Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 33 of 136
Found at i:10664287 original size:4 final size:4
Alignment explanation
Indices: 10664278--10664342 Score: 103
Period size: 4 Copynumber: 16.2 Consensus size: 4
10664268 ACGGTTTCTT
10664278 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
* * *
10664326 TATA TATA TATA TATC T
1 TATC TATC TATC TATC T
10664343 GTTTATACCT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (4 bp):
TATC
Found at i:10672333 original size:17 final size:17
Alignment explanation
Indices: 10672311--10672344 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10672301 ATTAGAATTG
10672311 GGTTGAGAAAATTATTT
1 GGTTGAGAAAATTATTT
10672328 GGTTGAGAAAATTATTT
1 GGTTGAGAAAATTATTT
10672345 ATTTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (17 bp):
GGTTGAGAAAATTATTT
Found at i:10674479 original size:17 final size:17
Alignment explanation
Indices: 10674457--10674496 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
10674447 ACTATAGGGG
10674457 TCACACAACCATGTGAT
1 TCACACAACCATGTGAT
* *
10674474 TCACACAGCTATGTGAT
1 TCACACAACCATGTGAT
10674491 TCACAC
1 TCACAC
10674497 GGCTGAGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (17 bp):
TCACACAACCATGTGAT
Found at i:10680686 original size:37 final size:35
Alignment explanation
Indices: 10680619--10680687 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
10680609 TTTAGTTAGA
* *
10680619 TTTTTATTTTTATTTTTAAAAACATTAATTTTATT
1 TTTTTATTTTTAATTTTAAAAACATAAATTTTATT
10680654 TTTTTATTATTTTAATTTTAGAAAA-ATAAATTTT
1 TTTTTA-T-TTTTAATTTTA-AAAACATAAATTTT
10680688 GACTGCAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 6 0.21
36 1 0.03
37 18 0.62
38 4 0.14
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (35 bp):
TTTTTATTTTTAATTTTAAAAACATAAATTTTATT
Found at i:10681956 original size:32 final size:32
Alignment explanation
Indices: 10681920--10681984 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
10681910 ATATGTAGAT
*
10681920 AGTTCAACACTCTTTTATGAACAATTTATGCA
1 AGTTCAACACTCTTTTATGAACAATTTAAGCA
10681952 AGTTCAACACTCTTTTATGAACAATTTAAGCA
1 AGTTCAACACTCTTTTATGAACAATTTAAGCA
10681984 A
1 A
10681985 ATTCTGAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (32 bp):
AGTTCAACACTCTTTTATGAACAATTTAAGCA
Found at i:10700936 original size:18 final size:18
Alignment explanation
Indices: 10700915--10700949 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10700905 TTATAATACA
10700915 TTTTATATTTTTATAAAT
1 TTTTATATTTTTATAAAT
* *
10700933 TTTTATGTTTTTTTAAA
1 TTTTATATTTTTATAAA
10700950 AAATAGCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATATTTTTATAAAT
Found at i:10702132 original size:12 final size:12
Alignment explanation
Indices: 10702113--10702144 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10702103 ATATCTTTTA
10702113 TCAGTTTAAACG
1 TCAGTTTAAACG
*
10702125 TTAGTTTAAACG
1 TCAGTTTAAACG
10702137 TCAGTTTA
1 TCAGTTTA
10702145 GATTTTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (12 bp):
TCAGTTTAAACG
Found at i:10704437 original size:3 final size:3
Alignment explanation
Indices: 10704429--10704456 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10704419 AATGTTTCGA
10704429 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
10704457 ATTTTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:10707050 original size:87 final size:89
Alignment explanation
Indices: 10706906--10707079 Score: 271
Period size: 87 Copynumber: 2.0 Consensus size: 89
10706896 TAATGAGTTA
* ** *
10706906 TCTTATTAAGTGGGAGGTTTCAAATGTAGAAAAAGAATTGCAGCAGTGCATCTTTTTCTGTTATT
1 TCTTATTAAGTGGGAGGTTTAAAATCCAGAAAAAGAATTGCAGCAGTGCATCATTTTCTGTTATT
10706971 CGATCAAC-AAAGAGAATGAGAAC
66 CGATCAACAAAAGAGAATGAGAAC
*
10706994 TCTTATTAAGTGGGAGG-TTAAAATCCAGAAAAAGATTTGCAGCAGTGCATCATTTTCTGTTATT
1 TCTTATTAAGTGGGAGGTTTAAAATCCAGAAAAAGAATTGCAGCAGTGCATCATTTTCTGTTATT
* *
10707058 CGATCGACAAAAGATAATGAGA
66 CGATCAACAAAAGAGAATGAGA
10707080 TGATGCAGGG
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 49 0.63
88 29 0.37
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (89 bp):
TCTTATTAAGTGGGAGGTTTAAAATCCAGAAAAAGAATTGCAGCAGTGCATCATTTTCTGTTATT
CGATCAACAAAAGAGAATGAGAAC
Found at i:10710112 original size:35 final size:35
Alignment explanation
Indices: 10710088--10710217 Score: 129
Period size: 35 Copynumber: 3.7 Consensus size: 35
10710078 TCATGGTGTC
*
10710088 ACTCCGTAGAGCCAGTAGATCATTTCCATAATGCT
1 ACTCCATAGAGCCAGTAGATCATTTCCATAATGCT
* * * * *
10710123 GCTCCGTAGAGCTAGTAGACCATTTCCATGGTAT-C-
1 ACTCCATAGAGCCAGTAGATCATTTCCAT--AATGCT
* * *
10710158 ACTCCATAGAACTAATAGATCATTTCCATAATGCT
1 ACTCCATAGAGCCAGTAGATCATTTCCATAATGCT
* *
10710193 GCTCTATAGAGCCAGTAGATCATTT
1 ACTCCATAGAGCCAGTAGATCATTT
10710218 TCCAACCAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
33 2 0.03
34 1 0.01
35 70 0.92
36 1 0.01
37 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (35 bp):
ACTCCATAGAGCCAGTAGATCATTTCCATAATGCT
Found at i:10710184 original size:70 final size:70
Alignment explanation
Indices: 10710071--10710217 Score: 204
Period size: 70 Copynumber: 2.1 Consensus size: 70
10710061 GAGTCAGGAA
* * * * * * *
10710071 ACCATTTTCATGGTGTCACTCCGTAGAGCCAGTAGATCATTTCCATAATGCTGCTCCGTAGAGCT
1 ACCATTTCCATGGTATCACTCCATAGAACCAATAGATCATTTCCATAATGCTGCTCCATAGAGCC
10710136 AGTAG
66 AGTAG
* *
10710141 ACCATTTCCATGGTATCACTCCATAGAACTAATAGATCATTTCCATAATGCTGCTCTATAGAGCC
1 ACCATTTCCATGGTATCACTCCATAGAACCAATAGATCATTTCCATAATGCTGCTCCATAGAGCC
10710206 AGTAG
66 AGTAG
*
10710211 ATCATTT
1 ACCATTT
10710218 TCCAACCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (70 bp):
ACCATTTCCATGGTATCACTCCATAGAACCAATAGATCATTTCCATAATGCTGCTCCATAGAGCC
AGTAG
Found at i:10711716 original size:30 final size:30
Alignment explanation
Indices: 10711682--10711740 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
10711672 GACACACGAC
*
10711682 CGTGTCGTCAAGCCGTGTATCTCACACGGT
1 CGTGTCATCAAGCCGTGTATCTCACACGGT
*
10711712 CGTGTCATCAAGCCGTGTGTCTCACACGG
1 CGTGTCATCAAGCCGTGTATCTCACACGG
10711741 CCAAGTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.31, G:0.27, T:0.25
Consensus pattern (30 bp):
CGTGTCATCAAGCCGTGTATCTCACACGGT
Found at i:10736471 original size:18 final size:20
Alignment explanation
Indices: 10736437--10736476 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10736427 TTGTCTCTAT
*
10736437 AAAAATGGTGGACGAT-GTG
1 AAAAATGGTGGAAGATGGTG
10736456 AAAAATGG-GGAAGATGGTG
1 AAAAATGGTGGAAGATGGTG
10736475 AA
1 AA
10736477 TTCTCCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.42, C:0.03, G:0.38, T:0.17
Consensus pattern (20 bp):
AAAAATGGTGGAAGATGGTG
Found at i:10738222 original size:30 final size:29
Alignment explanation
Indices: 10738157--10738229 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
10738147 GCTATCAAAT
* * *
10738157 TATG-AAAGTGATGGTGACGACCATCAGC
1 TATGAAAAGGGATGGTGACGACCACCAAC
*
10738185 AATGAAAAGGGATGGTGACGACCACCGAAC
1 TATGAAAAGGGATGGTGACGACCACC-AAC
10738215 TATGAAAAGGGATGG
1 TATGAAAAGGGATGG
10738230 GTTTGGCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 3 0.08
29 19 0.50
30 16 0.42
ACGTcount: A:0.37, C:0.15, G:0.32, T:0.16
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCACCAAC
Found at i:10738256 original size:53 final size:53
Alignment explanation
Indices: 10738195--10738295 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
10738185 AATGAAAAGG
* *
10738195 GATGGTGACGACCACCGAACTATGAAAAGGGATGGGTTTGGCTATCGACCTTT
1 GATGGTGACGACCACCAAACTATGAAAAGGGATGGCTTTGGCTATCGACCTTT
*
10738248 GATGGTGACGACCATCAAACTATGAAAAGGGATGGCTTTGGCTATCGA
1 GATGGTGACGACCACCAAACTATGAAAAGGGATGGCTTTGGCTATCGA
10738296 TCTATGAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (53 bp):
GATGGTGACGACCACCAAACTATGAAAAGGGATGGCTTTGGCTATCGACCTTT
Found at i:10738301 original size:30 final size:31
Alignment explanation
Indices: 10738261--10738400 Score: 112
Period size: 30 Copynumber: 4.7 Consensus size: 31
10738251 GGTGACGACC
10738261 ATCAAA-CTATGAAAAGGGATGGCTTT-GGCT
1 ATCAAATCTATGAAAAGGGATGG-TTTCGGCT
* * *
10738291 ATC-GATCTATGAAAAGGGATAGTTTCGGTT
1 ATCAAATCTATGAAAAGGGATGGTTTCGGCT
** * *
10738321 ATCAAAT-TATGAAAAGGGATGGTGACGACC
1 ATCAAATCTATGAAAAGGGATGGTTTCGGCT
* * ** *
10738351 ATCGAA-CAATGAAAAGGGATGGTGACGACT
1 ATCAAATCTATGAAAAGGGATGGTTTCGGCT
*
10738381 ATTAAAT-TATGAAAAGGGAT
1 ATCAAATCTATGAAAAGGGAT
10738401 AACTTCGGCT
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
29 4 0.04
30 83 0.93
31 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (31 bp):
ATCAAATCTATGAAAAGGGATGGTTTCGGCT
Found at i:10738424 original size:60 final size:59
Alignment explanation
Indices: 10738248--10738430 Score: 168
Period size: 60 Copynumber: 3.1 Consensus size: 59
10738238 ATCGACCTTT
* * * *
10738248 GATGGTGACGACCATCAAACTATGAAAAGGGATGGCTTTGGCTATCGATCTATGAAAAGG
1 GATGGTGACGACTATCAAATTATGAAAAGGGAT-GCTTCGGCTATCGAACTATGAAAAGG
* ** ** * * * * *
10738308 GATAGTTTCGGTTATCAAATTATGAAAAGGGATGGTGACGACCATCGAACAATGAAAAGG
1 GATGGTGACGACTATCAAATTATGAAAAGGGATGCT-TCGGCTATCGAACTATGAAAAGG
* * * * *
10738368 GATGGTGACGACTATTAAATTATGAAAAGGGATAACTTCGGCTGTCGAACTGTGAAAAAG
1 GATGGTGACGACTATCAAATTATGAAAAGGGAT-GCTTCGGCTATCGAACTATGAAAAGG
10738428 GAT
1 GAT
10738431 AACTTCGGTT
Statistics
Matches: 92, Mismatches: 29, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
59 2 0.02
60 89 0.97
61 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (59 bp):
GATGGTGACGACTATCAAATTATGAAAAGGGATGCTTCGGCTATCGAACTATGAAAAGG
Found at i:10738424 original size:90 final size:90
Alignment explanation
Indices: 10738248--10738430 Score: 199
Period size: 90 Copynumber: 2.0 Consensus size: 90
10738238 ATCGACCTTT
* ** * ** *
10738248 GATGGTGACGACCATCAAACTATGAAAAGGGATGGCTTTGGCTATCGATCTATGAAAAGGGATAG
1 GATGGTGACGACCATCAAACAATGAAAAGGGATGGCTACGACTATAAATCTATGAAAAGGGATAA
* * * *
10738313 TTTCGGTTATCAAATTATGAAAAGG
66 CTTCGGCTATCAAACTATGAAAAAG
*
10738338 GATGGTGACGACCATCGAACAATGAAAAGGGATGG-TGACGACTATTAAAT-TATGAAAAGGGAT
1 GATGGTGACGACCATCAAACAATGAAAAGGGATGGCT-ACGACTA-TAAATCTATGAAAAGGGAT
* * *
10738401 AACTTCGGCTGTCGAACTGTGAAAAAG
64 AACTTCGGCTATCAAACTATGAAAAAG
10738428 GAT
1 GAT
10738431 AACTTCGGTT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
89 1 0.01
90 72 0.95
91 3 0.04
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (90 bp):
GATGGTGACGACCATCAAACAATGAAAAGGGATGGCTACGACTATAAATCTATGAAAAGGGATAA
CTTCGGCTATCAAACTATGAAAAAG
Found at i:10738455 original size:30 final size:30
Alignment explanation
Indices: 10738268--10738460 Score: 104
Period size: 30 Copynumber: 6.4 Consensus size: 30
10738258 ACCATCAAAC
** *
10738268 TATGAAAAGGGATGGCTTTGGCTATCG-AT
1 TATGAAAAGGGATAACTTCGGCTATCGAAT
** * *
10738297 CTATGAAAAGGGATAGTTTCGGTTATCAAAT
1 -TATGAAAAGGGATAACTTCGGCTATCGAAT
** * * * *
10738328 TATGAAAAGGGAT-GGTGACGACCATCGAAC
1 TATGAAAAGGGATAACT-TCGGCTATCGAAT
* ** * * **
10738358 AATGAAAAGGGAT-GGTGACGACTATTAAAT
1 TATGAAAAGGGATAACT-TCGGCTATCGAAT
* *
10738388 TATGAAAAGGGATAACTTCGGCTGTCGAAC
1 TATGAAAAGGGATAACTTCGGCTATCGAAT
* * *
10738418 TGTGAAAAAGGATAACTTCGGTTATCGAAT
1 TATGAAAAGGGATAACTTCGGCTATCGAAT
*
10738448 TACGAAAAGGGAT
1 TATGAAAAGGGAT
10738461 GCATCAATCA
Statistics
Matches: 126, Mismatches: 34, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
29 2 0.02
30 121 0.96
31 3 0.02
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.25
Consensus pattern (30 bp):
TATGAAAAGGGATAACTTCGGCTATCGAAT
Found at i:10746228 original size:20 final size:20
Alignment explanation
Indices: 10746203--10746247 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
10746193 GATATTGTGT
*
10746203 ACGTAGGATACTTTTCGTGC
1 ACGTAGGACACTTTTCGTGC
10746223 ACGTAGGACACTTTTCGTGC
1 ACGTAGGACACTTTTCGTGC
10746243 ACGTA
1 ACGTA
10746248 ATCTTCTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (20 bp):
ACGTAGGACACTTTTCGTGC
Found at i:10747978 original size:5 final size:5
Alignment explanation
Indices: 10747970--10748009 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
10747960 AAATTAAAAC
*
10747970 CTAAA CTAAA CTAAA CTAAA CTAAA CTAAA CTAAC CTAAA
1 CTAAA CTAAA CTAAA CTAAA CTAAA CTAAA CTAAA CTAAA
10748010 TCTACTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (5 bp):
CTAAA
Found at i:10750015 original size:19 final size:19
Alignment explanation
Indices: 10749991--10750027 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10749981 TTAAAGAATA
10749991 TATTTTTAAAATTTTAAAT
1 TATTTTTAAAATTTTAAAT
**
10750010 TATTTTTACTATTTTAAA
1 TATTTTTAAAATTTTAAA
10750028 CATGAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTTTAAAATTTTAAAT
Found at i:10753275 original size:15 final size:16
Alignment explanation
Indices: 10753255--10753287 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10753245 TGTTTAATAC
*
10753255 AATATAATTTTA-ATT
1 AATATAAGTTTATATT
10753270 AATATAAGTTTATATT
1 AATATAAGTTTATATT
10753286 AA
1 AA
10753288 GTTTATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AATATAAGTTTATATT
Found at i:10753793 original size:16 final size:18
Alignment explanation
Indices: 10753767--10753799 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10753757 AAAGAAATAA
10753767 AATATATTTAAT-TTTAT
1 AATATATTTAATATTTAT
10753784 AATA-ATTTAATATTTA
1 AATATATTTAATATTTA
10753800 ACTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AATATATTTAATATTTAT
Found at i:10762192 original size:7 final size:8
Alignment explanation
Indices: 10762172--10762213 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
10762162 AATAAATTAC
10762172 TAAAAATA
1 TAAAAATA
10762180 TAAAAATA
1 TAAAAATA
10762188 TAAAAATA
1 TAAAAATA
10762196 TTAAAAAAATA
1 -T--AAAAATA
10762207 TAAAAAT
1 TAAAAAT
10762214 CGGTTCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 22 0.71
9 1 0.03
10 1 0.03
11 7 0.23
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAAAAATA
Found at i:10762205 original size:11 final size:10
Alignment explanation
Indices: 10762173--10762212 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
10762163 ATAAATTACT
10762173 AAAAATAT--
1 AAAAATATAA
10762181 AAAAATATAA
1 AAAAATATAA
*
10762191 AAATAT-TAA
1 AAAAATATAA
10762200 AAAAATATAA
1 AAAAATATAA
10762210 AAA
1 AAA
10762213 TCGGTTCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 8 0.30
9 8 0.30
10 11 0.41
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AAAAATATAA
Found at i:10763615 original size:21 final size:21
Alignment explanation
Indices: 10763591--10763633 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
10763581 AAATGAGGTT
10763591 TTAAAA-GTGATAAAATTAAAA
1 TTAAAATGT-ATAAAATTAAAA
10763612 TTAAAATGTATAAAATTAAAA
1 TTAAAATGTATAAAATTAAAA
10763633 T
1 T
10763634 AATTAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
TTAAAATGTATAAAATTAAAA
Found at i:10763640 original size:15 final size:15
Alignment explanation
Indices: 10763604--10763641 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10763594 AAAGTGATAA
10763604 AATTAAAATTAAAAT
1 AATTAAAATTAAAAT
*
10763619 -GTATAAAATTAAAAT
1 AAT-TAAAATTAAAAT
10763634 AATTAAAA
1 AATTAAAA
10763642 ATTCTAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
14 1 0.05
15 17 0.89
16 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
AATTAAAATTAAAAT
Found at i:10773488 original size:12 final size:12
Alignment explanation
Indices: 10773471--10773499 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
10773461 AATCGACCTA
10773471 TATTAATTTTTT
1 TATTAATTTTTT
10773483 TATTAATTTTTT
1 TATTAATTTTTT
10773495 TATTA
1 TATTA
10773500 TATACTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TATTAATTTTTT
Found at i:10784111 original size:27 final size:27
Alignment explanation
Indices: 10784081--10784156 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
10784071 TATAACTCCT
* *
10784081 TGTTTACTATCCTGACAAACTACCCTG
1 TGTTTACTGTCCTGACAGACTACCCTG
* *
10784108 TGTTTATTGTCCTGACGGACTACCCTG
1 TGTTTACTGTCCTGACAGACTACCCTG
10784135 TGTTTACTGTCCTGACAGACTA
1 TGTTTACTGTCCTGACAGACTA
10784157 TGTAACACCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (27 bp):
TGTTTACTGTCCTGACAGACTACCCTG
Found at i:10788483 original size:13 final size:13
Alignment explanation
Indices: 10788465--10788491 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10788455 TCGTCAAGTG
10788465 TCAAAAACGGGTT
1 TCAAAAACGGGTT
10788478 TCAAAAACGGGTT
1 TCAAAAACGGGTT
10788491 T
1 T
10788492 GATGGCATGA
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:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (13 bp):
TCAAAAACGGGTT
Found at i:10789275 original size:15 final size:15
Alignment explanation
Indices: 10789255--10789284 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10789245 TATATCAAAG
*
10789255 CTAAAGGATATTAAA
1 CTAAAGGATAGTAAA
10789270 CTAAAGGATAGTAAA
1 CTAAAGGATAGTAAA
10789285 TAAGTCCTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.07, G:0.17, T:0.23
Consensus pattern (15 bp):
CTAAAGGATAGTAAA
Found at i:10793363 original size:79 final size:79
Alignment explanation
Indices: 10793232--10793389 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 79
10793222 TATAATCCAA
* *
10793232 ACAGAAAAGAAAAACATAATACATTTAAAATGCTCAAGTTAAAATTAGATGATGTTATTCAACTA
1 ACAGAAAAGAAAAACATAATACATTTAAAATGCTCAAGTTAAAATTAGATGATGCTATGCAACTA
10793297 ACATGTCAAATGTG
66 ACATGTCAAATGTG
* *
10793311 ACAGAAAAGCAAAACATAATACATTTAAAATGCTCAAGTTAAAATTAGATGATGCTATGCAATTA
1 ACAGAAAAGAAAAACATAATACATTTAAAATGCTCAAGTTAAAATTAGATGATGCTATGCAACTA
10793376 ACATGTCAAATGTG
66 ACATGTCAAATGTG
10793390 CAAGTTCATG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.27
Consensus pattern (79 bp):
ACAGAAAAGAAAAACATAATACATTTAAAATGCTCAAGTTAAAATTAGATGATGCTATGCAACTA
ACATGTCAAATGTG
Found at i:10794051 original size:18 final size:19
Alignment explanation
Indices: 10794019--10794068 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
10794009 TATATGCTCA
10794019 ATTTCACATTTTTTTAAAC
1 ATTTCACATTTTTTTAAAC
10794038 ATTTCACATTTTTTTAAAC
1 ATTTCACATTTTTTTAAAC
*
10794057 A-TACACATTTTT
1 ATTTCACATTTTT
10794069 CAAAAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTCACATTTTTTTAAAC
Found at i:10796539 original size:18 final size:18
Alignment explanation
Indices: 10796518--10796554 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10796508 TTCATTTTTT
*
10796518 CACTCACAATGCTTTTAA
1 CACTCACAATGCTCTTAA
*
10796536 CACTCACCATGCTCTTAA
1 CACTCACAATGCTCTTAA
10796554 C
1 C
10796555 TCTTACAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.35, G:0.05, T:0.30
Consensus pattern (18 bp):
CACTCACAATGCTCTTAA
Found at i:10800739 original size:58 final size:57
Alignment explanation
Indices: 10800666--10800796 Score: 140
Period size: 57 Copynumber: 2.2 Consensus size: 57
10800656 TAAAAGAATA
*
10800666 AAAATAGAGAAATGGAGAAATAGGAAA-CATTTGAAAATGAT-TAAGGTTTTCTCCAAAATG
1 AAAATA-A-AAATGGAG-AAT-GGAAATAATTTGAAAAT-ATATAAGGTTTTCTCCAAAATG
* * **
10800726 AAAATAAAAATGGAGAATTGAAATAATTTGGAAATATATGTGGTTTTCTCCAAAATG
1 AAAATAAAAATGGAGAATGGAAATAATTTGAAAATATATAAGGTTTTCTCCAAAATG
* *
10800783 GAAATGAAAATGGA
1 AAAATAAAAATGGA
10800797 AATAAGAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 6 0.10
57 41 0.66
58 8 0.13
59 1 0.02
60 6 0.10
ACGTcount: A:0.48, C:0.05, G:0.20, T:0.27
Consensus pattern (57 bp):
AAAATAAAAATGGAGAATGGAAATAATTTGAAAATATATAAGGTTTTCTCCAAAATG
Found at i:10803965 original size:320 final size:320
Alignment explanation
Indices: 10803383--10804031 Score: 1084
Period size: 320 Copynumber: 2.0 Consensus size: 320
10803373 ACACGGAAGT
* * * * *
10803383 GTTATTGCAGTTACTGACACTAGAAAGTGCAGTGACAGTTTGAGCCAACAAGCATTACAATGGAA
1 GTTATTGCAGTCACTAACACTAGAAAGAGCAGTGACAATTTGAGCCAACAAGCATTACAATAGAA
*
10803448 GTTGAGTAAGGATTAGAGAAATTTAGTCAATTTGTTCTTAATAGTGCTATATTGCCATCATCGGA
66 GTTGAGTAAGGATTAGAGAAATTTAGTCAACTTGTTCTTAATAGTGCTATATTGCCATCATCGGA
10803513 AGGTGAGGTTAGTATGCATGTTTAAGTCTCAGATTGAATAGAGGAGTGACACTTGGTAAGATATA
131 AGGTGAGGTTAGTATGCATGTTTAAGTCTCAGATTGAATAGAGGAGTGACACTTGGTAAGATATA
* *
10803578 CATTGAATTTTATTACCTCGACAATCACCTATCCTTTTATACCTTGTGTGCACTTAGTATTTTAC
196 AATTGAATTTTATTACCTCGACAATCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTTTAC
* *
10803643 TGAAGATTCATGTTAGGGATCCTAGTTTATCATTATCATATTTTATTTTATTGTTTTCAA
261 TGAAGATTCATGTTAGGGATCCCAGTTTATCATTATCATATTTTATTTTATTATTTTCAA
* * *
10803703 GTTATTGCAGTCACTAACACTGGAAAGAGTAGTGACAATTTGAGCGAACAAGCATTACAATAGAA
1 GTTATTGCAGTCACTAACACTAGAAAGAGCAGTGACAATTTGAGCCAACAAGCATTACAATAGAA
* * *
10803768 GTTGAGTGAGGATTAGAGGAATTTAGTCCACTTGTTCTTAATAGTG-TCATATTGCCATCATCGG
66 GTTGAGTAAGGATTAGAGAAATTTAGTCAACTTGTTCTTAATAGTGCT-ATATTGCCATCATCGG
* *
10803832 AAGGTGAGGTTAGTATGCATGTTTAAGTCTTAGATTGAATAGAGGAGTGACGCTTGGTAAGATAT
130 AAGGTGAGGTTAGTATGCATGTTTAAGTCTCAGATTGAATAGAGGAGTGACACTTGGTAAGATAT
* *
10803897 AAATTGAATTTTATTGCCTTGACAATCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTTTA
195 AAATTGAATTTTATTACCTCGACAATCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTTTA
*
10803962 CTGAAGATTCATGTTGGGGATCCCAGTTTATCATTATCATATTTTATTTTATTATTTTCAA
260 CTGAAGATTCATGTTAGGGATCCCAGTTTATCATTATCATATTTTATTTTATTATTTTCAA
*
10804023 ATTATTGCA
1 GTTATTGCA
10804032 TCGACAACTA
Statistics
Matches: 306, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
319 1 0.00
320 305 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (320 bp):
GTTATTGCAGTCACTAACACTAGAAAGAGCAGTGACAATTTGAGCCAACAAGCATTACAATAGAA
GTTGAGTAAGGATTAGAGAAATTTAGTCAACTTGTTCTTAATAGTGCTATATTGCCATCATCGGA
AGGTGAGGTTAGTATGCATGTTTAAGTCTCAGATTGAATAGAGGAGTGACACTTGGTAAGATATA
AATTGAATTTTATTACCTCGACAATCACCTATCCTTTTATACCTTGTGAGCACTTAGTATTTTAC
TGAAGATTCATGTTAGGGATCCCAGTTTATCATTATCATATTTTATTTTATTATTTTCAA
Found at i:10810468 original size:21 final size:21
Alignment explanation
Indices: 10810443--10810495 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
10810433 GAGGATGAGA
*
10810443 AGGAAGTTGCTACTGCAGAAG
1 AGGAAGTTGCTACTGAAGAAG
* *
10810464 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGCTACTGAAGAAG
**
10810485 AACAAGTTGCT
1 AGGAAGTTGCT
10810496 GAAAATGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.23
Consensus pattern (21 bp):
AGGAAGTTGCTACTGAAGAAG
Found at i:10810984 original size:17 final size:17
Alignment explanation
Indices: 10810951--10810985 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10810941 GTATATATTG
* *
10810951 TCATTACATTTTTATGT
1 TCATTACATTATCATGT
10810968 TCATTACATTATCATGT
1 TCATTACATTATCATGT
10810985 T
1 T
10810986 AGTGTATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (17 bp):
TCATTACATTATCATGT
Found at i:10814167 original size:9 final size:9
Alignment explanation
Indices: 10814153--10814179 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
10814143 ACATGAAGTA
10814153 GTTGGCACT
1 GTTGGCACT
10814162 GTTGGCACT
1 GTTGGCACT
10814171 GTTGGCACT
1 GTTGGCACT
10814180 ACACATATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.33, T:0.33
Consensus pattern (9 bp):
GTTGGCACT
Found at i:10824762 original size:1 final size:1
Alignment explanation
Indices: 10824758--10824783 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
10824748 TTTTTTTTTT
10824758 GGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGG
10824784 ANNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:10835009 original size:18 final size:18
Alignment explanation
Indices: 10834986--10835022 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10834976 ATTTTATATC
10834986 ATTTTAATATATAATTAA
1 ATTTTAATATATAATTAA
* *
10835004 ATTTTATTATTTAATTAA
1 ATTTTAATATATAATTAA
10835022 A
1 A
10835023 ATTCAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAATATATAATTAA
Found at i:10842810 original size:23 final size:23
Alignment explanation
Indices: 10842784--10842856 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
10842774 ATAAGTGCCA
10842784 CACTAATATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
* *
10842807 CACTGATATGTAGTCGTAA-CTAC
1 CACTAATATGTAGCCG-AAGCTAC
*
10842830 CACTAAAATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
10842853 CACT
1 CACT
10842857 GATCAATAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
22 2 0.05
23 39 0.91
24 2 0.05
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (23 bp):
CACTAATATGTAGCCGAAGCTAC
Found at i:10843709 original size:117 final size:118
Alignment explanation
Indices: 10843566--10843800 Score: 454
Period size: 117 Copynumber: 2.0 Consensus size: 118
10843556 ACATTCATTA
10843566 TCTATCATCACTCATCAAATTACAACTATATCATGAATGAGTCAATTTTTTAACTTTAATTCCAT
1 TCTATCATCACTCATCAAATTACAACTATATCATGAATGAGTCAATTTTTTAACTTTAATTCCAT
10843631 TTAAAATAAATGTAGAGACATGAAATTCAAGCTTCAATAAGCATAAAAATACG
66 TTAAAATAAATGTAGAGACATGAAATTCAAGCTTCAATAAGCATAAAAATACG
10843684 TCTATCATCA-TCATCAAATTACAACTATATCATGAATGAGTCAATTTTTTAACTTTAATTCCAT
1 TCTATCATCACTCATCAAATTACAACTATATCATGAATGAGTCAATTTTTTAACTTTAATTCCAT
*
10843748 TTAAAATAAATGTAGAGACATGAAATTCCAGCTTCAATAAGCATAAAAATACG
66 TTAAAATAAATGTAGAGACATGAAATTCAAGCTTCAATAAGCATAAAAATACG
10843801 AAAATAATTA
Statistics
Matches: 116, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
117 106 0.91
118 10 0.09
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (118 bp):
TCTATCATCACTCATCAAATTACAACTATATCATGAATGAGTCAATTTTTTAACTTTAATTCCAT
TTAAAATAAATGTAGAGACATGAAATTCAAGCTTCAATAAGCATAAAAATACG
Found at i:10851297 original size:21 final size:21
Alignment explanation
Indices: 10851262--10851302 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10851252 CCTACGTTCA
*
10851262 TGCTATGACTCAACATAGGGT
1 TGCTATGACTCAACACAGGGT
* *
10851283 TGCTATGGCTTAACACAGGG
1 TGCTATGACTCAACACAGGG
10851303 CGCGTCTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (21 bp):
TGCTATGACTCAACACAGGGT
Found at i:10855985 original size:5 final size:5
Alignment explanation
Indices: 10855975--10856013 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
10855965 TTTTTAATGC
* *
10855975 TAAAA TAAAA TAAAA TAAAA T-AAA TTAAA TTAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
10856014 GTTAGAACAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (5 bp):
TAAAA
Found at i:10855995 original size:15 final size:15
Alignment explanation
Indices: 10855975--10856013 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
10855965 TTTTTAATGC
10855975 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
*
10855990 TAAAAT-AAATTAAA
1 TAAAATAAAATAAAA
*
10856004 TTAAATAAAA
1 TAAAATAAAA
10856014 GTTAGAACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAATAAAATAAAA
Found at i:10856004 original size:19 final size:19
Alignment explanation
Indices: 10855977--10856013 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10855967 TTTAATGCTA
10855977 AAATAAAATAAAATAAAAT
1 AAATAAAATAAAATAAAAT
* *
10855996 AAATTAAATTAAATAAAA
1 AAATAAAATAAAATAAAA
10856014 GTTAGAACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAAAATAAAATAAAAT
Found at i:10856745 original size:395 final size:396
Alignment explanation
Indices: 10856003--10856794 Score: 1577
Period size: 395 Copynumber: 2.0 Consensus size: 396
10855993 AATAAATTAA
10856003 ATTAAATAAAAGTTAGAACACTATCTAGCTCGTTCGTCTTTCAATTAATATTATTTTACAATAGT
1 ATTAAATAAAAGTTAGAACACTATCTAGCTCGTTCGTCTTTCAATTAATATTATTTTACAATAGT
10856068 TAATCTAAAAAAAATTTCATTGTCACAATCCCCGGCTATGAGGCCAATAACTTGATCGCCTATAA
66 TAATCTAAAAAAAATTTCATTGTCACAATCCCCGGCTATGAGGCCAATAACTTGATCGCCTATAA
10856133 ATGTGTTATTGTTTATAGTAAAAATAGAACACAAAAAATATATATAATTAAATCGATAGTCTCTG
131 ATGTGTTATTGTTTATAGTAAAAATAGAACACAAAAAATATATATAATTAAATCGATAGTCTCTG
10856198 TAACATAATATAGCCAACCTGAATTATCAAATCCGGATATCGACTATTACAAAACTTAAACATTT
196 TAACATAATATAGCCAACCTGAATTATCAAATCCGGATATCGACTATTACAAAACTTAAACATTT
10856263 AACAATTTTTTTTATTACAAGCATAAAATGATTTTAAAACATGCTTCTTATTCCTTTATTTACTA
261 AACAATTTTTTTTATTACAAGCATAAAATGATTTTAAAACATGCTTCTTATTCCTTTATTTACTA
10856328 TTCTTAGAAAAAATTAATGAAAGAGAATGTCTAATAATTACATCAGATTTTCAAAAATGGCATAT
326 TTCTTAGAAAAAATTAATGAAAGAGAATGTCTAATAATTACATCAGATTTTCAAAAATGGCATAT
10856393 GACGCT
391 GACGCT
10856399 ATTAAATAAAA-TTAGAACACTATCTAGCTCGTTCGTCTTTCAATTAATATTATTTTACAATAGT
1 ATTAAATAAAAGTTAGAACACTATCTAGCTCGTTCGTCTTTCAATTAATATTATTTTACAATAGT
10856463 TAATCTAAAAAAAATTTCATTGTCACAATCCCCGGCTATGAGGCCAATAACTTGATCGCCTATAA
66 TAATCTAAAAAAAATTTCATTGTCACAATCCCCGGCTATGAGGCCAATAACTTGATCGCCTATAA
10856528 ATGTGTTATTGTTTATAGTAAAAATAGAACACAAAAAATATATATAATTAAATCGATAGTCTCTG
131 ATGTGTTATTGTTTATAGTAAAAATAGAACACAAAAAATATATATAATTAAATCGATAGTCTCTG
10856593 TAACATAATATAGCCAACCTGAATTATCAAATCCGGATATCGACTATTACAAAACTTAAACATTT
196 TAACATAATATAGCCAACCTGAATTATCAAATCCGGATATCGACTATTACAAAACTTAAACATTT
10856658 AACAATTTTTTTTATTACAAGCATAAAATGATTTTAAAACATGCTTCTTATTCCTTTATTTACTA
261 AACAATTTTTTTTATTACAAGCATAAAATGATTTTAAAACATGCTTCTTATTCCTTTATTTACTA
10856723 TTCTTAGAAAAAATTAATGAAAGAGAATGTCTAATAATTACATCAGATTTTCAAAAATGGCATAT
326 TTCTTAGAAAAAATTAATGAAAGAGAATGTCTAATAATTACATCAGATTTTCAAAAATGGCATAT
10856788 GACGCT
391 GACGCT
10856794 A
1 A
10856795 CAACTTAAAA
Statistics
Matches: 396, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
395 385 0.97
396 11 0.03
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (396 bp):
ATTAAATAAAAGTTAGAACACTATCTAGCTCGTTCGTCTTTCAATTAATATTATTTTACAATAGT
TAATCTAAAAAAAATTTCATTGTCACAATCCCCGGCTATGAGGCCAATAACTTGATCGCCTATAA
ATGTGTTATTGTTTATAGTAAAAATAGAACACAAAAAATATATATAATTAAATCGATAGTCTCTG
TAACATAATATAGCCAACCTGAATTATCAAATCCGGATATCGACTATTACAAAACTTAAACATTT
AACAATTTTTTTTATTACAAGCATAAAATGATTTTAAAACATGCTTCTTATTCCTTTATTTACTA
TTCTTAGAAAAAATTAATGAAAGAGAATGTCTAATAATTACATCAGATTTTCAAAAATGGCATAT
GACGCT
Found at i:10866049 original size:44 final size:44
Alignment explanation
Indices: 10865998--10866174 Score: 354
Period size: 44 Copynumber: 4.0 Consensus size: 44
10865988 GTTTAGACCT
10865998 GCATATGCAGACAATATTTTTAGATTTAAGTCAACCTCCTTTGG
1 GCATATGCAGACAATATTTTTAGATTTAAGTCAACCTCCTTTGG
10866042 GCATATGCAGACAATATTTTTAGATTTAAGTCAACCTCCTTTGG
1 GCATATGCAGACAATATTTTTAGATTTAAGTCAACCTCCTTTGG
10866086 GCATATGCAGACAATATTTTTAGATTTAAGTCAACCTCCTTTGG
1 GCATATGCAGACAATATTTTTAGATTTAAGTCAACCTCCTTTGG
10866130 GCATATGCAGACAATATTTTTAGATTTAAGTCAACCTCCTTTGG
1 GCATATGCAGACAATATTTTTAGATTTAAGTCAACCTCCTTTGG
10866174 G
1 G
10866175 TACGATCCTT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 133 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (44 bp):
GCATATGCAGACAATATTTTTAGATTTAAGTCAACCTCCTTTGG
Found at i:10872493 original size:30 final size:29
Alignment explanation
Indices: 10872459--10872541 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
10872449 TGCATATTCA
*
10872459 ACCCTGTAATCATTCATATTTACATACCAT
1 ACCCTGTAATCATTCA-ATTTACATAACAT
10872489 ACCCTGTAATCATTTTCAA-TTACATAACAT
1 ACCCTGTAATCA--TTCAATTTACATAACAT
* * *
10872519 ACCCTATAACCATTTACATTTAC
1 ACCCTGTAATCATTCA-ATTTAC
10872542 CTTTCGTACC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 3 0.07
29 1 0.02
30 36 0.80
31 1 0.02
32 4 0.09
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
ACCCTGTAATCATTCAATTTACATAACAT
Found at i:10883812 original size:15 final size:15
Alignment explanation
Indices: 10883788--10883817 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10883778 TATGCATACA
*
10883788 AAATATAAAAGACAT
1 AAATACAAAAGACAT
10883803 AAATACAAAAGACAT
1 AAATACAAAAGACAT
10883818 TATAGTGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:10885846 original size:491 final size:491
Alignment explanation
Indices: 10884924--10885905 Score: 1964
Period size: 491 Copynumber: 2.0 Consensus size: 491
10884914 ATTGGCATTG
10884924 CGTGGATTGATAAATACAGAACGTGGTCATAGGTTGCTTATTCTTGAGCGAGCAATTTATCACAG
1 CGTGGATTGATAAATACAGAACGTGGTCATAGGTTGCTTATTCTTGAGCGAGCAATTTATCACAG
10884989 TCATTTGTTGACAATGATCATATTAATCATTAAGAAGACACAATTGAGACAATGAGATAAAATAG
66 TCATTTGTTGACAATGATCATATTAATCATTAAGAAGACACAATTGAGACAATGAGATAAAATAG
10885054 GATTATATTGAGTGAACGGATTTAACTCAAATGAATCAATGATATCATATGAGGGTAACACACAG
131 GATTATATTGAGTGAACGGATTTAACTCAAATGAATCAATGATATCATATGAGGGTAACACACAG
10885119 ATGATGAGGTTATTTAACAAAGAGTTGGATGAATTGCTTTTGTAAAAAGTATAAAATAAGGAGTT
196 ATGATGAGGTTATTTAACAAAGAGTTGGATGAATTGCTTTTGTAAAAAGTATAAAATAAGGAGTT
10885184 TTCAATCATGATACTTCTTGTGGACTGACTCCATGATTAAGTAGTTACGAATTATCGGAATGATG
261 TTCAATCATGATACTTCTTGTGGACTGACTCCATGATTAAGTAGTTACGAATTATCGGAATGATG
10885249 CTTCTAGGCATAATTGCAATTACTAGAGCCTAATTGTATATGTCCGATTGGTCCCTCTGCTAGCT
326 CTTCTAGGCATAATTGCAATTACTAGAGCCTAATTGTATATGTCCGATTGGTCCCTCTGCTAGCT
10885314 CAACAAAAACTCGATCGAACTGCATTTGAATCAGAAGAAAATTCTATGACTATGGAAATAATTTA
391 CAACAAAAACTCGATCGAACTGCATTTGAATCAGAAGAAAATTCTATGACTATGGAAATAATTTA
10885379 ATTAAGTCCATTTATTCGATGTGGATTAAATTAAGT
456 ATTAAGTCCATTTATTCGATGTGGATTAAATTAAGT
10885415 CGTGGATTGATAAATACAGAACGTGGTCATAGGTTGCTTATTCTTGAGCGAGCAATTTATCACAG
1 CGTGGATTGATAAATACAGAACGTGGTCATAGGTTGCTTATTCTTGAGCGAGCAATTTATCACAG
10885480 TCATTTGTTGACAATGATCATATTAATCATTAAGAAGACACAATTGAGACAATGAGATAAAATAG
66 TCATTTGTTGACAATGATCATATTAATCATTAAGAAGACACAATTGAGACAATGAGATAAAATAG
10885545 GATTATATTGAGTGAACGGATTTAACTCAAATGAATCAATGATATCATATGAGGGTAACACACAG
131 GATTATATTGAGTGAACGGATTTAACTCAAATGAATCAATGATATCATATGAGGGTAACACACAG
10885610 ATGATGAGGTTATTTAACAAAGAGTTGGATGAATTGCTTTTGTAAAAAGTATAAAATAAGGAGTT
196 ATGATGAGGTTATTTAACAAAGAGTTGGATGAATTGCTTTTGTAAAAAGTATAAAATAAGGAGTT
10885675 TTCAATCATGATACTTCTTGTGGACTGACTCCATGATTAAGTAGTTACGAATTATCGGAATGATG
261 TTCAATCATGATACTTCTTGTGGACTGACTCCATGATTAAGTAGTTACGAATTATCGGAATGATG
10885740 CTTCTAGGCATAATTGCAATTACTAGAGCCTAATTGTATATGTCCGATTGGTCCCTCTGCTAGCT
326 CTTCTAGGCATAATTGCAATTACTAGAGCCTAATTGTATATGTCCGATTGGTCCCTCTGCTAGCT
10885805 CAACAAAAACTCGATCGAACTGCATTTGAATCAGAAGAAAATTCTATGACTATGGAAATAATTTA
391 CAACAAAAACTCGATCGAACTGCATTTGAATCAGAAGAAAATTCTATGACTATGGAAATAATTTA
10885870 ATTAAGTCCATTTATTCGATGTGGATTAAATTAAGT
456 ATTAAGTCCATTTATTCGATGTGGATTAAATTAAGT
10885906 AGTCGTGAGA
Statistics
Matches: 491, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
491 491 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (491 bp):
CGTGGATTGATAAATACAGAACGTGGTCATAGGTTGCTTATTCTTGAGCGAGCAATTTATCACAG
TCATTTGTTGACAATGATCATATTAATCATTAAGAAGACACAATTGAGACAATGAGATAAAATAG
GATTATATTGAGTGAACGGATTTAACTCAAATGAATCAATGATATCATATGAGGGTAACACACAG
ATGATGAGGTTATTTAACAAAGAGTTGGATGAATTGCTTTTGTAAAAAGTATAAAATAAGGAGTT
TTCAATCATGATACTTCTTGTGGACTGACTCCATGATTAAGTAGTTACGAATTATCGGAATGATG
CTTCTAGGCATAATTGCAATTACTAGAGCCTAATTGTATATGTCCGATTGGTCCCTCTGCTAGCT
CAACAAAAACTCGATCGAACTGCATTTGAATCAGAAGAAAATTCTATGACTATGGAAATAATTTA
ATTAAGTCCATTTATTCGATGTGGATTAAATTAAGT
Found at i:10885991 original size:16 final size:17
Alignment explanation
Indices: 10885944--10885999 Score: 105
Period size: 17 Copynumber: 3.4 Consensus size: 17
10885934 TTGATTAAAG
10885944 AATTTTCTTGAAAAATT
1 AATTTTCTTGAAAAATT
10885961 AATTTTCTTGAAAAATT
1 AATTTTCTTGAAAAATT
10885978 AATTTTCTTG-AAAATT
1 AATTTTCTTGAAAAATT
10885994 AATTTT
1 AATTTT
10886000 GATAAATTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
16 12 0.31
17 27 0.69
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (17 bp):
AATTTTCTTGAAAAATT
Found at i:10888441 original size:3 final size:3
Alignment explanation
Indices: 10888433--10888474 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
10888423 TAGTGGATCT
10888433 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10888475 ATAAAATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10897625 original size:9 final size:9
Alignment explanation
Indices: 10897614--10897680 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
10897604 TTTGGTTAAA
*
10897614 AATTAACCA
1 AATTAACCG
*
10897623 AATTACCCG
1 AATTAACCG
10897632 AATTAACCG
1 AATTAACCG
10897641 AATT-ACCTG
1 AATTAACC-G
10897650 AATT-ACTCG
1 AATTAAC-CG
10897659 AATTAACCG
1 AATTAACCG
*
10897668 AATTAACCA
1 AATTAACCG
10897677 AATT
1 AATT
10897681 GAATCACTAC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
8 3 0.06
9 45 0.88
10 3 0.06
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:10897645 original size:27 final size:27
Alignment explanation
Indices: 10897614--10897680 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
10897604 TTTGGTTAAA
10897614 AATTAACCAAATTACCCGAATTAACCG
1 AATTAACCAAATTACCCGAATTAACCG
* *
10897641 AATT-ACCTGAATTACTCGAATTAACCG
1 AATTAACC-AAATTACCCGAATTAACCG
10897668 AATTAACCAAATT
1 AATTAACCAAATT
10897681 GAATCACTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.09
27 29 0.83
28 3 0.09
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.27
Consensus pattern (27 bp):
AATTAACCAAATTACCCGAATTAACCG
Found at i:10900622 original size:56 final size:55
Alignment explanation
Indices: 10900487--10900677 Score: 240
Period size: 56 Copynumber: 3.4 Consensus size: 55
10900477 AAGCAACACT
* * * * *
10900487 TTAATTTAATTTAAGACAGCAT-AATAATACTCAAATTGAAACATTAAACAAAAGC
1 TTAATTCAATTTAAGACAGCATGAA-AATGCTCAATTTGAAACATAAAACAACAGC
*
10900542 TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGC
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACA-TAAAACAACAGC
* * * *
10900598 TTGATTCAATTTAAGACAGTATGAAAATGCTCAATTTGAAACATTCAAACAACATGT
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACA-TAAAACAACA-GC
*
10900655 TTAATTCAATTTATGACAGCATG
1 TTAATTCAATTTAAGACAGCATG
10900678 CAAACAATAA
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
55 38 0.32
56 61 0.51
57 21 0.17
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.30
Consensus pattern (55 bp):
TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACATAAAACAACAGC
Found at i:10901540 original size:18 final size:18
Alignment explanation
Indices: 10901497--10901540 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10901487 AATTTTTATG
10901497 ATTGGGTTGGGTTAGGTA
1 ATTGGGTTGGGTTAGGTA
*
10901515 ATTAGGTTGGGTT-GGATA
1 ATTGGGTTGGGTTAGG-TA
*
10901533 CTTGGGTT
1 ATTGGGTT
10901541 TGGATTGGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTAGGTA
Found at i:10911693 original size:30 final size:31
Alignment explanation
Indices: 10911633--10911693 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
10911623 GGGAGGGGAG
*
10911633 GGGAGAGGAGTAAAAGTTTTAGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTAGGGGAAAAGT
10911664 GGGA-AGGAGTAAAAGTTTT-GAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTAG-GGGAAAAGT
10911694 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.04
30 23 0.82
31 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTAGGGGAAAAGT
Found at i:10911844 original size:18 final size:18
Alignment explanation
Indices: 10911821--10911855 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10911811 ATTCGAGTTG
10911821 ATTCGAATAACTCGATTA
1 ATTCGAATAACTCGATTA
10911839 ATTCGAATAACTCGATT
1 ATTCGAATAACTCGATT
10911856 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
ATTCGAATAACTCGATTA
Found at i:10912523 original size:15 final size:14
Alignment explanation
Indices: 10912486--10912528 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
10912476 TTTTAAAATA
10912486 TAAAAATATATAATT
1 TAAAAAT-TATAATT
*
10912501 TAAGAAATTATAGTT
1 TAA-AAATTATAATT
10912516 CTAAAAATTATAA
1 -TAAAAATTATAA
10912529 AATGTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
TAAAAATTATAATT
Found at i:10916099 original size:12 final size:12
Alignment explanation
Indices: 10916082--10916109 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10916072 CCACAAGCCT
10916082 GTGTGCTAGGCC
1 GTGTGCTAGGCC
10916094 GTGTGCTAGGCC
1 GTGTGCTAGGCC
10916106 GTGT
1 GTGT
10916110 ATCAGCCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:10917316 original size:25 final size:25
Alignment explanation
Indices: 10917282--10917349 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
10917272 CTATACATGT
10917282 ATGCTCACACGAGTTGTGAATCGAC
1 ATGCTCACACGAGTTGTGAATCGAC
* * * **
10917307 ATGCTCACACCAGCTGTAAATCGGT
1 ATGCTCACACGAGTTGTGAATCGAC
10917332 ATGCTCACACGAGTTGTG
1 ATGCTCACACGAGTTGTG
10917350 GGTCAGAACG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (25 bp):
ATGCTCACACGAGTTGTGAATCGAC
Found at i:10924843 original size:16 final size:16
Alignment explanation
Indices: 10924822--10924854 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10924812 CAAATGACGA
10924822 AGAAAAAGTGAGAGAG
1 AGAAAAAGTGAGAGAG
10924838 AGAAAAAGTGAGAGAG
1 AGAAAAAGTGAGAGAG
10924854 A
1 A
10924855 TTCTTAGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.36, T:0.06
Consensus pattern (16 bp):
AGAAAAAGTGAGAGAG
Found at i:10931057 original size:5 final size:5
Alignment explanation
Indices: 10931049--10931080 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
10931039 AAGGAAACAA
*
10931049 AAATC AAATC AAACC AAATC AAATC AAATC AA
1 AAATC AAATC AAATC AAATC AAATC AAATC AA
10931081 GAAGATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.62, C:0.22, G:0.00, T:0.16
Consensus pattern (5 bp):
AAATC
Found at i:10931448 original size:21 final size:22
Alignment explanation
Indices: 10931423--10931465 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10931413 TTGAGAGGTT
*
10931423 TTTTTTTGAAAA-AAGGATTTG
1 TTTTTTTAAAAAGAAGGATTTG
*
10931444 TTTTTTTAAAAAGAAGGTTTTG
1 TTTTTTTAAAAAGAAGGATTTG
10931466 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.49
Consensus pattern (22 bp):
TTTTTTTAAAAAGAAGGATTTG
Found at i:10940654 original size:29 final size:30
Alignment explanation
Indices: 10940614--10940671 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
10940604 TAATAAAATA
10940614 CATCTTTGCAATTATTT-CGAGTAAATATT
1 CATCTTTGCAATTATTTCCGAGTAAATATT
10940643 CATCTTTGCAATTATTTCCGAGTAAATAT
1 CATCTTTGCAATTATTTCCGAGTAAATAT
10940672 CTTTCATTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (30 bp):
CATCTTTGCAATTATTTCCGAGTAAATATT
Found at i:10943171 original size:44 final size:44
Alignment explanation
Indices: 10942950--10943486 Score: 193
Period size: 44 Copynumber: 12.2 Consensus size: 44
10942940 CCAAGCCTTG
* *
10942950 TCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGTA-G-ATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TG-ACGAATCTTA
* *
10942994 TCTCCCTAAGCAGTAGTGGAGCAGAATGAAGATGGCGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGACGAATCTTA
* * ** * * *
10943038 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGATGACGAA-TCTTA
* ** * * * *
10943082 TCTCCCTGAGCAACAGTGGAGAAGGTTGAAGATTGAAG-ATTTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TGACGAATCTTA
* *
10943126 TCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATGACGAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGACGAATCTTA
* * ** * * *
10943170 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAAGCCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGATGACGAA-TCTTA
* * * * *
10943214 TCTCCCTGAGTAGCAGTGGAGAAAATTGAAGATTGTA-G-ATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TG-ACGAATCTTA
*
10943258 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGA-GAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAT-GACGAATCTTA
* * ** * * *
10943302 TATTTCC-AAG--GTAGTGGGAAGCAGATTTG-AG-CCACCAAGCCTTG
1 T-CTCCCTAAGCAGTAGT-GG-AGCAGA-TTGAAGATGACGAA-TCTTA
* * ** * * *
10943346 TCTCCCTGAGTAACAGCGGAGAAAATTGAAGATTGTA-G-ATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-TG-ACGAATCTTA
* * * * *
10943390 TCTCCCTAAGAAGTAGTGGAGTAGATCGAAGATGGCAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGACGAATCTTA
** * * *
10943434 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCGAC-AATCCTA
1 TCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGAT-GACGAATCTTA
10943478 TCTCCCTAA
1 TCTCCCTAA
10943487 AGTTGCAGTG
Statistics
Matches: 352, Mismatches: 100, Indels: 83
0.66 0.19 0.16
Matches are distributed among these distances:
42 14 0.04
43 43 0.12
44 243 0.69
45 41 0.12
46 9 0.03
47 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATGACGAATCTTA
Found at i:10943484 original size:132 final size:132
Alignment explanation
Indices: 10942938--10943436 Score: 768
Period size: 132 Copynumber: 3.8 Consensus size: 132
10942928 ATTGGTGAAA
* * ** **
10942938 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGTAACAGTGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
*
10943003 GCAGTAGTGGAGCAGAAT-GAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
66 GCAGTAGTGGAGCAG-ATCGAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
10943067 AGC
130 AGC
* ** * * *
10943070 CACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGTTGAAGATTGAAGATTTTATCTCTCTAA
1 CACCAAGCCTTGTCTCCCTGAGTAACAGTGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
* *
10943135 GCAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
10943200 GC
131 GC
*
10943202 CACCAAGCCTTGTCTCCCTGAGTAGCAGTGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGTAACAGTGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
* * *
10943267 GCAGTAGTGGAGCAGATCGAAGATGG-AGAATCTTATATTTCCAAGGTAGTGGGAAGCAGATTTG
66 GCAGTAGTGGAGCAGATCGAAGATGGCA-AATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
10943331 AGC
130 AGC
*
10943334 CACCAAGCCTTGTCTCCCTGAGTAACAGCGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGTAACAGTGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
* *
10943399 GAAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCT
66 GCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCT
10943437 CCCTGAAGTT
Statistics
Matches: 340, Mismatches: 24, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
131 2 0.01
132 337 0.99
133 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGTAACAGTGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:10943520 original size:264 final size:264
Alignment explanation
Indices: 10942938--10943521 Score: 698
Period size: 264 Copynumber: 2.2 Consensus size: 264
10942928 ATTGGTGAAA
* * * ** * ***
10942938 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTATCTCCCTAAGTAGCAGTGGAGAAAATTGAAAATCACAGATCTTATCTCCCTAA
* *
10943003 GCAGTAGTGGAGCAGAATGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGAATGAAGATGGAGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAA
* ** * *
10943068 GCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGTTGAAGATTGAAGATTTTATCTCTCT
131 GCCACCAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAAATTGAAGATTGAAGATCTTATCTCCCT
* * * *
10943133 AAGCAGTAGTGGAGCAGATCGAAGATGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
196 AAGAAGTAGTGGAGCAGATCGAAGATGACAAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTA
10943198 AAGC
261 AAGC
* * * ***
10943202 CACCAAGCCTTGTCTCCCTGAGTAGCAGTGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTATCTCCCTAAGTAGCAGTGGAGAAAATTGAAAATCACAGATCTTATCTCCCTAA
* *
10943267 GCAGTAGTGGAGCAG-ATCGAAGATGGAGAATCTTATATTTCCAAGGTAGTGGGAAGCAGATTTG
66 GCAGTAGTGGAGCAGAAT-GAAGATGGAGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTA
* *
10943331 AGCCACCAAGCCTTGTCTCCCTGAGTAACAGCGGAGAAAATTGAAGATTGTAGATCTTATCTCCC
130 AGCCACCAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAAATTGAAGATTGAAGATCTTATCTCCC
* * *
10943396 TAAGAAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATC-TCCCTGAAGTTGCAGT-GG-AGCA
195 TAAGAAGTAGTGGAGCAGATCGAAGATGACAAATCTTATCTTCCC--AAGAT--AGTGGGAAGCA
10943458 GATTAAAGTC
256 GATTAAAG-C
* * * **
10943468 GA-CAATCC-TATCTCCCTAAAGTTGCAGTGG-GATGGATT-AAAATCACAGATCTTA
1 CACCAAGCCTTATCTCCCT-AAGTAGCAGTGGAGA-AAATTGAAAATCACAGATCTTA
10943522 CCTCTCTGAA
Statistics
Matches: 278, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
263 5 0.02
264 233 0.84
265 33 0.12
266 4 0.01
267 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (264 bp):
CACCAAGCCTTATCTCCCTAAGTAGCAGTGGAGAAAATTGAAAATCACAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGAATGAAGATGGAGAATCTTATATTTCCAAGATAGTGGGAAGCAGATTTAA
GCCACCAAGCCTTGTCTCCCTGAGCAACAGCGGAGAAAATTGAAGATTGAAGATCTTATCTCCCT
AAGAAGTAGTGGAGCAGATCGAAGATGACAAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTA
AAGC
Found at i:10943534 original size:44 final size:43
Alignment explanation
Indices: 10943427--10943538 Score: 129
Period size: 44 Copynumber: 2.6 Consensus size: 43
10943417 GAAGATGGCA
*
10943427 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-AGATTAAAATCGAC
* *
10943471 AATCCTATCTCCCTAAAGTTGCAGTGG-GATGGATTAAAATC-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGA--GATTAAAATCGAC
* *
10943514 AGATCTTACCTCTCTGAAGTTGCAG
1 A-ATCTTATCTCCCTGAAGTTGCAG
10943539 AGAGCAGATT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 1 0.02
43 4 0.07
44 53 0.91
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGAGATTAAAATCGAC
Found at i:10943949 original size:5 final size:5
Alignment explanation
Indices: 10943941--10943972 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
10943931 AAGGAAACAA
*
10943941 AAATC AAATC AAACC AAATC AAATC AAATC AA
1 AAATC AAATC AAATC AAATC AAATC AAATC AA
10943973 GAAGATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.62, C:0.22, G:0.00, T:0.16
Consensus pattern (5 bp):
AAATC
Found at i:10944337 original size:76 final size:76
Alignment explanation
Indices: 10944211--10944362 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
10944201 GAAGGAAAAA
*
10944211 ACCTGTTTTAGGCCCCTAACCGCCGTGGATGGCCGAGGAAGTCGTCACCGAGGATTGACGACCGG
1 ACCTGTTTTAGGCCCCTAACCGCCGTGGATGGCCGAGGAAGTCGTCACCGAGGATTGACAACCGG
*
10944276 AAGCCGGAAGG
66 AAGCCGAAAGG
10944287 ACCTGTTTTAGGCCCCTAACCGCCGTGGATGGCCGAGGAAGTCGTCACCGAGGATTGACAACCGG
1 ACCTGTTTTAGGCCCCTAACCGCCGTGGATGGCCGAGGAAGTCGTCACCGAGGATTGACAACCGG
10944352 AAGCCGAAAGG
66 AAGCCGAAAGG
10944363 TTTCTTTGCT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.24, C:0.28, G:0.33, T:0.16
Consensus pattern (76 bp):
ACCTGTTTTAGGCCCCTAACCGCCGTGGATGGCCGAGGAAGTCGTCACCGAGGATTGACAACCGG
AAGCCGAAAGG
Found at i:10944607 original size:22 final size:21
Alignment explanation
Indices: 10944569--10944612 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10944559 GGGTTGAGAG
**
10944569 GTTTTTTTTTAAAAAGGATTT
1 GTTTTTTTAAAAAAAGGATTT
*
10944590 GTTTTTTTAAAAAGAAGGTTTT
1 GTTTTTTTAAAAA-AAGGATTT
10944612 G
1 G
10944613 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (21 bp):
GTTTTTTTAAAAAAAGGATTT
Found at i:10945606 original size:98 final size:98
Alignment explanation
Indices: 10945483--10945674 Score: 330
Period size: 98 Copynumber: 2.0 Consensus size: 98
10945473 AAAAATCATG
*
10945483 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
10945548 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* * *
10945581 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
10945646 AAATTTTGGATGAGTGGATGTTCTTTTAA
66 AAATCTTGGATAAGTGGATGTTCTTTTAA
10945675 TATTTTTATT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:10961247 original size:22 final size:22
Alignment explanation
Indices: 10961200--10961248 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
10961190 TTGAAGTATT
* *
10961200 TCAATTTATTTTCTCTTTGCAT
1 TCAATTTATTTTCTCTTTCCAA
*
10961222 TCAATTTA-TTTCTTTATTCCAA
1 TCAATTTATTTTCTCT-TTCCAA
10961244 TCAAT
1 TCAAT
10961249 CAATTTGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.24, C:0.18, G:0.02, T:0.55
Consensus pattern (22 bp):
TCAATTTATTTTCTCTTTCCAA
Found at i:10961789 original size:18 final size:18
Alignment explanation
Indices: 10961768--10961802 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10961758 TTATTTATTT
10961768 TCATTAAT-TAATTTTATC
1 TCATTAATCT-ATTTTATC
10961786 TCATTAATCTATTTTAT
1 TCATTAATCTATTTTAT
10961803 GGTTTATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (18 bp):
TCATTAATCTATTTTATC
Found at i:10964730 original size:18 final size:18
Alignment explanation
Indices: 10964692--10964730 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10964682 TTTGGTTTTG
* *
10964692 TTATTTTACTTAGTATTT
1 TTATTTAACTTAGTATAT
*
10964710 TTATTTAACTTAGTGTAT
1 TTATTTAACTTAGTATAT
10964728 TTA
1 TTA
10964731 CTTTTTACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (18 bp):
TTATTTAACTTAGTATAT
Found at i:10982208 original size:51 final size:51
Alignment explanation
Indices: 10982132--10982240 Score: 218
Period size: 51 Copynumber: 2.1 Consensus size: 51
10982122 TTCATAAACA
10982132 CAAGCAACCCATGTACATGCTCCTAGCCAATCACTTCTATTTCTTCAAGCT
1 CAAGCAACCCATGTACATGCTCCTAGCCAATCACTTCTATTTCTTCAAGCT
10982183 CAAGCAACCCATGTACATGCTCCTAGCCAATCACTTCTATTTCTTCAAGCT
1 CAAGCAACCCATGTACATGCTCCTAGCCAATCACTTCTATTTCTTCAAGCT
10982234 CAAGCAA
1 CAAGCAA
10982241 ACAAAAGATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.28
Consensus pattern (51 bp):
CAAGCAACCCATGTACATGCTCCTAGCCAATCACTTCTATTTCTTCAAGCT
Found at i:10985572 original size:270 final size:273
Alignment explanation
Indices: 10985055--10985596 Score: 867
Period size: 270 Copynumber: 2.0 Consensus size: 273
10985045 TAGTAACTTG
* * * * * *
10985055 TTCTCCTACCTTACTTTTTTTATGCCTAGCCATCATTTGCTTTAAAACCTTAATGTATTTGGCAA
1 TTCTCCTACCTTAATTTTGTTACGCCTAACCATCATTTACTTTAAAAACTTAATGTATTTGGCAA
10985120 CCTTTTCAATTAATTCAATTAAAGGTAGGTTTAACATTTAATGTTTTAAACAAGTTTAGGAAACT
66 CCTTTTCAATTAATTCAATTAAAGGTAGGTTTAACATTTAATGTTTTAAACAAGTTTAGGAAACT
10985185 TAGAAATTCATCCTCATCCCAATTTTGTTTTTATTCTAGTCTTGAAAGGAATGAGATTTTTGCAA
131 TAGAAATTCATCCTCATCCCAATTTTGTTTTTATTCTAGTCTTGAAAGGAATGAGATTTTTGCAA
* *
10985250 CTGCAGAATCTTTAGTTATTTCCCTCTCTATCTCTACTGTCGATGTGATTACCTCCTCTAATTAT
196 CTGCAGAATCTTTAGTTATTTCCCTCTCTACCTCTACTATCGATGTGATTACCTCCTCTAATTAT
*
10985315 GGCTTATTTTCTC
261 GGCTCATTTTCTC
*
10985328 TTCTCCTACCTTAATTTTGTTACGCCTAACCATCATTTACTTTAAAAACTTAGTGTATTTGGCAA
1 TTCTCCTACCTTAATTTTGTTACGCCTAACCATCATTTACTTTAAAAACTTAATGTATTTGGCAA
10985393 CCTTTTCAATTAATTCAATTAAAGGTAGG-TTAACATTTAATGTTTTAAACAAGTTTAGGAAACT
66 CCTTTTCAATTAATTCAATTAAAGGTAGGTTTAACATTTAATGTTTTAAACAAGTTTAGGAAACT
* * ** * *
10985457 TAGAAATTCATCTTTATCCTGA-TTT-TTTTTATTCTAGTCTTGAAAGGAATGGGATTTTTGGAA
131 TAGAAATTCATCCTCATCCCAATTTTGTTTTTATTCTAGTCTTGAAAGGAATGAGATTTTTGCAA
* ** *
10985520 -TGGTAGAATCTTTAGTTATTTCTTTCTCTACCTCTACTATCGATGTGATTACCTCCTCTAATTC
196 CT-GCAGAATCTTTAGTTATTTCCCTCTCTACCTCTACTATCGATGTGATTACCTCCTCTAATTA
10985584 TGGCTCATTTTCT
260 TGGCTCATTTTCT
10985597 GTTTCTAGGG
Statistics
Matches: 248, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
269 1 0.00
270 104 0.42
271 3 0.01
272 53 0.21
273 87 0.35
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (273 bp):
TTCTCCTACCTTAATTTTGTTACGCCTAACCATCATTTACTTTAAAAACTTAATGTATTTGGCAA
CCTTTTCAATTAATTCAATTAAAGGTAGGTTTAACATTTAATGTTTTAAACAAGTTTAGGAAACT
TAGAAATTCATCCTCATCCCAATTTTGTTTTTATTCTAGTCTTGAAAGGAATGAGATTTTTGCAA
CTGCAGAATCTTTAGTTATTTCCCTCTCTACCTCTACTATCGATGTGATTACCTCCTCTAATTAT
GGCTCATTTTCTC
Found at i:10990088 original size:12 final size:12
Alignment explanation
Indices: 10990071--10990102 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10990061 AACTGAGCCT
10990071 AAAATTACAAAA
1 AAAATTACAAAA
*
10990083 AAAATTACAAAG
1 AAAATTACAAAA
10990095 AAAATTAC
1 AAAATTAC
10990103 GGTTGTTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.19
Consensus pattern (12 bp):
AAAATTACAAAA
Found at i:10996687 original size:19 final size:19
Alignment explanation
Indices: 10996665--10996708 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
10996655 AATTTCTGGA
*
10996665 AATTTTTTATATATTTTT-T
1 AATTTTTT-TAGATTTTTCT
10996684 AATTTTTTTAGATTTTTCT
1 AATTTTTTTAGATTTTTCT
10996703 AATTTT
1 AATTTT
10996709 ACGGATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
AATTTTTTTAGATTTTTCT
Found at i:10996785 original size:26 final size:26
Alignment explanation
Indices: 10996756--10996806 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10996746 AAATATTTCT
*
10996756 AAATATTCT-ATATTTTTCTTATTTTA
1 AAAT-TTCTGATATTTTTCTAATTTTA
*
10996782 AAATTTTTGATATTTTTCTAATTTT
1 AAATTTCTGATATTTTTCTAATTTT
10996807 CTTCTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (26 bp):
AAATTTCTGATATTTTTCTAATTTTA
Found at i:11007803 original size:77 final size:77
Alignment explanation
Indices: 11007676--11007830 Score: 256
Period size: 77 Copynumber: 2.0 Consensus size: 77
11007666 TATGTTACTT
* *
11007676 TTATAACTTATCAAATATCCCCACACTTAAGCATTTGCTTGTCCTCAAGCAACATGCTCAACTCA
1 TTATAACTTATCAAATATCCCCACACTTAAGCATTTGCCTGTCCTCAAGCAACATGCTCAACTAA
11007741 CATTAAAATTAA
66 CATTAAAATTAA
* * * *
11007753 TTATAGCTTATTAATTATCCCCACACTTAAGCGTTTGCCTGTCCTCAAGCAACATGCTCAACTAA
1 TTATAACTTATCAAATATCCCCACACTTAAGCATTTGCCTGTCCTCAAGCAACATGCTCAACTAA
11007818 CATTAAAATTAA
66 CATTAAAATTAA
11007830 T
1 T
11007831 CTTTCACAAC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (77 bp):
TTATAACTTATCAAATATCCCCACACTTAAGCATTTGCCTGTCCTCAAGCAACATGCTCAACTAA
CATTAAAATTAA
Found at i:11010429 original size:18 final size:21
Alignment explanation
Indices: 11010386--11010429 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
11010376 GTAGACTAGG
11010386 TAATAATAATAAAATGTAAAA
1 TAATAATAATAAAATGTAAAA
*
11010407 AAATAA-AAT-AAATG-AAAA
1 TAATAATAATAAAATGTAAAA
11010425 TAATA
1 TAATA
11010430 GCATAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 8 0.38
19 5 0.24
20 3 0.14
21 5 0.24
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
TAATAATAATAAAATGTAAAA
Found at i:11011070 original size:94 final size:94
Alignment explanation
Indices: 11010908--11011120 Score: 250
Period size: 94 Copynumber: 2.3 Consensus size: 94
11010898 AAGGACATGC
* *
11010908 CCGTGTGTCCAGGCCGTGTGGGTCACAAGGACATATCGCCAGGTCGTGTAACCCACTATCAGACC
1 CCGTGTGTCCAGGTCGTGTGGGTCACAAGGACATATCGCCAGGTCGTGTAACCCACTATCAAACC
* *
11010973 CCTTATTGTGTACGCGGCCTAGCACATAC-T
66 CCTTATTGTGCACACGGCCTAGCA-A-ACGT
* * * * * * * * *
11011003 -CGTGTGTCCAGGTCGTGTGGGTCATATGGCCATGTCGTCAGGTTGTGTAACTCACTGTTAAACC
1 CCGTGTGTCCAGGTCGTGTGGGTCACAAGGACATATCGCCAGGTCGTGTAACCCACTATCAAACC
* *
11011067 CCTTATTGTGCACATGGCCTAGGAAACGT
66 CCTTATTGTGCACACGGCCTAGCAAACGT
*
11011096 CCGTGTGTCCAGGTGGTGTGGGTCA
1 CCGTGTGTCCAGGTCGTGTGGGTCA
11011121 AAAAACACAT
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
92 2 0.02
93 2 0.02
94 96 0.96
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.27
Consensus pattern (94 bp):
CCGTGTGTCCAGGTCGTGTGGGTCACAAGGACATATCGCCAGGTCGTGTAACCCACTATCAAACC
CCTTATTGTGCACACGGCCTAGCAAACGT
Found at i:11020827 original size:39 final size:39
Alignment explanation
Indices: 11020769--11020844 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
11020759 GTTTGGGTTA
*
11020769 AAACCTACACGAATGATGAATAATAGTACCTGGTTACTT
1 AAACCTACACGAATAATGAATAATAGTACCTGGTTACTT
* * *
11020808 AAACCTATATGAATAATGAATAATAGTGCCTGGTTAC
1 AAACCTACACGAATAATGAATAATAGTACCTGGTTAC
11020845 CCATTAGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (39 bp):
AAACCTACACGAATAATGAATAATAGTACCTGGTTACTT
Found at i:11030881 original size:50 final size:50
Alignment explanation
Indices: 11030729--11030970 Score: 200
Period size: 50 Copynumber: 4.7 Consensus size: 50
11030719 GGGAATGAGA
* *
11030729 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGC---ATCGA---TATGAGAGG
* * * * *
11030785 TCTCACATAAGACCATGTCTGGGACATGGCATTCGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGAGG
* * **
11030835 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAAA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGAGG
* * * * * * **
11030885 TCCCATGTAAGACCATATTTGGGATATGGCATTGGCA--GTATAGGAAACA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCG-ATATGAGAGG
* * * *
11030934 ACCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
11030971 GTACTGGAAA
Statistics
Matches: 158, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 42 0.27
50 80 0.51
53 3 0.02
56 32 0.20
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGAGG
Found at i:11030950 original size:49 final size:49
Alignment explanation
Indices: 11030886--11031012 Score: 184
Period size: 49 Copynumber: 2.6 Consensus size: 49
11030876 TATGAGAAAT
*
11030886 CCCATGTAAGACCATATTTGGGATATGGCATTGGCAGTA-TAGGAAACAA
1 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACT-GGAAACAA
*
11030935 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACTGGAAACAT
1 CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACTGGAAACAA
* * * *
11030984 CTCATATAAGACCATGTCTGGGACATGGC
1 CCCATGTAAGACCATATCTGGGATATGGC
11031013 TTTAGCATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
49 70 0.99
50 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (49 bp):
CCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACTGGAAACAA
Found at i:11031247 original size:20 final size:20
Alignment explanation
Indices: 11031222--11031260 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11031212 TGAGTTATTT
11031222 AAGTAAGAAAGTAAGTAAAC
1 AAGTAAGAAAGTAAGTAAAC
**
11031242 AAGTAAGAGGGTAAGTAAA
1 AAGTAAGAAAGTAAGTAAA
11031261 GAAGAAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.26, T:0.15
Consensus pattern (20 bp):
AAGTAAGAAAGTAAGTAAAC
Found at i:11044253 original size:25 final size:25
Alignment explanation
Indices: 11044207--11044255 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11044197 CTATTTTTGA
** *
11044207 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATAATGAAACTACTATAGG
*
11044232 TAGTATATAATGAGACTACTATAG
1 TAGTATATAATGAAACTACTATAG
11044256 ATAGACTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATAATGAAACTACTATAGG
Found at i:11053585 original size:35 final size:35
Alignment explanation
Indices: 11053539--11053613 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
11053529 AACTATCTAG
11053539 ACACATAAGCCACCACTTAACCATCTTGCAACAGT
1 ACACATAAGCCACCACTTAACCATCTTGCAACAGT
* *
11053574 ACACATAAGCCACCACTTAACCATCTTGTATCAGT
1 ACACATAAGCCACCACTTAACCATCTTGCAACAGT
11053609 ACACA
1 ACACA
11053614 ACCCAAACCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.37, C:0.33, G:0.08, T:0.21
Consensus pattern (35 bp):
ACACATAAGCCACCACTTAACCATCTTGCAACAGT
Found at i:11061097 original size:27 final size:28
Alignment explanation
Indices: 11061067--11061120 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
11061057 CTAACTAGAA
11061067 TAATGGGTTTATGAACCCTAA-TCTAAT
1 TAATGGGTTTATGAACCCTAACTCTAAT
11061094 TAATGGGTTTATGAACCCTAACTCTAA
1 TAATGGGTTTATGAACCCTAACTCTAA
11061121 GCTTACCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (28 bp):
TAATGGGTTTATGAACCCTAACTCTAAT
Found at i:11061556 original size:16 final size:16
Alignment explanation
Indices: 11061535--11061573 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
11061525 TTGGTTCGCT
*
11061535 GTAATGGAATAGAGGC
1 GTAATGGAATAAAGGC
11061551 GTAATGGAATAAAGGC
1 GTAATGGAATAAAGGC
11061567 GTAATGG
1 GTAATGG
11061574 TATTCTTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAAAGGC
Found at i:11062164 original size:32 final size:32
Alignment explanation
Indices: 11062122--11062186 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
11062112 NNNNNNNNNN
11062122 GTATACGAATATACACATTTAATTAATGAGTT
1 GTATACGAATATACACATTTAATTAATGAGTT
* *
11062154 GTATATGAATATACACATTTAATTAATGCGTT
1 GTATACGAATATACACATTTAATTAATGAGTT
11062186 G
1 G
11062187 CACAAGTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.38
Consensus pattern (32 bp):
GTATACGAATATACACATTTAATTAATGAGTT
Found at i:11064192 original size:13 final size:13
Alignment explanation
Indices: 11064174--11064198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11064164 AACATTCAGC
11064174 CGGTGGGAATAAT
1 CGGTGGGAATAAT
11064187 CGGTGGGAATAA
1 CGGTGGGAATAA
11064199 ACAAATAAAA
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:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:11069299 original size:23 final size:23
Alignment explanation
Indices: 11069273--11069317 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11069263 TCCTACCACT
11069273 TAACAAAAAAAATTTAAAAACTA
1 TAACAAAAAAAATTTAAAAACTA
** *
11069296 TAACTGAAAAAATTTCAAAACT
1 TAACAAAAAAAATTTAAAAACT
11069318 TTAATATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.62, C:0.11, G:0.02, T:0.24
Consensus pattern (23 bp):
TAACAAAAAAAATTTAAAAACTA
Found at i:11080295 original size:93 final size:92
Alignment explanation
Indices: 11080128--11080300 Score: 215
Period size: 93 Copynumber: 1.9 Consensus size: 92
11080118 ATCCACACGG
* * * *
11080128 CCAAAGTCGATTACAAGGTCGTGTGACCCGGACTATACAACATCAGTCTATGGCACGGTCGAGCA
1 CCAAAGTCGATTACAAGGCCGTGTGACCCGGACTACACAACATCAGTCTATGACACGGTAGAGCA
*
11080193 ACACGACCATGTTATTGTGCCACAAGA
66 ACACAACCATGTTATTGTGCCACAAGA
* * * * *
11080220 CCAAAGTCTG-TTACACGGCCGTGTGACCCTGGACTACGCGACATCAGTTTGTGACACGGTTAG-
1 CCAAAGTC-GATTACAAGGCCGTGTGACCC-GGACTACACAACATCAGTCTATGACACGG-TAGA
11080283 GCAACACAACCATGTTAT
63 GCAACACAACCATGTTAT
11080301 AGTATCACAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
92 25 0.37
93 41 0.60
94 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (92 bp):
CCAAAGTCGATTACAAGGCCGTGTGACCCGGACTACACAACATCAGTCTATGACACGGTAGAGCA
ACACAACCATGTTATTGTGCCACAAGA
Found at i:11083366 original size:22 final size:21
Alignment explanation
Indices: 11083320--11083365 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11083310 GGAAAAATAG
*
11083320 AAAAGAAAAAATAAATAATGT
1 AAAAGAAAAAATAAAGAATGT
11083341 AAAAGAAAAAATAAAAGAAT-T
1 AAAAGAAAAAAT-AAAGAATGT
11083362 AAAA
1 AAAA
11083366 AATATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (21 bp):
AAAAGAAAAAATAAAGAATGT
Found at i:11086608 original size:6 final size:6
Alignment explanation
Indices: 11086597--11086623 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11086587 TTCTTTTTTA
11086597 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
11086624 GCTTAATTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:11092990 original size:17 final size:19
Alignment explanation
Indices: 11092968--11093008 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 19
11092958 CACAAAGAAG
11092968 AAATAAATT-ATAAAA-TT
1 AAATAAATTAATAAAAGTT
11092985 AAATAAATTAATAAAAGTT
1 AAATAAATTAATAAAAGTT
11093004 AAATA
1 AAATA
11093009 TTGCATCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 9 0.41
18 6 0.27
19 7 0.32
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATAAATTAATAAAAGTT
Found at i:11095098 original size:21 final size:21
Alignment explanation
Indices: 11095066--11095108 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
11095056 AGCATATCCA
*
11095066 ATCAATTGAATTTGAA-ACAT
1 ATCAATTGAATTTCAATACAT
11095086 ATCAATATGAATTTCAATACAT
1 ATCAAT-TGAATTTCAATACAT
11095108 A
1 A
11095109 ATTCCTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.35
Consensus pattern (21 bp):
ATCAATTGAATTTCAATACAT
Found at i:11095635 original size:45 final size:45
Alignment explanation
Indices: 11095567--11095726 Score: 139
Period size: 45 Copynumber: 3.6 Consensus size: 45
11095557 GTCGTGTTGT
* *
11095567 CATAGTGTCTTTC-GACTACGGTCTTATTCTTTAGATTTGTGATGC
1 CATAGTGTCTTTCAG-CTATGGTCTTACTCTTTAGATTTGTGATGC
** * *
11095612 CATAGTGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATGC
1 CATAGTGTCTTTCAGCTATGGTCTTACTCTTTAGATTTGTGATGC
*** * * *
11095657 CATAACATCTTTTAGCTATGGTCTTACTCGTTTCTGGTATTGTG-T--
1 CATAGTGTCTTTCAGCTATGGTCTTACTC-TTT-AGAT-TTGTGATGC
*
11095702 CATAGTGTCTTTCAACTATGGTCTT
1 CATAGTGTCTTTCAGCTATGGTCTT
11095727 TTCCAGTATA
Statistics
Matches: 90, Mismatches: 21, Indels: 8
0.76 0.18 0.07
Matches are distributed among these distances:
45 82 0.91
46 2 0.02
47 2 0.02
48 4 0.04
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (45 bp):
CATAGTGTCTTTCAGCTATGGTCTTACTCTTTAGATTTGTGATGC
Found at i:11096282 original size:20 final size:20
Alignment explanation
Indices: 11096247--11096284 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11096237 AAATTAAATT
11096247 TATTCATCAATCAAACTTAA
1 TATTCATCAATCAAACTTAA
11096267 TATTCTATCAAT-AAACTT
1 TATTC-ATCAATCAAACTT
11096285 CATAAATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (20 bp):
TATTCATCAATCAAACTTAA
Found at i:11105024 original size:45 final size:45
Alignment explanation
Indices: 11104955--11105137 Score: 237
Period size: 45 Copynumber: 4.1 Consensus size: 45
11104945 ACGTGTACCA
* *
11104955 GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCG
1 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
*
11105000 GGTATCATTGATTATAAAGGTGGTTGCTG-GTGTTGATTCCACCG
1 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
* * * * *
11105044 GGTACCATTGATTATGAAGATGGTTGCTATGTGCTGATTCCACCT
1 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
* * *
11105089 AGTATCATTGACTATAAGGGTGG-TGCTGTGTGCTGA-TCCACCG
1 GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
*
11105132 TGTATC
1 GGTATC
11105138 TGTTATTATT
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
43 11 0.09
44 51 0.43
45 57 0.48
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.35
Consensus pattern (45 bp):
GGTATCATTGATTATAAAGGTGGTTGCTGTGTGCTGATTCCACCG
Found at i:11105111 original size:89 final size:88
Alignment explanation
Indices: 11104955--11105131 Score: 248
Period size: 89 Copynumber: 2.0 Consensus size: 88
11104945 ACGTGTACCA
* * * * *
11104955 GGTACCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCCACCGGGTATCATTGATTATAAAGG
1 GGTACCATTGATTATAAAGATGGTTGCTATGTGCTGATTCCACCGAGTATCATTGACTATAAAGG
*
11105020 TGGTTGCTG-GTGTTGATTCCACCG
66 TGG-TGCTGTGTGCTGA-TCCACCG
* * *
11105044 GGTACCATTGATTATGAAGATGGTTGCTATGTGCTGATTCCACCTAGTATCATTGACTATAAGGG
1 GGTACCATTGATTATAAAGATGGTTGCTATGTGCTGATTCCACCGAGTATCATTGACTATAAAGG
11105109 TGGTGCTGTGTGCTGATCCACCG
66 TGGTGCTGTGTGCTGATCCACCG
11105132 TGTATCTGTT
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
88 12 0.15
89 66 0.85
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (88 bp):
GGTACCATTGATTATAAAGATGGTTGCTATGTGCTGATTCCACCGAGTATCATTGACTATAAAGG
TGGTGCTGTGTGCTGATCCACCG
Found at i:11109788 original size:370 final size:368
Alignment explanation
Indices: 11109068--11109806 Score: 1343
Period size: 370 Copynumber: 2.0 Consensus size: 368
11109058 ATAAATTTAG
11109068 AAGTAGTCTAACCCACAACTTCATTTAGGAACATTCATGACTTGCACACTTAATTTGGATTATCA
1 AAGTAGTCTAACCCACAACTTCATTTAGGAACATTCATGACTTGCACACTTAATTTGGATTATCA
11109133 ATGGAATCAATTGCACCAGATAACTGGTGAGACCTTTTTTGTTTTAACTTTTTTCAACTGTAATA
66 ATGGAATCAATTGCACCAGATAACTGGTGAGACCTTTTTTGTTTTAACTTTTTTCAACTGTAATA
* * *
11109198 TCATTAAATAAATAAATAAGGTTAAAAAATAGTTCTTCCTTTTAAAATAATAGAATATGGTTTCT
131 TCAATAAATAAATAAATAAGGTTAAAAAACACTTCTTCCTTTTAAAATAATAGAATATGGTTTCT
* * *
11109263 TGGGATTCAACCCAAGTGTGTGTTAATTTTACAAAAATGAGTTTATTTTCCTGTGTTTATTTTTG
196 TGGGATTCAACCCAAGCGTGTGTTAATTTTACAAAAATAAGTTTATTTTCCTATGTTTATTTTTG
*
11109328 CAGAAAATAGCTTGGTTAATGACAAATGACTTAGTCCCAATTTTGAAAAAGAGCTTTTCCACCGT
261 CAGAAAATAGCTTGATTAATGACAAATGACTTAGTCCCAATTTTGAAAAAGAGCTTTTCCACCGT
11109393 ATAACTAGAACGACAAAAATGTGCAAGTGTACACAATCGCAAC
326 ATAACTAGAACGACAAAAATGTGCAAGTGTACACAATCGCAAC
*
11109436 AAGTAGTCTAACCCACAACTTCATTTAGGAACATTCATGGCTTGCACACTTAATTTGGATTATCA
1 AAGTAGTCTAACCCACAACTTCATTTAGGAACATTCATGACTTGCACACTTAATTTGGATTATCA
11109501 ATGGAATCAATTGCACCAGATAACTGGTGAGACCTTTTTTGTTTTAACTTTTTTCAACTGTAATA
66 ATGGAATCAATTGCACCAGATAACTGGTGAGACCTTTTTTGTTTTAACTTTTTTCAACTGTAATA
11109566 TCAATAAATAAATAAATAAGGTTAAAAAAACACTTCTTTCCTTTTAAAATAATAGAATATGGTTT
131 TCAATAAATAAATAAATAAGGTT-AAAAAACACTTC-TTCCTTTTAAAATAATAGAATATGGTTT
* *
11109631 CTTGGGATTCAACCCAAGCGTGTGTTAATTTTACGAAAATAAGTTTATTTTCCTATGTTTCTTTT
194 CTTGGGATTCAACCCAAGCGTGTGTTAATTTTACAAAAATAAGTTTATTTTCCTATGTTTATTTT
* *
11109696 TGGAGAACATAGCTTGATTAATGACAAATGACTTAGTCCCAATTTTGAAAAAGAGCTTTTCCACC
259 TGCAGAAAATAGCTTGATTAATGACAAATGACTTAGTCCCAATTTTGAAAAAGAGCTTTTCCACC
*
11109761 GTATAACTAGAACGACGAAAATGTGCAAGTGTACACAATCGCAAC
324 GTATAACTAGAACGACAAAAATGTGCAAGTGTACACAATCGCAAC
11109806 A
1 A
11109807 TGTAATAAAG
Statistics
Matches: 356, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
368 151 0.42
369 10 0.03
370 195 0.55
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (368 bp):
AAGTAGTCTAACCCACAACTTCATTTAGGAACATTCATGACTTGCACACTTAATTTGGATTATCA
ATGGAATCAATTGCACCAGATAACTGGTGAGACCTTTTTTGTTTTAACTTTTTTCAACTGTAATA
TCAATAAATAAATAAATAAGGTTAAAAAACACTTCTTCCTTTTAAAATAATAGAATATGGTTTCT
TGGGATTCAACCCAAGCGTGTGTTAATTTTACAAAAATAAGTTTATTTTCCTATGTTTATTTTTG
CAGAAAATAGCTTGATTAATGACAAATGACTTAGTCCCAATTTTGAAAAAGAGCTTTTCCACCGT
ATAACTAGAACGACAAAAATGTGCAAGTGTACACAATCGCAAC
Found at i:11113016 original size:26 final size:27
Alignment explanation
Indices: 11112986--11113051 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
11112976 TGATAAAAAT
11112986 TAATATATAAA-TTAT-AAATAATATAA
1 TAATATATAAAGTTATCAAATAAT-TAA
*
11113012 TAATATATTAAAGTTTATCAAATTATTAA
1 TAATATA-TAAAG-TTATCAAATAATTAA
11113041 TAATAT-TAAAG
1 TAATATATAAAG
11113052 ATATTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
26 7 0.20
27 9 0.26
29 13 0.37
30 6 0.17
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (27 bp):
TAATATATAAAGTTATCAAATAATTAA
Found at i:11119817 original size:18 final size:16
Alignment explanation
Indices: 11119788--11119821 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
11119778 TATTTTTAAC
11119788 ATAATTTTATTATTTT
1 ATAATTTTATTATTTT
11119804 ATAATATTTAATTATTTT
1 ATAAT-TTT-ATTATTTT
11119822 TCCGAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATAATTTTATTATTTT
Found at i:11122901 original size:30 final size:29
Alignment explanation
Indices: 11122837--11122902 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
11122827 TTCAAGAGCT
* *
11122837 ACACGGGCTGGACACACAGCGTGTGAGCC
1 ACACGGGCTGGACACACAGCATGTAAGCC
* *
11122866 ACACGGGCTGGACACACAATCATGTAAGGC
1 ACACGGGCTGGACACAC-AGCATGTAAGCC
11122896 ACACGGG
1 ACACGGG
11122903 ATGCCGCACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.29, C:0.29, G:0.32, T:0.11
Consensus pattern (29 bp):
ACACGGGCTGGACACACAGCATGTAAGCC
Found at i:11123807 original size:20 final size:20
Alignment explanation
Indices: 11123769--11123809 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11123759 AATTTTTTTG
*
11123769 AATCTTGCCAAATTATTGAT
1 AATCTTGCCAAAATATTGAT
* *
11123789 AATCTTTCCAAAATCTTGAT
1 AATCTTGCCAAAATATTGAT
11123809 A
1 A
11123810 CCAACCATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (20 bp):
AATCTTGCCAAAATATTGAT
Found at i:11127340 original size:50 final size:50
Alignment explanation
Indices: 11127265--11127364 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
11127255 CTCTTTATGA
11127265 AGGTTGAAGTGGCTCAAAAATAATTGGTTGATCAATAATTTGAAGTCCTT
1 AGGTTGAAGTGGCTCAAAAATAATTGGTTGATCAATAATTTGAAGTCCTT
11127315 AGGTTGAAGTGGCTCAAAAATAATTGGTTGATCAATAATTTGAAGTCCTT
1 AGGTTGAAGTGGCTCAAAAATAATTGGTTGATCAATAATTTGAAGTCCTT
11127365 CACCTTTTGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (50 bp):
AGGTTGAAGTGGCTCAAAAATAATTGGTTGATCAATAATTTGAAGTCCTT
Found at i:11130925 original size:24 final size:24
Alignment explanation
Indices: 11130898--11130949 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11130888 TTAGTAGGTC
*
11130898 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11130922 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11130946 AAAT
1 AAAT
11130950 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11132732 original size:24 final size:24
Alignment explanation
Indices: 11132705--11132756 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11132695 TTAGTAAGTC
*
11132705 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11132729 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11132753 AAAT
1 AAAT
11132757 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11136154 original size:21 final size:21
Alignment explanation
Indices: 11136130--11136176 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11136120 GTGTCGTGAT
*
11136130 ACTGAGTATCGGTGTCATGGC
1 ACTGAGGATCGGTGTCATGGC
* *
11136151 ACTGAGGATGGGTGTTATGGC
1 ACTGAGGATCGGTGTCATGGC
11136172 ACTGA
1 ACTGA
11136177 ACTTTGAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.15, G:0.36, T:0.28
Consensus pattern (21 bp):
ACTGAGGATCGGTGTCATGGC
Found at i:11142719 original size:2 final size:2
Alignment explanation
Indices: 11142712--11142742 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11142702 CTAAATATGA
11142712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11142743 GCAATGTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11144484 original size:16 final size:16
Alignment explanation
Indices: 11144458--11144504 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
11144448 ACCTAAACTA
11144458 AAAATGGAAAGAAAAAG
1 AAAA-GGAAAGAAAAAG
* *
11144475 AAAAGGAAAGGAAAGG
1 AAAAGGAAAGAAAAAG
11144491 AAAAGAGAAAGAAA
1 AAAAG-GAAAGAAA
11144505 GCCTAACCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (16 bp):
AAAAGGAAAGAAAAAG
Found at i:11144489 original size:21 final size:21
Alignment explanation
Indices: 11144463--11144505 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
11144453 AACTAAAAAT
11144463 GGAAAGAAAAAGA-AAAGGAAA
1 GGAAAGAAAAAGAGAAA-GAAA
*
11144484 GGAAAGGAAAAGAGAAAGAAA
1 GGAAAGAAAAAGAGAAAGAAA
11144505 G
1 G
11144506 CCTAACCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (21 bp):
GGAAAGAAAAAGAGAAAGAAA
Found at i:11145351 original size:27 final size:27
Alignment explanation
Indices: 11145314--11145440 Score: 123
Period size: 27 Copynumber: 4.7 Consensus size: 27
11145304 CTGAAATGCT
* *
11145314 CCAAAGAGCCACTATCACTGAATTGCA
1 CCAAAGTGCCACTATCACTGAGTTGCA
* * *
11145341 CCGAAGTGCCACTATAACTTAGTTGCA
1 CCAAAGTGCCACTATCACTGAGTTGCA
** * *
11145368 CCTTAGTGTCATTATCACT-ATGTTGCA
1 CCAAAGTGCCACTATCACTGA-GTTGCA
11145395 -CAGAAGTGCCACTATCACTGAGTTGCA
1 CCA-AAGTGCCACTATCACTGAGTTGCA
* *
11145422 CTAAAGTGCCAGTATCACT
1 CCAAAGTGCCACTATCACT
11145441 ATGAGCACTG
Statistics
Matches: 80, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.03
27 76 0.95
28 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (27 bp):
CCAAAGTGCCACTATCACTGAGTTGCA
Done.