Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 47 of 235
Found at i:15590586 original size:15 final size:16
Alignment explanation
Indices: 15590566--15590595 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15590556 TGGTGCCTTG
15590566 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
15590581 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
15590596 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:15591205 original size:116 final size:116
Alignment explanation
Indices: 15591001--15591235 Score: 425
Period size: 116 Copynumber: 2.0 Consensus size: 116
15590991 TATTATAAAT
* *
15591001 GGTCTTTTGATATGTTTGAATGTGGTGAATTGGTATAATTGTTATAGTTGACATGAATGGCTATT
1 GGTCTTTTGATATGTTTGAATGTGGTGAATTGGTATAATTGTTATAGATGACATGAATGGCTACT
*
15591066 GGTGCTAGATGTAAAATGGCATATTTGGTACTTTTAGTGTGAAATTTGATA
66 GGTGCTACATGTAAAATGGCATATTTGGTACTTTTAGTGTGAAATTTGATA
15591117 GGTCTTTTGATATGTTTGAATGTGGTGAATTGGTATAATTGTTATAGATGACATGAATGGCTACT
1 GGTCTTTTGATATGTTTGAATGTGGTGAATTGGTATAATTGTTATAGATGACATGAATGGCTACT
* *
15591182 GGTGCTACATGTAACATGGCATATTTGGTACTTTTGGTGTGAAATTTGATA
66 GGTGCTACATGTAAAATGGCATATTTGGTACTTTTAGTGTGAAATTTGATA
15591233 GGT
1 GGT
15591236 AAACAAAGTG
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.41
Consensus pattern (116 bp):
GGTCTTTTGATATGTTTGAATGTGGTGAATTGGTATAATTGTTATAGATGACATGAATGGCTACT
GGTGCTACATGTAAAATGGCATATTTGGTACTTTTAGTGTGAAATTTGATA
Found at i:15593524 original size:34 final size:34
Alignment explanation
Indices: 15593481--15593550 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
15593471 TCTGAAGAGA
15593481 TAGTGTATGCCTAATGTGTAACACCCTTAACCCG
1 TAGTGTATGCCTAATGTGTAACACCCTTAACCCG
15593515 TAGTGTATGCCTAATGTGTAACACCCTTAACCCG
1 TAGTGTATGCCTAATGTGTAACACCCTTAACCCG
15593549 TA
1 TA
15593551 TCCGTCATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (34 bp):
TAGTGTATGCCTAATGTGTAACACCCTTAACCCG
Found at i:15597090 original size:40 final size:39
Alignment explanation
Indices: 15597059--15597268 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
15597049 GGACTAAGAT
* *
15597059 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
15597099 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
15597139 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
15597179 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
15597219 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
15597258 CCGAAGGCATT
1 CCGAAGGCATT
15597269 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:15597222 original size:120 final size:120
Alignment explanation
Indices: 15597006--15597268 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
15596996 TTGAATGCTG
* *
15597006 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
15597070 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
15597126 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
15597189 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
15597245 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
15597269 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:15597288 original size:79 final size:80
Alignment explanation
Indices: 15597007--15597303 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
15596997 TGAATGCTGT
* ** * * * **
15597007 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
15597070 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
15597087 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
15597151 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
15597167 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
15597231 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
15597246 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
15597304 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:15607201 original size:39 final size:39
Alignment explanation
Indices: 15607078--15607217 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 39
15607068 TGAATGCTGT
* * * * *
15607078 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGT-ATGAGTTACTATAA
* **
15607118 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-T-TAA
1 CCGGGCTAAG-TCCCGAAGGCA-TTGTATGAGTTACTATAA
*
15607156 TTCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 --CCGGGCTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
*
15607197 CCGGGCTATGTCCCGAAGGCA
1 CCGGGCTAAGTCCCGAAGGCA
15607218 CTTGAACGAG
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
38 2 0.03
39 31 0.39
40 39 0.49
41 8 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
Found at i:15611605 original size:27 final size:28
Alignment explanation
Indices: 15611553--15611605 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
15611543 ATACTGTAAG
* * *
15611553 GGGCTATGGCCCAGATTAAGATTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
15611581 GGGCTAAGGCCCA-ATTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
15611606 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:15614003 original size:19 final size:18
Alignment explanation
Indices: 15613979--15614023 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
15613969 TATATAATAA
*
15613979 AAATTTTAAGAATAAATTT
1 AAATTTTAACAAT-AATTT
* *
15613998 AAATTTTACCTATAATTT
1 AAATTTTAACAATAATTT
15614016 AAATTTTA
1 AAATTTTA
15614024 CTTATAATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (18 bp):
AAATTTTAACAATAATTT
Found at i:15614016 original size:18 final size:18
Alignment explanation
Indices: 15613993--15614032 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
15613983 TTTAAGAATA
15613993 AATTTAAATTTTACCTAT
1 AATTTAAATTTTACCTAT
*
15614011 AATTTAAATTTTACTTAT
1 AATTTAAATTTTACCTAT
15614029 AATT
1 AATT
15614033 CTATTGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTTAAATTTTACCTAT
Found at i:15616773 original size:6 final size:6
Alignment explanation
Indices: 15616762--15616789 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15616752 TAGTTTATTA
15616762 CACTTC CACTTC CACTTC CACTTC CACT
1 CACTTC CACTTC CACTTC CACTTC CACT
15616790 GATTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (6 bp):
CACTTC
Found at i:15617070 original size:16 final size:16
Alignment explanation
Indices: 15617032--15617102 Score: 81
Period size: 16 Copynumber: 4.4 Consensus size: 16
15617022 GTTTGGTTTA
*
15617032 CTGTAATAGAATAG-G
1 CTGTAATGGAATAGAG
* *
15617047 ACTATAATTGAATAGAG
1 -CTGTAATGGAATAGAG
*
15617064 CTGTAATGGAATAAAG
1 CTGTAATGGAATAGAG
*
15617080 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAG
15617096 CTGTAAT
1 CTGTAAT
15617103 CAGTAATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
16 46 0.98
17 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:15617283 original size:25 final size:26
Alignment explanation
Indices: 15617250--15617299 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
15617240 TAGGTAGATG
*
15617250 ATTATTGTT-ATTAAATTTTAATAAT
1 ATTATTGTTAAATAAATTTTAATAAT
*
15617275 ATTATTGTTAAATATATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
15617300 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAT
Found at i:15617361 original size:61 final size:58
Alignment explanation
Indices: 15617275--15617400 Score: 139
Period size: 57 Copynumber: 2.1 Consensus size: 58
15617265 TTTTAATAAT
* * * *
15617275 ATTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATAAATTTTAAT-AAAAT---AATAAATAATTTAATAACATTCTTAACATA
* *
15617336 ATTATTATTAAATACAATTTT-ATAAAATAATATATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATA-AATTTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
15617394 ATTATTA
1 ATTATTA
15617401 ATAATATTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
57 18 0.32
58 14 0.25
60 5 0.09
61 15 0.26
62 5 0.09
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAATAAATTTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:15617417 original size:13 final size:12
Alignment explanation
Indices: 15617363--15617425 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
15617353 TTTTATAAAA
15617363 TAATATATAA-TT
1 TAATA-ATAATTT
*
15617375 TAATAA-CATTCT
1 TAATAATAATT-T
15617387 TAAT-ATAATTAT
1 TAATAATAATT-T
15617399 TAATAAT-A-TT
1 TAATAATAATTT
15617409 TAATAATAATTT
1 TAATAATAATTT
15617421 TAATA
1 TAATA
15617426 TAAAATTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 9 0.21
11 5 0.12
12 26 0.62
13 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATAATAATTT
Found at i:15628743 original size:49 final size:49
Alignment explanation
Indices: 15628648--15628892 Score: 265
Period size: 49 Copynumber: 4.9 Consensus size: 49
15628638 TCTATTGTGA
* ** * *
15628648 GGTCACGTGTGTAGTACTAAGTGCAGGGAACTACGTGTATCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
15628697 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
** * * ** **
15628747 CGACCACGTGTGTAGTACTAAGTGCAGGCTAATACGTGTTTCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
15628797 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACCACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
15628847 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
15628893 GCTTTGGCTA
Statistics
Matches: 159, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
49 80 0.50
50 44 0.28
51 35 0.22
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:15628844 original size:101 final size:99
Alignment explanation
Indices: 15628651--15628876 Score: 285
Period size: 101 Copynumber: 2.3 Consensus size: 99
15628641 ATTGTGAGGT
* * *
15628651 CACGTGTGTAGTACTAAGTGCAGG-GAACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTAACTACGTGTATCAGATAATTGGTCACATGTGTAGTACT
* * *
15628715 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGAC
66 AAGTGCAGGCTACCACGCGTACCGGATAA-TT-GAC
* ** *
15628751 CACGTGTGTAGTACTAAGTGCAGGCTAA-TACGTGTTTCAGATGGTTAGGTCACGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTAACTACGTGTATCAGATAATT-GGTCACATGTGTAGTAC
* **
15628815 TAAGTGCAGGCTACCACGTGTACCGGATAATTGGT
65 TAAGTGCAGGCTACCACGCGTACCGGATAATTGAC
*
15628850 CACATGTGTAGTACTAAGTGCAGGCTA
1 CACGTGTGTAGTACTAAGTGCAGGCTA
15628877 CTATGCGTAC
Statistics
Matches: 110, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
99 27 0.25
100 40 0.36
101 43 0.39
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (99 bp):
CACGTGTGTAGTACTAAGTGCAGGCTAACTACGTGTATCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACCACGCGTACCGGATAATTGAC
Found at i:15635699 original size:64 final size:64
Alignment explanation
Indices: 15635619--15635804 Score: 182
Period size: 67 Copynumber: 2.9 Consensus size: 64
15635609 AGACATTATG
* * *
15635619 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGTTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * *
15635683 ATGTAGCTAGGTCGCATACGTGGCT-CCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
15635747 TAA
62 TAA
* * *
15635750 AT-TGGCTAGGTCACATGGGTGATACTGA-GTGTTCACCATGT-GTACAAGAGAGCTA
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGCTA
15635805 AACTCTATGA
Statistics
Matches: 97, Mismatches: 18, Indels: 15
0.75 0.14 0.12
Matches are distributed among these distances:
62 1 0.01
63 21 0.22
64 22 0.23
65 4 0.04
66 17 0.18
67 32 0.33
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:15644419 original size:18 final size:18
Alignment explanation
Indices: 15644370--15644419 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
15644360 TACAAAATAG
15644370 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
*
15644387 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
15644406 ACCCACTAACCCAA
1 ACCCACTAACCCAA
15644420 TACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.40, C:0.48, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:15646534 original size:24 final size:25
Alignment explanation
Indices: 15646506--15646570 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
15646496 TTTTTATATA
15646506 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
15646531 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
15646555 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
15646571 TTCAAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:15668977 original size:107 final size:107
Alignment explanation
Indices: 15668791--15669002 Score: 397
Period size: 107 Copynumber: 2.0 Consensus size: 107
15668781 TGAGAAGAAA
*
15668791 ACCAATTGGCTGATGCTCTGGCCACTTTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
*
15668856 ATGTCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
66 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
15668898 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
*
15668963 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTGCACATT
66 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATT
15669003 CTTTCAGCAT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 102 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (107 bp):
ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
Found at i:15671297 original size:74 final size:74
Alignment explanation
Indices: 15671172--15671646 Score: 399
Period size: 74 Copynumber: 6.2 Consensus size: 74
15671162 TGATGTTTTT
* ** * * * *
15671172 ATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGGGTTGAGCCTCAATAGACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
15671235 GTATTTTCA
66 GTATTTTCA
* * *
15671244 ATTTCTGTCTTTCAAAAAAATCAACTCATA-TGTGAGAGGTGAGTTGATCCTCAAGACATGCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
15671308 GGTATTTTCA
65 GGTATTTTCA
* * ** *
15671318 ATTTCTGTTTGTC--AAAAATCAACTCAAATTGCGATAGGTGAGTTGAGCCTCGGGGCACGCTGA
1 ATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
15671381 GGTATTTTCA
65 GGTATTTTCA
* * * *
15671391 ATTTTTGTTTTTTAATTTATGTTTCAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAA
1 ATTTCTG--TTTTCA---A------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
* *** *
15671456 GTCATATTGAGGTATTCTCA
55 GACACGCTGAGGTATTTTCA
* ** **
15671476 A-TT-TATCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACACGCT
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--CAAGACACGCT
15671538 GAGGTATTTTCA
63 GAGGTATTTTCA
** * *
15671550 ATTTCTACATTTCAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACG
1 ATTTCT-GTTTTC----AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
15671615 CTGAGGTATTTTCA
61 CTGAGGTATTTTCA
15671629 ATTTCTGTTTGTCAAAAA
1 ATTTCTGTTT-TCAAAAA
15671647 TCAATATTTT
Statistics
Matches: 320, Mismatches: 53, Indels: 57
0.74 0.12 0.13
Matches are distributed among these distances:
72 57 0.18
73 50 0.16
74 61 0.19
75 24 0.08
76 1 0.00
77 2 0.01
78 4 0.01
79 27 0.08
80 1 0.00
81 40 0.12
83 1 0.00
84 2 0.01
85 50 0.16
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (74 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
GTATTTTCA
Found at i:15671520 original size:72 final size:76
Alignment explanation
Indices: 15671416--15671632 Score: 232
Period size: 72 Copynumber: 2.9 Consensus size: 76
15671406 TTTATGTTTC
* * *
15671416 AAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAAG-TCATA-TTGAGGTATTCTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGCTCACACCTGAGGTATTCTCAATT
15671479 TAT-CA-TC-AA
65 TATACATTCAAA
* *
15671488 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACAC-CTGAGGTATTCTCAATT
*
15671553 TCTACATTTCAAAAAA
65 TATACA-TTC---AAA
* * * *
15671569 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACAC-CTGAGGTATTCTCAATT
15671632 T
65 T
15671633 CTGTTTGTCA
Statistics
Matches: 125, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
71 1 0.01
72 41 0.33
74 17 0.14
75 2 0.02
77 2 0.02
79 23 0.18
81 39 0.31
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACACCTGAGGTATTCTCAATTT
ATACATTCAAA
Found at i:15671620 original size:153 final size:153
Alignment explanation
Indices: 15671257--15671632 Score: 391
Period size: 153 Copynumber: 2.4 Consensus size: 153
15671247 TCTGTCTTTC
*
15671257 AAAAAAATCAACTCATATGT-GAGAGGTGAGTTGATCCTCAAGACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATAT-TCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
* ** *** * **
15671321 TCTGTTTGTCAAAAATCAACTCAAATTGCGATAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
65 TATGCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAT
* *** * *
15671386 TTTCAATTTTTGTTTTTTAATTTATGTT
130 TTTCAATTTCTACATTTCAA--TA--TA
** * * * ** *
15671414 TCAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATT
1 AAAAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
* *
15671479 TAT-CATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGT
65 TATGCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGT
15671543 ATTTTCAATTTCTACATTTCAA-A-A
128 ATTTTCAATTTCTACATTTCAATATA
* *
15671567 AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
15671632 T
65 T
15671633 CTGTTTGTCA
Statistics
Matches: 178, Mismatches: 37, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
153 55 0.31
156 2 0.01
157 53 0.30
158 40 0.22
159 28 0.16
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (153 bp):
AAAAAAATCAACTCATATTCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTT
ATGCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTATT
TTCAATTTCTACATTTCAATATA
Found at i:15671778 original size:86 final size:87
Alignment explanation
Indices: 15671488--15671903 Score: 430
Period size: 86 Copynumber: 4.8 Consensus size: 87
15671478 TTATCATCAA
*
15671488 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
* * *
15671553 TCTACATTTCAAA---A---A--A
66 TCT--GTTTTAAATTCATGTATTC
*
15671569 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAAT
* * *
15671631 TTCTGTTTGTCAAAAATCAATATTTTTC
65 TTCTGTTT-T--AAATTC-AT-GTATTC
* * * * *
15671659 ATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
*
15671724 TCTGTTTT-ACTTCATGTATTC
66 TCTGTTTTAAATTCATGTATTC
**
15671745 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAAT
* * *
15671807 TTCTGTTTTCAATTTATGTTTTTC
65 TTCTGTTTTAAATTCATG-TATTC
* * * *
15671831 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
15671896 TCTGTTTT
66 TCTGTTTT
15671904 TAATATCTGT
Statistics
Matches: 282, Mismatches: 30, Indels: 39
0.80 0.09 0.11
Matches are distributed among these distances:
77 3 0.01
79 25 0.09
80 3 0.01
81 36 0.13
82 2 0.01
84 29 0.10
85 8 0.03
86 76 0.27
87 4 0.01
88 30 0.11
89 2 0.01
90 36 0.13
91 1 0.00
92 27 0.10
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
TCTGTTTTAAATTCATGTATTC
Found at i:15671832 original size:14 final size:13
Alignment explanation
Indices: 15671799--15671828 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15671789 CGCTGAGGTA
*
15671799 TTTTCAATTTCTG
1 TTTTCAATTTATG
15671812 TTTTCAATTTATG
1 TTTTCAATTTATG
15671825 TTTT
1 TTTT
15671829 TCAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:15671895 original size:172 final size:172
Alignment explanation
Indices: 15671488--15671903 Score: 581
Period size: 172 Copynumber: 2.4 Consensus size: 172
15671478 TTATCATCAA
* *
15671488 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
** * **
15671553 TC---TACATTTCAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACG
66 TCTGTTTTACTTCAAAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACG
15671615 CTGAGGTATTTTCAATTTCTGTTTGTCAAAAATCAATATTTTTC
131 CTGAGGTATTTTCAATTTCTGTTTGTC--AAATCAATATTTTTC
* * * *
15671659 ATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
* *** *
15671724 TCTGTTTTACTTCATGTATTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
66 TCTGTTTTACTTCA--AAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACA
** *
15671789 CGCTGAGGTATTTTCAATTTCTGTTT-TC-AATTTATGTTTTTC
129 CGCTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
*
15671831 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
15671896 TCTGTTTT
66 TCTGTTTT
15671904 TAATATCTGT
Statistics
Matches: 216, Mismatches: 24, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
171 61 0.28
172 79 0.37
174 6 0.03
175 2 0.01
176 68 0.31
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (172 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
TCTGTTTTACTTCAAAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
Found at i:15672584 original size:18 final size:18
Alignment explanation
Indices: 15672535--15672584 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
15672525 TACAAAACAG
15672535 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
*
15672552 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
15672571 ACCCACTAACCCAA
1 ACCCACTAACCCAA
15672585 TACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.40, C:0.48, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:15674702 original size:41 final size:40
Alignment explanation
Indices: 15674653--15674820 Score: 137
Period size: 41 Copynumber: 4.2 Consensus size: 40
15674643 AGCCCGATCC
*
15674653 TTAG-CACTGGCTCAAAAGCCCTTTGAGACCAAACTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAACTCGGA
* * * *
15674692 TTAGACCACTGGCTCAAAGGCCCTTCG-GAACTAAGTCCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTCGAGACCAAACT-CGGA
* * * ** *
15674732 TTATGACACTGGCTCTAAAGCCCTTCGAAACTAAGTTCAGTTA
1 TTA-GACACTGGCTCAAAAGCCCTTCGAGACCAAACTC-G-GA
* *
15674775 TTAG-CACTGGCTCAAAAGCCCTTCGAGATCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAACTCGGA
15674814 TTTAGAC
1 -TTAGAC
15674821 CCCGATTAAC
Statistics
Matches: 99, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
39 5 0.05
40 34 0.34
41 56 0.57
42 1 0.01
43 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAACTCGGA
Found at i:15674755 original size:40 final size:40
Alignment explanation
Indices: 15674698--15674800 Score: 136
Period size: 40 Copynumber: 2.5 Consensus size: 40
15674688 CGGATTAGAC
* *
15674698 CACTGGCTCAAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 CACTGGCTCAAA-GCCCTTCGAAACTAAGTCCAGTTATGAG
* *
15674738 CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCAGTTATTAG
1 CACTGGCTC-AAAGCCCTTCGAAACTAAGTCCAGTTATGAG
15674779 CACTGGCTCAAAAGCCCTTCGA
1 CACTGGCTC-AAAGCCCTTCGA
15674801 GATCAAGCTC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
40 32 0.57
41 24 0.43
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CACTGGCTCAAAGCCCTTCGAAACTAAGTCCAGTTATGAG
Found at i:15677425 original size:29 final size:30
Alignment explanation
Indices: 15677362--15677426 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
15677352 ATATTATTTG
* *
15677362 TATATTATATATATATATTCTTAAATATCA
1 TATATTATATATATATATACTTAAATATAA
* * *
15677392 T-TATTATTTATATATATACTT-TATGTAA
1 TATATTATATATATATATACTTAAATATAA
15677420 TATATTA
1 TATATTA
15677427 ATAGTTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 5 0.17
29 23 0.79
30 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (30 bp):
TATATTATATATATATATACTTAAATATAA
Found at i:15677948 original size:24 final size:25
Alignment explanation
Indices: 15677920--15677984 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
15677910 TTTTTATATA
15677920 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
15677945 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
15677969 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
15677985 TTCAAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:15680734 original size:100 final size:100
Alignment explanation
Indices: 15680561--15680762 Score: 395
Period size: 100 Copynumber: 2.0 Consensus size: 100
15680551 GGATTGACTT
*
15680561 GTCTGTAATATGGTACTTGTCCCTGTTAATATACTTTGGGTAAATAATGTGGTTTGAAGTATGTA
1 GTCTGTAATATGGTACTTGACCCTGTTAATATACTTTGGGTAAATAATGTGGTTTGAAGTATGTA
15680626 TGTAAGTGAGTCTAAGAAGCATATGTAAATATTAA
66 TGTAAGTGAGTCTAAGAAGCATATGTAAATATTAA
15680661 GTCTGTAATATGGTACTTGACCCTGTTAATATACTTTGGGTAAATAATGTGGTTTGAAGTATGTA
1 GTCTGTAATATGGTACTTGACCCTGTTAATATACTTTGGGTAAATAATGTGGTTTGAAGTATGTA
15680726 TGTAAGTGAGTCTAAGAAGCATATGTAAATATTAA
66 TGTAAGTGAGTCTAAGAAGCATATGTAAATATTAA
15680761 GT
1 GT
15680763 TGTTTTTAAA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (100 bp):
GTCTGTAATATGGTACTTGACCCTGTTAATATACTTTGGGTAAATAATGTGGTTTGAAGTATGTA
TGTAAGTGAGTCTAAGAAGCATATGTAAATATTAA
Found at i:15682333 original size:32 final size:32
Alignment explanation
Indices: 15682287--15682356 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
15682277 GTTGGCTTTG
* * *
15682287 AAGTTAGAGATGTACACAAAATAACATTCGGT
1 AAGTCAGAGATGTACACAAAAGAACATCCGGT
15682319 AAGTCAGAGATGTACACAAAAGAACATCCGGT
1 AAGTCAGAGATGTACACAAAAGAACATCCGGT
15682351 AAGTCA
1 AAGTCA
15682357 TTCTAGTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (32 bp):
AAGTCAGAGATGTACACAAAAGAACATCCGGT
Found at i:15684853 original size:25 final size:25
Alignment explanation
Indices: 15684824--15684871 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15684814 TTATAATATG
* *
15684824 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
15684849 AAAATGACTATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
15684872 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:15684938 original size:20 final size:20
Alignment explanation
Indices: 15684915--15684952 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
15684905 TAAACATGGT
15684915 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
15684935 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
15684953 GTGTATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:15685032 original size:22 final size:22
Alignment explanation
Indices: 15685004--15685094 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 22
15684994 GGAAGTGCAA
*
15685004 AAGGGCTTATGCCCCAATTATT
1 AAGGGCTTATGCCCCAGTTATT
15685026 AAGGGCTTATGCCCCAGTTATT
1 AAGGGCTTATGCCCCAGTTATT
15685048 AAAGGGCTTATGCCCCAGTTATT
1 -AAGGGCTTATGCCCCAGTTATT
* *
15685071 AAAAGGGCTTTTGTCCCAGTTATT
1 --AAGGGCTTATGCCCCAGTTATT
15685095 GAAAGAGGCT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.33
23 22 0.34
24 21 0.33
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (22 bp):
AAGGGCTTATGCCCCAGTTATT
Found at i:15685080 original size:24 final size:23
Alignment explanation
Indices: 15685003--15685104 Score: 143
Period size: 24 Copynumber: 4.3 Consensus size: 23
15684993 AGGAAGTGCA
*
15685003 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
15685026 -AAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
15685048 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
15685071 AAAAGGGCTTTTGTCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
15685095 GAAAGAGGCT
1 -AAAG-GGCT
15685105 AGGCCTCCAG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
22 21 0.29
23 22 0.31
24 25 0.35
25 4 0.06
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:15691863 original size:25 final size:25
Alignment explanation
Indices: 15691835--15691882 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
15691825 TCGAGCCTTA
*
15691835 TAACAGGAAGCTCATGTGAGCCATG
1 TAACAGGAAGCTCATGAGAGCCATG
*
15691860 TAACGGGAAGCTCATGAGAGCCA
1 TAACAGGAAGCTCATGAGAGCCA
15691883 CAATCAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
TAACAGGAAGCTCATGAGAGCCATG
Found at i:15693946 original size:17 final size:16
Alignment explanation
Indices: 15693921--15693968 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
15693911 AAAAAATATT
15693921 TTAATTTTTTAAAAAA
1 TTAATTTTTTAAAAAA
15693937 TT-ATATTTTTAAAATAA
1 TTAAT-TTTTTAAAA-AA
*
15693954 TTAATATTTTAAAAA
1 TTAATTTTTTAAAAA
15693969 TAAAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 2 0.07
16 12 0.43
17 12 0.43
18 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATTTTTTAAAAAA
Found at i:15693968 original size:18 final size:18
Alignment explanation
Indices: 15693921--15693971 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
15693911 AAAAAATATT
15693921 TTAAT-TTTTTAAAA-AA
1 TTAATATTTTTAAAATAA
15693937 TT-ATATTTTTAAAATAA
1 TTAATATTTTTAAAATAA
*
15693954 TTAATATTTTAAAAATAA
1 TTAATATTTTTAAAATAA
15693972 AAATATAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 2 0.06
16 11 0.35
17 4 0.13
18 14 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATATTTTTAAAATAA
Found at i:15693976 original size:17 final size:18
Alignment explanation
Indices: 15693939--15693977 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15693929 TTAAAAAATT
* *
15693939 ATATTTTTAAAATAATTA
1 ATATTTTAAAAATAATAA
15693957 ATATTTTAAAAATAA-AA
1 ATATTTTAAAAATAATAA
15693974 ATAT
1 ATAT
15693978 AAGATACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATTTTAAAAATAATAA
Found at i:15695175 original size:57 final size:59
Alignment explanation
Indices: 15695092--15695212 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 59
15695082 TTTTTCAAAT
* * *
15695092 CATTTTCATTTTTCATTTTGGAGAAAATCACATTCATTTCCAAAT-TATTT-CATTTCTC
1 CATTTTCATTTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGT-TTTACATTTCTC
** *
15695150 CATTTTCA-TTTTCATTTTAGAGAAAACCTTAATCATTTCCAAATGTTTTATATTTCTC
1 CATTTTCATTTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGTTTTACATTTCTC
15695208 CATTT
1 CATTT
15695213 CACCATTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
57 34 0.62
58 21 0.38
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (59 bp):
CATTTTCATTTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGTTTTACATTTCTC
Found at i:15703741 original size:27 final size:27
Alignment explanation
Indices: 15703683--15703772 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
15703673 AGGAAGCGTC
15703683 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
15703711 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
15703738 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
15703767 CTGGTG
1 CTGGTG
15703773 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:15703791 original size:55 final size:56
Alignment explanation
Indices: 15703683--15703797 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
15703673 AGGAAGCGTC
* *
15703683 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
15703738 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
15703794 CTGG
1 CTGG
15703798 CAGACATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:15707502 original size:7 final size:7
Alignment explanation
Indices: 15707490--15707553 Score: 69
Period size: 7 Copynumber: 9.1 Consensus size: 7
15707480 ACCTTATTTT
15707490 TATATTA
1 TATATTA
15707497 TATATTA
1 TATATTA
15707504 TATAATTA
1 TAT-ATTA
*
15707512 TTTTATTA
1 -TATATTA
15707520 TATATTA
1 TATATTA
*
15707527 TTTA-TA
1 TATATTA
15707533 T-TATTA
1 TATATTA
*
15707539 TTTATTA
1 TATATTA
15707546 TATATTA
1 TATATTA
15707553 T
1 T
15707554 TTTTCACAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
5 2 0.04
6 6 0.12
7 31 0.63
8 8 0.16
9 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATATTA
Found at i:15707518 original size:23 final size:26
Alignment explanation
Indices: 15707483--15707553 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
15707473 ATTTTTAACC
*
15707483 TTATTTTTATATTATATATTATATA-A
1 TTATTATT-TATTATATATTATATATA
*
15707509 TTA-T-TTTATTATATATTATTTATA
1 TTATTATTTATTATATATTATATATA
15707533 TTATTATTTATTATATATTAT
1 TTATTATTTATTATATATTAT
15707554 TTTTCACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
23 15 0.37
24 6 0.15
25 2 0.05
26 18 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
TTATTATTTATTATATATTATATATA
Found at i:15707528 original size:3 final size:3
Alignment explanation
Indices: 15707483--15707649 Score: 64
Period size: 3 Copynumber: 54.0 Consensus size: 3
15707473 ATTTTTAACC
* *
15707483 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* **
15707527 TT- TATA TTA TTA TTTA TTA TATA TTA TTT TTCA CAAA TTA TTA TTA
1 TTA T-TA TTA TTA -TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA TTA
*
15707573 TT- TTA -CA TTA TTA TTTA TATA TTA TTA TGTCA TT- TT- TTA -TA TTA
1 TTA TTA TTA TTA TTA -TTA T-TA TTA TTA T-T-A TTA TTA TTA TTA TTA
* * *
15707617 TTA TACA TTT TTA TCTA TATA TTA TTA TCA TTA
1 TTA T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA
15707650 AAGGTTTTTA
Statistics
Matches: 124, Mismatches: 19, Indels: 42
0.67 0.10 0.23
Matches are distributed among these distances:
2 16 0.13
3 76 0.61
4 30 0.24
5 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:15707597 original size:30 final size:29
Alignment explanation
Indices: 15707489--15707600 Score: 93
Period size: 30 Copynumber: 3.6 Consensus size: 29
15707479 AACCTTATTT
15707489 TTATATTATATATTATATAATTATTTT-ATTA
1 TTAT-TTATATATTAT-T-ATTATTTTAATTA
* *
15707520 TATATTATTTATATTATTATTTATTATATATTA
1 T-TATT-TATATATTATTA-TTATTTTA-ATTA
* *
15707553 TT-TTTCACAAATTATTATTATTTTACATTA
1 TTATTT-ATATATTATTATTATTTTA-ATTA
15707583 TTATTTATATATTATTAT
1 TTATTTATATATTATTAT
15707601 GTCATTTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
30 25 0.38
31 22 0.34
32 13 0.20
33 5 0.08
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TTATTTATATATTATTATTATTTTAATTA
Found at i:15707628 original size:20 final size:22
Alignment explanation
Indices: 15707590--15707641 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
15707580 TTATTATTTA
*
15707590 TATATTATTATGTCATTTT-T-
1 TATATTATTATGACATTTTATC
15707610 TATATTATTAT-ACATTTTTATC
1 TATATTATTATGACA-TTTTATC
15707632 TATA-TATTAT
1 TATATTATTAT
15707642 TATCATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 7 0.25
22 4 0.14
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (22 bp):
TATATTATTATGACATTTTATC
Found at i:15707928 original size:18 final size:17
Alignment explanation
Indices: 15707904--15707963 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
15707894 CCAATATATT
15707904 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
15707921 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
15707937 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
15707955 TTATATTTT
1 TTATATTTT
15707964 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:15707948 original size:15 final size:16
Alignment explanation
Indices: 15707905--15707963 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
15707895 CAATATATTT
15707905 TATATTTTTTATATAA
1 TATATTTTTTATATAA
15707921 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
15707937 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
15707955 TTATATTTT
1 -TATATTTT
15707964 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:15707988 original size:26 final size:26
Alignment explanation
Indices: 15707940--15707989 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
15707930 TTATAAATAT
* * * *
15707940 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
15707966 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
15707990 TTTTATATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:15710012 original size:42 final size:43
Alignment explanation
Indices: 15709906--15710046 Score: 148
Period size: 42 Copynumber: 3.3 Consensus size: 43
15709896 TATGTGTTTT
* *
15709906 CATGTAAGACCACGTCT-GGA-ATGTTGGCATCGAT-TTGAGATTTA
1 CATGTAAGACCATGTCTGGGACA-G-TGGCATCGATATT-TGA-TTA
* *
15709950 CATGTAAGACCATGTTTGGGACA-TCGGCATC-ATATTTGATTT
1 CATGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGATTA
* *
15709992 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTA
15710035 CATGTAAGACCA
1 CATGTAAGACCA
15710047 CATATAGGAC
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
42 28 0.35
43 26 0.32
44 23 0.28
45 3 0.04
46 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTA
Found at i:15710029 original size:43 final size:42
Alignment explanation
Indices: 15709893--15710046 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 42
15709883 TATAGGATTC
* * * * **
15709893 CGATATGTGTTTTCATGTAAGACCACGTCTGGAATGTTGGCAT
1 CGATATTTGATTTCATGTAAGACCATGTCTGGGA-CATGGCAT
* *
15709936 CGAT-TTGAGATTTACATGTAAGACCATGTTTGGGACATCGGCAT
1 CGATATT-TGATTT-CATGTAAGACCATGTCTGGGACAT-GGCAT
* *
15709980 C-ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATTTGATTTCATGTAAGACCATGTCTGGGACA-TGGCAT
*
15710022 CGATATTTGATTACATGTAAGACCA
1 CGATATTTGATTTCATGTAAGACCA
15710047 CATATAGGAC
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
42 27 0.30
43 37 0.41
44 26 0.29
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (42 bp):
CGATATTTGATTTCATGTAAGACCATGTCTGGGACATGGCAT
Found at i:15710063 original size:43 final size:43
Alignment explanation
Indices: 15709906--15710064 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
15709896 TATGTGTTTT
* * *
15709906 CATGTAAGACCACGTCTGGAATGTTGGCATCGAT-TTGAGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGA-TTA
* * * * *
15709950 CATGTAAGACCATGTTTGGGACATCGGCATC-ATATTTGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
*
15709992 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTA
* * *
15710035 CATGTAAGACCACATATAGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
15710065 TGTACGAGCC
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 28 0.31
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:15712256 original size:20 final size:21
Alignment explanation
Indices: 15712222--15712260 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
15712212 TTATAATATC
*
15712222 ATAAATAATATGAATAAAAAA
1 ATAAATAATAGGAATAAAAAA
15712243 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
15712261 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (21 bp):
ATAAATAATAGGAATAAAAAA
Found at i:15712710 original size:24 final size:24
Alignment explanation
Indices: 15712678--15712739 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
15712668 AACTAAGTGA
***
15712678 CACTATGTGTGCGAGATTCCCTGG
1 CACTATGTGTGCGAGAAAACCTGG
* *
15712702 CACTATGTGTGGGAGAAAACGTGG
1 CACTATGTGTGCGAGAAAACCTGG
15712726 CACTATGTGTGCGA
1 CACTATGTGTGCGA
15712740 ATAAGTAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (24 bp):
CACTATGTGTGCGAGAAAACCTGG
Found at i:15716332 original size:31 final size:31
Alignment explanation
Indices: 15716285--15716347 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
15716275 GTTGCGAGTT
*
15716285 AGAGATTCTGACGTTCCTAAAACTGCTTTCA
1 AGAGATTCTGACGTTCCTAAAACTACTTTCA
* * *
15716316 AGAGATTTTGATGTTCCTAAGACTACTTTCA
1 AGAGATTCTGACGTTCCTAAAACTACTTTCA
15716347 A
1 A
15716348 AACGAGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (31 bp):
AGAGATTCTGACGTTCCTAAAACTACTTTCA
Found at i:15719187 original size:19 final size:20
Alignment explanation
Indices: 15719154--15719191 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15719144 TTATAATATC
*
15719154 ATAAATAATATGAATAAAAA
1 ATAAATAATAGGAATAAAAA
15719174 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
15719192 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
ATAAATAATAGGAATAAAAA
Found at i:15719637 original size:49 final size:48
Alignment explanation
Indices: 15719561--15719672 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 48
15719551 AGAAATTTCA
* * ** *
15719561 GCACTATGTGTGCAAGGTTATGCGACACTATGTGTGC-A-AAAACTAAGTG
1 GCACTATGTGTGCGAGATTACACGACACTATGTGTACGAGAAAAC---GTG
*
15719610 GCACTATGTGTGCGAGATTACATGACACTATGTGTACGAGAAAACGTG
1 GCACTATGTGTGCGAGATTACACGACACTATGTGTACGAGAAAACGTG
15719658 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
15719673 ATAAGTAAGA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 18 0.33
49 31 0.56
50 1 0.02
51 5 0.09
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (48 bp):
GCACTATGTGTGCGAGATTACACGACACTATGTGTACGAGAAAACGTG
Found at i:15719643 original size:24 final size:24
Alignment explanation
Indices: 15719584--15719672 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 24
15719574 AAGGTTATGC
15719584 GACACTATGTGTGC-A-AAAACTAAGT
1 GACACTATGTGTGCGAGAAAAC--A-T
* **
15719609 GGCACTATGTGTGCGAGATTACAT
1 GACACTATGTGTGCGAGAAAACAT
* *
15719633 GACACTATGTGTACGAGAAAACGT
1 GACACTATGTGTGCGAGAAAACAT
*
15719657 GGCACTATGTGTGCGA
1 GACACTATGTGTGCGA
15719673 ATAAGTAAGA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
24 34 0.65
25 14 0.27
26 1 0.02
27 3 0.06
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (24 bp):
GACACTATGTGTGCGAGAAAACAT
Found at i:15725986 original size:13 final size:13
Alignment explanation
Indices: 15725968--15725992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15725958 TAATTTATAT
15725968 GTGTGAAAATTTC
1 GTGTGAAAATTTC
15725981 GTGTGAAAATTT
1 GTGTGAAAATTT
15725993 TATTGTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:15734071 original size:13 final size:13
Alignment explanation
Indices: 15734053--15734077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15734043 TAATTTATAT
15734053 GTGTGAAAATTTC
1 GTGTGAAAATTTC
15734066 GTGTGAAAATTT
1 GTGTGAAAATTT
15734078 TATCGTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:15736808 original size:54 final size:54
Alignment explanation
Indices: 15736627--15736820 Score: 248
Period size: 55 Copynumber: 3.6 Consensus size: 54
15736617 TTACCATTTT
* * * *
15736627 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
* ** *
15736680 CATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATGC
* * *
15736735 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGC
1 CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
*
15736789 CATGCCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGACATGGTCTTACATGATATCCTT
15736821 ATCTTACCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 31 0.26
54 42 0.35
55 44 0.36
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGC
Found at i:15737270 original size:45 final size:45
Alignment explanation
Indices: 15737219--15737308 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
15737209 AATGCTACTC
*
15737219 AACTTACATACTTACATTCTCAATCTCATCATATCATCAACTTAA
1 AACTTACATACTTACATTCTAAATCTCATCATATCATCAACTTAA
*
15737264 AACTTACATACTTATATTCTAAATCTCATCATATCATCAACTTAA
1 AACTTACATACTTACATTCTAAATCTCATCATATCATCAACTTAA
15737309 CTTATTCTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (45 bp):
AACTTACATACTTACATTCTAAATCTCATCATATCATCAACTTAA
Found at i:15742246 original size:10 final size:12
Alignment explanation
Indices: 15742225--15742258 Score: 54
Period size: 10 Copynumber: 3.0 Consensus size: 12
15742215 TTGAGTGATG
15742225 TGTAGAGAGATT
1 TGTAGAGAGATT
15742237 T-TAG-GAGATT
1 TGTAGAGAGATT
15742247 TGTAGAGAGATT
1 TGTAGAGAGATT
15742259 GGGAGTGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.35
11 6 0.30
12 7 0.35
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (12 bp):
TGTAGAGAGATT
Found at i:15744556 original size:43 final size:42
Alignment explanation
Indices: 15744503--15744621 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
15744493 TGAAAAGTAT
* * *
15744503 ATACAATGCCAATGTCCCAGACATGGTCTTACATGCAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * *
15744545 ACGT-CGATGCCACTGTCCCAGACAAGGTCTTACACGAAATCAG
1 A--TACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
*
15744588 ATACGAT-CTCGATGTCCCAGACATGGTCTTACAC
1 ATACGATGC-CAATGTCCCAGACATGGTCTTACAC
15744622 ATAAAACAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.03
42 27 0.42
43 34 0.53
44 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:15752754 original size:48 final size:48
Alignment explanation
Indices: 15752618--15752789 Score: 195
Period size: 48 Copynumber: 3.6 Consensus size: 48
15752608 AAATGTGTCT
* * * * *
15752618 GTGTAAGACCATGTTTGGGACATGGCATCGATGATGATATATATGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCA
*
15752666 GTGTAAGACCATGTCTAGGACATGGCATCGGTGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCA
** * * *
15752714 GTGTAAGATAATGTCTGGGACATGGTATTGGTGATGATATGTG-GATTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTG--CCA
* *
15752763 -TCTAAGACCATGTCGGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
15752790 TGGTACTTTA
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
47 1 0.01
48 102 0.97
49 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGCCA
Found at i:15758017 original size:35 final size:35
Alignment explanation
Indices: 15757971--15758040 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
15757961 AAGAATCATC
*
15757971 TTTCATATTTTATTTTTATGTTTCTTTGCTTGAGG
1 TTTCATATTTTATTTTTATGTTTCTTTACTTGAGG
15758006 TTTCATATTTTATTTTTATGTTTCTTTACTTGAGG
1 TTTCATATTTTATTTTTATGTTTCTTTACTTGAGG
15758041 ACAAGCAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.16, C:0.09, G:0.13, T:0.63
Consensus pattern (35 bp):
TTTCATATTTTATTTTTATGTTTCTTTACTTGAGG
Found at i:15758975 original size:235 final size:237
Alignment explanation
Indices: 15758544--15759009 Score: 810
Period size: 235 Copynumber: 2.0 Consensus size: 237
15758534 CAACTTGGTC
15758544 AATAGTGTTTTGTAAGTATGGGTTCCAAAACGGAAACAGTTAAGGAATCACAAAAAGGCTAGGTG
1 AATAGTGTTTTGTAAGTATGGGTTCCAAAACGGAAACAGTTAAGGAATCACAAAAAGGCTAGGTG
* * *
15758609 AAGAATGTAAGTAATGTCCTAAATATGCTAAGGGTTAGAAATAGTCACAAAGCAATGTATAGTGT
66 AAGAATGTAAGTAATGTACTAAATATGCTAAGGGTTAGAAATAGCCACAAAGCAATGTATAGCGT
* * *
15758674 CTATGTTAGGATGAAGAAAGGTACTCGCCAAAGTCAAGTTGAAAAATGAAGAATAATGAGATGAT
131 CTATGTTAGGATGAAAAAAGGTACTCGCCAAAGTCAAGCTGAAAAACGAAGAATAATGAGATGAT
15758739 AATGAAATCACCAGATGCATTGTACTAAGAT-GGTATAGGTA
196 AATGAAATCACCAGATGCATTGTACTAAGATAGGTATAGGTA
* *
15758780 AATAGTGTTTTGTAAGTAT-GGTTCCAAAATGGAAACAGTTAAGGAATCACGAAAAGGCTAGGTG
1 AATAGTGTTTTGTAAGTATGGGTTCCAAAACGGAAACAGTTAAGGAATCACAAAAAGGCTAGGTG
* * *
15758844 AAGAATGTAAGTAATGTACTAAATATGCTAAGGGTTAGGAATGGCCACAAAGCAATGTATGGCGT
66 AAGAATGTAAGTAATGTACTAAATATGCTAAGGGTTAGAAATAGCCACAAAGCAATGTATAGCGT
*
15758909 CTATGTTAGGATGAAAAAAGGTACTCGCCAAAGTCAAGCTGAAGAACGAAGAATAATGAGATGAT
131 CTATGTTAGGATGAAAAAAGGTACTCGCCAAAGTCAAGCTGAAAAACGAAGAATAATGAGATGAT
15758974 AATGAAATCACCAGATGCATTGTACTAAGATAGGTA
196 AATGAAATCACCAGATGCATTGTACTAAGATAGGTA
15759010 AATGGAGTTT
Statistics
Matches: 217, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
235 194 0.89
236 23 0.11
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (237 bp):
AATAGTGTTTTGTAAGTATGGGTTCCAAAACGGAAACAGTTAAGGAATCACAAAAAGGCTAGGTG
AAGAATGTAAGTAATGTACTAAATATGCTAAGGGTTAGAAATAGCCACAAAGCAATGTATAGCGT
CTATGTTAGGATGAAAAAAGGTACTCGCCAAAGTCAAGCTGAAAAACGAAGAATAATGAGATGAT
AATGAAATCACCAGATGCATTGTACTAAGATAGGTATAGGTA
Found at i:15761441 original size:37 final size:37
Alignment explanation
Indices: 15761400--15761630 Score: 127
Period size: 37 Copynumber: 6.2 Consensus size: 37
15761390 CCACCTTTAA
*
15761400 GGCATAATCCAAGGAGGTCAGCAAGACTCAGCTATAT
1 GGCATAATCCAAGGAGGTCAGCTAGACTCAGCTATAT
* * * * * *
15761437 GGCATGATCTAGGGAGGTCCGCTAAACT-TGCCTATAT
1 GGCATAATCCAAGGAGGTCAGCTAGACTCAG-CTATAT
* ** * * *
15761474 GGCATGAT-CTGGGAAGGTTC-GCTAGA-TCCATCTTTAA
1 GGCATAATCCAAGG-AGG-TCAGCTAGACT-CAGCTATAT
*
15761511 GGCATAATCCAGGGAGGTCAGCTAGACTC-GCTTATAT
1 GGCATAATCCAAGGAGGTCAGCTAGACTCAGC-TATAT
* * * * * * *
15761548 GGCATGATCCAAGAAGGTTC-GCCAGATTCACCTTTAA
1 GGCATAATCCAAGGAGG-TCAGCTAGACTCAGCTATAT
* *
15761585 GGCATAATCCAATGAGGTCAACTAGA--CATGCCTATAT
1 GGCATAATCCAAGGAGGTCAGCTAGACTCA-G-CTATAT
15761622 GGCATAATC
1 GGCATAATC
15761631 TAGTAGAGTC
Statistics
Matches: 145, Mismatches: 35, Indels: 28
0.70 0.17 0.13
Matches are distributed among these distances:
35 2 0.01
36 10 0.07
37 123 0.85
38 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCATAATCCAAGGAGGTCAGCTAGACTCAGCTATAT
Found at i:15761549 original size:74 final size:73
Alignment explanation
Indices: 15761437--15761632 Score: 230
Period size: 74 Copynumber: 2.6 Consensus size: 73
15761427 TCAGCTATAT
* * * * ** *
15761437 GGCATGATCTAGGGAGGTCCGCTAAACTTGCCTATATGGCATGATCTGGGAAGGTTCGCTAGATC
1 GGCATAATCCAGGGAGGTCAGCTAGAC-TGCCTATATGGCATGATCTAAGAAGGTTCGCCAGATC
*
15761502 CATCTTTAA
65 CACCTTTAA
* * *
15761511 GGCATAATCCAGGGAGGTCAGCTAGACTCGCTTATATGGCATGATCCAAGAAGGTTCGCCAGATT
1 GGCATAATCCAGGGAGGTCAGCTAGACT-GCCTATATGGCATGATCTAAGAAGGTTCGCCAGATC
15761576 CACCTTTAA
65 CACCTTTAA
** * *
15761585 GGCATAATCCAATGAGGTCAACTAGACATGCCTATATGGCATAATCTA
1 GGCATAATCCAGGGAGGTCAGCTAGAC-TGCCTATATGGCATGATCTA
15761633 GTAGAGTCCA
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
73 1 0.01
74 101 0.98
75 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (73 bp):
GGCATAATCCAGGGAGGTCAGCTAGACTGCCTATATGGCATGATCTAAGAAGGTTCGCCAGATCC
ACCTTTAA
Found at i:15761589 original size:111 final size:111
Alignment explanation
Indices: 15761379--15761589 Score: 264
Period size: 111 Copynumber: 1.9 Consensus size: 111
15761369 ATCCAGGTAA
15761379 GTTCGCCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCAAGACTCAGCTATATGGCATGA
1 GTTCGCCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCAAGACTCAGCTATATGGCATGA
* * * * * *
15761444 TCTAGGGAGGTCCGCTAAACTTGCCTATATGGCATGATCTGGGAAG
66 TCCAAGAAGGTCCGCCAAACTTACCTATAAGGCATGATCTGGGAAG
* * * * *
15761490 GTTCGCTAGATCCATCTTTAAGGCATAATCCAGGGAGGTCAGCTAGACTC-GCTTATATGGCATG
1 GTTCGCCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCAAGACTCAGC-TATATGGCATG
* * *
15761554 ATCCAAGAAGGTTCGCCAGA-TTCACCTTTAAGGCAT
65 ATCCAAGAAGGTCCGCCAAACTT-ACCTATAAGGCAT
15761590 AATCCAATGA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
110 4 0.05
111 80 0.95
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (111 bp):
GTTCGCCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCAAGACTCAGCTATATGGCATGA
TCCAAGAAGGTCCGCCAAACTTACCTATAAGGCATGATCTGGGAAG
Found at i:15764196 original size:22 final size:21
Alignment explanation
Indices: 15764144--15764208 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
15764134 TTATTTCTTA
* *
15764144 AAATATTATTATTTAATTGAAT
1 AAAT-TTATTATTCAATTAAAT
* *
15764166 TAATATATTAATTCAATTAAAT
1 AAATTTATT-ATTCAATTAAAT
15764188 AAATTTATT-TCTCAATTAAAT
1 AAATTTATTAT-TCAATTAAAT
15764209 TATCTTCTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 14 0.40
22 20 0.57
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATTTATTATTCAATTAAAT
Found at i:15764209 original size:17 final size:17
Alignment explanation
Indices: 15764187--15764219 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15764177 TTCAATTAAA
15764187 TAAATTTAT-TTCTCAAT
1 TAAA-TTATCTTCTCAAT
15764204 TAAATTATCTTCTCAA
1 TAAATTATCTTCTCAA
15764220 CTCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAATTATCTTCTCAAT
Found at i:15769026 original size:10 final size:9
Alignment explanation
Indices: 15769008--15769041 Score: 52
Period size: 10 Copynumber: 3.8 Consensus size: 9
15768998 AGAATGATTC
15769008 TTTTTTTCT
1 TTTTTTTCT
15769017 TTTCTTTTCT
1 TTT-TTTTCT
15769027 TTTTTTT-T
1 TTTTTTTCT
15769035 TTTTTTT
1 TTTTTTT
15769042 GCATTATCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 7 0.29
10 9 0.38
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:15769028 original size:18 final size:16
Alignment explanation
Indices: 15769005--15769040 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
15768995 AAAAGAATGA
15769005 TTCTTTTTTTCTTTTCTT
1 TTCTTTTTTT-TTTT-TT
15769023 TTCTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTT
15769039 TT
1 TT
15769041 TGCATTATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 4 0.22
18 10 0.56
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TTCTTTTTTTTTTTTT
Found at i:15770469 original size:275 final size:278
Alignment explanation
Indices: 15769936--15770475 Score: 695
Period size: 275 Copynumber: 1.9 Consensus size: 278
15769926 TATATGTTAT
* *
15769936 ATTATATAAATGTATTATTTATAAAATCATATATATGAAATATAAAGATATTTATTATATAAATA
1 ATTATATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
* * * * *
15770001 ATTCAATTTTGATTTTATAACTAAAGTAGAATTATTTTTGTACTTTTTTGGTTAATGAAAAAAAT
66 ATTAAATTTTAATTTTAAAACTAAAGTA-AATTATTTTTGTACTATTTTGATTAATGAAAAAAAT
* * * *
15770066 TACTTTAAAATGAAGTAATTTGATAAAAAATTTTAACTTTTTTATTTATTATCATATAAATGCAT
130 TACTTTAAAATAAAATAATTTGATAAAAAATATTAACTTTTTTA-TAATTATCATATAAATGCAT
* ** *
15770131 TAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTTTTTATACCTGTGATAAATCTAGTAAATAAT
194 TAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAATCTAGTAAATAAT
15770196 AAAAACCATTTATATAATAA
259 AAAAACCATTTATATAATAA
* *
15770216 ATTATATAAA-GTATTATTTATAAAATTATACACATGAAATATAAAGTTATTTATTATATAAATA
1 ATTATATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
*
15770280 ATTAAATTTTAATATTTAAAACTAAAGT-AA-TATTTTT-TCACTATTTT-ATTAATGAAACATA
66 ATTAAATTTTAAT-TTTAAAACTAAAGTAAATTATTTTTGT-ACTATTTTGATTAATGAAA-AAA
* * *
15770341 A-TACTTTAAAGATAAAAT-ATTT-CTATACAAATATTAACCTTTTTTA-AATTATTATATAAAT
128 ATTACTTTAAA-ATAAAATAATTTGATA-AAAAATATTAA-CTTTTTTATAATTATCATATAAAT
* * * * *
15770402 TCATTTAACAGAAGTGTTTTAAAAGAATCAGAATTCTTATTTATAAATATGATAAATTTTA-TAA
190 GCATTAAACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAA-TCTAGTAA
15770466 ATAATAAAAA
254 ATAATAAAAA
15770476 ATATTTAAAA
Statistics
Matches: 227, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
275 76 0.33
276 35 0.15
277 30 0.13
278 2 0.01
279 61 0.27
280 23 0.10
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (278 bp):
ATTATATAAATGTATTATTTATAAAATCATACACATGAAATATAAAGATATTTATTATATAAATA
ATTAAATTTTAATTTTAAAACTAAAGTAAATTATTTTTGTACTATTTTGATTAATGAAAAAAATT
ACTTTAAAATAAAATAATTTGATAAAAAATATTAACTTTTTTATAATTATCATATAAATGCATTA
AACAAAAGTGTTTTAAAAGAATCAAAATTCTTATTTATAAATATGATAAATCTAGTAAATAATAA
AAACCATTTATATAATAA
Found at i:15775412 original size:14 final size:14
Alignment explanation
Indices: 15775393--15775419 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15775383 AAAAAACCTC
15775393 TAATTTCTCTCTAT
1 TAATTTCTCTCTAT
15775407 TAATTTCTCTCTA
1 TAATTTCTCTCTA
15775420 ATTTCTCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATTTCTCTCTAT
Found at i:15775421 original size:11 final size:11
Alignment explanation
Indices: 15775390--15775429 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
15775380 TAAAAAAAAC
15775390 CTCTAATTTCT
1 CTCTAATTTCT
15775401 CTCTATTAATTTCT
1 CTC---TAATTTCT
15775415 CTCTAATTTCT
1 CTCTAATTTCT
15775426 CTCT
1 CTCT
15775430 GAAAGCTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 15 0.58
14 11 0.42
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.55
Consensus pattern (11 bp):
CTCTAATTTCT
Found at i:15779106 original size:32 final size:32
Alignment explanation
Indices: 15779070--15779131 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
15779060 TTTGATTTTC
15779070 AAAATATTTTGACATAACAAACTATTAAGATG
1 AAAATATTTTGACATAACAAACTATTAAGATG
*
15779102 AAAATATTTTGATATAACAAACTATTAAGA
1 AAAATATTTTGACATAACAAACTATTAAGA
15779132 ATTAAATTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (32 bp):
AAAATATTTTGACATAACAAACTATTAAGATG
Found at i:15784861 original size:47 final size:47
Alignment explanation
Indices: 15784810--15784974 Score: 267
Period size: 47 Copynumber: 3.5 Consensus size: 47
15784800 GTATATATGA
*
15784810 GATAAGGCCGAATGGCCAATGTGATGAACGTGAGCATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
15784857 GATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
* * *
15784904 GATAAGGCCGAATGGCCAATGTGGTGAATGTGAACATGCATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
* * *
15784951 GGTAAAGCCGAATGGCTAATGTGA
1 GATAAGGCCGAATGGCCAATGTGA
15784975 AATATGTATG
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 110 1.00
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.24
Consensus pattern (47 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGT
Found at i:15784930 original size:25 final size:25
Alignment explanation
Indices: 15784810--15784930 Score: 64
Period size: 23 Copynumber: 5.1 Consensus size: 25
15784800 GTATATATGA
*
15784810 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
15784835 GA-ACGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
*
15784857 GATAAGGCCGAATGGCCAATGTGAT
1 GATAAGGCCGAATGGCCAATGTGGT
* * *
15784882 GA-ATGTG-AGCAT-G-CATATGT-GT
1 GATAAG-GCCGAATGGCCA-ATGTGGT
15784904 GATAAGGCCGAATGGCCAATGTGGT
1 GATAAGGCCGAATGGCCAATGTGGT
15784929 GA
1 GA
15784931 ATGTGAACAT
Statistics
Matches: 67, Mismatches: 15, Indels: 28
0.61 0.14 0.25
Matches are distributed among these distances:
22 12 0.18
23 20 0.30
24 20 0.30
25 15 0.22
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.23
Consensus pattern (25 bp):
GATAAGGCCGAATGGCCAATGTGGT
Found at i:15785007 original size:48 final size:48
Alignment explanation
Indices: 15784944--15785039 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
15784934 TGAACATGCA
*
15784944 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATG
* *
15784992 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATG
15785040 CGTATATTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAGATATG
Found at i:15785218 original size:37 final size:37
Alignment explanation
Indices: 15785166--15785280 Score: 151
Period size: 37 Copynumber: 3.1 Consensus size: 37
15785156 ACATGAAATT
15785166 TGGAAATATAT-TCCGGGTAAGACCCGATGACTACGTG
1 TGGAAAT-TATGTCCGGGTAAGACCCGATGACTACGTG
15785203 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
* * * * * * *
15785240 TAGAGATTTTGTCTGAGTAAGACCCGATAACTTCGTG
1 TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
15785277 TGGA
1 TGGA
15785281 GATTTCGTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 3 0.04
37 66 0.96
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (37 bp):
TGGAAATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:15788413 original size:45 final size:45
Alignment explanation
Indices: 15788329--15788439 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 45
15788319 TAAGACCATA
* *
15788329 GCTAAAAGATGTTATGGCATCATGACAGAAATGAGTAAGACTGTG
1 GCTAAAAGATGTTATGGCATCATGAAAGAAATGACTAAGACTGTG
* ** *
15788374 GCTAAAAGATGTTATGGCGTCATGGTAAAG-AA-GACTAAGACCATA
1 GCTAAAAGATGTTATGGCATCAT-G-AAAGAAATGACTAAGACTGTG
**
15788419 GCTAAAAGACATTATGGCATC
1 GCTAAAAGATGTTATGGCATC
15788440 TTTCGATAGT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
45 49 0.89
46 3 0.05
47 3 0.05
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (45 bp):
GCTAAAAGATGTTATGGCATCATGAAAGAAATGACTAAGACTGTG
Found at i:15791523 original size:146 final size:146
Alignment explanation
Indices: 15791259--15791589 Score: 617
Period size: 146 Copynumber: 2.3 Consensus size: 146
15791249 AAATGGTTGG
* *
15791259 ACTGGTAAAGTCTATCGGACATCTATAGTAAGGAAGGATATTTGACCAGGACTAGGTAATCGCAT
1 ACTGGTAAAGTCTATCGGACATCTATAGTAAGAAAGGATATTTAACCAGGACTAGGTAATCGCAT
15791324 GATGGACCACAAGGGTTAATAAGATAGGGCATCCAATCAGTTAGCTTATCATCATGTTAGGAAAA
66 GATGGACCACAAGGGTTAATAAGATAGGGCATCCAATCAGTTAGCTTATCATCATGTTAGGAAAA
15791389 TGAGTTTGGACTGGAA
131 TGAGTTTGGACTGGAA
15791405 ACTGGTAAAGTCTATCGGACATCTATAGTAAGAAAGGATATTTAACCAGGACTAGGTAATCGCAT
1 ACTGGTAAAGTCTATCGGACATCTATAGTAAGAAAGGATATTTAACCAGGACTAGGTAATCGCAT
* * *
15791470 GATGGACCATAGGGGTTAATAGGATAGGGCATCCAATCAGTTAGCTTATCATCATGTTAGGAAAA
66 GATGGACCACAAGGGTTAATAAGATAGGGCATCCAATCAGTTAGCTTATCATCATGTTAGGAAAA
15791535 TGAGTTTGGACTGGAA
131 TGAGTTTGGACTGGAA
15791551 ACTGGTAAAGTCTATCGGACATCTATAGTAAGAAAGGAT
1 ACTGGTAAAGTCTATCGGACATCTATAGTAAGAAAGGAT
15791590 GAGTGTTAGA
Statistics
Matches: 180, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
146 180 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (146 bp):
ACTGGTAAAGTCTATCGGACATCTATAGTAAGAAAGGATATTTAACCAGGACTAGGTAATCGCAT
GATGGACCACAAGGGTTAATAAGATAGGGCATCCAATCAGTTAGCTTATCATCATGTTAGGAAAA
TGAGTTTGGACTGGAA
Found at i:15798353 original size:40 final size:40
Alignment explanation
Indices: 15798283--15798423 Score: 140
Period size: 40 Copynumber: 3.5 Consensus size: 40
15798273 CGGGGTTTAG
** * *
15798283 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
15798322 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
15798362 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
15798402 CCGGATGTAGTCGCTTAGCACA
1 CCGGATATAGTCAC-TAGCACA
15798424 TTCATATTTC
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 15 0.18
40 63 0.74
41 7 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:15803458 original size:42 final size:41
Alignment explanation
Indices: 15803411--15803563 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 41
15803401 AACATATACA
*
15803411 ATGCCAACGTCCCAGACGTGGTCTTA-ATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAAA-A-CG
* *
15803453 ATGCC-ACTGTCCTAGACAG-GGTCTTACATG-AAACCAGATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAAA-CA-AAACG
* *
15803495 ATGCCAATGTCCCAGACATGGTCTTACATGTAAAACAAAA-G
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AAACAAAACG
* *
15803536 ATGCCAACGTCCCAAACGTGATCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
15803564 CGAAATCACA
Statistics
Matches: 91, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
41 27 0.30
42 50 0.55
43 10 0.11
44 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAAAACG
Found at i:15807164 original size:35 final size:35
Alignment explanation
Indices: 15807102--15807218 Score: 135
Period size: 35 Copynumber: 3.3 Consensus size: 35
15807092 TACTCTCTGT
* * * *
15807102 TTGGTGTGTTTCAGTTGGACTAGCTCTTATGAGTA
1 TTGGTGTGTTTTAGTGGGATTAGCTCTTATGAGCA
* *
15807137 TTGGTGTGTTTTGGTGGGATTAACTCTTATGAGCA
1 TTGGTGTGTTTTAGTGGGATTAGCTCTTATGAGCA
* * * *
15807172 TTGGTGTGTTTTTGAGAGATTAGCTCTTTACGAGCA
1 TTGGTGTGTTTTAGTGGGATTAGCTC-TTATGAGCA
15807208 TTGGTGTGTTT
1 TTGGTGTGTTT
15807219 GGACAGATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
35 51 0.73
36 19 0.27
ACGTcount: A:0.16, C:0.09, G:0.30, T:0.44
Consensus pattern (35 bp):
TTGGTGTGTTTTAGTGGGATTAGCTCTTATGAGCA
Found at i:15807227 original size:35 final size:35
Alignment explanation
Indices: 15807122--15807253 Score: 153
Period size: 35 Copynumber: 3.8 Consensus size: 35
15807112 TCAGTTGGAC
* * *
15807122 TAGCTCTTATGAGTATTGGTGTGTTTTGGTGGGAT
1 TAGCTCTTATGAGCATTGGTGTGTTTTGGAGAGAT
* *
15807157 TAACTCTTATGAGCATTGGTGTGTTTTTGAGAGAT
1 TAGCTCTTATGAGCATTGGTGTGTTTTGGAGAGAT
* *
15807192 TAGCTCTTTACGAGCATTGGTGTG-TTTGGACAGAT
1 TAGCTC-TTATGAGCATTGGTGTGTTTTGGAGAGAT
* *
15807227 TGGTTCTTATGAGCA-T-GTGTGTTTTGG
1 TAGCTCTTATGAGCATTGGTGTGTTTTGG
15807254 TTGGATTGTC
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
32 5 0.06
33 6 0.07
34 8 0.10
35 48 0.58
36 16 0.19
ACGTcount: A:0.17, C:0.09, G:0.30, T:0.43
Consensus pattern (35 bp):
TAGCTCTTATGAGCATTGGTGTGTTTTGGAGAGAT
Found at i:15808914 original size:85 final size:85
Alignment explanation
Indices: 15808771--15808947 Score: 264
Period size: 85 Copynumber: 2.1 Consensus size: 85
15808761 CACGGCCTAT
* * *
15808771 CACACGGGCATGTGGGGCTATTTCAAATGTTACACGGCTTGAGACACGGGCGTGTGTCTCAGTCG
1 CACACGGGCATGTGGGGCTATTTCAAATGTTACACAGCTTGAGACACGGGCATGTGTCTCAGCCG
* **
15808836 TGTGAGGCACACGATTTGGC
66 TATGAGGCACACGACCTGGC
* * *
15808856 CACACGGGCATGTGGGGCTATTTCGAATGTTACATAGCTTGAGACATGGGCATGTGTCTCAGCCG
1 CACACGGGCATGTGGGGCTATTTCAAATGTTACACAGCTTGAGACACGGGCATGTGTCTCAGCCG
*
15808921 TATGAGGCACACGGCCTGGC
66 TATGAGGCACACGACCTGGC
15808941 CACACGG
1 CACACGG
15808948 TCGTGTGACC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (85 bp):
CACACGGGCATGTGGGGCTATTTCAAATGTTACACAGCTTGAGACACGGGCATGTGTCTCAGCCG
TATGAGGCACACGACCTGGC
Found at i:15816551 original size:17 final size:18
Alignment explanation
Indices: 15816525--15816561 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
15816515 ACACAAGGTC
15816525 CACCACCTTCT-GAATAT
1 CACCACCTTCTGGAATAT
*
15816542 CACCAGCTTCTGGAATAT
1 CACCACCTTCTGGAATAT
15816560 CA
1 CA
15816562 GATGTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.27
Consensus pattern (18 bp):
CACCACCTTCTGGAATAT
Found at i:15820562 original size:21 final size:21
Alignment explanation
Indices: 15820538--15820601 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
15820528 CCTTTAACTT
* *
15820538 TAGACCTTGGACTCTAGACCC
1 TAGACCTTGGACACTAAACCC
* *
15820559 TAGA-CTATGGACAGTAAACCT
1 TAGACCT-TGGACACTAAACCC
15820580 TAGACCTTGGAC-CTTAAACCC
1 TAGACCTTGGACAC-TAAACCC
15820601 T
1 T
15820602 CGATCTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.06
21 30 0.88
22 2 0.06
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (21 bp):
TAGACCTTGGACACTAAACCC
Found at i:15820668 original size:21 final size:21
Alignment explanation
Indices: 15820644--15820683 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15820634 TTTTGGATTC
15820644 AGGGTCT-GGGATCCAAGGTCT
1 AGGGTCTAGGG-TCCAAGGTCT
*
15820665 AGGGTTTAGGGTCCAAGGT
1 AGGGTCTAGGGTCCAAGGT
15820684 TCAAGTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.20, C:0.15, G:0.40, T:0.25
Consensus pattern (21 bp):
AGGGTCTAGGGTCCAAGGTCT
Found at i:15826727 original size:54 final size:55
Alignment explanation
Indices: 15826636--15826744 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 55
15826626 CTACCCTTTC
*
15826636 CCTCAATTTCAGTTGAAACAAAGAAGAAGTGAGGAAGATGACACATTTTCTTAGT
1 CCTCAATTCCAGTTGAAACAAAGAAGAAGTGAGGAAGATGACACATTTTCTTAGT
* *
15826691 NCCTCAATTCCGGTTGAAA-AAA-AAGAAGTGAGGAAGATGACACCTTTTCTTAGT
1 -CCTCAATTCCAGTTGAAACAAAGAAGAAGTGAGGAAGATGACACATTTTCTTAGT
15826745 TTATTTTGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 31 0.62
55 3 0.06
56 16 0.32
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (55 bp):
CCTCAATTCCAGTTGAAACAAAGAAGAAGTGAGGAAGATGACACATTTTCTTAGT
Found at i:15828539 original size:26 final size:26
Alignment explanation
Indices: 15828503--15828572 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
15828493 TTTTCAATAA
*
15828503 TGCTCACACGAGCTGTGAAATGGGTC
1 TGCTCACACGAGCTGTGAAATGGGCC
* *
15828529 TGCTCACACGAGCTATGAAATGTGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
*
15828555 TGCTCACACGAGGTGTGA
1 TGCTCACACGAGCTGTGA
15828573 GTTAGAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCC
Found at i:15836565 original size:29 final size:29
Alignment explanation
Indices: 15836523--15836579 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
15836513 AACATCCTTG
*
15836523 GTGATTTGAAGTCCACCCAACCCACCACA
1 GTGATTTCAAGTCCACCCAACCCACCACA
* *
15836552 GTGATTTCAAGTCCACCCGACCCGCCAC
1 GTGATTTCAAGTCCACCCAACCCACCAC
15836580 GGTGCTTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.40, G:0.16, T:0.18
Consensus pattern (29 bp):
GTGATTTCAAGTCCACCCAACCCACCACA
Found at i:15836830 original size:23 final size:23
Alignment explanation
Indices: 15836800--15836871 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
15836790 AATCCAAACT
15836800 ACCGTGCTATAAAAGTAGACATA
1 ACCGTGCTATAAAAGTAGACATA
* *
15836823 ACCGTGCTATAGAAGCAGACATA
1 ACCGTGCTATAAAAGTAGACATA
** * *
15836846 ATTGTGCCATAAAAGTAGACAAA
1 ACCGTGCTATAAAAGTAGACATA
15836869 ACC
1 ACC
15836872 ATTGGAAGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.19
Consensus pattern (23 bp):
ACCGTGCTATAAAAGTAGACATA
Found at i:15845604 original size:50 final size:49
Alignment explanation
Indices: 15845529--15845623 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 49
15845519 CTGGTATGCA
*
15845529 TAGTAGCCTGCACTTAGTACTACACATGTGACCTCACCATCTAATAAACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCA-CATCTAATAAACG
*
15845579 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACATGTAATA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACATCTAATA
15845624 TCCTGATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
49 8 0.19
50 35 0.81
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACATCTAATAAACG
Found at i:15846962 original size:46 final size:46
Alignment explanation
Indices: 15846912--15847087 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
15846902 TGTTTGGACA
15846912 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
15846958 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAA-T--G
* * *
15847003 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
15847051 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15847088 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
45 1 0.01
46 64 0.57
47 27 0.24
48 1 0.01
49 1 0.01
50 5 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:15847069 original size:93 final size:93
Alignment explanation
Indices: 15846910--15847079 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
15846900 GATGTTTGGA
* * *
15846910 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
15846975 GAGTCCGAGTTCGAGAGATGTAACTAGG
66 GAGTCCGAGTTCGAGAGATGTAACTAGG
* *
15847003 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
15847068 GAGTCCGAGTTC
66 GAGTCCGAGTTC
15847080 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAGG
Found at i:15859521 original size:32 final size:32
Alignment explanation
Indices: 15859481--15859545 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
15859471 ATATTTGTAT
15859481 TTAAATTAATTAATTTCAAAATACTAAATTTA
1 TTAAATTAATTAATTTCAAAATACTAAATTTA
15859513 TTAAATTAATTAATTTCAAAATACTAAATTTA
1 TTAAATTAATTAATTTCAAAATACTAAATTTA
15859545 T
1 T
15859546 CTTTATTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (32 bp):
TTAAATTAATTAATTTCAAAATACTAAATTTA
Found at i:15863297 original size:46 final size:46
Alignment explanation
Indices: 15863242--15863416 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
15863232 GGTTGAGCAT
* *
15863242 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * *
15863288 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* * *
15863333 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * *
15863381 CTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15863417 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 58 0.55
47 27 0.25
48 5 0.05
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:15863397 original size:93 final size:93
Alignment explanation
Indices: 15863238--15863409 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
15863228 GGATGGTTGA
* * *
15863238 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
15863303 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
15863331 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGCCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
15863396 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
15863410 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15868974 original size:40 final size:40
Alignment explanation
Indices: 15868912--15869129 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
15868902 AAGCCAAGTA
* * *
15868912 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
15868951 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
15868991 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
15869031 CCTTCGGGACTTAGCCTGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
15869071 CCTTCGAGACTTAGCCC-AAAACTAGTAATTAG-AGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA-CAAATG
15869111 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15869130 TTATCGTCCG
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
39 15 0.10
40 140 0.90
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15883486 original size:40 final size:40
Alignment explanation
Indices: 15883269--15883482 Score: 290
Period size: 40 Copynumber: 5.4 Consensus size: 40
15883259 AAGCCAAGTA
* * *
15883269 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
15883308 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
15883348 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15883388 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
15883428 CCTTCGGGACTTAGCTCGGA-ACTAGTAATTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
15883468 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
15883483 TCGGTTATCG
Statistics
Matches: 157, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 144 0.92
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15890169 original size:40 final size:40
Alignment explanation
Indices: 15890114--15890228 Score: 169
Period size: 40 Copynumber: 2.9 Consensus size: 40
15890104 TAAACGGAAT
*
15890114 TATAGTAACTCGCACAATTGCCTTCGGGACTTAGCCCGGA
1 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
15890154 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCTCGGA
1 TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
* * *
15890194 -ACTAGTAATTAGCGCAAATGCCTTCGGGACTTAGC
1 TA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
15890229 TCGGTTATCG
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 68 0.99
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
Found at i:15892320 original size:28 final size:28
Alignment explanation
Indices: 15892287--15892380 Score: 179
Period size: 28 Copynumber: 3.4 Consensus size: 28
15892277 GTGTCCATGA
*
15892287 CCCGTGTCTCCCACACGGCCATGACTAG
1 CCCGTGTCTCCCACATGGCCATGACTAG
15892315 CCCGTGTCTCCCACATGGCCATGACTAG
1 CCCGTGTCTCCCACATGGCCATGACTAG
15892343 CCCGTGTCTCCCACATGGCCATGACTAG
1 CCCGTGTCTCCCACATGGCCATGACTAG
15892371 CCCGTGTCTC
1 CCCGTGTCTC
15892381 AGCTCGTGTG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.16, C:0.41, G:0.21, T:0.21
Consensus pattern (28 bp):
CCCGTGTCTCCCACATGGCCATGACTAG
Found at i:15893467 original size:48 final size:48
Alignment explanation
Indices: 15893405--15893688 Score: 268
Period size: 48 Copynumber: 5.9 Consensus size: 48
15893395 GGTGAATTAT
* * * * *
15893405 CGATGCCATCTTCCAAACATGGTCTTACATTGGCTCACATGTCGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGC
* * ** * * *
15893453 CGATGGCATGTTCCAAACATGGTCTTACACTAGCTTTCGTCTCAATAC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGC
* * * * *
15893501 TGATGCCATG-TCACAGACATAGTCTTACACTAGCCCACATATCAATGC
1 CGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATATCAATGC
* * * *
15893549 CGATGCCATGTCCCAAACATGGTCTTACACTGGATCTCAT-TACATTGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT-CAATGC
* * * *
15893597 CAATGCCATGTTCCAAACATGGTCTTACACTGGTTCTCATATC-GTGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAT-GC
* * *
15893645 CGATGCCATGTTCCAAATATGGTCTTACAGTGGCACACATATCA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA
15893689 CCCAAATGTC
Statistics
Matches: 190, Mismatches: 40, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
47 4 0.02
48 184 0.97
49 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGC
Found at i:15893670 original size:144 final size:144
Alignment explanation
Indices: 15893405--15893688 Score: 308
Period size: 144 Copynumber: 2.0 Consensus size: 144
15893395 GGTGAATTAT
* * * * *
15893405 CGATGCCATCTTCCAAACATGGTCTTACATTGGCTCACATGTCGAGGCCGATGGCATGTTCCAAA
1 CGATGCCATCTCCCAAACATGGTCTTACACTGGATCACATGTCGAGGCCAATGCCATGTTCCAAA
* * * *
15893470 CATGGTCTTACACTAGCTTTCGTCTCAATACTGATGCCATGTCACAGACATAGTCTTACACTAGC
66 CATGGTCTTACACTAGCTTTCATATCAATACCGATGCCATGTCACAAACATAGTCTTACACTAGC
*
15893535 CCACATATCAATGC
131 ACACATATCAATGC
* * *
15893549 CGATGCCATGTCCCAAACATGGTCTTACACTGGATCTCAT-TAC-ATTGCCAATGCCATGTTCCA
1 CGATGCCATCTCCCAAACATGGTCTTACACTGGATCACATGT-CGA-GGCCAATGCCATGTTCCA
* * * * *
15893612 AACATGGTCTTACACT-GGTTCTCATATC-GTGGCCGATGCCATGTTC-CAAATATGGTCTTACA
64 AACATGGTCTTACACTAGCTT-TCATATCAAT-ACCGATGCCATG-TCACAAACATAGTCTTACA
* *
15893674 GTGGCACACATATCA
126 CTAGCACACATATCA
15893689 CCCAAATGTC
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
143 6 0.05
144 107 0.93
145 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (144 bp):
CGATGCCATCTCCCAAACATGGTCTTACACTGGATCACATGTCGAGGCCAATGCCATGTTCCAAA
CATGGTCTTACACTAGCTTTCATATCAATACCGATGCCATGTCACAAACATAGTCTTACACTAGC
ACACATATCAATGC
Found at i:15927147 original size:40 final size:40
Alignment explanation
Indices: 15926924--15927265 Score: 466
Period size: 40 Copynumber: 8.7 Consensus size: 40
15926914 TTGAATGATG
* *
15926924 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
15926963 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
15927003 TCCGGGCTTAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15927042 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
15927081 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15927120 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15927160 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15927200 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15927241 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15927266 AACGAGGAGC
Statistics
Matches: 283, Mismatches: 13, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
39 130 0.46
40 143 0.51
41 10 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15931386 original size:5 final size:5
Alignment explanation
Indices: 15931363--15931413 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
15931353 ATTTTTGAGA
* * *
15931363 AAATT AAATT TAATC AAATT AAATT AAATT -AATC AAATT -AATT AAAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT -AAATT
15931412 AA
1 AA
15931414 TATGATATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 7 0.19
5 26 0.70
6 4 0.11
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:15931396 original size:19 final size:19
Alignment explanation
Indices: 15931363--15931414 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
15931353 ATTTTTGAGA
15931363 AAATTAAATTTAATCAAATT
1 AAATTAAA-TTAATCAAATT
15931383 AAATTAAATTAATCAAATT
1 AAATTAAATTAATCAAATT
15931402 -AATTAAAATTAAT
1 AAATT-AAATTAAT
15931415 ATGATATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.13
19 19 0.61
20 8 0.26
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAAATTAATCAAATT
Found at i:15931898 original size:62 final size:59
Alignment explanation
Indices: 15931828--15931944 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
15931818 AGTGATTATC
* * * *
15931828 TTAATATTAAATTTAATTTCATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAAGAT
15931890 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
15931945 TTAAAATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 23 0.45
60 1 0.02
61 1 0.02
62 26 0.51
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAT
Found at i:15932096 original size:25 final size:25
Alignment explanation
Indices: 15932052--15932101 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
15932042 AGTTATAGAG
15932052 AGAAAATTCTCTAAAGATATTATTTC
1 AGAAAATTCTCTAAAGATATT-TTTC
* *
15932078 AGAAAATT-TCTAGATATATTTTTC
1 AGAAAATTCTCTAAAGATATTTTTC
15932102 TTAATTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (25 bp):
AGAAAATTCTCTAAAGATATTTTTC
Found at i:15941100 original size:33 final size:32
Alignment explanation
Indices: 15941047--15941143 Score: 97
Period size: 34 Copynumber: 2.9 Consensus size: 32
15941037 TTGATTGCAT
* * *
15941047 ACTGTACTATTACTGTAATGGGCTTAGGTCCC-
1 ACTGTACTGTTACTGAAATGGGCTCAGG-CCCA
15941079 ACTGATACTGTTACTGAAATGGGCTCAGGCCCA
1 ACTG-TACTGTTACTGAAATGGGCTCAGGCCCA
** *
15941112 GACTGCTACTGTTACTGGTATGGGCTAAGGCC
1 -ACTG-TACTGTTACTGAAATGGGCTCAGGCC
15941144 TTAACTGAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 7 0.13
33 21 0.38
34 27 0.49
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (32 bp):
ACTGTACTGTTACTGAAATGGGCTCAGGCCCA
Found at i:15948101 original size:18 final size:17
Alignment explanation
Indices: 15948075--15948108 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15948065 CATATAGCGG
15948075 GCCCATGTGGGCCCACAT
1 GCCCATGT-GGCCCACAT
*
15948093 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
15948109 CGGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (17 bp):
GCCCATGTGGCCCACAT
Found at i:15948114 original size:18 final size:18
Alignment explanation
Indices: 15948074--15948115 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
15948064 CCATATAGCG
15948074 GGCCCATGTGGGCCCACA
1 GGCCCATGTGGGCCCACA
* *
15948092 TGCCCGTGT-GGCCCACA
1 GGCCCATGTGGGCCCACA
15948109 CGGCCCA
1 -GGCCCA
15948116 AAATAGCCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.14, C:0.43, G:0.31, T:0.12
Consensus pattern (18 bp):
GGCCCATGTGGGCCCACA
Done.