948 GTATACATCCACTTTTGGTG
1 GTATACATCTACTTTTGGTG
19990968 AGTGATCCAC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
27 4 0.10
28 32 0.80
29 4 0.10
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
GTATACATCTACTTTTGGTGGTTGAAA
Found at i:19991060 original size:26 final size:26
Alignment explanation
Indices: 19991031--19991113 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
19991021 CTTTTTTTAA
19991031 GGTAAAATTATCTATCCACTTCTAGT
1 GGTAAAATTATCTATCCACTTCTAGT
* *
19991057 GGTAAAATTATTCT-T-AAATTC-AGAT
1 GGTAAAATTA-TCTATCCACTTCTAG-T
* * *
19991082 GATAAAATTATCCATCCACTTCTGGT
1 GGTAAAATTATCTATCCACTTCTAGT
19991108 GGTAAA
1 GGTAAA
19991114 CTAATAATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
24 4 0.09
25 15 0.34
26 21 0.48
27 4 0.09
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (26 bp):
GGTAAAATTATCTATCCACTTCTAGT
Found at i:19991604 original size:18 final size:18
Alignment explanation
Indices: 19991581--19991616 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19991571 AAAATATAAG
*
19991581 AGAAAGTATTTAGAGGAA
1 AGAAAGTATTTAAAGGAA
19991599 AGAAAGTATTTAAAGGAA
1 AGAAAGTATTTAAAGGAA
19991617 GTAAGAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (18 bp):
AGAAAGTATTTAAAGGAA
Found at i:19996334 original size:24 final size:24
Alignment explanation
Indices: 19996302--19996349 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
19996292 GATAATGCAA
19996302 TAATAAGACTTTGCACTCAACCTT
1 TAATAAGACTTTGCACTCAACCTT
* *
19996326 TAATGAGACTTTGCACTTAACCTT
1 TAATAAGACTTTGCACTCAACCTT
19996350 GAAAAAGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.35
Consensus pattern (24 bp):
TAATAAGACTTTGCACTCAACCTT
Found at i:19998018 original size:10 final size:10
Alignment explanation
Indices: 19998003--19998035 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
19997993 CAAATTATCC
19998003 CTCTCTTTCT
1 CTCTCTTTCT
19998013 CTCTC--TCT
1 CTCTCTTTCT
19998021 CTCTCTTTCT
1 CTCTCTTTCT
19998031 CTCTC
1 CTCTC
19998036 AATCGATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (10 bp):
CTCTCTTTCT
Found at i:19998738 original size:18 final size:19
Alignment explanation
Indices: 19998711--19998747 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
19998701 TAATTAAACT
*
19998711 AATAACAATAAAA-TAAAA
1 AATAAAAATAAAAGTAAAA
19998729 AATAAAAATAAAAGTAAAA
1 AATAAAAATAAAAGTAAAA
19998748 TTAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (19 bp):
AATAAAAATAAAAGTAAAA
Found at i:20003596 original size:16 final size:18
Alignment explanation
Indices: 20003575--20003608 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
20003565 AAAGAAATTG
20003575 AAAAGTT-TG-TTGAAAA
1 AAAAGTTGTGATTGAAAA
20003591 AAAAGTTGTGATTGAAAA
1 AAAAGTTGTGATTGAAAA
20003609 TTTTGTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
AAAAGTTGTGATTGAAAA
Found at i:20005630 original size:18 final size:19
Alignment explanation
Indices: 20005595--20005633 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
20005585 AAAGTATAAT
20005595 AAAGTGTTGAACAAAAGAA
1 AAAGTGTTGAACAAAAGAA
* *
20005614 AAAGT-TTGAAGAGAAGAA
1 AAAGTGTTGAACAAAAGAA
20005632 AA
1 AA
20005634 GGAGTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.59, C:0.03, G:0.23, T:0.15
Consensus pattern (19 bp):
AAAGTGTTGAACAAAAGAA
Found at i:20011268 original size:58 final size:57
Alignment explanation
Indices: 20011178--20011286 Score: 164
Period size: 58 Copynumber: 1.9 Consensus size: 57
20011168 TATTGTGTGT
* * *
20011178 GTGATGGGAATGACCATATGCGTGATGGAAGGGCATATGTCTACCCAAATTGATATAA
1 GTGATGGGAATGACCATATGCGTGACGAAAGGGCATATCT-TACCCAAATTGATATAA
* *
20011236 GTGATGGGAATGGCCATATGCGTGACGAAAGGGCATATCTTCCCCAAATTG
1 GTGATGGGAATGACCATATGCGTGACGAAAGGGCATATCTTACCCAAATTG
20011287 GTATTGTAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
57 10 0.22
58 36 0.78
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (57 bp):
GTGATGGGAATGACCATATGCGTGACGAAAGGGCATATCTTACCCAAATTGATATAA
Found at i:20012053 original size:71 final size:71
Alignment explanation
Indices: 20011969--20012134 Score: 180
Period size: 71 Copynumber: 2.3 Consensus size: 71
20011959 GAAAAATATT
* *
20011969 TTTTGT-TGCAAAAGTATCGATAC-CCAAGGGAAAG-GTAACAATACTTAGTGACTAGAATGCCT
1 TTTTGTGTG-AAAAGTATCGATACGCCAA---AAAGAGTAACAATACTTAGTGACCAGAATACCT
20012031 TGGG-AACCA
62 TGGGAAACCA
* * * *
20012040 TTTTGTGTGAAAAGTATAGATACGTCAAAAAGAAGTATCAATACTTAGTGTCCAGAATACCTTGG
1 TTTTGTGTGAAAAGTATCGATACGCCAAAAAG-AGTAACAATACTTAGTGACCAGAATACCTTGG
*
20012105 GAAAGCA
65 GAAACCA
20012112 TTCTT-TGTGAAAAGTATCGATAC
1 TT-TTGTGTGAAAAGTATCGATAC
20012135 TTGACTTAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
69 4 0.05
71 47 0.58
72 28 0.35
73 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (71 bp):
TTTTGTGTGAAAAGTATCGATACGCCAAAAAGAGTAACAATACTTAGTGACCAGAATACCTTGGG
AAACCA
Found at i:20020653 original size:7 final size:7
Alignment explanation
Indices: 20020641--20020667 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
20020631 ATCAACCATG
20020641 GAAGATT
1 GAAGATT
20020648 GAAGATT
1 GAAGATT
20020655 GAAGATT
1 GAAGATT
20020662 GAAGAT
1 GAAGAT
20020668 CACCAATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (7 bp):
GAAGATT
Found at i:20026418 original size:20 final size:20
Alignment explanation
Indices: 20026367--20026418 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
20026357 CTCCTCCACC
*
20026367 TTCATGCTCCCAACGCCATT
1 TTCATGCTCCCAACACCATT
** *
20026387 TTCACCCACCCAACACCATT
1 TTCATGCTCCCAACACCATT
20026407 TTCATGCTCCCA
1 TTCATGCTCCCA
20026419 TGCCATTTCA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.44, G:0.06, T:0.27
Consensus pattern (20 bp):
TTCATGCTCCCAACACCATT
Found at i:20042799 original size:28 final size:27
Alignment explanation
Indices: 20042763--20042815 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
20042753 ATATCCTGGT
*
20042763 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
20042790 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
20042816 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:20042883 original size:20 final size:20
Alignment explanation
Indices: 20042860--20042905 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
20042850 CTTCTAAACC
20042860 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
20042880 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
20042900 TCAAAT
1 TCAAAT
20042906 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:20052196 original size:29 final size:29
Alignment explanation
Indices: 20052163--20052218 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
20052153 ATTCAAAAAA
20052163 ATTCAAATAAACTC-TTATACTTTTATTGT
1 ATTCAAATAAA-TCATTATACTTTTATTGT
*
20052192 ATTCAATTAAATCATTATACTTTTATT
1 ATTCAAATAAATCATTATACTTTTATT
20052219 TTGAGCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (29 bp):
ATTCAAATAAATCATTATACTTTTATTGT
Found at i:20060754 original size:43 final size:43
Alignment explanation
Indices: 20060689--20060811 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
20060679 CCGATCATCA
* * **
20060689 TCATCACCAGCTCATGCACACTCCCTACTCGCACAT-GGCTGGG
1 TCATCACCAGCTTATGCGCACTCCCTACTCGCACATAATC-GGG
20060732 TCATCACCAAG-TTATGCGCACTCCCTACTCGCACATAATCGGG
1 TCATCACC-AGCTTATGCGCACTCCCTACTCGCACATAATCGGG
* * *
20060775 TCATCATCGGCTTATGCGCACTCCTTACTCGCACATA
1 TCATCACCAGCTTATGCGCACTCCCTACTCGCACATA
20060812 GCCGAGTCAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
42 1 0.01
43 66 0.94
44 3 0.04
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.24
Consensus pattern (43 bp):
TCATCACCAGCTTATGCGCACTCCCTACTCGCACATAATCGGG
Found at i:20068654 original size:43 final size:44
Alignment explanation
Indices: 20068502--20068655 Score: 199
Period size: 43 Copynumber: 3.6 Consensus size: 44
20068492 TCACCAGCTC
* *
20068502 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCATCACTCGGGTT
* *
20068545 ATGCGCACTCCCTATTCGCACA-AGGTTGGGTCATCACT-GGGTT
1 ATGCGCACTCCCTACTCGCACATA-GCTGGGTCATCACTCGGGTT
* * * *
20068588 ATGCGCATTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAGCTGGGTCATCACTCGGGTT
20068631 ATGCGCACTCCCTACTCGCACATAG
1 ATGCGCACTCCCTACTCGCACATAG
20068656 TCGAGTCAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
42 2 0.02
43 92 0.97
44 1 0.01
ACGTcount: A:0.19, C:0.34, G:0.21, T:0.25
Consensus pattern (44 bp):
ATGCGCACTCCCTACTCGCACATAGCTGGGTCATCACTCGGGTT
Found at i:20070616 original size:2 final size:2
Alignment explanation
Indices: 20070611--20070656 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
20070601 TAATACATGC
* * *
20070611 AT AT AT AT AT AT GT AT GT AT GT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20070652 AT AT A
1 AT AT A
20070657 GATACATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20076592 original size:21 final size:22
Alignment explanation
Indices: 20076568--20076610 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
20076558 TATTCAACAC
20076568 TTCATTATTTTTCT-TTTTTCT
1 TTCATTATTTTTCTCTTTTTCT
* *
20076589 TTCATTCTTTTTTTCTTTTTCT
1 TTCATTATTTTTCTCTTTTTCT
20076611 CAAATTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (22 bp):
TTCATTATTTTTCTCTTTTTCT
Found at i:20087144 original size:16 final size:15
Alignment explanation
Indices: 20087117--20087150 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
20087107 TAAATTAAGT
*
20087117 TAAAATAAAGTAACA
1 TAAAATAAAGTAAAA
20087132 TAAAATCAAAGTAAAA
1 TAAAAT-AAAGTAAAA
20087148 TAA
1 TAA
20087151 CTTAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (15 bp):
TAAAATAAAGTAAAA
Done.