Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 56 of 325
Found at i:16966186 original size:17 final size:17
Alignment explanation
Indices: 16966150--16966200 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
16966140 ACTTTCAAGC
16966150 TTGGTGAGCTCGCA-TAT
1 TTGGTGAGCTCGCAGT-T
16966167 TTGGTGAGCTCGCAGTT
1 TTGGTGAGCTCGCAGTT
* *
16966184 TTGATGACCTCGCAGTT
1 TTGGTGAGCTCGCAGTT
16966201 CGCACTATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 30 0.97
18 1 0.03
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (17 bp):
TTGGTGAGCTCGCAGTT
Found at i:16966667 original size:20 final size:20
Alignment explanation
Indices: 16966639--16966679 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16966629 ATTTTGTTAA
16966639 CTAAACCATTTGAATTAAAT
1 CTAAACCATTTGAATTAAAT
* *
16966659 CTAAGCCATTTTAATTAAAT
1 CTAAACCATTTGAATTAAAT
16966679 C
1 C
16966680 AAGAACAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (20 bp):
CTAAACCATTTGAATTAAAT
Found at i:16972555 original size:18 final size:18
Alignment explanation
Indices: 16972534--16972604 Score: 79
Period size: 18 Copynumber: 3.9 Consensus size: 18
16972524 AAACAATTAT
*
16972534 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAG
* *
16972552 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAG
* *
16972570 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAG
* *
16972588 TTACTCAGTATCAATCA
1 TTATTCAGTAACAATCA
16972605 ATTGATCGTT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAG
Found at i:16972574 original size:36 final size:36
Alignment explanation
Indices: 16972525--16972607 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
16972515 AATGAATCAA
* * * * * *
16972525 AACAATTATTTATTCAGTAACAGTCAGTTATTCGGT
1 AACAATCAATTATTCAATAACAATCAGTTACTCAGT
*
16972561 AACAATCAATTATTCAATAATAATCAGTTACTCAGT
1 AACAATCAATTATTCAATAACAATCAGTTACTCAGT
*
16972597 ATCAATCAATT
1 AACAATCAATT
16972608 GATCGTTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (36 bp):
AACAATCAATTATTCAATAACAATCAGTTACTCAGT
Found at i:16972922 original size:53 final size:53
Alignment explanation
Indices: 16972803--16972923 Score: 147
Period size: 53 Copynumber: 2.3 Consensus size: 53
16972793 CTGGAACAGT
* **
16972803 AACAGTAACAGTAGCAGTACGGTACACAAAGTACCTCATCAGAACAAATTTAG
1 AACAGTAACAGTAACAGTACGGTACACAAAGTACCTCATCAGAACAAATCGAG
* * * *
16972856 AACGGTAATAGTAACAGTACGGTACACAGATTACCTCATC-GAAACAAATCCGA-
1 AACAGTAACAGTAACAGTACGGTACACAAAGTACCTCATCAG-AACAAAT-CGAG
16972909 AACAGTAACAGTAAC
1 AACAGTAACAGTAAC
16972924 GGTAACAGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
52 1 0.02
53 55 0.96
54 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAAAGTACCTCATCAGAACAAATCGAG
Found at i:16974045 original size:16 final size:17
Alignment explanation
Indices: 16974014--16974051 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
16974004 TCCCTATTTC
16974014 TCCTT-TTTCATTTCTT
1 TCCTTCTTTCATTTCTT
*
16974030 TTCTTCTTTC-TTTCTT
1 TCCTTCTTTCATTTCTT
16974046 TCCTTC
1 TCCTTC
16974052 CCCTGCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (17 bp):
TCCTTCTTTCATTTCTT
Found at i:16982499 original size:28 final size:28
Alignment explanation
Indices: 16982459--16982515 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
16982449 TTCAAAATCA
16982459 TGTAAATCAAATAATTCATTAATAGTGT
1 TGTAAATCAAATAATTCATTAATAGTGT
16982487 TGTAAATCAAATAATTCATTAATAGTGT
1 TGTAAATCAAATAATTCATTAATAGTGT
16982515 T
1 T
16982516 TGAACTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (28 bp):
TGTAAATCAAATAATTCATTAATAGTGT
Found at i:16987204 original size:26 final size:21
Alignment explanation
Indices: 16987155--16987196 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16987145 CTTCATATTG
16987155 AATTTGATAAACTGGATGGGT
1 AATTTGATAAACTGGATGGGT
16987176 AATTTGATAAACTGGATGGGT
1 AATTTGATAAACTGGATGGGT
16987197 TATCTAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (21 bp):
AATTTGATAAACTGGATGGGT
Found at i:17001683 original size:24 final size:24
Alignment explanation
Indices: 17001651--17001708 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
17001641 TTCTCGTTAC
*
17001651 ATGGCTCTTTGTGAGCTTCCCGAT
1 ATGGCTCTTTGTGAACTTCCCGAT
* *
17001675 ATGGTTCTTTGTGAACTTCTCGATT
1 ATGGCTCTTTGTGAACTTCCCGA-T
*
17001700 ATAGCTCTT
1 ATGGCTCTT
17001709 ATGAGCTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 20 0.71
25 8 0.29
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.43
Consensus pattern (24 bp):
ATGGCTCTTTGTGAACTTCCCGAT
Found at i:17003112 original size:126 final size:126
Alignment explanation
Indices: 17002884--17003144 Score: 468
Period size: 126 Copynumber: 2.1 Consensus size: 126
17002874 CATGTGTCTT
* *
17002884 GGCCGTGTGAAACTTGCACCTAATTTGAGAAAATTAAATTAACCACACGGCCTAGAACATGGGTG
1 GGCCGTGTGAAACTTGCACCTAATTTGAGAAAATTAAATTAACCACACAGCCTAGAACATGGGCG
* *
17002949 TGTGTCAGATCGTGTGGCACAAGTCAAAGAGTTACACGGGTAAGGACACGAGTTGGGACAC
66 TGTGCCAGACCGTGTGGCACAAGTCAAAGAGTTACACGGGTAAGGACACGAGTTGGGACAC
* *
17003010 GGTCGTGTGAAACTTGCACCTAATTTGTGAAAATTAAATTAACCACACAGCCTAGAACATGGGCG
1 GGCCGTGTGAAACTTGCACCTAATTTGAGAAAATTAAATTAACCACACAGCCTAGAACATGGGCG
17003075 TGTGCCAGACCGTGTGGCACAAGTCAAAGAGTTACACGGGTAAGGACACGAGTTGGGACAC
66 TGTGCCAGACCGTGTGGCACAAGTCAAAGAGTTACACGGGTAAGGACACGAGTTGGGACAC
17003136 GGCCGTGTG
1 GGCCGTGTG
17003145 CCTCACATCG
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 128 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (126 bp):
GGCCGTGTGAAACTTGCACCTAATTTGAGAAAATTAAATTAACCACACAGCCTAGAACATGGGCG
TGTGCCAGACCGTGTGGCACAAGTCAAAGAGTTACACGGGTAAGGACACGAGTTGGGACAC
Found at i:17004132 original size:17 final size:17
Alignment explanation
Indices: 17004112--17004144 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17004102 CTGAACTTAA
17004112 AGATAATTTGAAAATTT
1 AGATAATTTGAAAATTT
17004129 AGATAATTTGAAAATT
1 AGATAATTTGAAAATT
17004145 GGGCTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
AGATAATTTGAAAATTT
Found at i:17016144 original size:17 final size:17
Alignment explanation
Indices: 17016105--17016147 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
17016095 CTATGATTGT
**
17016105 ATTGA-ATTTGATGTTA
1 ATTGACATTTGATGGAA
*
17016121 ATGGACATTTGATGGAA
1 ATTGACATTTGATGGAA
17016138 ATTGACATTT
1 ATTGACATTT
17016148 TAAATGGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
ATTGACATTTGATGGAA
Found at i:17026418 original size:21 final size:21
Alignment explanation
Indices: 17026393--17026447 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17026383 CTTATAAATT
17026393 TTTATTATATATACATTTTAC
1 TTTATTATATATACATTTTAC
**
17026414 TTTA-TATATTATTTATTTTAC
1 TTTATTATA-TATACATTTTAC
*
17026435 TATATTTATATAT
1 TTTA-TTATATAT
17026448 GTAAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 17 0.61
22 3 0.11
23 4 0.14
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTATATATACATTTTAC
Found at i:17026442 original size:25 final size:25
Alignment explanation
Indices: 17026414--17026486 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 25
17026404 TACATTTTAC
17026414 TTTATATATTATTTATT-TTACTATA
1 TTTATATATTATTTATTATTA-TATA
*
17026439 TTTATATATGTAAATTATTATTATATA
1 TTTATATAT-T-ATTTATTATTATATA
17026466 -TTATTATATTATTT-TTATTAT
1 TTTA-TATATTATTTATTATTAT
17026487 TAACTATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 7 0.17
25 12 0.29
26 5 0.12
27 15 0.36
28 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (25 bp):
TTTATATATTATTTATTATTATATA
Found at i:17026500 original size:17 final size:18
Alignment explanation
Indices: 17026459--17026500 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
17026449 TAAATTATTA
*
17026459 TTATATATTATTATATTAT
1 TTAT-TATTATTATACTAT
17026478 TT-TTATTATTA-ACTAT
1 TTATTATTATTATACTAT
17026494 TTATTAT
1 TTATTAT
17026501 GTATAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.29
17 12 0.57
18 1 0.05
19 2 0.10
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTATTATTATACTAT
Found at i:17034904 original size:16 final size:17
Alignment explanation
Indices: 17034866--17034904 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
17034856 TTTTTATTAA
17034866 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
17034883 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
17034900 GTTTT
1 GTTTT
17034905 CCTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (17 bp):
GTTTTTAAGATTCATTT
Found at i:17036712 original size:13 final size:13
Alignment explanation
Indices: 17036694--17036720 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17036684 AAAGTAATCG
17036694 CACACGGGCGTGT
1 CACACGGGCGTGT
17036707 CACACGGGCGTGT
1 CACACGGGCGTGT
17036720 C
1 C
17036721 CCTGATTCGA
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:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:17054170 original size:24 final size:24
Alignment explanation
Indices: 17054138--17054261 Score: 158
Period size: 24 Copynumber: 5.0 Consensus size: 24
17054128 GACATTGTGC
*
17054138 TAAGTGAAATAAGACCATGGCATT
1 TAAGTGAAATAAGTCCATGGCATT
*
17054162 TAAGTGAAATAAGACCATGGCATT
1 TAAGTGAAATAAGTCCATGGCATT
*
17054186 TAAGTAAAATAAGTCCATGGCAATGT
1 TAAGTGAAATAAGTCCATGGC-AT-T
* *
17054212 GCTAAGTGAAATAAGTCCATGTCATC
1 --TAAGTGAAATAAGTCCATGGCATT
*
17054238 TAAGTCAAATAAGTCCATGGCATT
1 TAAGTGAAATAAGTCCATGGCATT
17054262 GTGCTAAGTG
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
24 64 0.73
25 2 0.02
26 1 0.01
27 2 0.02
28 19 0.22
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (24 bp):
TAAGTGAAATAAGTCCATGGCATT
Found at i:17054242 original size:52 final size:52
Alignment explanation
Indices: 17054137--17054272 Score: 181
Period size: 52 Copynumber: 2.7 Consensus size: 52
17054127 TGACATTGTG
* *
17054137 CTAAGTGAAATAAGACCATGGC-AT-T--TAAGTGAAATAAGACCATGGCAT
1 CTAAGTAAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGACCATGGCAT
* * *
17054185 TTAAGTAAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGTCCATGTCAT
1 CTAAGTAAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGACCATGGCAT
* *
17054237 CTAAGTCAAATAAGTCCATGGCATTGTGCTAAGTGA
1 CTAAGTAAAATAAGTCCATGGCAATGTGCTAAGTGA
17054273 GAAATTTCCC
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 19 0.25
49 2 0.03
50 1 0.01
52 54 0.71
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (52 bp):
CTAAGTAAAATAAGTCCATGGCAATGTGCTAAGTGAAATAAGACCATGGCAT
Found at i:17054351 original size:51 final size:51
Alignment explanation
Indices: 17054296--17054545 Score: 385
Period size: 51 Copynumber: 4.9 Consensus size: 51
17054286 TGAACCATAG
*
17054296 GAATAAAATAGATTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
17054347 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCCCTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
17054398 GAATTAAATAGCTTCGGACACAAGTGTGGTACTATGTGAAGGCCCCTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * *
17054449 GAATTAAATAGCTTCGGACACAATTGTGGTACTAGGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
*
17054500 GAATAAAATAGCTTTGG-CTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
17054546 CGTGTATCTG
Statistics
Matches: 184, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 1 0.01
51 183 0.99
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:17055035 original size:17 final size:17
Alignment explanation
Indices: 17055013--17055046 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17055003 ACAGAGTCAG
17055013 AATGATTTTGGAATCTT
1 AATGATTTTGGAATCTT
17055030 AATGATTTTGGAATCTT
1 AATGATTTTGGAATCTT
17055047 CTGTTCTGAT
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:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (17 bp):
AATGATTTTGGAATCTT
Found at i:17057100 original size:27 final size:26
Alignment explanation
Indices: 17057065--17057176 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
17057055 AGAATGGCTG
* *
17057065 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
17057091 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
17057119 CCAGAACAAATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
17057146 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
17057173 CCAG
1 CCAG
17057177 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17057156 original size:54 final size:54
Alignment explanation
Indices: 17057065--17057176 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
17057055 AGAATGGCTG
* *
17057065 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAAATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
** * *
17057119 CCAGAACAAATATATGTGGTAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAAATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
17057173 CCAG
1 CCAG
17057177 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAAATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:17057344 original size:28 final size:26
Alignment explanation
Indices: 17057282--17057344 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
17057272 AGAGTAACCC
** * *
17057282 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
17057308 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
17057336 TAGGGGTAT
1 TAGGGGTAT
17057345 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:17057618 original size:16 final size:16
Alignment explanation
Indices: 17057597--17057627 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17057587 AATACTGGCT
17057597 TTTCGGCATTTCGACA
1 TTTCGGCATTTCGACA
*
17057613 TTTCGGCTTTTCGAC
1 TTTCGGCATTTCGAC
17057628 TCTTGCCGAT
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:0.13, C:0.26, G:0.19, T:0.42
Consensus pattern (16 bp):
TTTCGGCATTTCGACA
Found at i:17064986 original size:27 final size:26
Alignment explanation
Indices: 17064948--17065059 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
17064938 CAGCATGGCT
* *
17064948 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
17064974 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
*
17065002 ACCAGAGCAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* * *
17065029 ACTAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGATAA-TGTGGCAGAGCC
17065056 ACCA
1 ACCA
17065060 AGACGCTTCC
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.09
27 51 0.68
28 17 0.23
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:17065040 original size:54 final size:54
Alignment explanation
Indices: 17064948--17065059 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
17064938 CAGCATGGCT
*
17064948 ACCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
* * * * *
17065002 ACCAGAGCAGATATATGTGGCAGAGCCACTAGAT-CAGATAATTGTGGCATAGCC
1 ACCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
17065056 ACCA
1 ACCA
17065060 AGACGCTTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
ACCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCC
Found at i:17072546 original size:75 final size:75
Alignment explanation
Indices: 17072423--17072573 Score: 212
Period size: 75 Copynumber: 2.0 Consensus size: 75
17072413 TGCATAGCCA
* * * *
17072423 TACCCTCATCGACCATACGGCCGTGTTTTCACACATGGCCTACCACACGCCCATGTGGCATTAAC
1 TACCCTCATCGACCATACGACCGTGTTTTCACACACGGCCTACAACACGCCCATGTGGCATCAAC
17072488 AGAACTATCT
66 AGAACTATCT
*** * * *
17072498 TACCCTCATCGACCATACGACCGTGTTTTTGTACACGGCCTACAACACGCTCGTGTGGCGTCAAC
1 TACCCTCATCGACCATACGACCGTGTTTTCACACACGGCCTACAACACGCCCATGTGGCATCAAC
17072563 AGAACTATCT
66 AGAACTATCT
17072573 T
1 T
17072574 TCAACTTTTA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (75 bp):
TACCCTCATCGACCATACGACCGTGTTTTCACACACGGCCTACAACACGCCCATGTGGCATCAAC
AGAACTATCT
Found at i:17075274 original size:20 final size:20
Alignment explanation
Indices: 17075232--17075281 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
17075222 CATGGATGTA
* *
17075232 TATGATAGAAATTAGAAATT
1 TATGATAGAAAATAGAAAAT
17075252 TATGATAGAAAAT-GAAAGAT
1 TATGATAGAAAATAGAAA-AT
17075272 TATTGATAGA
1 TA-TGATAGA
17075282 TAAACAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 15 0.58
21 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (20 bp):
TATGATAGAAAATAGAAAAT
Found at i:17087355 original size:20 final size:20
Alignment explanation
Indices: 17087306--17087356 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
17087296 AATTGTCCTT
17087306 TTGA-TTTTTTTTATTTCAA
1 TTGAGTTTTTTTTATTTCAA
* *
17087325 TTGAGTATTTTTTATTTCAG
1 TTGAGTTTTTTTTATTTCAA
*
17087345 TTTA-TTTTTTTT
1 TTGAGTTTTTTTT
17087357 CTCTTGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.18, C:0.04, G:0.08, T:0.71
Consensus pattern (20 bp):
TTGAGTTTTTTTTATTTCAA
Found at i:17088245 original size:29 final size:29
Alignment explanation
Indices: 17088189--17088246 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
17088179 TATTATTTAT
*
17088189 TTTAAAATCTTTTATATATAATTTATTTC
1 TTTAAAATCTTTTATATATAATTGATTTC
* * **
17088218 TTTAAATTGTTTTATATATTGTTGATTTC
1 TTTAAAATCTTTTATATATAATTGATTTC
17088247 AAATTTCTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (29 bp):
TTTAAAATCTTTTATATATAATTGATTTC
Found at i:17088322 original size:16 final size:17
Alignment explanation
Indices: 17088286--17088324 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
17088276 TAACATTGTT
*
17088286 TATTTTTTATATTTATTA
1 TATTTTTTAAATTTA-TA
17088304 TATTTTTTAAATTTA-A
1 TATTTTTTAAATTTATA
17088320 TATTT
1 TATTT
17088325 GTATTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTTTAAATTTATA
Found at i:17098539 original size:40 final size:40
Alignment explanation
Indices: 17098490--17098622 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 40
17098480 TCAATCTCCC
17098490 ACACTAAGTGCCATATATAGCCGAAGCTATTCCGATTCGT
1 ACACTAAGTGCCATATATAGCCGAAGCTATTCCGATTCGT
** * * *
17098530 ACACTAAGTGCTTTATATAGCCGAAGCGATACCGATTTGT
1 ACACTAAGTGCCATATATAGCCGAAGCTATTCCGATTCGT
** * * *
17098570 ACACTAAGTGCTTTATATAGTCGAAGCTA-TCTCGATACGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATTC-CGATTCGT
17098610 ACACTAAGTGCCA
1 ACACTAAGTGCCA
17098623 AACATAATCG
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 78 0.99
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATTCCGATTCGT
Found at i:17099566 original size:19 final size:19
Alignment explanation
Indices: 17099542--17099580 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
17099532 TATGCGAGGG
*
17099542 ATCAGATCTATATCGTCGA
1 ATCAGATCTATATCATCGA
*
17099561 ATCAGATCTGTATCATCGA
1 ATCAGATCTATATCATCGA
17099580 A
1 A
17099581 GCATCGATAC
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:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (19 bp):
ATCAGATCTATATCATCGA
Found at i:17103458 original size:43 final size:41
Alignment explanation
Indices: 17103381--17103477 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 41
17103371 TCCTAGATAG
* *
17103381 GGTCTTACACAAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACAAATCAAATACGATGCCAACGTCCCAGACAT
* * *
17103422 GGTCTTACACGTAATCATAGAT-CGATGCCAACGTCCCATACGT
1 GGTCTTACAC-AAATCA-A-ATACGATGCCAACGTCCCAGACAT
*
17103465 GATCTTACACAAA
1 GGTCTTACACAAA
17103478 AAAATAGGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 10 0.22
42 7 0.15
43 27 0.59
44 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (41 bp):
GGTCTTACACAAATCAAATACGATGCCAACGTCCCAGACAT
Found at i:17109947 original size:21 final size:20
Alignment explanation
Indices: 17109923--17109961 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17109913 GATGTCATTC
17109923 AAATATACACATTTTTACTCT
1 AAATATA-ACATTTTTACTCT
* *
17109944 AAATGTAACCTTTTTACT
1 AAATATAACATTTTTACT
17109962 TTGTAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.44
Consensus pattern (20 bp):
AAATATAACATTTTTACTCT
Found at i:17110706 original size:31 final size:31
Alignment explanation
Indices: 17110668--17110732 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
17110658 CACTTATCAT
17110668 ATTAGCCATGTAACGCCCCAAATTTCCGGGA
1 ATTAGCCATGTAACGCCCCAAATTTCCGGGA
17110699 ATTAGCCATGTAACGCCCCAAATTTCCGGGA
1 ATTAGCCATGTAACGCCCCAAATTTCCGGGA
17110730 ATT
1 ATT
17110733 CTGTAAAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (31 bp):
ATTAGCCATGTAACGCCCCAAATTTCCGGGA
Found at i:17112427 original size:28 final size:28
Alignment explanation
Indices: 17112395--17112455 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
17112385 ACTAGAATAT
* *
17112395 CCCTATGTATGCAAAATTACCATTATAC
1 CCCTATGTATCCAAAATGACCATTATAC
* *
17112423 CCCTATGTGTCCAAAATGACCTTTATAC
1 CCCTATGTATCCAAAATGACCATTATAC
17112451 CCCTA
1 CCCTA
17112456 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (28 bp):
CCCTATGTATCCAAAATGACCATTATAC
Found at i:17112592 original size:28 final size:27
Alignment explanation
Indices: 17112561--17112650 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 27
17112551 AGGAAGCGTC
**
17112561 CTGGTGGTTATGCCACAAATTATCTGTT
1 CTGGTGGCCATGCCACAAA-TATCTGTT
* **
17112589 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCCATGCCACAAATATCTGTT
* *
17112616 CTGGTGG-CACTGCAACAAAATATCTATAT
1 CTGGTGGCCA-TGCCAC-AAATATCTGT-T
17112645 CTGGTG
1 CTGGTG
17112651 ACTCTGTCAC
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
26 1 0.02
27 20 0.41
28 21 0.43
29 7 0.14
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCCATGCCACAAATATCTGTT
Found at i:17113138 original size:19 final size:19
Alignment explanation
Indices: 17113114--17113152 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17113104 TTTTAATTAT
* *
17113114 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
17113133 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
17113152 T
1 T
17113153 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:17120238 original size:28 final size:28
Alignment explanation
Indices: 17120206--17120270 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
17120196 ATTTACTAGA
*
17120206 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
17120234 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
17120262 ATACCCCTA
1 ATACCCCTA
17120271 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:17120434 original size:27 final size:28
Alignment explanation
Indices: 17120376--17120465 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
17120366 AGGAAGCGTC
*
17120376 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
17120404 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
17120431 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
17120460 CTGGTG
1 CTGGTG
17120466 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:17120476 original size:29 final size:28
Alignment explanation
Indices: 17120386--17120476 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
17120376 CTGGTGGCTA
* * *
17120386 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
17120414 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
17120441 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
17120470 TGTCACA
1 TGCCACA
17120477 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:17120484 original size:55 final size:56
Alignment explanation
Indices: 17120376--17120490 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
17120366 AGGAAGCGTC
* * *
17120376 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
17120431 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
17120487 CTGG
1 CTGG
17120491 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:17120951 original size:19 final size:19
Alignment explanation
Indices: 17120927--17120965 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17120917 TTTTAATTAT
* *
17120927 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
17120946 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
17120965 T
1 T
17120966 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:17123121 original size:53 final size:51
Alignment explanation
Indices: 17123011--17123204 Score: 200
Period size: 52 Copynumber: 3.8 Consensus size: 51
17123001 ACACACTAAA
* * * * *
17123011 GCCATAGCCCCGCAATGGTCTTATACGGATCACATAT--CAT-A-TC-GAT
1 GCCATAACCCAGCTATGGTCTTATACGGAACACATATCACATCACACAGAT
* *
17123057 GCCATATCCCAGATATGGTCTTATACGGAATCACATTATCACATCACACAGAT
1 GCCATAACCCAGCTATGGTCTTATACGGAA-CACA-TATCACATCACACAGAT
* * * ** *
17123110 GCCATAGCCCAGCTATGGTCTTATAGGGGAACACGTATCACATTGCACCGAT
1 GCCATAACCCAGCTATGGTCTTATA-CGGAACACATATCACATCACACAGAT
17123162 GCCATAACCCAGCTATGGTCTTATACGGAAGCACATATCACAT
1 GCCATAACCCAGCTATGGTCTTATACGGAA-CACATATCACAT
17123205 ATTTTCCATC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
46 25 0.20
47 4 0.03
48 3 0.02
50 3 0.02
51 5 0.04
52 50 0.41
53 29 0.24
54 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (51 bp):
GCCATAACCCAGCTATGGTCTTATACGGAACACATATCACATCACACAGAT
Found at i:17123577 original size:20 final size:22
Alignment explanation
Indices: 17123528--17123577 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
17123518 ATTCTATTTC
*
17123528 ACAATTTATGCCCTTAAATTTTT
1 ACAATTTATGCCC-TAAACTTTT
17123551 ACAATTTATGCCC-AAACTTTT
1 ACAATTTATGCCCTAAACTTTT
17123572 -CAATTT
1 ACAATTT
17123578 TTACAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 7 0.27
23 13 0.50
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (22 bp):
ACAATTTATGCCCTAAACTTTT
Found at i:17127501 original size:16 final size:16
Alignment explanation
Indices: 17127482--17127512 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17127472 CTTCTTCACT
17127482 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
17127498 TACTTACTTACTTAA
1 TACTCACTTACTTAA
17127513 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:17127518 original size:20 final size:20
Alignment explanation
Indices: 17127479--17127518 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17127469 AAACTTCTTC
* *
17127479 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
17127499 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
17127519 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:17127836 original size:53 final size:54
Alignment explanation
Indices: 17127709--17127963 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
17127699 ACGTGGATAC
* * * *
17127709 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
17127758 CTTACCATTGCCATGTCTTGACATGGTCTTTCATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
17127811 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
17127866 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCATTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
17127919 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
17127964 AAACCCTAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 48 0.28
54 10 0.06
55 71 0.42
56 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:17127911 original size:108 final size:110
Alignment explanation
Indices: 17127756--17127956 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
17127746 ATCCTTTTGA
* * * *
17127756 AACTTACCATTGCCATGTCTTGACATGGTCTTTCATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTA-GAAACCTCACCAA
17127819 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
17127864 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCATTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTAGAAACCTCACCAAT
17127929 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
17127957 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 7 0.08
110 28 0.34
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCATTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:17133388 original size:46 final size:48
Alignment explanation
Indices: 17133324--17133445 Score: 115
Period size: 53 Copynumber: 2.5 Consensus size: 48
17133314 ACACACCAAA
* ** *
17133324 GCCATAGCCCTGCCATGGTCTTACATGGATCACA-TAT-CAT-ACCGAT
1 GCCATAGCCCAGATATGGTCTTACA-GAATCACATTATACATCACCGAT
*
17133370 GCCATATCCCAGATATGGTCTTATACAGAATCACATTATCACATCACACCGAT
1 GCCATAGCCCAGATATGGTC-T-TACAGAATCACATTAT-ACAT--CACCGAT
*
17133423 GCCATAGCCCAGCTATGGTCTTA
1 GCCATAGCCCAGATATGGTCTTA
17133446 TACGGGAACA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
46 16 0.26
47 8 0.13
48 7 0.11
50 3 0.05
51 2 0.03
52 1 0.02
53 24 0.39
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
GCCATAGCCCAGATATGGTCTTACAGAATCACATTATACATCACCGAT
Found at i:17133489 original size:52 final size:52
Alignment explanation
Indices: 17133359--17133518 Score: 196
Period size: 52 Copynumber: 3.1 Consensus size: 52
17133349 TGGATCACAT
* * * * *
17133359 ATCATACCGATGCCATATCCCAGATATGGTCTTATACAGAATCACATTATCAC
1 ATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACA-TATCAC
* *
17133412 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACGTATCAC
1 ATCACACCGATGCCATAACCCAGCTATGGTCTTATAC-GGAAGCACATATCAC
** * *
17133464 ATTGCACTGATGCCATAACCTAGCTATGGTCTTATACGGAAGCACATATCAC
1 ATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACATATCAC
17133516 ATC
1 ATC
17133519 TTTTCCGTCA
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
51 4 0.04
52 49 0.53
53 37 0.40
54 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (52 bp):
ATCACACCGATGCCATAACCCAGCTATGGTCTTATACGGAAGCACATATCAC
Found at i:17135215 original size:42 final size:43
Alignment explanation
Indices: 17135150--17135262 Score: 121
Period size: 41 Copynumber: 2.7 Consensus size: 43
17135140 ATATCGTACA
* *
17135150 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGC-TATCACATACG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGCAAATCAAATACG
17135192 ATGCCACTGTCCCAGACAGGGTCTTACA--CAAATCAAATACG
1 ATGCCACTGTCCCAGACAGGGTCTTACATGCAAATCAAATACG
* *
17135233 ATGTCGA-TGTCCCAGACATGGTCTTACATG
1 ATG-CCACTGTCCCAGACAGGGTCTTACATG
17135263 TAATCATAGA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
40 1 0.02
41 34 0.56
42 25 0.41
43 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACATGCAAATCAAATACG
Found at i:17141770 original size:49 final size:49
Alignment explanation
Indices: 17141698--17141935 Score: 282
Period size: 49 Copynumber: 4.8 Consensus size: 49
17141688 TGAGGTCACG
*
17141698 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
17141747 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TTGGTCGCA
* **
17141798 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT--CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCGCA
* * *
17141846 TGTATGTAGTACTAACTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TG--TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* *
17141897 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
17141936 GCTTCGGCTA
Statistics
Matches: 156, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
48 3 0.02
49 73 0.47
50 36 0.23
51 44 0.28
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:17141934 original size:99 final size:98
Alignment explanation
Indices: 17141693--17141935 Score: 292
Period size: 99 Copynumber: 2.4 Consensus size: 98
17141683 TATTGTGAGG
* *
17141693 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTC-CATGTGTAGTACT
* * *
17141758 AAGTGCAGGCTACTATGCGTACCTGATAACTTTGA
65 AACTGCAGGCTACTACGCGTACCGGATAAC-TTGA
* * **
17141793 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT-CATGTATGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCCATG--TGTAGTA
* * *
17141857 CTAACTGTAGGCTACTACGTGTACCGGATAA-TTGG
63 CTAACTGCAGGCTACTACGCGTACCGGATAACTTGA
* * *
17141892 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
17141936 GCTTCGGCTA
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
99 45 0.36
100 43 0.35
101 36 0.29
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCCATGTGTAGTACTA
ACTGCAGGCTACTACGCGTACCGGATAACTTGA
Found at i:17144702 original size:16 final size:15
Alignment explanation
Indices: 17144664--17144702 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
17144654 TGGATTCTCG
*
17144664 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
17144679 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
17144694 TATTCTTGG
1 TA-TCTTGG
17144703 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:17147531 original size:49 final size:50
Alignment explanation
Indices: 17147451--17147683 Score: 290
Period size: 49 Copynumber: 4.7 Consensus size: 50
17147441 AGCTATTGTG
* * *
17147451 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTAAGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
17147501 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
17147551 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
17147601 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
17147651 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
17147684 TGCGTTCCAG
Statistics
Matches: 156, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
49 72 0.46
50 47 0.30
51 37 0.24
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:17148003 original size:30 final size:30
Alignment explanation
Indices: 17147968--17148032 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
17147958 ATGAATTTGA
17147968 AAATTTACCAAAAATTGTGTAAGTTGAATT
1 AAATTTACCAAAAATTGTGTAAGTTGAATT
17147998 AAATTTACCAAAAATTGTGTAAGTTGAATT
1 AAATTTACCAAAAATTGTGTAAGTTGAATT
17148028 AAATT
1 AAATT
17148033 CAAATAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (30 bp):
AAATTTACCAAAAATTGTGTAAGTTGAATT
Found at i:17148042 original size:30 final size:30
Alignment explanation
Indices: 17147968--17148042 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
17147958 ATGAATTTGA
* *
17147968 AAATTTACCAAAAATTGTGTAAGTTGAATT
1 AAATTCACAAAAAATTGTGTAAGTTGAATT
* *
17147998 AAATTTACCAAAAATTGTGTAAGTTGAATT
1 AAATTCACAAAAAATTGTGTAAGTTGAATT
17148028 AAATTCA-AATAAAAT
1 AAATTCACAA-AAAAT
17148043 ATGTAATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 1 0.02
30 41 0.98
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (30 bp):
AAATTCACAAAAAATTGTGTAAGTTGAATT
Found at i:17150780 original size:31 final size:31
Alignment explanation
Indices: 17150742--17150819 Score: 122
Period size: 30 Copynumber: 2.5 Consensus size: 31
17150732 TTTAACGGTT
17150742 ACTGGGCCGAAGCCTTTTAAAAAATCAAATC
1 ACTGGGCCGAAGCCTTTTAAAAAATCAAATC
* * *
17150773 ACTGGGCCGAAG-CTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTAAAAAATCAAATC
17150803 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
17150820 ATTGTAAACG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 27 0.63
31 16 0.37
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTAAAAAATCAAATC
Found at i:17150903 original size:42 final size:42
Alignment explanation
Indices: 17150843--17150934 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
17150833 TGTCCCATAG
* *
17150843 GCCCATTTTAATAACACATGAAATATCAATGAATGTATACAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATACAA
* *
17150885 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATACAA
17150927 GCCCATTT
1 GCCCATTT
17150935 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATACAA
Found at i:17151143 original size:26 final size:26
Alignment explanation
Indices: 17151079--17151227 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
17151069 CCTCTTTGAT
*
17151079 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
**
17151104 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
17151129 AACTGGGGCATAAGCCTTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
17151155 AACTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
17151181 AACTGAGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
17151207 AACTGGGGCATAAGTCCTTTT
1 AACTGGGGCATAAGCCCTTTT
17151228 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 32 0.29
26 78 0.71
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:17151308 original size:11 final size:11
Alignment explanation
Indices: 17151277--17151332 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17151267 TTATGAATTC
17151277 ATCATGTGCAT
1 ATCATGTGCAT
* *
17151288 TTCA--TACAT
1 ATCATGTGCAT
17151297 ATCATGTGCAT
1 ATCATGTGCAT
*
17151308 ATCA--TACAT
1 ATCATGTGCAT
17151317 ATCATGTGCAT
1 ATCATGTGCAT
17151328 ATCAT
1 ATCAT
17151333 ATAATTCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:17151342 original size:40 final size:38
Alignment explanation
Indices: 17151277--17151352 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 38
17151267 TTATGAATTC
* *
17151277 ATCATGTGCATTTCATACATATCATGTGCATATCATACAT
1 ATCATGTGCATATCATAAATATCATGT--ATATCATACAT
17151317 ATCATGTGCATATCATATAAT-TCATGTATATCATAC
1 ATCATGTGCATATCATA-AATATCATGTATATCATAC
17151353 CCCACGTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 9 0.27
40 22 0.67
41 2 0.06
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.38
Consensus pattern (38 bp):
ATCATGTGCATATCATAAATATCATGTATATCATACAT
Found at i:17151343 original size:20 final size:20
Alignment explanation
Indices: 17151277--17151333 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
17151267 TTATGAATTC
*
17151277 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
17151297 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
17151317 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
17151334 TAATTCATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:17152076 original size:27 final size:26
Alignment explanation
Indices: 17152046--17152124 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
17152036 GGGCATATTC
*
17152046 GTCATTTTACCATATAAGGGTATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
* * *
17152073 GTCACTTTACCCTACAGGGGCTTTTACG
1 GTCATTTTA-CCTATAGGGG-TATTACG
*
17152101 GTCTTTTTACCTATTAGGGGTATT
1 GTCATTTTACCTA-TAGGGGTATT
17152125 GTAGTCATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:17152267 original size:27 final size:27
Alignment explanation
Indices: 17152214--17152466 Score: 178
Period size: 27 Copynumber: 9.4 Consensus size: 27
17152204 TTTTTACAAT
* *
17152214 TTTTAGAAAGTCAAGGGTATTTT-GTAA
1 TTTTATAAA-TCAGGGGTATTTTGGTAA
*
17152241 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTATAAATCAGGGGTATTTTGGTAA
* * **
17152268 TTTTACAAAT-TGAGGGTATTTCAGTAA
1 TTTTATAAATCAG-GGGTATTTTGGTAA
* * *
17152295 TTTCACAAA-CTAGTGGTATTTTGGTAA
1 TTTTATAAATC-AGGGGTATTTTGGTAA
* *
17152322 CTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTATAAATC-AGGGGTATTTTGGTAA
* * *
17152349 TTTTACAAA-CTAGGGGTATTTTAGCAA
1 TTTTATAAATC-AGGGGTATTTTGGTAA
* *
17152376 TTTTATAGACCA-GGGTATTTTGGTAA
1 TTTTATAAATCAGGGGTATTTTGGTAA
* * *
17152402 TTTTACTGATTGA-GGGTATTTTGGTAA
1 TTTTA-TAAATCAGGGGTATTTTGGTAA
* * * *
17152429 TTTTGTAAACCAAGGGTATTTTAGTAA
1 TTTTATAAATCAGGGGTATTTTGGTAA
*
17152456 TTTTGTAAATC
1 TTTTATAAATC
17152467 GAGGCTAAAA
Statistics
Matches: 184, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
26 33 0.18
27 149 0.81
28 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
TTTTATAAATCAGGGGTATTTTGGTAA
Found at i:17152350 original size:81 final size:79
Alignment explanation
Indices: 17152227--17152432 Score: 227
Period size: 81 Copynumber: 2.6 Consensus size: 79
17152217 TAGAAAGTCA
* ** *
17152227 AGGGTATTTT-GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTC
1 AGGGTATTTTGGTAACTTTACAAAT-AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTC
* *
17152290 AGTAATTTCACAAACT
64 AGCAATTTCACAAACC
*
17152306 AGTGGTATTTTGGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 AG-GGTATTTTGGTAACTTTACAAA-TAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTC
* * *
17152371 AGCAATTTTATAGACC
64 AGCAATTTCACAAACC
* ** *
17152387 AGGGTATTTTGGTAATTTTACTGATTGAGGGTATTTTGGTAATTTT
1 AGGGTATTTTGGTAACTTTACAAATAG-GGGTATTTTGGTAATTTT
17152433 GTAAACCAAG
Statistics
Matches: 108, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
79 4 0.04
80 45 0.42
81 56 0.52
82 3 0.03
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (79 bp):
AGGGTATTTTGGTAACTTTACAAATAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCAG
CAATTTCACAAACC
Found at i:17152446 original size:80 final size:81
Alignment explanation
Indices: 17152252--17152459 Score: 249
Period size: 80 Copynumber: 2.6 Consensus size: 81
17152242 TTTGTAAATC
* * * * *
17152252 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACTAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
17152317 GGTAACTTTACAAACT
66 GGTAACTTTACAAACT
* * * *
17152333 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGCAATTTTATAGACCAG-GGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
* **
17152397 GGTAATTTTACTGA-T
66 GGTAACTTTACAAACT
* ** *
17152412 TGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 AG-GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTT
17152460 GTAAATCGAG
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 2 0.02
80 59 0.55
81 47 0.44
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
GGTAACTTTACAAACT
Found at i:17152483 original size:27 final size:27
Alignment explanation
Indices: 17152452--17152743 Score: 388
Period size: 27 Copynumber: 10.8 Consensus size: 27
17152442 GGGTATTTTA
* * **
17152452 GTAATTTTGTAAATCGAGGCTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** **
17152479 ATAATTCTACAAATTAAGGGT-AAACTG
1 GTAATTCTGTAAATCGAGGGTAAAAC-G
17152506 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
17152533 ATAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
17152560 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
17152587 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
17152614 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
17152641 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
17152668 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
17152695 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
17152722 GTAATTCTACAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
17152744 TTTTAGTAAT
Statistics
Matches: 236, Mismatches: 27, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
26 3 0.01
27 229 0.97
28 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:17157463 original size:44 final size:44
Alignment explanation
Indices: 17157400--17157488 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
17157390 TAAAATGTGC
* *
17157400 TGGCTTCATCAAATAATCGATAATTACGCAAATAGTATTTTTCT
1 TGGCTTCATCAAACAATCGATAATTACACAAATAGTATTTTTCT
*
17157444 TGGCTTCGTCAAACAATCGATAATTACACAAATAGTATTTTTCT
1 TGGCTTCATCAAACAATCGATAATTACACAAATAGTATTTTTCT
17157488 T
1 T
17157489 TTCATAGACA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (44 bp):
TGGCTTCATCAAACAATCGATAATTACACAAATAGTATTTTTCT
Found at i:17163366 original size:16 final size:16
Alignment explanation
Indices: 17163340--17163392 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
17163330 TGAACATAGC
*
17163340 TATTCTCAAACAATAGT
1 TATTCT-AAACAATAAT
*
17163357 TGTTCTAAACAATAAT
1 TATTCTAAACAATAAT
*
17163373 TATTCTAAACAACAAT
1 TATTCTAAACAATAAT
17163389 TATT
1 TATT
17163393 GCTACGGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 27 0.84
17 5 0.16
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (16 bp):
TATTCTAAACAATAAT
Found at i:17171762 original size:16 final size:16
Alignment explanation
Indices: 17171741--17171809 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
17171731 TTTGGTTCGC
17171741 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17171757 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17171773 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
17171790 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17171806 TGTA
1 TGTA
17171810 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17171787 original size:33 final size:32
Alignment explanation
Indices: 17171741--17171809 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
17171731 TTTGGTTCGC
17171741 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
17171773 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
17171806 TGTA
1 TGTA
17171810 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:17171874 original size:44 final size:45
Alignment explanation
Indices: 17171790--17171880 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
17171780 GGATTAGAGG
* * *
17171790 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
17171835 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
17171879 TG
1 TG
17171881 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:17172065 original size:18 final size:17
Alignment explanation
Indices: 17172044--17172078 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17172034 TTATTATTAA
*
17172044 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17172062 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17172079 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17172162 original size:120 final size:120
Alignment explanation
Indices: 17172022--17172288 Score: 444
Period size: 120 Copynumber: 2.2 Consensus size: 120
17172012 ATTTAATCAT
17172022 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * * *
17172087 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATAAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
17172143 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
17172208 TAAATATTCTTATATAAATTTACTAAAATTATAATATATAATAGTATAAAATATA
66 TAAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
17172263 ATATAACATAATTATTATTAAATATA
1 ATTTAACATAATTATTATTAAATATA
17172289 ATCAATTTTT
Statistics
Matches: 137, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
120 133 0.97
121 4 0.03
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TAAATATTCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:17172185 original size:18 final size:17
Alignment explanation
Indices: 17172162--17172198 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
17172152 AATTATTATT
17172162 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
17172178 AAATATATGATTTAATA
1 AAATATATGATTTAATA
17172195 AAAT
1 AAAT
17172199 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:17172259 original size:61 final size:61
Alignment explanation
Indices: 17172053--17172249 Score: 188
Period size: 61 Copynumber: 3.3 Consensus size: 61
17172043 AATATATTTT
* * * *
17172053 AATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCA
1 AATTAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAA
* * * * * * * * **
17172114 AATCATAATATATGATACT-ATAAAA-T-ATAAT-TTAACATAATTATTAT-TAAATATATTTT
1 AATTAAAATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATTCTTATATAAATTTACTAA
*
17172173 AATTAAAATATATGATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAA
1 AATTAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAA
*
17172234 AATTATAATATATAAT
1 AATTAAAATATATAAT
17172250 AGTATAAAAT
Statistics
Matches: 104, Mismatches: 24, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
58 3 0.03
59 33 0.32
60 16 0.15
61 47 0.45
62 5 0.05
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.44
Consensus pattern (61 bp):
AATTAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTACTAA
Found at i:17175236 original size:18 final size:18
Alignment explanation
Indices: 17175213--17175248 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17175203 TGTTTCAGAC
17175213 ATGAGAAAGAAATGAGAA
1 ATGAGAAAGAAATGAGAA
17175231 ATGAGAAAGAAATGAGAA
1 ATGAGAAAGAAATGAGAA
17175249 GACGGCTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.28, T:0.11
Consensus pattern (18 bp):
ATGAGAAAGAAATGAGAA
Found at i:17186982 original size:21 final size:21
Alignment explanation
Indices: 17186958--17186999 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17186948 ACTTAACAAG
17186958 AATGAACACCCTTAGTAAAGT
1 AATGAACACCCTTAGTAAAGT
17186979 AATGAACACCCTTAGTAAAGT
1 AATGAACACCCTTAGTAAAGT
17187000 TTGCTTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (21 bp):
AATGAACACCCTTAGTAAAGT
Found at i:17187363 original size:16 final size:17
Alignment explanation
Indices: 17187321--17187364 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
17187311 ATTCAAGCAA
*
17187321 ATATTTTTCTTTTTATAT
1 ATATTTTTC-ATTTATAT
17187339 ATATTTTTCATTTAT-T
1 ATATTTTTCATTTATAT
*
17187355 ATTTTTTTCA
1 ATATTTTTCA
17187365 CTCTCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.42
17 5 0.21
18 9 0.38
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
ATATTTTTCATTTATAT
Found at i:17187622 original size:48 final size:48
Alignment explanation
Indices: 17187549--17187640 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
17187539 ATCAACAGGA
*
17187549 TTAACTAGGGGTTAATTCAATGAGTAAATTGTTTACAAGTTATGTGGG
1 TTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATGTGGG
*
17187597 TTAACTAGGGGTTAATTCAACGAGTAAGTTGTTTACAAGTTATG
1 TTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATG
17187641 CAGGTTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (48 bp):
TTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATGTGGG
Found at i:17187647 original size:48 final size:48
Alignment explanation
Indices: 17187544--17187648 Score: 165
Period size: 48 Copynumber: 2.2 Consensus size: 48
17187534 TTAGGATCAA
*
17187544 CAGGATTAACTAGGGGTTAATTCAATGAGTAAATTGTTTACAAGTTATG
1 CAGG-TTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATG
** *
17187593 TGGGTTAACTAGGGGTTAATTCAACGAGTAAGTTGTTTACAAGTTATG
1 CAGGTTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATG
17187641 CAGGTTAA
1 CAGGTTAA
17187649 ATCCTAAGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
48 48 0.96
49 2 0.04
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (48 bp):
CAGGTTAACTAGGGGTTAATTCAACGAGTAAATTGTTTACAAGTTATG
Found at i:17188412 original size:18 final size:18
Alignment explanation
Indices: 17188387--17188441 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
17188377 ATATAAGTCT
17188387 AAAA-AAAACTAAAAATA
1 AAAATAAAACTAAAAATA
* * *
17188404 AAGATAAAAGTACAAATA
1 AAAATAAAACTAAAAATA
17188422 AAAAT-AAA-TAAAACATA
1 AAAATAAAACTAAAA-ATA
17188439 AAA
1 AAA
17188442 TTGAATGGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 4 0.13
17 12 0.39
18 15 0.48
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (18 bp):
AAAATAAAACTAAAAATA
Found at i:17198355 original size:17 final size:17
Alignment explanation
Indices: 17198330--17198370 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
17198320 TAAATGAATG
*
17198330 TTCAGAAAAACATTTTA
1 TTCATAAAAACATTTTA
*
17198347 TTCATAAAAACATTTTG
1 TTCATAAAAACATTTTA
17198364 TTCATAA
1 TTCATAA
17198371 GTATGTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (17 bp):
TTCATAAAAACATTTTA
Found at i:17200733 original size:21 final size:21
Alignment explanation
Indices: 17200709--17200763 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17200699 GTTTCCACTC
17200709 CACACGGGCGTGTG-ACCCCTT
1 CACACGGGCGTGTGTA-CCCTT
* * *
17200730 CACACAGGTGTGTGTAGCCTT
1 CACACGGGCGTGTGTACCCTT
*
17200751 CACATGGGCGTGT
1 CACACGGGCGTGT
17200764 AGCCCCCCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.16, C:0.29, G:0.31, T:0.24
Consensus pattern (21 bp):
CACACGGGCGTGTGTACCCTT
Found at i:17204150 original size:21 final size:21
Alignment explanation
Indices: 17204099--17204153 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
17204089 ATATCCCCTC
*
17204099 CACACAGGTGTGTGTGGCCTT
1 CACACAGGCGTGTGTGGCCTT
*
17204120 TACACAGGCGTGTGTGGCCTT
1 CACACAGGCGTGTGTGGCCTT
**
17204141 CACATGGGCGTGT
1 CACACAGGCGTGT
17204154 AGATCCTCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.15, C:0.24, G:0.35, T:0.27
Consensus pattern (21 bp):
CACACAGGCGTGTGTGGCCTT
Found at i:17206132 original size:36 final size:36
Alignment explanation
Indices: 17206092--17206162 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
17206082 GAGGAGCACC
*
17206092 TTAGTCAAAATAGATCTGAAAGGCTGCTGAATTGAG
1 TTAGTCAAAATAGATCCGAAAGGCTGCTGAATTGAG
* *
17206128 TTAGTCAGAATAGATCCGAAAGGCTGTTGAATTGA
1 TTAGTCAAAATAGATCCGAAAGGCTGCTGAATTGA
17206163 ATAAAGTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (36 bp):
TTAGTCAAAATAGATCCGAAAGGCTGCTGAATTGAG
Found at i:17209445 original size:13 final size:13
Alignment explanation
Indices: 17209424--17209461 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
17209414 ACCATCAATC
* *
17209424 TTTTTACCTAGCA
1 TTTTCACCTAACA
17209437 TTTTCACCTAACA
1 TTTTCACCTAACA
17209450 TTTTCACCTAAC
1 TTTTCACCTAAC
17209462 TTGCCAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.42
Consensus pattern (13 bp):
TTTTCACCTAACA
Found at i:17227203 original size:20 final size:20
Alignment explanation
Indices: 17227178--17227244 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
17227168 ATTTTGATAT
17227178 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
17227198 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
17227218 ACATAATATGTATGATATGC
1 ACATGATATGTATGATATGC
17227238 ACATGAT
1 ACATGAT
17227245 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17227205 original size:11 final size:11
Alignment explanation
Indices: 17227189--17227244 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
17227179 CATGATTGAT
17227189 ATGATATGCAC
1 ATGATATGCAC
*
17227200 ATGATATG--T
1 ATGATATGCAC
17227209 ATGATATGCAC
1 ATGATATGCAC
* *
17227220 ATAATATG--T
1 ATGATATGCAC
17227229 ATGATATGCAC
1 ATGATATGCAC
17227240 ATGAT
1 ATGAT
17227245 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17227402 original size:25 final size:27
Alignment explanation
Indices: 17227294--17227388 Score: 176
Period size: 27 Copynumber: 3.6 Consensus size: 27
17227284 GAGGAAGTGC
17227294 AAAAGGGCTTATGCCCCAGTTTATTGA
1 AAAAGGGCTTATGCCCCAGTTTATTGA
17227321 AAAAGGGCTTATGCCCCAGTTTATTGA
1 AAAAGGGCTTATGCCCCAGTTTATTGA
17227348 AAAAGGGCTTATGCCCCAGTTTATTG-
1 AAAAGGGCTTATGCCCCAGTTTATTGA
17227374 AAAAGGGCTT-TGCCC
1 AAAAGGGCTTATGCCC
17227389 TGGTTTACCG
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.07
26 10 0.15
27 53 0.78
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (27 bp):
AAAAGGGCTTATGCCCCAGTTTATTGA
Found at i:17235435 original size:20 final size:20
Alignment explanation
Indices: 17235410--17235476 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
17235400 ATTTTGATAT
17235410 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
17235430 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17235450 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
17235470 ACATGAT
1 ACATGAT
17235477 GTATTCATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:17235437 original size:11 final size:11
Alignment explanation
Indices: 17235421--17235476 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
17235411 CATGATTGAT
17235421 ATGATATGCAC
1 ATGATATGCAC
*
17235432 ATGATATG--T
1 ATGATATGCAC
17235441 ATGATATGCAC
1 ATGATATGCAC
*
17235452 ATGATATG--T
1 ATGATATGCAC
17235461 ATGATATGCAC
1 ATGATATGCAC
17235472 ATGAT
1 ATGAT
17235477 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:17235618 original size:25 final size:26
Alignment explanation
Indices: 17235526--17235649 Score: 180
Period size: 26 Copynumber: 4.8 Consensus size: 26
17235516 GAGGAAGTGC
17235526 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
17235552 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
* *
17235579 AAAAAGGCTTATGCCCCAATTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
17235605 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
17235630 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
17235650 ATTAAAGAGG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
25 31 0.34
26 33 0.37
27 26 0.29
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:17242873 original size:27 final size:27
Alignment explanation
Indices: 17242828--17242929 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 27
17242818 AAATCCCTAT
* * * * *
17242828 TACAGAATATACCATAAAGGCGATCCA
1 TACAGAGTATGCCACAAAGGCTATACA
*
17242855 TACAGAGTATGCCACAAAGGCTATATATA
1 TACAGAGTATGCCACAAAGGC--TATACA
* *
17242884 TACAGAGTATG-C-CATAGGCTATTCA
1 TACAGAGTATGCCACAAAGGCTATACA
* *
17242909 TTCAGAGTGTGCCACAAAGGC
1 TACAGAGTATGCCACAAAGGC
17242930 ATTTTTTAGC
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
25 13 0.22
26 1 0.02
27 30 0.51
28 1 0.02
29 14 0.24
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (27 bp):
TACAGAGTATGCCACAAAGGCTATACA
Found at i:17242888 original size:29 final size:29
Alignment explanation
Indices: 17242854--17242929 Score: 90
Period size: 27 Copynumber: 2.8 Consensus size: 29
17242844 AAGGCGATCC
17242854 ATACAGAGTATGCCACAAAGGCTATAT-AT
1 ATACAGAGTATGCCACAAAGGCTAT-TCAT
*
17242883 ATACAGAGTATG-C-CATAGGCTATTCAT
1 ATACAGAGTATGCCACAAAGGCTATTCAT
*
17242910 -T-CAGAGTGTGCCACAAAGGC
1 ATACAGAGTATGCCACAAAGGC
17242930 ATTTTTTAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 8 0.20
26 3 0.07
27 17 0.41
28 1 0.02
29 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (29 bp):
ATACAGAGTATGCCACAAAGGCTATTCAT
Found at i:17244547 original size:14 final size:15
Alignment explanation
Indices: 17244523--17244551 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17244513 GTCATCGTAC
17244523 CTCCACTCTTCTCAT
1 CTCCACTCTTCTCAT
17244538 CTCC-CTCTTCTCAT
1 CTCCACTCTTCTCAT
17244552 TGCAGTCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.10, C:0.48, G:0.00, T:0.41
Consensus pattern (15 bp):
CTCCACTCTTCTCAT
Found at i:17244632 original size:15 final size:16
Alignment explanation
Indices: 17244600--17244632 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17244590 TTATTCTAGT
17244600 TTTCTTCACCTACTCC
1 TTTCTTCACCTACTCC
*
17244616 TTTCTTCCCCT-CTCC
1 TTTCTTCACCTACTCC
17244631 TT
1 TT
17244633 AGTTTAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.06, C:0.45, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTCTTCACCTACTCC
Found at i:17247395 original size:54 final size:53
Alignment explanation
Indices: 17247296--17247562 Score: 220
Period size: 54 Copynumber: 4.9 Consensus size: 53
17247286 TGGCATTTTC
* * * * *
17247296 ATAGCCTTTGTGGTGAACTCT-ATTAGGGTAGCCTTTGTGGAAAACTCTGTAAGG
1 ATAGACTTTGTGGTGAACTCTGA--AGGATAGTCTTTGTGGTAAACTCTGAAAGG
*
17247350 ATAGACTTTGTGGTGAACTCTGTAAGGATAGTCTTCGTGGTAAACTCTGAAAGG
1 ATAGACTTTGTGGTGAACTCTG-AAGGATAGTCTTTGTGGTAAACTCTGAAAGG
* * * ** *
17247404 ATAGCCTTTGTGGCT-AACTCTGAAAGGATAGCCTTTATGGCGAACTCTAAAAGG
1 ATAGACTTTGTGG-TGAACTCTG-AAGGATAGTCTTTGTGGTAAACTCTGAAAGG
* * * * * *
17247458 ATA-ACCCTTATGGTGAACTCTGAAGGAATACTCATTGT-GTCGAACTTTG-AAGG
1 ATAGA-CTTTGTGGTGAACTCTGAAGG-ATAGTCTTTGTGGT-AAACTCTGAAAGG
* * *
17247511 AATAGTCTTTGTGGTGAACTTTGAAGGAATAGTCTTTGTGGTAAAATCTGAA
1 -ATAGACTTTGTGGTGAACTCTGAAGG-ATAGTCTTTGTGGTAAACTCTGAA
17247563 TGAACTGTCT
Statistics
Matches: 169, Mismatches: 33, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
53 10 0.06
54 154 0.91
55 4 0.02
56 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (53 bp):
ATAGACTTTGTGGTGAACTCTGAAGGATAGTCTTTGTGGTAAACTCTGAAAGG
Found at i:17247562 original size:27 final size:26
Alignment explanation
Indices: 17247296--17247562 Score: 198
Period size: 27 Copynumber: 9.9 Consensus size: 26
17247286 TGGCATTTTC
*
17247296 ATAGCCTTTGTGGTGAACTCT-ATTAGG
1 ATAGTCTTTGTGGTGAACTCTGA--AGG
* * **
17247323 GTAGCCTTTGTGGAAAACTCTGTAAGG
1 ATAGTCTTTGTGGTGAACTCTG-AAGG
*
17247350 ATAGACTTTGTGGTGAACTCTGTAAGG
1 ATAGTCTTTGTGGTGAACTCTG-AAGG
* *
17247377 ATAGTCTTCGTGGTAAACTCTGAAAGG
1 ATAGTCTTTGTGGTGAACTCTG-AAGG
*
17247404 ATAGCCTTTGTGGCT-AACTCTGAAAGG
1 ATAGTCTTTGTGG-TGAACTCTG-AAGG
* * * *
17247431 ATAGCCTTTATGGCGAACTCTAAAAGG
1 ATAGTCTTTGTGGTGAACTCT-GAAGG
** * *
17247458 ATAACCCTTATGGTGAACTCTGAAGG
1 ATAGTCTTTGTGGTGAACTCTGAAGG
* * *
17247484 AATACTCATTGT-GTCGAACTTTGAAGG
1 -ATAGTCTTTGTGGT-GAACTCTGAAGG
*
17247511 AATAGTCTTTGTGGTGAACTTTGAAGG
1 -ATAGTCTTTGTGGTGAACTCTGAAGG
* *
17247538 AATAGTCTTTGTGGTAAAATCTGAA
1 -ATAGTCTTTGTGGTGAACTCTGAA
17247563 TGAACTGTCT
Statistics
Matches: 202, Mismatches: 30, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
26 6 0.03
27 192 0.95
28 3 0.01
29 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (26 bp):
ATAGTCTTTGTGGTGAACTCTGAAGG
Found at i:17249674 original size:46 final size:46
Alignment explanation
Indices: 17249614--17249839 Score: 197
Period size: 47 Copynumber: 4.9 Consensus size: 46
17249604 GGATATTTGG
* * *
17249614 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-ACGAA
* * * *** * * *
17249661 TC-TCCGAACTCGTTGAGTTGAGTCCTAGTTCGAGAGATGTAACTAG
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGAACGAA
* *** * *
17249707 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAA
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGAACGAA
* *
17249754 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-ACGAA
*
17249801 CGC--CCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17249840 GCAGGTTACA
Statistics
Matches: 152, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
46 69 0.45
47 81 0.53
48 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGAACGAA
Found at i:17249731 original size:47 final size:47
Alignment explanation
Indices: 17249663--17249785 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
17249653 GATGCGAATC
* * * *
17249663 TCCGAACTCGTTGAGTTGAGTCCTAGTTCGAGAGATGTAACTAGGCA
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAAGCA
17249710 TCCGAGCTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAAGCA
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAAGCA
17249757 TCCGAGCTCATTGAGTTGAGTCCGAGTTC
1 TCCGAGCTCATTGAGTTGAGTCCGAGTTC
17249786 ACTTATGGAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (47 bp):
TCCGAGCTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAAGCA
Found at i:17252997 original size:15 final size:15
Alignment explanation
Indices: 17252971--17253007 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
17252961 TTAAATATGT
17252971 TTAATT-TTAATTAA
1 TTAATTATTAATTAA
17252985 TTAATTATTAATTAA
1 TTAATTATTAATTAA
17253000 TATAATTA
1 T-TAATTA
17253008 GGATTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.29
15 9 0.43
16 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAATTATTAATTAA
Found at i:17254951 original size:21 final size:21
Alignment explanation
Indices: 17254925--17254970 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
17254915 AACAGTTTTT
17254925 CCTTCAAGTGGACGATTTGGG
1 CCTTCAAGTGGACGATTTGGG
* *
17254946 CCTTCAAGTGGATGGTTTGGG
1 CCTTCAAGTGGACGATTTGGG
17254967 CCTT
1 CCTT
17254971 TTCCTCCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.20, G:0.33, T:0.33
Consensus pattern (21 bp):
CCTTCAAGTGGACGATTTGGG
Found at i:17259331 original size:47 final size:47
Alignment explanation
Indices: 17259260--17259402 Score: 268
Period size: 47 Copynumber: 3.0 Consensus size: 47
17259250 ATAGATAAAT
*
17259260 TTTCAAAAATTAAGGCATGACCACTCTCTCTCGATTCACAAACCCGA
1 TTTCAAAAATTAAGGCATGGCCACTCTCTCTCGATTCACAAACCCGA
17259307 TTTCAAAAATTAAGGCATGGCCACTCTCTCTCGATTCACAAACCCGA
1 TTTCAAAAATTAAGGCATGGCCACTCTCTCTCGATTCACAAACCCGA
*
17259354 TTTTAAAAATTAAGGCATGGCCACTCTCTCTCGATTCACAAACCCGA
1 TTTCAAAAATTAAGGCATGGCCACTCTCTCTCGATTCACAAACCCGA
17259401 TT
1 TT
17259403 CTACTAACCC
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (47 bp):
TTTCAAAAATTAAGGCATGGCCACTCTCTCTCGATTCACAAACCCGA
Found at i:17259862 original size:28 final size:28
Alignment explanation
Indices: 17259831--17259892 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
17259821 TGTTCGCCGT
* * *
17259831 AAAGGTTTATTTTTTTGTAGTTCATCGC
1 AAAGGTTTATTTTTTCGTAGTTCACCAC
*
17259859 AAAGGCTTATTTTTTCGTAGTTCACCAC
1 AAAGGTTTATTTTTTCGTAGTTCACCAC
17259887 AAAGGT
1 AAAGGT
17259893 CTTTCATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.42
Consensus pattern (28 bp):
AAAGGTTTATTTTTTCGTAGTTCACCAC
Found at i:17268933 original size:20 final size:20
Alignment explanation
Indices: 17268905--17268978 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
17268895 ACAGGCAAGG
17268905 CACACGGTCGTGTGTTCAGA
1 CACACGGTCGTGTGTTCAGA
*
17268925 CACATGGTCGTGTGTTCAGA
1 CACACGGTCGTGTGTTCAGA
*
17268945 CACATGGTCGTGTGTTCAGA
1 CACACGGTCGTGTGTTCAGA
*
17268965 CACACGGACGTGTG
1 CACACGGTCGTGTG
17268979 AGGTACCACA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (20 bp):
CACACGGTCGTGTGTTCAGA
Found at i:17271124 original size:6 final size:6
Alignment explanation
Indices: 17271113--17271137 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17271103 GTCCCTTTTA
17271113 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
17271138 CCTTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:17274835 original size:23 final size:21
Alignment explanation
Indices: 17274783--17274837 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 21
17274773 TTTAGAAAGA
*
17274783 AAAAATTAAATTAATATAAGTT
1 AAAAA-TAAAATAATATAAGTT
17274805 AAATAATAAAATAATATAAGTGAT
1 AAA-AATAAAATAATATAAGT--T
17274829 AAAAATAAA
1 AAAAATAAA
17274838 GGAAAATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 17 0.59
23 8 0.28
24 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAAATAAAATAATATAAGTT
Found at i:17276024 original size:95 final size:95
Alignment explanation
Indices: 17275858--17276114 Score: 318
Period size: 95 Copynumber: 2.7 Consensus size: 95
17275848 TGTACTAGTG
* * *
17275858 GTGGATACCTTACCGATGGCTAAGATCTTGCATATATTGCGGATTCTTCATAGCTCGTGTGAGCA
1 GTGGATACCTTACCGATGGCTAAGATCCTGCATATATTGCGGATTCTTCACAGCTCGTGTGAACA
17275923 GCATTGTGTAACAGTTAATGTCGCGATTTA
66 GCATTGTGTAACAGTTAATGTCGCGATTTA
* * *
17275953 TTGGATACCTTATCGATGGCTAAGATCCTGCATATATTGCGGATTCTTCACAGCTCGTGTGAATA
1 GTGGATACCTTACCGATGGCTAAGATCCTGCATATATTGCGGATTCTTCACAGCTCGTGTGAACA
* * **
17276018 GTATTGTGTAACGGTTAATGTTTCGATTTA
66 GCATTGTGTAACAGTTAATGTCGCGATTTA
* * * * * * * * * * *
17276048 GTGGATACCTTGCCAATGGCTAAAATTCTGGATGTACTAC-GATTCTTCATAGCTTGTGTGAGCA
1 GTGGATACCTTACCGATGGCTAAGATCCTGCATATATTGCGGATTCTTCACAGCTCGTGTGAACA
17276112 GCA
66 GCA
17276115 CCATGTAATG
Statistics
Matches: 137, Mismatches: 25, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
94 22 0.16
95 115 0.84
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (95 bp):
GTGGATACCTTACCGATGGCTAAGATCCTGCATATATTGCGGATTCTTCACAGCTCGTGTGAACA
GCATTGTGTAACAGTTAATGTCGCGATTTA
Found at i:17277377 original size:20 final size:19
Alignment explanation
Indices: 17277337--17277378 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
17277327 TATGAATATG
*
17277337 TGATGATTTTGATATGTTT
1 TGATGATTTTGATATGGTT
17277356 TGATGAGTTTTGA-ATAGGTT
1 TGATGA-TTTTGATAT-GGTT
17277376 TGA
1 TGA
17277379 ACACAACACG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (19 bp):
TGATGATTTTGATATGGTT
Found at i:17277522 original size:17 final size:18
Alignment explanation
Indices: 17277497--17277531 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
17277487 ACTCTGCTTC
*
17277497 ATTTTTAAT-TGTTTTAT
1 ATTTATAATATGTTTTAT
17277514 ATTTATAATATGTTTTAT
1 ATTTATAATATGTTTTAT
17277532 TTAACACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
ATTTATAATATGTTTTAT
Found at i:17278571 original size:17 final size:17
Alignment explanation
Indices: 17278551--17278586 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
17278541 AATATGAAAC
17278551 GTATAAATTAATGGAAT
1 GTATAAATTAATGGAAT
*
17278568 GTATAAATTAATGGCAT
1 GTATAAATTAATGGAAT
17278585 GT
1 GT
17278587 GAGTACATGT
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:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (17 bp):
GTATAAATTAATGGAAT
Found at i:17285815 original size:144 final size:145
Alignment explanation
Indices: 17285611--17285901 Score: 424
Period size: 144 Copynumber: 2.0 Consensus size: 145
17285601 CTTACTCCTC
*
17285611 ATTCTCTTCTACTCTCCATCAATTTCTAGAACATAATAAGAAAGAATAAAAATTCTTTTCTCAAC
1 ATTCTCTTCTACTCTCCATCAATTTCTAGAACATAACAAGAAAGAATAAAAATTCTTTTCTCAAC
** * * *
17285676 ACTTTCAACTCTTGACCAATTTCCAGAAGATAA-AAAAAAATTAAAACTAAAACTCGTTTCTTAA
66 ACTTTCAACTCTCAACCAATTTCCAGAAGATAACAAAAAAACTAAAACTAAAACCCATTTCTTAA
*
17285740 TAATAGATCTGTAAA
131 TAATAGATCTATAAA
* *
17285755 ATTCTCTTCTACTCTCCATCAATTTCTAGAATATAACAAGAAAGAATAAAGATT-TATTTCTCAA
1 ATTCTCTTCTACTCTCCATCAATTTCTAGAACATAACAAGAAAGAATAAAAATTCT-TTTCTCAA
* * * * * *
17285819 TAGTTTCAACTCTCAATCAATTTCTAGAAGATAACAGAAAAACTAAAACTAAAACCCATTTTTTA
65 CACTTTCAACTCTCAACCAATTTCCAGAAGATAACAAAAAAACTAAAACTAAAACCCATTTCTTA
17285884 ATAATAGATCTATAAA
130 ATAATAGATCTATAAA
17285900 AT
1 AT
17285902 GTGATTTGGA
Statistics
Matches: 130, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
143 1 0.01
144 87 0.67
145 42 0.32
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (145 bp):
ATTCTCTTCTACTCTCCATCAATTTCTAGAACATAACAAGAAAGAATAAAAATTCTTTTCTCAAC
ACTTTCAACTCTCAACCAATTTCCAGAAGATAACAAAAAAACTAAAACTAAAACCCATTTCTTAA
TAATAGATCTATAAA
Found at i:17286117 original size:16 final size:16
Alignment explanation
Indices: 17286094--17286166 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 16
17286084 GAAAAGATTA
17286094 GATGAAGAAGATGAGT
1 GATGAAGAAGATGAGT
* *
17286110 GGTTAAG-AG-TGA-T
1 GATGAAGAAGATGAGT
*
17286123 GATGAAGAAGATGAGAA
1 GATGAAGAAGATGAG-T
*
17286140 GA-GAA-AAGATTA--
1 GATGAAGAAGATGAGT
17286152 GATGAAGAAGATGAG
1 GATGAAGAAGATGAG
17286167 AGAGAGGGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 15
0.66 0.11 0.23
Matches are distributed among these distances:
12 2 0.05
13 9 0.21
14 11 0.26
15 11 0.26
16 8 0.19
17 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.36, T:0.18
Consensus pattern (16 bp):
GATGAAGAAGATGAGT
Found at i:17286155 original size:29 final size:29
Alignment explanation
Indices: 17286080--17286172 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
17286070 ATTTCATGTT
17286080 AAGAGAAAAGATTAGATGAAGAAGATGAG
1 AAGAGAAAAGATTAGATGAAGAAGATGAG
* ** *
17286109 -TG-GTTAAGAGTGATGATGAAGAAGATGAG
1 AAGAGAAAAGA-TTA-GATGAAGAAGATGAG
17286138 AAGAGAAAAGATTAGATGAAGAAGATGAG
1 AAGAGAAAAGATTAGATGAAGAAGATGAG
17286167 AGAGAG
1 A-AGAG
17286173 GGACAATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
27 5 0.10
28 3 0.06
29 31 0.61
30 7 0.14
31 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.16
Consensus pattern (29 bp):
AAGAGAAAAGATTAGATGAAGAAGATGAG
Found at i:17286549 original size:16 final size:16
Alignment explanation
Indices: 17286525--17286571 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
17286515 TGTTATTAAA
*
17286525 TTATATAATTTTATTT
1 TTATATAATTATATTT
*
17286541 TTATTTAATTATATTT
1 TTATATAATTATATTT
*
17286557 AGTA-ATAATTATATT
1 -TTATATAATTATATT
17286572 AAAACATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 24 0.92
17 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTATATAATTATATTT
Done.