Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 43 of 297
Found at i:15291793 original size:21 final size:21
Alignment explanation
Indices: 15291767--15291813 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
15291757 AAAAATATCC
*
15291767 AACATTATATTCCATTATAGT
1 AACATTATATTCCATTATAAT
* *
15291788 AACATTATATTTCATTTTAAT
1 AACATTATATTCCATTATAAT
15291809 AACAT
1 AACAT
15291814 CACTAGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (21 bp):
AACATTATATTCCATTATAAT
Found at i:15304623 original size:91 final size:91
Alignment explanation
Indices: 15304512--15304719 Score: 400
Period size: 91 Copynumber: 2.3 Consensus size: 91
15304502 TAGTAAAAAA
15304512 ATGATAAT-TATTAATATATAATTATACCCATTATAATATATATTAATTATTATCAAATTTTGGA
1 ATGATAATCT-TTAATATATAATTATACCCATTATAATATATATTAATTATTATCAAATTTTGGA
15304576 TTTTGTTTGATAAGTTTTGATAATAAG
65 TTTTGTTTGATAAGTTTTGATAATAAG
15304603 ATGATAATCTTTAATATATAATTATACCCATTATAATATATATTAATTATTATCAAATTTTGGAT
1 ATGATAATCTTTAATATATAATTATACCCATTATAATATATATTAATTATTATCAAATTTTGGAT
15304668 TTTGTTTGATAAGTTTTGATAATAAG
66 TTTGTTTGATAAGTTTTGATAATAAG
15304694 ATGATAATCTTTAATATATAATTATA
1 ATGATAATCTTTAATATATAATTATA
15304720 TCTATGTATA
Statistics
Matches: 116, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
91 115 0.99
92 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (91 bp):
ATGATAATCTTTAATATATAATTATACCCATTATAATATATATTAATTATTATCAAATTTTGGAT
TTTGTTTGATAAGTTTTGATAATAAG
Found at i:15310332 original size:6 final size:5
Alignment explanation
Indices: 15310313--15310367 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
15310303 AAAGTAATTT
15310313 TAAAA TATAAA TAAAGA TAAAAA TAAAA T-AAA T-AAA T-AAA TAAAA
1 TAAAA TA-AAA TAAA-A T-AAAA TAAAA TAAAA TAAAA TAAAA TAAAA
15310358 TAAAAA TAAA
1 T-AAAA TAAA
15310368 TAATAGGTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
4 12 0.27
5 16 0.36
6 14 0.31
7 3 0.07
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:15310341 original size:17 final size:17
Alignment explanation
Indices: 15310314--15310372 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
15310304 AAGTAATTTT
*
15310314 AAAATATAAATAAAGATA
1 AAAATA-AAATAAAAATA
15310332 AAAATAAAATAAATAA-A
1 AAAATAAAATAAA-AATA
*
15310349 TAAATAAAATAAAAATA
1 AAAATAAAATAAAAATA
15310366 AATAATA
1 AA-AATA
15310373 GGTGTTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 2 0.06
17 22 0.63
18 11 0.31
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:15310342 original size:23 final size:21
Alignment explanation
Indices: 15310313--15310370 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
15310303 AAAGTAATTT
15310313 TAAAATATAAATAAAGATAAAAA
1 TAAAATATAAATAAA-AT-AAAA
15310336 TAAAATAAATAAAT-AAATAAAA
1 TAAAAT--ATAAATAAAATAAAA
15310358 TAAAA-ATAAATAA
1 TAAAATATAAATAA
15310371 TAGGTGTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
19 6 0.19
20 1 0.03
22 9 0.28
23 8 0.25
24 2 0.06
25 6 0.19
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAAATATAAATAAAATAAAA
Found at i:15315257 original size:21 final size:21
Alignment explanation
Indices: 15315212--15315287 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
15315202 ACGGGCTGTT
***
15315212 CACACGGGCGTGTGCCCCCTC
1 CACACGGGCGTGTGAGGCCTC
* * *
15315233 CACACCGGCGTGTGGGGCCTT
1 CACACGGGCGTGTGAGGCCTC
*
15315254 CACACGGGCATGTGAGGCCTC
1 CACACGGGCGTGTGAGGCCTC
* *
15315275 CACATGAGCGTGT
1 CACACGGGCGTGT
15315288 AGACCCCCAC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.14, C:0.36, G:0.33, T:0.17
Consensus pattern (21 bp):
CACACGGGCGTGTGAGGCCTC
Found at i:15315625 original size:14 final size:14
Alignment explanation
Indices: 15315603--15315641 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
15315593 TGAGTTGGGG
* *
15315603 CATCCGCATACATA
1 CATCTGCATACACA
15315617 CATCTGCATACACA
1 CATCTGCATACACA
15315631 CATCTGCATAC
1 CATCTGCATAC
15315642 GAAGTGTAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.36, G:0.08, T:0.23
Consensus pattern (14 bp):
CATCTGCATACACA
Found at i:15317197 original size:40 final size:40
Alignment explanation
Indices: 15317135--15317211 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
15317125 ACAGTACCAC
*
15317135 TTGGTGTGTAGGGCCGGATGGGTCAATTTTATCCCCATAA
1 TTGGTGTATAGGGCCGGATGGGTCAATTTTATCCCCATAA
* * * *
15317175 TTGGTGTATAGGGCTGGGTGGGTCGATTTTATTCCCA
1 TTGGTGTATAGGGCCGGATGGGTCAATTTTATCCCCA
15317212 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.17, C:0.16, G:0.32, T:0.35
Consensus pattern (40 bp):
TTGGTGTATAGGGCCGGATGGGTCAATTTTATCCCCATAA
Found at i:15317218 original size:38 final size:38
Alignment explanation
Indices: 15317131--15317219 Score: 97
Period size: 40 Copynumber: 2.3 Consensus size: 38
15317121 AATTACAGTA
* *
15317131 CCACTTGGTGTGTAGGGCCGGATGGGTCAATTTTATCC
1 CCACATGGTGTATAGGGCCGGATGGGTCAATTTTATCC
* * * * *
15317169 CCATAATTGGTGTATAGGGCTGGGTGGGTCGATTTTATTC
1 CCA-CA-TGGTGTATAGGGCCGGATGGGTCAATTTTATCC
15317209 CCACATGGTGT
1 CCACATGGTGT
15317220 GTTGGGTTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
38 9 0.22
39 1 0.02
40 31 0.76
ACGTcount: A:0.17, C:0.18, G:0.31, T:0.34
Consensus pattern (38 bp):
CCACATGGTGTATAGGGCCGGATGGGTCAATTTTATCC
Found at i:15319527 original size:40 final size:39
Alignment explanation
Indices: 15319443--15319627 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
15319433 TTGAATGATG
* * *
15319443 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
15319483 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAA
* *
15319523 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
*
15319562 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-TACTA-AA
*
15319603 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
15319628 AATGAGGAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 77 0.62
41 12 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:15319579 original size:79 final size:81
Alignment explanation
Indices: 15319443--15319627 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
15319433 TTGAATGATG
*
15319443 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
15319507 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
15319522 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
15319584 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
15319602 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15319628 AATGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:15319649 original size:79 final size:79
Alignment explanation
Indices: 15319444--15319660 Score: 185
Period size: 79 Copynumber: 2.7 Consensus size: 79
15319434 TGAATGATGT
** * * * **
15319444 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
15319507 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
15319524 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
15319589 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * * *
15319603 CCGGGCTATGTCCCGAAGGCATTTGAATGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
15319661 TACGTGATTT
Statistics
Matches: 115, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.61
80 41 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:15321555 original size:25 final size:25
Alignment explanation
Indices: 15321527--15321574 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
15321517 TGCATCTTAG
* * *
15321527 TGACTCTATGACTGCAGTATTTGTT
1 TGACTATATGACTGAAATATTTGTT
*
15321552 TGACTATTTGACTGAAATATTTG
1 TGACTATATGACTGAAATATTTG
15321575 ACGTCTGATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (25 bp):
TGACTATATGACTGAAATATTTGTT
Found at i:15322285 original size:34 final size:34
Alignment explanation
Indices: 15322244--15322321 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
15322234 GTTCACATAT
* *
15322244 ATATAGGCTCGCATATTCCT-AGGTTTTGCATAAC
1 ATATAGGCTCGCACATTCCTAAGG-TTAGCATAAC
*
15322278 ATATAGGCTCGCACATTCCTAAGGTTAGTATAAC
1 ATATAGGCTCGCACATTCCTAAGGTTAGCATAAC
*
15322312 ATATAAGCTC
1 ATATAGGCTC
15322322 ACATGCTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 36 0.92
35 3 0.08
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (34 bp):
ATATAGGCTCGCACATTCCTAAGGTTAGCATAAC
Found at i:15322455 original size:14 final size:14
Alignment explanation
Indices: 15322436--15322502 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 14
15322426 TAGGTGTTGT
15322436 CTTGCATATATTGA
1 CTTGCATATATTGA
*
15322450 CTTGCA-ATTATTGG
1 CTTGCATA-TATTGA
* * *
15322464 CTCGCATGTATAGA
1 CTTGCATATATTGA
* *
15322478 CTTGCATGTATTAA
1 CTTGCATATATTGA
*
15322492 CTCGCATATAT
1 CTTGCATATAT
15322503 ACAACAATTT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
13 1 0.02
14 40 0.98
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (14 bp):
CTTGCATATATTGA
Found at i:15322470 original size:28 final size:28
Alignment explanation
Indices: 15322439--15322503 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
15322429 GTGTTGTCTT
* **
15322439 GCATATATTGACTTGCAAT-TATTGGCTC
1 GCATATATAGACTTGC-ATGTATTAACTC
*
15322467 GCATGTATAGACTTGCATGTATTAACTC
1 GCATATATAGACTTGCATGTATTAACTC
15322495 GCATATATA
1 GCATATATA
15322504 CAACAATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (28 bp):
GCATATATAGACTTGCATGTATTAACTC
Found at i:15323534 original size:68 final size:66
Alignment explanation
Indices: 15323371--15323535 Score: 206
Period size: 68 Copynumber: 2.4 Consensus size: 66
15323361 TATATCATCT
* * *
15323371 TACAATTACATACAAAAAAGTTATATTACTCTACCACTACACCAAACTACACATACAAAAAGTGA
1 TACAATTACATAC-AAAAAGTTATATTAGTCCACCACTACACC-AACTACACATACAAAAAATGA
15323436 ACC
64 ACC
* * **
15323439 TACAATTACATACAAAAAGTGATATTAGTCCACCATTACATCC-TTTACACATACAAAAAATGAC
1 TACAATTACATACAAAAAGTTATATTAGTCCACCACTACA-CCAACTACACATACAAAAAATG--
15323503 AACC
63 AACC
*
15323507 TACAATTACATGCAAAAAGTTATATTAGT
1 TACAATTACATACAAAAAGTTATATTAGT
15323536 TCTGTAACAC
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
66 16 0.19
67 23 0.27
68 46 0.54
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (66 bp):
TACAATTACATACAAAAAGTTATATTAGTCCACCACTACACCAACTACACATACAAAAAATGAAC
C
Found at i:15328137 original size:22 final size:22
Alignment explanation
Indices: 15328112--15328156 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
15328102 TTAAGTATAC
* *
15328112 CTGTAACACCTCTAACCCGTAT
1 CTGTAACACCCCTAACCCATAT
15328134 CTGTAACACCCCTAACCCATAT
1 CTGTAACACCCCTAACCCATAT
15328156 C
1 C
15328157 CGACACCGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.40, G:0.07, T:0.24
Consensus pattern (22 bp):
CTGTAACACCCCTAACCCATAT
Found at i:15329705 original size:43 final size:43
Alignment explanation
Indices: 15329640--15329812 Score: 188
Period size: 43 Copynumber: 4.0 Consensus size: 43
15329630 AACTCGTACA
* * * *
15329640 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * * * *
15329682 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * *
15329725 AAGCCAATGTCCCAAACATGGTCTTACATGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
*
15329768 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
15329811 AT
1 AT
15329813 AACCTAATGT
Statistics
Matches: 105, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 6 0.06
43 98 0.93
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:15331844 original size:49 final size:48
Alignment explanation
Indices: 15331772--15331955 Score: 181
Period size: 49 Copynumber: 3.7 Consensus size: 48
15331762 CGAAGCTATC
* * *
15331772 TGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATT
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT-ATT
* * * * *
15331821 TGGTACACGTAGCAGCTTGCACTTAGTACTACACACGTGATCACAGT-TT
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATATT
** * *
15331870 TCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 T--GGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TATT
* *
15331921 CGGTACACGTAGTAGCCTGCACTTTGTACTACACA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACA
15331956 CGTGACCTCA
Statistics
Matches: 107, Mismatches: 22, Indels: 12
0.76 0.16 0.09
Matches are distributed among these distances:
49 68 0.64
50 3 0.03
51 36 0.34
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATATT
Found at i:15331895 original size:100 final size:100
Alignment explanation
Indices: 15331773--15331960 Score: 304
Period size: 100 Copynumber: 1.9 Consensus size: 100
15331763 GAAGCTATCT
** *
15331773 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATTTGGTACACGTAGCAGCT
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGCAGCC
15331838 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * * *
15331873 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGCAGCC
*
15331938 TGCACTTTGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
15331961 CCTCACAATA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGCAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:15340289 original size:28 final size:27
Alignment explanation
Indices: 15340231--15340290 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
15340221 CGATCTCAAC
* *
15340231 AAAATATAATTTAAGGAAAAAATAAAT
1 AAAATATAATTTAAAGAAAAAATAAAG
*
15340258 AAAATATAAATTTATAAGAAATAA-AAAG
1 AAAATAT-AATTTA-AAGAAAAAATAAAG
15340286 AAAAT
1 AAAAT
15340291 GAGAGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.25
28 14 0.50
29 7 0.25
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (27 bp):
AAAATATAATTTAAAGAAAAAATAAAG
Found at i:15341294 original size:3 final size:3
Alignment explanation
Indices: 15341286--15341320 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15341276 GTTGCTAAGG
15341286 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15341321 CTGGGTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15349007 original size:18 final size:18
Alignment explanation
Indices: 15348984--15349018 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15348974 TATTAGTATG
*
15348984 GTTAAATCACATGAGATT
1 GTTAAATCACATAAGATT
15349002 GTTAAATCACATAAGAT
1 GTTAAATCACATAAGAT
15349019 GGTAACCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
GTTAAATCACATAAGATT
Found at i:15352904 original size:34 final size:34
Alignment explanation
Indices: 15352857--15352950 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 34
15352847 ATCAACACAG
* *
15352857 TAGCAATTTATATGCGTATAACAGATAAATACGA-
1 TAGCAATTAATATGCTTATAACAGATAAATAC-AT
* * * * *
15352891 TATCAATTAATATGCTTATAGCAAATCAGTACAT
1 TAGCAATTAATATGCTTATAACAGATAAATACAT
15352925 TAGCAATTAATATGCTTATAACAGAT
1 TAGCAATTAATATGCTTATAACAGAT
15352951 CGATATGGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
33 1 0.02
34 48 0.98
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.33
Consensus pattern (34 bp):
TAGCAATTAATATGCTTATAACAGATAAATACAT
Found at i:15357560 original size:29 final size:29
Alignment explanation
Indices: 15357528--15357614 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
15357518 AAATTGAATT
*
15357528 AAATCAAAATTTCAT-TATAAAATTGCACA
1 AAATCAAACTTT-ATATATAAAATTGCACA
** * *
15357557 AAATTGAACTTTATATATAACATTACACA
1 AAATCAAACTTTATATATAAAATTGCACA
* *
15357586 AAATCAAACTTTATGTATAATATTGCACA
1 AAATCAAACTTTATATATAAAATTGCACA
15357615 TTGAGTGAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 2 0.04
29 45 0.96
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (29 bp):
AAATCAAACTTTATATATAAAATTGCACA
Found at i:15364695 original size:21 final size:21
Alignment explanation
Indices: 15364662--15364706 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
15364652 TTATTTATAT
*
15364662 TATTATTTTAAAATTAAAAAA
1 TATTATTTTAAAAATAAAAAA
*
15364683 TATT-TTTTAAAAAATAAAATA
1 TATTATTTT-AAAAATAAAAAA
15364704 TAT
1 TAT
15364707 AAATTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTATTTTAAAAATAAAAAA
Found at i:15371193 original size:40 final size:40
Alignment explanation
Indices: 15371106--15371329 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
15371096 CGGATGATAA
* * *
15371106 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGCT-ACTATA-T
* * *
15371146 CCAGGCTAAGTCCCAAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
** * *
15371186 CCGGGCTAAGTCCCGAAATCGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* *
15371226 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
* * *
15371265 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
15371305 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15371330 AGCTAGTGGC
Statistics
Matches: 159, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 118 0.74
41 4 0.03
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
Found at i:15371360 original size:79 final size:79
Alignment explanation
Indices: 15371149--15371362 Score: 218
Period size: 79 Copynumber: 2.7 Consensus size: 79
15371139 GCTAATTCCA
* * * * ** *
15371149 GGCTAAGTCCCAAAGGCATTCGTGCGAGCT-ACTATATCCGGGCTAAGTCCCGAAATCGTTTGTG
1 GGCTAAGTCCCGAAGGCATTGGAGCGAG-TGACTATA-CCGGGCTAACTCCCGAAGGCATTTGTG
* * *
15371213 CGAGCTATTATATCCG
64 CAAGCTACTATAACCG
* * *
15371229 GGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATACCGGGCTAAGTCCCGAAGGCATTTGTGCA
1 GGCTAAGTCCCGAAGGCATTGGAGCGAGTGACTATACCGGGCTAACTCCCGAAGGCATTTGTGCA
*
15371294 AGTTACTATAACCG
66 AGCTACTATAACCG
* * *
15371308 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAAACT-CCGAAGG
1 GGCTAAGTCCCGAAGGCATTGGAGCGAGTGACTATA-CCGGGCT-AACTCCCGAAGG
15371363 TACTTGGTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 79 0.68
80 37 0.32
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTGGAGCGAGTGACTATACCGGGCTAACTCCCGAAGGCATTTGTGCA
AGCTACTATAACCG
Found at i:15371370 original size:119 final size:119
Alignment explanation
Indices: 15371149--15371362 Score: 272
Period size: 119 Copynumber: 1.8 Consensus size: 119
15371139 GCTAATTCCA
* * * * *
15371149 GGCTAAGTCCCAAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAATCGTTTGTGC
1 GGCTAAGTCCCAAAGGCATTCGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAAGCATTTGAGC
* *
15371214 GAGCTATTATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATACCG
66 GAGCTACTATATCCGGGCTAACTCCCGAAGGCATTGGTGCGAGTTACTATACCG
* * * *
15371268 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGC
1 GGCTAAGTCCCAAAGGCATTCGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAAGCATTTGAGC
* *
15371333 TAG-TGGCTATATCC-GGCTAAACT-CCGAAGG
66 GAGCT-ACTATATCCGGGCT-AACTCCCGAAGG
15371363 TACTTGGTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
118 12 0.15
119 68 0.85
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (119 bp):
GGCTAAGTCCCAAAGGCATTCGTGCAAGCTACTATAACCGGGCTAAGTCCCGAAAGCATTTGAGC
GAGCTACTATATCCGGGCTAACTCCCGAAGGCATTGGTGCGAGTTACTATACCG
Found at i:15374754 original size:35 final size:34
Alignment explanation
Indices: 15374710--15374787 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
15374700 AAGATAGATG
* * *
15374710 GCTTA-ATATGTGTATGAATTGGCATGTTTTGGCT
1 GCTTATATATGTAT-TGAAATGGCATATTTTGGCT
* *
15374744 GCTTATATATGTATTGAAATGGTATATTTTGGTT
1 GCTTATATATGTATTGAAATGGCATATTTTGGCT
15374778 GCTT-TATATG
1 GCTTATATATG
15374788 CATAAGAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 6 0.16
34 25 0.66
35 7 0.18
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.47
Consensus pattern (34 bp):
GCTTATATATGTATTGAAATGGCATATTTTGGCT
Found at i:15387646 original size:24 final size:25
Alignment explanation
Indices: 15387589--15387657 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
15387579 CAAAATATAA
* * *
15387589 AAAATTCTAAAAATTAAAATCTCTTT
1 AAAATTTTAAAAAATAAAA-ATCTTT
15387615 AAAA--TTAAAAAATAAAAAT-TTT
1 AAAATTTTAAAAAATAAAAATCTTT
15387637 AAAATTTTAAAAAATATAAAA
1 AAAATTTTAAAAAATA-AAAA
15387658 AAACTATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.19
23 1 0.03
24 21 0.57
25 4 0.11
26 4 0.11
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAATTTTAAAAAATAAAAATCTTT
Found at i:15399096 original size:16 final size:17
Alignment explanation
Indices: 15399069--15399107 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
15399059 TTTCTAATAA
15399069 AATAAAACAATAATCA-T
1 AATAAAACAATAAT-AGT
15399086 AATAAAA-AATAATAGT
1 AATAAAACAATAATAGT
15399102 AATAAA
1 AATAAA
15399108 TCATTGGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 13 0.62
17 7 0.33
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (17 bp):
AATAAAACAATAATAGT
Found at i:15404542 original size:38 final size:39
Alignment explanation
Indices: 15404455--15404549 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 39
15404445 CATATAGAAA
* * *
15404455 TAGTAGACATGATTAACATGTATTTAGTTCAACAATATC
1 TAGTAGACATGCTTAACATATATTTAGTTCAACAATAAC
* * * *
15404494 TA-CAGGCATGCTTAACTTATATTTAGTTCAACAGTAAC
1 TAGTAGACATGCTTAACATATATTTAGTTCAACAATAAC
*
15404532 -AGTAGACATGCTAAACAT
1 TAGTAGACATGCTTAACAT
15404550 GCAATTACTA
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
37 1 0.02
38 41 0.93
39 2 0.05
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (39 bp):
TAGTAGACATGCTTAACATATATTTAGTTCAACAATAAC
Found at i:15405452 original size:17 final size:20
Alignment explanation
Indices: 15405426--15405466 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
15405416 GCAAGGTGCA
15405426 AAAAAGAGGA-AAGAAA-AG
1 AAAAAGAGGAGAAGAAATAG
15405444 AAAAA-AGGAGAAGAAATAG
1 AAAAAGAGGAGAAGAAATAG
15405463 AAAA
1 AAAA
15405467 GTTGAGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (20 bp):
AAAAAGAGGAGAAGAAATAG
Found at i:15414288 original size:620 final size:621
Alignment explanation
Indices: 15413109--15414974 Score: 3315
Period size: 620 Copynumber: 3.0 Consensus size: 621
15413099 GTGTTCTAAT
* *
15413109 AGCTAAAGGTGTCTAATAGATATGGAACCTTAAAGTAAAGGTCTTTATATGGTAATTAGACTATT
1 AGCTAAAGGTGTCTAATAGGTATGGAACCTTAAAGTAAAGGTCCTTATATGGTAATTAGACTATT
* *
15413174 ATTAAAATGATTGGACAAATATAGAAATTTTACTAAGTAAATTAAAGGTTGATAATAAATGGTAT
66 ATTAAAATGATTGGACAAATATAGAAATTTTACTAAGTAAATTAAAGGTTAATAATAAAGGGTAT
15413239 ATAAGTAATTT-GTAAATAAAACCTAAATTAAGTAAAA-AAAAATCAATTTTCTTTCCCATTCAT
131 ATAAGTAATTTAGTAAATAAAACCTAAATTAAGTAAAACAAAAATCAATTTTCTTTCCCATTCAT
*
15413302 CTTCTTCAACTGAAATTTAGGGAAAAAATAGCCATTGGAGAAGCTTAACATTTGGCCAAGTTCAT
196 CTTCTTCAACTGAAATTTAGGGAAAAAATAGCCATTGGAGAAGCTTAACATTCGGCCAAGTTCAT
*
15413367 CTAGTGCATGTAAGTGGTTTTTGACTCAGTTTTTAATGATTTCTATATTTTCGGAGTCGTTGTAG
261 CTAGTGCATGTAAGTGGTTTTTGACTCAGTTTTTAATGATTTCTATGTTTTCGGAGTCGTTGTAG
*
15413432 CTTAATATAGATAGCCTAGGGACTAATTTGAAAAAAATTTAAAGGTTTAGGGTTTTACCATTGAT
326 CTTAATCTAGATAGCCTAGGGACTAATTTGAAAAAAATTTAAAGGTTTAGGGTTTTACCATTGAT
*
15413497 GAATATGTGTGCATTTTGATGATTGATGATAGAAAATGAATGGTTGTTGTTAGATAAAACAACAT
391 GAATATGTGTTCATTTTGATGATTGATGATAGAAAATGAATGGTTGTTGTTAGATAAAACAACAT
* *
15413562 TTGTTAAGTGATTTTTGATAAAATTGTCAGTTAGGGATTAAATTGAGAAATATAATAAATTTTTT
456 TTGTTAAGTGATTTTTGATAAAATTGTCAGTTAGGGATTAAATTGAGAAATATAATAAATTGTGT
*
15413627 GGTAAATGTATGAAATAGTGAAAAATAAGGGCTGCTATGGGTCTAAATAATATTCGGCTATAATG
521 GGTAAATGTATGAAATAATGAAAAATAAGGGCTGCTATGGGTCTAAATAATATTCGGCTATAATG
15413692 GGTTGAAATTGAATTTCATGAAATTTCATTTTTGTG
586 GGTTGAAATTGAATTTCATGAAATTTCATTTTTGTG
* * *
15413728 AGCTAAAGGTGTCTAATAGGTATGGAACCTTAAAGTAAATGTCCTTATATAGTAATTAGACTGTT
1 AGCTAAAGGTGTCTAATAGGTATGGAACCTTAAAGTAAAGGTCCTTATATGGTAATTAGACTATT
* *
15413793 ATTAAAATGATTGGACAAATATAGAAATTTTACTAAGTAAATTAAAGGTTAACAATATAGGGTAT
66 ATTAAAATGATTGGACAAATATAGAAATTTTACTAAGTAAATTAAAGGTTAATAATAAAGGGTAT
*
15413858 ATAAGTGATTTAGTAAATAAAACCTAAATTAAGTAAAACAAAAATCAATTTTCTTTCCCATTCAT
131 ATAAGTAATTTAGTAAATAAAACCTAAATTAAGTAAAACAAAAATCAATTTTCTTTCCCATTCAT
15413923 CTTCTTCAACTGAAATTTAGGGAAAAAATAGCCATTGGAGAAGCTTAACATTCGGCCAAGTTCAT
196 CTTCTTCAACTGAAATTTAGGGAAAAAATAGCCATTGGAGAAGCTTAACATTCGGCCAAGTTCAT
* *
15413988 CTAGTGCATGTAAGCGGTTTTTGACTCGGTTTTTAATGATTTCTATGTTTTCGGAGTCG-TGTAG
261 CTAGTGCATGTAAGTGGTTTTTGACTCAGTTTTTAATGATTTCTATGTTTTCGGAGTCGTTGTAG
*
15414052 CTTAATCTAGATAGCCTAGGGACTAATTTGAAAAAAAATTAAAGGTTTAGGGTTTTACCATTGAT
326 CTTAATCTAGATAGCCTAGGGACTAATTTGAAAAAAATTTAAAGGTTTAGGGTTTTACCATTGAT
15414117 GAATATGTGTTCATTTTGATGATTGATGATAGAAAATGAATGGTTGTTGTTAGATAAAACAACAT
391 GAATATGTGTTCATTTTGATGATTGATGATAGAAAATGAATGGTTGTTGTTAGATAAAACAACAT
*
15414182 TTATTAAGTGATTTTTGATAAAATTGTCAGTTAGGGATTAAATTGAGAAATATAATAAATTGTGT
456 TTGTTAAGTGATTTTTGATAAAATTGTCAGTTAGGGATTAAATTGAGAAATATAATAAATTGTGT
15414247 GGTAAATGTATGAAATAATGAAAAATAAGGGCTGCTATGGGTCTAAATAATATTCGGCTATAATG
521 GGTAAATGTATGAAATAATGAAAAATAAGGGCTGCTATGGGTCTAAATAATATTCGGCTATAATG
15414312 GGTTGAAATTGAATTTCATGAAATTTCATTTTTGTG
586 GGTTGAAATTGAATTTCATGAAATTTCATTTTTGTG
* *
15414348 AGCTAAAGGTGTCTAATAGGTATGGAACCTTAAAATAAAGGTCCTTATATGGTAATTAGACCATT
1 AGCTAAAGGTGTCTAATAGGTATGGAACCTTAAAGTAAAGGTCCTTATATGGTAATTAGACTATT
* *
15414413 ATTAAAATGATTGGACAAATAAAGACATTTTACTAAGTAAATTAAAGGTTAATAATAAAGGGTAT
66 ATTAAAATGATTGGACAAATATAGAAATTTTACTAAGTAAATTAAAGGTTAATAATAAAGGGTAT
*
15414478 ATAAGTAATTTAGTACATAAAACCTAAATTAAGTAAAACAAAAATCAATTTTCTTTCCCATTCAT
131 ATAAGTAATTTAGTAAATAAAACCTAAATTAAGTAAAACAAAAATCAATTTTCTTTCCCATTCAT
*
15414543 CTTCTTCAACTGAAATTTAGGGAAAAAATAGTCATTGGAGAAGCTTAACATTCGGCCAAGTTCAT
196 CTTCTTCAACTGAAATTTAGGGAAAAAATAGCCATTGGAGAAGCTTAACATTCGGCCAAGTTCAT
* *
15414608 CTAGTGCATGTAAGTGATTTTTGGCTCAGTTTTTAATGATTTCTATGTTTTCGGAGTCGTTGTAG
261 CTAGTGCATGTAAGTGGTTTTTGACTCAGTTTTTAATGATTTCTATGTTTTCGGAGTCGTTGTAG
* *** * *
15414673 CTTAATCTAGATAGCCTAGGGACTAATCTGAAAATTTTTTAAAGGTTTAAGGTTTTACTATTGAT
326 CTTAATCTAGATAGCCTAGGGACTAATTTGAAAAAAATTTAAAGGTTTAGGGTTTTACCATTGAT
* *
15414738 GAATATGTGTTCATATTGATGATTGATGATAGAAAATGAATGGTTGTTGTTAGATGAAACAACAT
391 GAATATGTGTTCATTTTGATGATTGATGATAGAAAATGAATGGTTGTTGTTAGATAAAACAACAT
* * *
15414803 TTGTTAAGTGATTTTTTTATAAAATTGTCAATTAGGGATTAAATTGAGAAAAATAATAAATTGTG
456 TTGTTAAGTGA-TTTTTGATAAAATTGTCAGTTAGGGATTAAATTGAGAAATATAATAAATTGTG
*
15414868 TGGTAAATGTATGAAATAATGAAAAATAAGGGCTTCTATGGGTCTAAATAATATTCGGCTATAAT
520 TGGTAAATGTATGAAATAATGAAAAATAAGGGCTGCTATGGGTCTAAATAATATTCGGCTATAAT
* *
15414933 GGGTTGAAATTGAATTCCATGGAATTTCATTTTTGTG
585 GGGTTGAAATTGAATTTCATGAAATTTCATTTTTGTG
15414970 AGCTA
1 AGCTA
15414975 GAGACTAAAT
Statistics
Matches: 1190, Mismatches: 53, Indels: 5
0.95 0.04 0.00
Matches are distributed among these distances:
619 131 0.11
620 623 0.52
621 282 0.24
622 154 0.13
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (621 bp):
AGCTAAAGGTGTCTAATAGGTATGGAACCTTAAAGTAAAGGTCCTTATATGGTAATTAGACTATT
ATTAAAATGATTGGACAAATATAGAAATTTTACTAAGTAAATTAAAGGTTAATAATAAAGGGTAT
ATAAGTAATTTAGTAAATAAAACCTAAATTAAGTAAAACAAAAATCAATTTTCTTTCCCATTCAT
CTTCTTCAACTGAAATTTAGGGAAAAAATAGCCATTGGAGAAGCTTAACATTCGGCCAAGTTCAT
CTAGTGCATGTAAGTGGTTTTTGACTCAGTTTTTAATGATTTCTATGTTTTCGGAGTCGTTGTAG
CTTAATCTAGATAGCCTAGGGACTAATTTGAAAAAAATTTAAAGGTTTAGGGTTTTACCATTGAT
GAATATGTGTTCATTTTGATGATTGATGATAGAAAATGAATGGTTGTTGTTAGATAAAACAACAT
TTGTTAAGTGATTTTTGATAAAATTGTCAGTTAGGGATTAAATTGAGAAATATAATAAATTGTGT
GGTAAATGTATGAAATAATGAAAAATAAGGGCTGCTATGGGTCTAAATAATATTCGGCTATAATG
GGTTGAAATTGAATTTCATGAAATTTCATTTTTGTG
Found at i:15417276 original size:92 final size:92
Alignment explanation
Indices: 15417126--15417301 Score: 334
Period size: 92 Copynumber: 1.9 Consensus size: 92
15417116 TCATTTATTG
*
15417126 ACACAAAGTTCATCTACATTTTGCTCAAATTCTATAGTCTTGATCACTTGATCAAATATTTGATT
1 ACACAAAGTTCATCTACATTTTGCTCAAATTCAATAGTCTTGATCACTTGATCAAATATTTGATT
15417191 CTATGAGAAGGATGCTTACGTTTATAA
66 CTATGAGAAGGATGCTTACGTTTATAA
*
15417218 ACACAAGGTTCATCTACATTTTGCTCAAATTCAATAGTCTTGATCACTTGATCAAATATTTGATT
1 ACACAAAGTTCATCTACATTTTGCTCAAATTCAATAGTCTTGATCACTTGATCAAATATTTGATT
15417283 CTATGAGAAGGATGCTTAC
66 CTATGAGAAGGATGCTTAC
15417302 TTAAGTCCAT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 82 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (92 bp):
ACACAAAGTTCATCTACATTTTGCTCAAATTCAATAGTCTTGATCACTTGATCAAATATTTGATT
CTATGAGAAGGATGCTTACGTTTATAA
Found at i:15417330 original size:18 final size:18
Alignment explanation
Indices: 15417303--15417337 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15417293 GATGCTTACT
15417303 TAAGTCCATATATAGATC
1 TAAGTCCATATATAGATC
*
15417321 TAAGTGCATATATAGAT
1 TAAGTCCATATATAGAT
15417338 GTTATTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (18 bp):
TAAGTCCATATATAGATC
Found at i:15417767 original size:39 final size:39
Alignment explanation
Indices: 15417690--15417773 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 39
15417680 ACTTAAAGTT
* * * *
15417690 AAAAACATTTCTGCCAGTTTGGAAAAATTGAAGTCTAGG
1 AAAAACATTTCTACCAGTTTGGAAAAACTCAAGCCTAGG
* *
15417729 AAAAACATTTCTACCGGTTTGGAAGAACTCAAGCCTAGG
1 AAAAACATTTCTACCAGTTTGGAAAAACTCAAGCCTAGG
*
15417768 AGAAAC
1 AAAAAC
15417774 CCTCCCACTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (39 bp):
AAAAACATTTCTACCAGTTTGGAAAAACTCAAGCCTAGG
Found at i:15432268 original size:21 final size:20
Alignment explanation
Indices: 15432225--15432269 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15432215 ATTTTGGTTA
* *
15432225 CTTTGAATTTTGGAAAGTTT
1 CTTTGAATTTTGAAAAATTT
*
15432245 CTTTGCATTTTGAAAACATTT
1 CTTTGAATTTTGAAAA-ATTT
15432266 CTTT
1 CTTT
15432270 TAGGAACATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.51
Consensus pattern (20 bp):
CTTTGAATTTTGAAAAATTT
Found at i:15434091 original size:23 final size:23
Alignment explanation
Indices: 15434047--15434091 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15434037 CCCTTTCCTC
**
15434047 TTTTCTTTACTTTATTTACATTA
1 TTTTCTTTACACTATTTACATTA
* *
15434070 TTTTCTTTACACTCTTTTCATT
1 TTTTCTTTACACTATTTACATT
15434092 TTATATGTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTCTTTACACTATTTACATTA
Found at i:15435630 original size:50 final size:50
Alignment explanation
Indices: 15435563--15435849 Score: 261
Period size: 50 Copynumber: 5.7 Consensus size: 50
15435553 AGGTAACCTG
* * *
15435563 CCACAAGGGCTCCCCAAATAAATCGCCACAAAGGCTTTACAGGTGACTCG
1 CCACAAAGGCTTCCCAAATAAATCGCCACAAAGGCTTTACAGGTGACTCA
* * * * * *
15435613 CCACAAAGGTTTTCCAAATAAATTGCCACAAGGGCTTTACAGATGACTTA
1 CCACAAAGGCTTCCCAAATAAATCGCCACAAAGGCTTTACAGGTGACTCA
* * ** * *
15435663 CCATAAAGGTTTCCCAAATAAATTTCCA-TAAGAGCTTTATAGGTGACTCA
1 CCACAAAGGCTTCCCAAATAAATCGCCACAAAG-GCTTTACAGGTGACTCA
* * * *
15435713 CCACAAAGGCTTCCCAAATAAATCGCCACAAAAGCTTCACAAGTGACTTA
1 CCACAAAGGCTTCCCAAATAAATCGCCACAAAGGCTTTACAGGTGACTCA
*** *** * * * * * *
15435763 CTGTAAAGGCAAACTATATAAATCGCCATAAGGGCTTTATAGGTGACTCG
1 CCACAAAGGCTTCCCAAATAAATCGCCACAAAGGCTTTACAGGTGACTCA
* *
15435813 CCACAAAGGCTTCCCAAATAAATCACCACAAAAGCTT
1 CCACAAAGGCTTCCCAAATAAATCGCCACAAAGGCTT
15435850 GGTTTGGTTT
Statistics
Matches: 180, Mismatches: 55, Indels: 4
0.75 0.23 0.02
Matches are distributed among these distances:
49 2 0.01
50 176 0.98
51 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (50 bp):
CCACAAAGGCTTCCCAAATAAATCGCCACAAAGGCTTTACAGGTGACTCA
Found at i:15435640 original size:25 final size:25
Alignment explanation
Indices: 15435561--15435686 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 25
15435551 ATAGGTAACC
* **
15435561 TGCCACAAGGGCTCCCCAAATAAAT
1 TGCCACAAAGGCTTTCCAAATAAAT
* * ** * *
15435586 CGCCACAAAGGCTTTACAGGTGACT
1 TGCCACAAAGGCTTTCCAAATAAAT
* *
15435611 CGCCACAAAGGTTTTCCAAATAAAT
1 TGCCACAAAGGCTTTCCAAATAAAT
* * * * *
15435636 TGCCACAAGGGCTTTACAGATGACT
1 TGCCACAAAGGCTTTCCAAATAAAT
* *
15435661 TACCATAAAGG-TTTCCCAAATAAAT
1 TGCCACAAAGGCTTT-CCAAATAAAT
15435686 T
1 T
15435687 TCCATAAGAG
Statistics
Matches: 71, Mismatches: 29, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
24 3 0.04
25 68 0.96
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (25 bp):
TGCCACAAAGGCTTTCCAAATAAAT
Found at i:15435710 original size:100 final size:100
Alignment explanation
Indices: 15435576--15435849 Score: 327
Period size: 100 Copynumber: 2.7 Consensus size: 100
15435566 CAAGGGCTCC
* * * * *
15435576 CCAAATAAATCGCCACAA-AGGCTTTACAGGTGACTCGCCACAAAGGTTTTCCAAATAAATTGCC
1 CCAAATAAATCGCCATAAGA-GCTTTATAGGTGACTCGCCACAAAGGCTTCCCAAATAAATCGCC
** * ****
15435640 ACAAGGGCTTTAC-AGATGACTTACCATAAAGGTTTC
65 ACAAAAGCTTCACAAG-TGACTTACCATAAAGGCAAA
** *
15435676 CCAAATAAATTTCCATAAGAGCTTTATAGGTGACTCACCACAAAGGCTTCCCAAATAAATCGCCA
1 CCAAATAAATCGCCATAAGAGCTTTATAGGTGACTCGCCACAAAGGCTTCCCAAATAAATCGCCA
**
15435741 CAAAAGCTTCACAAGTGACTTACTGTAAAGGCAAA
66 CAAAAGCTTCACAAGTGACTTACCATAAAGGCAAA
* * * *
15435776 CTATATAAATCGCCATAAGGGCTTTATAGGTGACTCGCCACAAAGGCTTCCCAAATAAATCACCA
1 CCAAATAAATCGCCATAAGAGCTTTATAGGTGACTCGCCACAAAGGCTTCCCAAATAAATCGCCA
15435841 CAAAAGCTT
66 CAAAAGCTT
15435850 GGTTTGGTTT
Statistics
Matches: 148, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
100 145 0.98
101 3 0.02
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.23
Consensus pattern (100 bp):
CCAAATAAATCGCCATAAGAGCTTTATAGGTGACTCGCCACAAAGGCTTCCCAAATAAATCGCCA
CAAAAGCTTCACAAGTGACTTACCATAAAGGCAAA
Found at i:15441254 original size:11 final size:11
Alignment explanation
Indices: 15441238--15441262 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15441228 AACTCTTAAA
15441238 AAATTTAAAAT
1 AAATTTAAAAT
15441249 AAATTTAAAAT
1 AAATTTAAAAT
15441260 AAA
1 AAA
15441263 AGAATACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAATTTAAAAT
Found at i:15447200 original size:8 final size:8
Alignment explanation
Indices: 15447187--15447211 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15447177 TATATCATTA
15447187 TTATTATT
1 TTATTATT
15447195 TTATTATT
1 TTATTATT
15447203 TTATTATT
1 TTATTATT
15447211 T
1 T
15447212 ATTCATCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:15452356 original size:33 final size:33
Alignment explanation
Indices: 15452314--15452380 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
15452304 TTACAAAAAC
15452314 TCACCTAATTCACTAATTTGACCTAAGAATGGT
1 TCACCTAATTCACTAATTTGACCTAAGAATGGT
*
15452347 TCACCTAATTCACTAATTTGACCTAAGAGTGGT
1 TCACCTAATTCACTAATTTGACCTAAGAATGGT
15452380 T
1 T
15452381 GGACTAAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (33 bp):
TCACCTAATTCACTAATTTGACCTAAGAATGGT
Found at i:15454014 original size:21 final size:22
Alignment explanation
Indices: 15453981--15454034 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
15453971 TAAAACATAT
15453981 ATAAATAAATAATGATAGATAA-A
1 ATAAAT-AATAATGATAG-TAATA
15454004 AT-AATAATAATGATAGTAATA
1 ATAAATAATAATGATAGTAATA
15454025 ATAAATAATA
1 ATAAATAATA
15454035 TATATAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.10
21 14 0.48
22 10 0.34
23 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
ATAAATAATAATGATAGTAATA
Found at i:15455899 original size:44 final size:44
Alignment explanation
Indices: 15455802--15455960 Score: 151
Period size: 45 Copynumber: 3.6 Consensus size: 44
15455792 TTTAATCTAT
* * **
15455802 TCCACTGTAACTTCAGGGAAATAAGA-TTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAAATAAGACTT-G-TAGCTTCAACCTGC
*
15455847 TCCACTGCAACTTCAGGGAGATAAGACTTGT-GACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAAATAAGACTTGTAG-CTTCAACCTGC
* * * **
15455891 ACCACTGCAACTTCAGGGAAATAAGGCTTATAGCTTTTGACCTGC
1 TCCACTGCAACTTCAGGGAAATAAGACTTGTAGC-TTCAACCTGC
* * *
15455936 TCCACTGTAACTTTAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAAATAAG
15455961 GCCTGCCATA
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
44 38 0.40
45 55 0.58
46 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAAATAAGACTTGTAGCTTCAACCTGC
Found at i:15455961 original size:45 final size:44
Alignment explanation
Indices: 15455843--15455962 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
15455833 TATCTTCAGT
* *
15455843 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTGACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTATGACTTCAAC
* * **
15455887 CTGCACCACTGCAACTTCAGGGAAATAAGGCTTAT-AGCTTTTGAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTATGA-C-TTCAAC
* *
15455932 CTGCTCCACTGTAACTTTAGGGAGATAAGGC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGGC
15455963 CTGCCATAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.02
44 32 0.50
45 31 0.48
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGGCTTATGACTTCAAC
Found at i:15459534 original size:33 final size:33
Alignment explanation
Indices: 15459496--15459563 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
15459486 TTTCTTTAGG
15459496 ACTTGAACATGATCCTTCTTTGTTCAAGACTTT
1 ACTTGAACATGATCCTTCTTTGTTCAAGACTTT
15459529 ACTTGAACATGATCCTTCTTTGTTCAAGACTTT
1 ACTTGAACATGATCCTTCTTTGTTCAAGACTTT
15459562 AC
1 AC
15459564 GATCATATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (33 bp):
ACTTGAACATGATCCTTCTTTGTTCAAGACTTT
Found at i:15464946 original size:21 final size:22
Alignment explanation
Indices: 15464913--15464966 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
15464903 TAAAACATAT
15464913 ATAAATAAATAATGATAGATAA-A
1 ATAAAT-AATAATGATAG-TAATA
15464936 AT-AATAATAATGATAGTAATA
1 ATAAATAATAATGATAGTAATA
15464957 ATAAATAATA
1 ATAAATAATA
15464967 TATATAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.10
21 14 0.48
22 10 0.34
23 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
ATAAATAATAATGATAGTAATA
Found at i:15466717 original size:89 final size:89
Alignment explanation
Indices: 15466615--15466777 Score: 229
Period size: 89 Copynumber: 1.8 Consensus size: 89
15466605 CGCTATCTTT
* * *
15466615 AACCTGCTCCACTGCAACTTCAGGAAAATAAGATTCACTATCTTCAG-TCTGCTCCATTGCAACT
1 AACCTGCTCCACTGCAACTTCAGGAAAATAAGATTCA-TAGCTTCAGACCTACTCCATTGCAACT
15466679 TCAGGGAGATGAGACTTGTGACTTC
65 TCAGGGAGATGAGACTTGTGACTTC
* * * * **
15466704 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTTGACCTACTCCATTGCAACTT
1 AACCTGCTCCACTGCAACTTCAGGAAAATAAGATTCATAGCTTCAGACCTACTCCATTGCAACTT
15466769 CAGGGAGAT
66 CAGGGAGAT
15466778 AAGGCCTACC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
88 6 0.09
89 58 0.91
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (89 bp):
AACCTGCTCCACTGCAACTTCAGGAAAATAAGATTCATAGCTTCAGACCTACTCCATTGCAACTT
CAGGGAGATGAGACTTGTGACTTC
Found at i:15466720 original size:44 final size:44
Alignment explanation
Indices: 15466577--15466780 Score: 173
Period size: 45 Copynumber: 4.6 Consensus size: 44
15466567 TTAAATCTGT
** *
15466577 TCCACTGCAACTTCAGGG-GAATAAGATCCGCTATCTTTAACCTGC
1 TCCACTGCAACTTCAGGGAG-ATAAGAT-TACTATCTTCAACCTGC
* * **
15466622 TCCACTGCAACTTCAGGAAAATAAGATTCACTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-ACTATCTTCAACCTGC
* * *
15466667 TCCATTGCAACTTCAGGGAGATGAGACTT-GTGA-CTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTACT-ATCTTCAACCTGC
* * ** *
15466711 TCCACTGCAACTTCAGGGAGATAAGGTTTA-TAGCTTTTGACCTAC
1 TCCACTGCAACTTCAGGGAGATAA-GATTACTATC-TTCAACCTGC
*
15466756 TCCATTGCAACTTCAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
15466781 GCCTACCATA
Statistics
Matches: 130, Mismatches: 21, Indels: 17
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 37 0.28
45 90 0.69
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTACTATCTTCAACCTGC
Found at i:15477722 original size:20 final size:21
Alignment explanation
Indices: 15477678--15477723 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
15477668 GGACTCAGAC
* *
15477678 TTTTAATTTATTTTGGTTTTA
1 TTTTATTTTATTTTGGTTTGA
15477699 -TTTATTTTATTTT-GTTTGA
1 TTTTATTTTATTTTGGTTTGA
15477718 TTTTAT
1 TTTTAT
15477724 CTTTGCCCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (21 bp):
TTTTATTTTATTTTGGTTTGA
Found at i:15479841 original size:21 final size:22
Alignment explanation
Indices: 15479817--15479860 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
15479807 AAAGTTAACA
*
15479817 TAAAAATAT-TTTTAAGATTTT
1 TAAAAATATATTTTAAAATTTT
15479838 T-AAAATATATTTTAAAATTTT
1 TAAAAATATATTTTAAAATTTT
15479859 TA
1 TA
15479861 GAATTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAAAAATATATTTTAAAATTTT
Found at i:15503873 original size:46 final size:48
Alignment explanation
Indices: 15503766--15503883 Score: 127
Period size: 46 Copynumber: 2.5 Consensus size: 48
15503756 GGTCTTTTGT
* *
15503766 GAGAGCTAGTGTAAGACCATGTCT-CGACAATGGCATCGGCATTGAGAT
1 GAGAGCTAGTGTAAGA-CATGTTTGCGACAATGGCATCGGCATTGAGAC
* * * *
15503814 GAGTGCTAATGTAAGACATGTTTGGGAC-AT-GCATCGGCCTTGAGAC
1 GAGAGCTAGTGTAAGACATGTTTGCGACAATGGCATCGGCATTGAGAC
*
15503860 GTA-AGCTAGTGTAAAACATGTTTG
1 G-AGAGCTAGTGTAAGACATGTTTG
15503884 AGAGGTGTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
46 33 0.56
47 9 0.15
48 17 0.29
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (48 bp):
GAGAGCTAGTGTAAGACATGTTTGCGACAATGGCATCGGCATTGAGAC
Found at i:15512275 original size:33 final size:32
Alignment explanation
Indices: 15512233--15512297 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
15512223 TCTGATTGCA
*
15512233 CACTGTACTGTTACTGTAAT-GGACTTAGGCCC
1 CACTGTACTGTTACTGAAATAGG-CTTAGGCCC
*
15512265 CACTGATACTGTTATTGAAATAGGCTTAGGCCC
1 CACTG-TACTGTTACTGAAATAGGCTTAGGCCC
15512298 AAACTACTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 5 0.17
33 22 0.76
34 2 0.07
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (32 bp):
CACTGTACTGTTACTGAAATAGGCTTAGGCCC
Found at i:15519422 original size:18 final size:18
Alignment explanation
Indices: 15519365--15519427 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
15519355 TTATAGTTCC
*
15519365 CATAAAATAAACAATTCA
1 CATAAAATAAGCAATTCA
* * *
15519383 CATAGAGTAAGCAATTCG
1 CATAAAATAAGCAATTCA
* *
15519401 CATAAAATAGGCAGTTCA
1 CATAAAATAAGCAATTCA
15519419 CATAAAATA
1 CATAAAATA
15519428 TTAGTTCGCA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.22
Consensus pattern (18 bp):
CATAAAATAAGCAATTCA
Found at i:15519486 original size:17 final size:17
Alignment explanation
Indices: 15519466--15519506 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15519456 GAAACAACAA
*
15519466 TTCATACCAAATAAAAG
1 TTCATACAAAATAAAAG
* *
15519483 TTCATGCAAAATAATAG
1 TTCATACAAAATAAAAG
15519500 TTCATAC
1 TTCATAC
15519507 TACATCATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (17 bp):
TTCATACAAAATAAAAG
Found at i:15519783 original size:33 final size:33
Alignment explanation
Indices: 15519746--15519812 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
15519736 TTACATTCCC
*
15519746 TTATCTCTCCACCACATCTCTAGACCACAATGT
1 TTATCTCTCCAACACATCTCTAGACCACAATGT
*
15519779 TTATCTCTCCAACACATCTCTGGACCACAATGT
1 TTATCTCTCCAACACATCTCTAGACCACAATGT
15519812 T
1 T
15519813 CATCGCAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.34, G:0.07, T:0.31
Consensus pattern (33 bp):
TTATCTCTCCAACACATCTCTAGACCACAATGT
Found at i:15520142 original size:23 final size:23
Alignment explanation
Indices: 15520115--15520189 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
15520105 CCTAGGTTTG
15520115 CATATCACTTTAGTATAAGTTCA
1 CATATCACTTTAGTATAAGTTCA
* * *
15520138 CATATCA-TATAGCT-TAGGTTTA
1 CATATCACTTTAG-TATAAGTTCA
* *
15520160 CATGTCACTTTAGCATAAGTTCA
1 CATATCACTTTAGTATAAGTTCA
15520183 CATATCA
1 CATATCA
15520190 TATAGCTTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
22 16 0.40
23 24 0.60
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (23 bp):
CATATCACTTTAGTATAAGTTCA
Found at i:15520156 original size:45 final size:45
Alignment explanation
Indices: 15520107--15520209 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
15520097 TCACAAAGCC
*
15520107 TAGGTTTGCATATCACTTTAGTATAAGTTCACATATCATATAGCT
1 TAGGTTTGCATATCACTTTAGCATAAGTTCACATATCATATAGCT
* *
15520152 TAGGTTTACATGTCACTTTAGCATAAGTTCACATATCATATAGCT
1 TAGGTTTGCATATCACTTTAGCATAAGTTCACATATCATATAGCT
*
15520197 TAGGTTCGCATAT
1 TAGGTTTGCATAT
15520210 AACATAGCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (45 bp):
TAGGTTTGCATATCACTTTAGCATAAGTTCACATATCATATAGCT
Found at i:15520203 original size:22 final size:22
Alignment explanation
Indices: 15520133--15520209 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
15520123 TTTAGTATAA
15520133 GTTCACATATCATATAGCTTAG
1 GTTCACATATCATATAGCTTAG
* * * * *
15520155 GTTTACATGTCACTTTAGCATAA
1 GTTCACATATCA-TATAGCTTAG
15520178 GTTCACATATCATATAGCTTAG
1 GTTCACATATCATATAGCTTAG
*
15520200 GTTCGCATAT
1 GTTCACATAT
15520210 AACATAGCAT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
22 26 0.60
23 17 0.40
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (22 bp):
GTTCACATATCATATAGCTTAG
Found at i:15520494 original size:17 final size:16
Alignment explanation
Indices: 15520472--15520503 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15520462 AGGATTAGGT
15520472 TCACACATGATAGGGGC
1 TCACACATGAT-GGGGC
15520489 TCACACATGATGGGG
1 TCACACATGATGGGG
15520504 TTTACACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.19
Consensus pattern (16 bp):
TCACACATGATGGGGC
Found at i:15524776 original size:25 final size:25
Alignment explanation
Indices: 15524722--15524837 Score: 110
Period size: 25 Copynumber: 4.6 Consensus size: 25
15524712 AAGGGTTCGT
* * *
15524722 ATATCACTCAATCATAGCATGTTCAT
1 ATATCATTCAA-CATAACATGTTCAG
*
15524748 ATATCATTCAACGTAACATGTTCAG
1 ATATCATTCAACATAACATGTTCAG
**
15524773 ATATCATTCAACATAGTATGTTC-G
1 ATATCATTCAACATAACATGTTCAG
*
15524797 CTTATCATTCAACATAACATGTTC-G
1 -ATATCATTCAACATAACATGTTCAG
* *
15524822 CACATCACTCAACATA
1 -ATATCATTCAACATA
15524838 GCATATTTGC
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
24 1 0.01
25 65 0.86
26 10 0.13
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (25 bp):
ATATCATTCAACATAACATGTTCAG
Found at i:15524803 original size:50 final size:50
Alignment explanation
Indices: 15524716--15524841 Score: 157
Period size: 50 Copynumber: 2.5 Consensus size: 50
15524706 ATATCTAAGG
* *
15524716 GTTCGTATATCACTCAATCATAGCATGTTCATATATCATTCAACGTAACAT
1 GTTCGCATATCACTCAA-CATAGCATGTTCATATATCATTCAACATAACAT
* * *
15524767 GTTCAG-ATATCATTCAACATAGTATGTTCGCT-TATCATTCAACATAACAT
1 GTTC-GCATATCACTCAACATAGCATGTTC-ATATATCATTCAACATAACAT
*
15524817 GTTCGCACATCACTCAACATAGCAT
1 GTTCGCATATCACTCAACATAGCAT
15524842 ATTTGCATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
49 1 0.02
50 48 0.74
51 15 0.23
52 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (50 bp):
GTTCGCATATCACTCAACATAGCATGTTCATATATCATTCAACATAACAT
Found at i:15528814 original size:9 final size:9
Alignment explanation
Indices: 15528802--15528906 Score: 59
Period size: 9 Copynumber: 10.4 Consensus size: 9
15528792 AAATATAGAA
15528802 AAAAATTAT
1 AAAAATTAT
15528811 AAAAATT-T
1 AAAAATTAT
*
15528819 AGAAAAGTTTT
1 A-AAAA-TTAT
* *
15528830 TAAAATTTT
1 AAAAATTAT
15528839 AAAATATATATT
1 AAAA-AT-TA-T
15528851 AAAAATATAT
1 AAAAAT-TAT
15528861 AAAAAATTATT
1 -AAAAATTA-T
15528872 AAAAAAATTAT
1 --AAAAATTAT
*
15528883 TAAAATATAT
1 AAAAAT-TAT
15528893 AAAAAATTAT
1 -AAAAATTAT
15528903 AAAA
1 AAAA
15528907 TCTAGAGTTA
Statistics
Matches: 80, Mismatches: 5, Indels: 22
0.75 0.05 0.21
Matches are distributed among these distances:
8 2 0.03
9 27 0.34
10 17 0.21
11 20 0.25
12 14 0.17
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:15528814 original size:10 final size:10
Alignment explanation
Indices: 15528801--15528906 Score: 67
Period size: 10 Copynumber: 10.4 Consensus size: 10
15528791 AAAATATAGA
15528801 AAAAAATTAT
1 AAAAAATTAT
15528811 -AAAAATT-T
1 AAAAAATTAT
*
15528819 AGAAAAGTT-T
1 A-AAAAATTAT
** *
15528829 TTAAAATTTT
1 AAAAAATTAT
*
15528839 AAAATATATAT
1 AAAAAAT-TAT
*
15528850 TAAAAATATAT
1 AAAAAAT-TAT
15528861 AAAAAATTATT
1 AAAAAATTA-T
15528872 AAAAAAATTAT
1 -AAAAAATTAT
*
15528883 -TAAAATATAT
1 AAAAAAT-TAT
15528893 AAAAAATTAT
1 AAAAAATTAT
15528903 AAAA
1 AAAA
15528907 TCTAGAGTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.01
9 17 0.23
10 24 0.32
11 24 0.32
12 9 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:15528852 original size:20 final size:21
Alignment explanation
Indices: 15528831--15528907 Score: 79
Period size: 23 Copynumber: 3.6 Consensus size: 21
15528821 AAAAGTTTTT
*
15528831 AAAATTTTAAAATATATATTA
1 AAAATTATAAAATATATATTA
*
15528852 AAAATATATAAAAAAT-TATTAAA
1 AAAAT-TATAAAATATATATT--A
15528875 AAAATTATTAAAATATATA--A
1 AAAATTA-TAAAATATATATTA
15528895 AAAATTATAAAAT
1 AAAATTATAAAAT
15528908 CTAGAGTTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
19 6 0.12
20 8 0.17
21 9 0.19
22 10 0.21
23 13 0.27
24 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATTATAAAATATATATTA
Found at i:15528860 original size:11 final size:11
Alignment explanation
Indices: 15528837--15528899 Score: 67
Period size: 11 Copynumber: 5.7 Consensus size: 11
15528827 TTTTAAAATT
15528837 TTAAAATATATA
1 TTAAAA-ATATA
15528849 TTAAAAATATA
1 TTAAAAATATA
*
15528860 TAAAAAAT-TA
1 TTAAAAATATA
*
15528870 TTAAAAAAATTA
1 TTAAAAATA-TA
15528882 TT-AAAATATA
1 TTAAAAATATA
*
15528892 TAAAAAAT
1 TTAAAAAT
15528900 TATAAAATCT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
10 11 0.26
11 22 0.51
12 10 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TTAAAAATATA
Found at i:15528867 original size:32 final size:32
Alignment explanation
Indices: 15528831--15528907 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
15528821 AAAAGTTTTT
*
15528831 AAAATTTTAAAATATA-TATTAAAAATATATAA
1 AAAATTTTAAAATAAATTATT-AAAATATATAA
15528863 AAAATTATTAAAA-AAATTATTAAAATATATAA
1 AAAATT-TTAAAATAAATTATTAAAATATATAA
*
15528895 AAAATTATAAAAT
1 AAAATTTTAAAAT
15528908 CTAGAGTTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
31 5 0.12
32 25 0.62
33 10 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (32 bp):
AAAATTTTAAAATAAATTATTAAAATATATAA
Found at i:15528903 original size:12 final size:12
Alignment explanation
Indices: 15528839--15528903 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
15528829 TTAAAATTTT
*
15528839 AAAATATATATTA
1 AAAAT-TATATAA
15528852 AAAA-TATATAA
1 AAAATTATATAA
15528863 AAAATTAT-TAAA
1 AAAATTATAT-AA
15528875 AAAATTAT-T--
1 AAAATTATATAA
15528884 AAAA-TATATAA
1 AAAATTATATAA
15528895 AAAATTATA
1 AAAATTATA
15528904 AAATCTAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
8 3 0.07
9 5 0.11
11 15 0.33
12 18 0.40
13 4 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATTATATAA
Found at i:15529196 original size:29 final size:28
Alignment explanation
Indices: 15529146--15529206 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
15529136 TTTTCTCTAC
*
15529146 TTTTAGATTTTTTTATAAATTTGTAATAA
1 TTTTAGATATTTTTATAAATTT-TAATAA
* ** *
15529175 TTTTATATATTTTTATTGATTTTAATCA
1 TTTTAGATATTTTTATAAATTTTAATAA
15529203 TTTT
1 TTTT
15529207 TTATCTTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (28 bp):
TTTTAGATATTTTTATAAATTTTAATAA
Found at i:15529315 original size:26 final size:26
Alignment explanation
Indices: 15529280--15529340 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 26
15529270 TTTTAGAATT
*
15529280 TTTTTCTATATTTATAATAAATTTTCTA
1 TTTTTATAT-TTTATAAT-AATTTTCTA
*
15529308 TTTTTATATTTTCTAATAATTTTCTA
1 TTTTTATATTTTATAATAATTTTCTA
15529334 TATTTTA
1 T-TTTTA
15529341 AATAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 10 0.33
27 12 0.40
28 8 0.27
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTTATATTTTATAATAATTTTCTA
Found at i:15529344 original size:19 final size:20
Alignment explanation
Indices: 15529307--15529350 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
15529297 TAAATTTTCT
*
15529307 ATTTTTATATTTTCTAAT-A
1 ATTTTTATATTTTCAAATAA
15529326 ATTTTCTATATTTT-AAATAA
1 ATTTT-TATATTTTCAAATAA
15529346 ATTTT
1 ATTTT
15529351 AATACATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTTATATTTTCAAATAA
Found at i:15529348 original size:20 final size:19
Alignment explanation
Indices: 15529307--15529351 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
15529297 TAAATTTTCT
*
15529307 ATTTTTATATTTTCTAATA
1 ATTTTTATATTTTCAAATA
15529326 ATTTTCTATATTTT-AAATA
1 ATTTT-TATATTTTCAAATA
*
15529345 AATTTTA
1 ATTTTTA
15529352 ATACATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 8 0.35
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTATATTTTCAAATA
Found at i:15529421 original size:18 final size:17
Alignment explanation
Indices: 15529398--15529442 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
15529388 ATTTTTCTAT
15529398 AATTTTTATAAATTTTTA
1 AATTTTTATAAA-TTTTA
**
15529416 AATTTTTATTGATTTTA
1 AATTTTTATAAATTTTA
15529433 ATATTTTTAT
1 A-ATTTTTAT
15529443 CATTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
AATTTTTATAAATTTTA
Found at i:15529447 original size:17 final size:17
Alignment explanation
Indices: 15529411--15529448 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
15529401 TTTTATAAAT
*
15529411 TTTTAAATTTTTATTGA
1 TTTTAAATTTTTATTCA
15529428 TTTTAATATTTTTA-TCA
1 TTTTAA-ATTTTTATTCA
15529445 TTTT
1 TTTT
15529449 TTATCATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTAAATTTTTATTCA
Found at i:15529449 original size:18 final size:17
Alignment explanation
Indices: 15529398--15529449 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
15529388 ATTTTTCTAT
15529398 AATTTTTATAAATTTTTA
1 AATTTTTAT-AATTTTTA
*
15529416 AATTTTTATTGA-TTTTA
1 AATTTTTA-TAATTTTTA
*
15529433 ATATTTTTATCATTTTT
1 A-ATTTTTATAATTTTT
15529450 TATCATGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 8 0.28
18 20 0.69
19 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
AATTTTTATAATTTTTA
Found at i:15531674 original size:17 final size:18
Alignment explanation
Indices: 15531644--15531689 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
15531634 ATTTAAATTG
15531644 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
15531662 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
15531678 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
15531690 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:15537019 original size:3 final size:3
Alignment explanation
Indices: 15537011--15537039 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
15537001 TTACTATGTT
15537011 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15537040 TTATCTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15541370 original size:30 final size:30
Alignment explanation
Indices: 15541336--15541396 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15541326 TCCTTAACTC
15541336 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
15541366 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
15541396 A
1 A
15541397 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:15542471 original size:48 final size:48
Alignment explanation
Indices: 15542397--15542766 Score: 313
Period size: 48 Copynumber: 7.7 Consensus size: 48
15542387 GTTACAGAGA
* *
15542397 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTGATATGAGT
* ***
15542445 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CCACATTATGAGAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTGA-TATGAG-T
* * *
15542494 -CCAATGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTGATATGAGT
* *** *
15542541 GCTC-GTATAAGACCATGTCTGGGACATGGCATCGG-CCACATTATGAGA
1 GC-CAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTGA-TATGAGT
* * * ** ** *
15542589 GCCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCAATATCCGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTGATATGAGT
* * * * *
15542637 GCTAGTGTAAGACCATGTTTGGAACATGGCATC-GACATTGTTAT-ATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTC-TTGATATGA-GT
* * * * *
15542685 GTCAGTGTAAGACCATTTTTGGGACATGGCATCGGTACCAATG-TATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGT--C-TTGATATGAGT
*
15542735 GCCACTGTAAGACCATGTCTGGGACATGGCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCAT
15542767 TGACATTTTA
Statistics
Matches: 258, Mismatches: 50, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
47 6 0.02
48 209 0.81
49 6 0.02
50 32 0.12
51 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTCTTGATATGAGT
Found at i:15542566 original size:96 final size:96
Alignment explanation
Indices: 15542393--15542720 Score: 417
Period size: 96 Copynumber: 3.4 Consensus size: 96
15542383 AGATGTTACA
*
15542393 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCTAGTATAAGAC
15542458 CATGTCTGGGACATGGCATCGGCCACATTAT
66 CATGTCTGGGACATGGCATCGGCCACATTAT
* * *
15542489 GAGATCCAATGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCTCGTATAAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCTAGTATAAGAC
15542554 CATGTCTGGGACATGGCATCGGCCACATTAT
66 CATGTCTGGGACATGGCATCGGCCACATTAT
* * ** ** ** * *
15542585 GAGAGCCAGTGTAAGACCATGTCTGAGACATGGCATCAGCCTCAATATCCGAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCTAGTATAAGAC
* * * **
15542650 CATGTTTGGAACATGGCATC-GACATTGTTAT
66 CATGTCTGGGACATGGCATCGGCCA-CATTAT
* * * *
15542681 -ATGTGTCAGTGTAAGACCATTTTTGGGACATGGCATCGGT
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGT
15542721 ACCAATGTAT
Statistics
Matches: 201, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
95 4 0.02
96 197 0.98
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (96 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCTAGTATAAGAC
CATGTCTGGGACATGGCATCGGCCACATTAT
Found at i:15542664 original size:144 final size:144
Alignment explanation
Indices: 15542399--15542766 Score: 427
Period size: 144 Copynumber: 2.5 Consensus size: 144
15542389 TACAGAGAGC
* *** * * *
15542399 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGA-TATGTGTGCTAGTGTAAGACCATGT
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGT-CCAATTATGAGAGCCAGTGTAAGACCATGT
* * * * * *
15542463 CTGGGACATGGCATCGGCCACATTATGAGATCCAATGTAAGACCATGTCTGGGACATGGCATCGG
65 CTGGGACATGGCATCAGCCACAATATCAGAGCCAATGTAAGACCATGTCTGGAACATGGCATCGA
** *
15542528 TGTTGATATGTGTGCT
130 CATTGATATATGTG-T
15542544 C-GTATAAGACCATGTCTGGGACATGGCATCGG-CCACATTATGAGAGCCAGTGTAAGACCATGT
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGTCCA-ATTATGAGAGCCAGTGTAAGACCATGT
* * * * * *
15542607 CTGAGACATGGCATCAGCCTCAATATCCGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGA
65 CTGGGACATGGCATCAGCCACAATATCAGAGCCAATGTAAGACCATGTCTGGAACATGGCATCGA
*
15542672 CATTGTTATATGTGT
130 CATTGATATATGTGT
* * * *
15542687 CAGTGTAAGACCATTTTTGGGACATGGCATCGGTACCAATGTATGAGAGCCACTGTAAGACCATG
1 CAGTATAAGACCATGTCTGGGACATGGCATCGGT-CCAAT-TATGAGAGCCAGTGTAAGACCATG
15542752 TCTGGGACATGGCAT
64 TCTGGGACATGGCAT
15542767 TGACATTTTA
Statistics
Matches: 189, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
143 3 0.02
144 143 0.76
145 3 0.02
146 40 0.21
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (144 bp):
CAGTATAAGACCATGTCTGGGACATGGCATCGGTCCAATTATGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCAGCCACAATATCAGAGCCAATGTAAGACCATGTCTGGAACATGGCATCGAC
ATTGATATATGTGT
Found at i:15544540 original size:30 final size:30
Alignment explanation
Indices: 15544506--15544578 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
15544496 CGGTTGGAGG
*
15544506 ACACGGGCGTGTGTGATCACAGGGTTGCCC
1 ACACGGGCGTGTGTGATCACAGGGCTGCCC
* *
15544536 ACACGGGCGTGTGTGATTACAGGGCTGCCT
1 ACACGGGCGTGTGTGATCACAGGGCTGCCC
*
15544566 ACACGGGCATGTG
1 ACACGGGCGTGTG
15544579 ACTCTCCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.18, C:0.25, G:0.37, T:0.21
Consensus pattern (30 bp):
ACACGGGCGTGTGTGATCACAGGGCTGCCC
Found at i:15549191 original size:48 final size:48
Alignment explanation
Indices: 15549120--15549211 Score: 166
Period size: 48 Copynumber: 1.9 Consensus size: 48
15549110 AAGACATTTA
* *
15549120 GTTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGT
1 GTTGATATATGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGT
15549168 GTTGATATATGTGCTAGTGTAAGACCATGTCTGGGACATGGCAT
1 GTTGATATATGTGCTAGTGTAAGACCATGTCTGGGACATGGCAT
15549212 TGGCCACTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.33
Consensus pattern (48 bp):
GTTGATATATGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGT
Found at i:15550319 original size:30 final size:30
Alignment explanation
Indices: 15550284--15550371 Score: 151
Period size: 30 Copynumber: 2.9 Consensus size: 30
15550274 CACGGCCATG
*
15550284 ACACACGGGCGTGTGGTCTACCTGTGTGTC
1 ACACACGGGCGTGTGGTCTACCCGTGTGTC
15550314 ACACACGGGCGTGTGGTCTACCCGTGTGTC
1 ACACACGGGCGTGTGGTCTACCCGTGTGTC
15550344 ACACACGGGCGTGTGGGTC-ACCCGTGTG
1 ACACACGGGCGTGT-GGTCTACCCGTGTG
15550372 GAAGTGCCTA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
30 52 0.93
31 4 0.07
ACGTcount: A:0.14, C:0.28, G:0.35, T:0.23
Consensus pattern (30 bp):
ACACACGGGCGTGTGGTCTACCCGTGTGTC
Found at i:15550358 original size:17 final size:17
Alignment explanation
Indices: 15550307--15550358 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
15550297 TGGTCTACCT
15550307 GTGTGTCACACACGGGC
1 GTGTGTCACACACGGGC
*
15550324 GTGTGGTC-TAC-C---C
1 GTGT-GTCACACACGGGC
15550337 GTGTGTCACACACGGGC
1 GTGTGTCACACACGGGC
15550354 GTGTG
1 GTGTG
15550359 GGTCACCCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 7 0.26
14 1 0.04
16 1 0.04
17 12 0.44
18 3 0.11
ACGTcount: A:0.13, C:0.27, G:0.37, T:0.23
Consensus pattern (17 bp):
GTGTGTCACACACGGGC
Found at i:15556402 original size:44 final size:44
Alignment explanation
Indices: 15556339--15556502 Score: 168
Period size: 44 Copynumber: 3.6 Consensus size: 44
15556329 TTTGAGTACT
15556339 TCTGATCAGTGACAAGTGATAAGTGGTAG-TCTCAACTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCT-TCAACTACACTTA
* *
15556383 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTCAACTACACTTA
** * **
15556427 TCAGATAAGTGAAAAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTA
1 TC-------TGATCAGTGACAAGTGATAAGTGGTAGCTTCAACTACACTTA
* *
15556478 TCTGATCAGTGATAAGTGACAAGTG
1 TCTGATCAGTGACAAGTGATAAGTG
15556503 ATAAATCTGA
Statistics
Matches: 103, Mismatches: 9, Indels: 16
0.80 0.07 0.12
Matches are distributed among these distances:
44 61 0.59
45 1 0.01
51 41 0.40
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTCAACTACACTTA
Found at i:15556445 original size:51 final size:51
Alignment explanation
Indices: 15556390--15556506 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
15556380 TTATCTGATC
15556390 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCAGATAAGTGAAA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCAGATAAGTGAAA
* * * *
15556441 AGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCAGATAAGTGAAA
15556492 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
15556507 ATCTGATCTG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCAGATAAGTGAAA
Found at i:15572240 original size:50 final size:50
Alignment explanation
Indices: 15572181--15572280 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
15572171 TCAGGACAAC
*
15572181 TGGTAAATTTTGATAAATCTTTGATTTATTTCAGTAACAATATAAGCAAG
1 TGGTAAATTTTGATAAATCTTTGATTTATTTCACTAACAATATAAGCAAG
15572231 TGGTAAATTTTGATAAATCTTTGATTTATTTCACTAACAATATAAGCAAG
1 TGGTAAATTTTGATAAATCTTTGATTTATTTCACTAACAATATAAGCAAG
15572281 GAAGTCAAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (50 bp):
TGGTAAATTTTGATAAATCTTTGATTTATTTCACTAACAATATAAGCAAG
Found at i:15577209 original size:124 final size:124
Alignment explanation
Indices: 15576989--15577232 Score: 443
Period size: 124 Copynumber: 2.0 Consensus size: 124
15576979 AAGGTGGGGG
15576989 AACAAAGATGAATTGAAGGCATAATGTAATCACTGTAAGAGTACCTTCTTTGCTAAATCCTCTAA
1 AACAAAGATGAATTGAAGGCATAATGTAATCACTGTAAGAGTACCTTCTTTGCTAAATCCTCTAA
15577054 TGGAACCTCCCATTTAAGACATCATCTAAATAGTTGTATGAAAAAATTTAATAAGGTAT
66 TGGAACCTCCCATTTAAGACATCATCTAAATAGTTGTATGAAAAAATTTAATAAGGTAT
* *
15577113 AACAAAGATGAATTGATGGCATAATGTAATCACTGTAAGAGTACCTTCTTTGCTAAATCTTCTAA
1 AACAAAGATGAATTGAAGGCATAATGTAATCACTGTAAGAGTACCTTCTTTGCTAAATCCTCTAA
* * *
15577178 TGGAACCTCCCATTTAAGACATTATCTAAATAGTTGTTTGAAAAATTTTAATAAG
66 TGGAACCTCCCATTTAAGACATCATCTAAATAGTTGTATGAAAAAATTTAATAAG
15577233 ATATCACTCA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
124 115 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (124 bp):
AACAAAGATGAATTGAAGGCATAATGTAATCACTGTAAGAGTACCTTCTTTGCTAAATCCTCTAA
TGGAACCTCCCATTTAAGACATCATCTAAATAGTTGTATGAAAAAATTTAATAAGGTAT
Found at i:15583475 original size:18 final size:18
Alignment explanation
Indices: 15583394--15583475 Score: 69
Period size: 18 Copynumber: 4.3 Consensus size: 18
15583384 TTTCTCCCAA
*
15583394 CAAAAATTACAAAATAATT
1 CAAAAATTATAAAA-AATT
* *
15583413 CAAAATAATTTTTAAAAA-T
1 C-AAA-AATTATAAAAAATT
15583432 CAAAATATT-TATAAAAATT
1 CAAAA-ATTATA-AAAAATT
15583451 CAAAAAATTATAAAAAATT
1 C-AAAAATTATAAAAAATT
15583470 CAAAAA
1 CAAAAA
15583476 AAATATAAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
17 2 0.04
18 16 0.31
19 16 0.31
20 11 0.21
21 7 0.13
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (18 bp):
CAAAAATTATAAAAAATT
Found at i:15583475 original size:19 final size:19
Alignment explanation
Indices: 15583395--15583507 Score: 92
Period size: 19 Copynumber: 5.9 Consensus size: 19
15583385 TTCTCCCAAC
*
15583395 AAAAATTACAAAATAATTCA
1 AAAAATTATAAAA-AATTCA
* *
15583415 AAATAATTTTTAAAAA-TCA
1 AAA-AATTATAAAAAATTCA
*
15583434 AAATATT-TATAAAAATTCA
1 AAAAATTATA-AAAAATTCA
15583453 AAAAATTATAAAAAATTCAA
1 AAAAATTATAAAAAATTC-A
*
15583473 AAAAAATATAAAGAAAGTT-A
1 AAAAATTATAAA-AAA-TTCA
15583493 AAAAA-TA-AAAAAATT
1 AAAAATTATAAAAAATT
15583508 TCTAGAATAA
Statistics
Matches: 79, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
16 2 0.03
17 4 0.05
18 11 0.14
19 25 0.32
20 25 0.32
21 10 0.13
22 2 0.03
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAATTATAAAAAATTCA
Found at i:15584558 original size:21 final size:21
Alignment explanation
Indices: 15584532--15584580 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
15584522 TAACATGAAA
15584532 CTGAACCGAACATTATAAAAC
1 CTGAACCGAACATTATAAAAC
*
15584553 CTGAACCGAATATTATAAAAC
1 CTGAACCGAACATTATAAAAC
*
15584574 CTAAACC
1 CTGAACC
15584581 AAATTGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.20
Consensus pattern (21 bp):
CTGAACCGAACATTATAAAAC
Found at i:15585353 original size:17 final size:17
Alignment explanation
Indices: 15585331--15585373 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
15585321 AATAATTTTT
*
15585331 TTAAAAATA-TAGTAAAA
1 TTAAAAATATTA-AAAAA
*
15585348 TTAAAAAAATTAAAAAA
1 TTAAAAATATTAAAAAA
15585365 TTAAAAATA
1 TTAAAAATA
15585374 CATTAAATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
TTAAAAATATTAAAAAA
Found at i:15589586 original size:16 final size:16
Alignment explanation
Indices: 15589561--15589594 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
15589551 ATCACGGCAT
15589561 GTGTTCATTTTGTCAA
1 GTGTTCATTTTGTCAA
*
15589577 GTGTTTATTTTGTCAA
1 GTGTTCATTTTGTCAA
15589593 GT
1 GT
15589595 CTTTTTGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (16 bp):
GTGTTCATTTTGTCAA
Found at i:15598389 original size:48 final size:47
Alignment explanation
Indices: 15598177--15598403 Score: 175
Period size: 48 Copynumber: 4.9 Consensus size: 47
15598167 AGGGTACGAT
* * * * * * *
15598177 GCCGATGCTATGTTCCAAACATGGTCTCACACTGGCTCACATATCTAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCT-TAA
* * * * *
15598225 GTCGATGCCATGTCCCAGACA-GGTCTTACACT-G-ACACATGTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAA
* * *
15598269 GCCGATGCCA--TCCTAGACA-GGTCTTACACTAGCT-TGCATATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-C--ATCT-TAA
* * *
15598316 GCCGATG-TATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTTAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAA
15598361 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT
15598404 AATGTGGCCA
Statistics
Matches: 142, Mismatches: 24, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
42 19 0.13
43 1 0.01
44 12 0.08
45 7 0.05
46 15 0.11
47 30 0.21
48 57 0.40
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTTAA
Found at i:15599136 original size:20 final size:18
Alignment explanation
Indices: 15599103--15599140 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
15599093 AGCAATTCAC
15599103 CATTTCAATTATTTTACA
1 CATTTCAATTATTTTACA
15599121 CATTTACAACTTATTTTACA
1 CATTT-CAA-TTATTTTACA
15599141 ACTTTACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.47
Consensus pattern (18 bp):
CATTTCAATTATTTTACA
Found at i:15609256 original size:23 final size:23
Alignment explanation
Indices: 15609230--15609275 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
15609220 TATTTTCCAA
15609230 GCCTTTGGTCACCTTCTATCATC
1 GCCTTTGGTCACCTTCTATCATC
15609253 GCCTTTGGTCACCTTCTATCATC
1 GCCTTTGGTCACCTTCTATCATC
15609276 CATACACACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.35, G:0.13, T:0.39
Consensus pattern (23 bp):
GCCTTTGGTCACCTTCTATCATC
Found at i:15611303 original size:79 final size:81
Alignment explanation
Indices: 15611201--15611385 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
15611191 GCTCCTCGTT
* *
15611201 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
15611263 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
15611281 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
15611345 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
15611361 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15611386 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:15611385 original size:40 final size:40
Alignment explanation
Indices: 15611201--15611385 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
15611191 GCTCCTCGTT
* * *
15611201 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
15611241 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
15611281 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
15611320 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
15611361 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15611386 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 30 0.24
40 76 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:15626015 original size:42 final size:42
Alignment explanation
Indices: 15625937--15626016 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
15625927 GTGCAGGTTT
* * *
15625937 CACACGGCCAAGACACACGCCTGTGTTCTAGGCCGTGTAGCA
1 CACACGGCCAAGACACACACCCGTGTTCTAGCCCGTGTAGCA
**
15625979 CACACGGCTGAGACACACACCCGTGTCTCT-GCCCGTGT
1 CACACGGCCAAGACACACACCCGTGT-TCTAGCCCGTGT
15626017 GCTCAATCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 29 0.91
43 3 0.09
ACGTcount: A:0.21, C:0.36, G:0.25, T:0.17
Consensus pattern (42 bp):
CACACGGCCAAGACACACACCCGTGTTCTAGCCCGTGTAGCA
Found at i:15633007 original size:53 final size:53
Alignment explanation
Indices: 15632926--15633071 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
15632916 CTTACACGGT
* *
15632926 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
15632981 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
15633034 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
15633072 AATGGGCGCA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:15634577 original size:49 final size:46
Alignment explanation
Indices: 15634518--15634631 Score: 138
Period size: 46 Copynumber: 2.4 Consensus size: 46
15634508 GCCCTATCCC
* *
15634518 AGACAGGTCTTACACTGACTTTCATATATCGAGCCCGATACCATGTCCT
1 AGACAGGTCTTACACTGACTCTCATATATCG-G--CAATACCATGTCCT
* * * *
15634567 AGACAGGTCTTACACTGGCTCTCATCTATCGGTAATGCCATGTCCT
1 AGACAGGTCTTACACTGACTCTCATATATCGGCAATACCATGTCCT
*
15634613 AGACAGGTCTTAGACTGAC
1 AGACAGGTCTTACACTGAC
15634632 ACACAACAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
46 28 0.49
48 1 0.02
49 28 0.49
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (46 bp):
AGACAGGTCTTACACTGACTCTCATATATCGGCAATACCATGTCCT
Found at i:15634716 original size:46 final size:44
Alignment explanation
Indices: 15634649--15634764 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 44
15634639 AAGCTGACGC
* * * *
15634649 CATGTCCCAAACAGGTCTTACACTAGCTCTCGTCTCAATGT-CGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTC--AT-AATGTGCGATG
* *
15634695 CATGTCCCAGACATGTCTTACACTGGCACTCATGATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATAATGT-G-CGATG
15634741 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
15634765 GGCTTACATA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 4 0.07
44 1 0.02
46 56 0.92
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATAATGTGCGATG
Found at i:15636850 original size:4 final size:4
Alignment explanation
Indices: 15636841--15636874 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
15636831 TTAATTACAT
* *
15636841 TAAA TAAA TAAA TAAT TAAA TAAA TAAA AAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
15636875 TGTTTTTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:15637834 original size:3 final size:3
Alignment explanation
Indices: 15637826--15637875 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
15637816 GTCATTTTAC
*
15637826 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15637874 TA
1 TA
15637876 CCATTGATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:15638053 original size:22 final size:21
Alignment explanation
Indices: 15638022--15638082 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 21
15638012 TATTTGGTTT
15638022 TGTTTCTTTTTATTAGTTTTTAC
1 TGTTT-TTTTTA-TAGTTTTTAC
15638045 T-TTTATTTTTAT-GTTTTTAC
1 TGTTT-TTTTTATAGTTTTTAC
*
15638065 TGTTTTTATTACTAGTTT
1 TGTTTTTTTTA-TAGTTT
15638083 AGTTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 14 0.42
21 5 0.15
22 13 0.39
23 1 0.03
ACGTcount: A:0.15, C:0.07, G:0.08, T:0.70
Consensus pattern (21 bp):
TGTTTTTTTTATAGTTTTTAC
Found at i:15640931 original size:40 final size:40
Alignment explanation
Indices: 15640747--15640931 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
15640737 GCTCCTCGTT
* *
15640747 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
15640787 CAATTGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
15640827 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
15640866 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
15640907 CTAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15640932 CATCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 77 0.64
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:15647755 original size:58 final size:58
Alignment explanation
Indices: 15647665--15647781 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
15647655 TAACATACTG
15647665 TCCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTCTACA
1 TCCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTCTACA
* *
15647723 TCCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTTGTTTACA
1 TCCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTCTACA
15647781 T
1 T
15647782 AATTTATTCA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (58 bp):
TCCATATGATCGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTCTACA
Found at i:15648635 original size:79 final size:81
Alignment explanation
Indices: 15648533--15648717 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
15648523 GCTCCTCGTT
* *
15648533 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
15648595 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
15648613 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
15648677 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
15648693 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15648718 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:15648717 original size:40 final size:40
Alignment explanation
Indices: 15648533--15648717 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
15648523 GCTCCTCGTT
* * *
15648533 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
15648573 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
15648613 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
15648652 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
15648693 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15648718 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 30 0.24
40 76 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:15655253 original size:45 final size:45
Alignment explanation
Indices: 15655155--15655426 Score: 347
Period size: 45 Copynumber: 6.1 Consensus size: 45
15655145 TTTTCTCAAA
* * *
15655155 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCG-AT-ATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATC
* ** *
15655197 TCACCGACATTATAGCCTATTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAATATC
* * *
15655242 TCACCGGCATTATATCCTGCTAGGCTTAAAGGCCCTAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
15655287 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* * * *
15655332 TCACCTGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
15655377 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
15655422 TCACC
1 TCACC
15655427 AGTTCTTTCC
Statistics
Matches: 201, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
42 10 0.05
43 12 0.06
44 8 0.04
45 170 0.85
46 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:15660288 original size:58 final size:59
Alignment explanation
Indices: 15660197--15660317 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 59
15660187 CCCTCCCCAA
* *
15660197 TCCCAAAAGGTAGAATTCAGATACCGTTACATGTTCGGTACCCAATAATGAATGAACCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
* *
15660256 TCCC-AAAGCTAGAATTCAGATACCGTTGCATGTTCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
15660314 TCCC
1 TCCC
15660318 TGTCCCTCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 54 0.93
59 4 0.07
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (59 bp):
TCCCAAAAGCTAGAATTCAGATACCGTTACATGTTCGGTACCCAACAATGAATGAACCG
Found at i:15667670 original size:42 final size:41
Alignment explanation
Indices: 15667582--15667744 Score: 200
Period size: 42 Copynumber: 3.9 Consensus size: 41
15667572 NNNNNNNNNN
* * * * * *
15667582 CTCGAGTACCATCAGCACCTTGGTGCCTCGGATGTGCTAGAGC
1 CTCGAGCAGCATCGGCACCTTAGTG-CTTGGATGTAC-AGAGC
* *
15667625 CTCGAACAGCATCGGCACCTTGGTGCTTGGATGTACAGCAGC
1 CTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACAG-AGC
*
15667667 CTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGGGAGC
1 CTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTAC-AGAGC
*
15667709 CTCGAGCAGCATCGGTACCTTAGTGCTTGGATGTAC
1 CTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTAC
15667745 GGGGGCCTCA
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.02
42 84 0.78
43 22 0.20
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.23
Consensus pattern (41 bp):
CTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACAGAGC
Found at i:15667745 original size:42 final size:42
Alignment explanation
Indices: 15667621--15668203 Score: 228
Period size: 43 Copynumber: 13.7 Consensus size: 42
15667611 GGATGTGCTA
* * *
15667621 GAGCCTCGAACAGCATCGGCACCTTGGTGCTTGGATGTACAG
1 GAGCCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGG
*
15667663 CAGCCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGG
1 GAGCCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGG
*
15667705 GAGCCTCGAGCAGCATCGGTACCTTAGTGCTTGGATGTACGG
1 GAGCCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGG
* * ***
15667747 GGGCCTC-AGACA-CTATTGGCAACC-TAG-GACATTGGATGTGTAG
1 GAGCCTCGAG-CAGC-ATCGGC-ACCTTAGTG-C-TTGGATGTACGG
* * * ** * * **
15667790 GTGCCTCGAGCTGTATCGATACATTGGTGCTTGGATGTGTGG
1 GAGCCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGG
* * * ** * * * *
15667832 GAGCCACGGGCACCATCGATAAAC-AAG-GCCTTTGG-TCGTGCTG
1 GAGCCTCGAGCAGCATCG-GCACCTTAGTG-C-TTGGAT-GTACGG
* * * * * * * * *
15667875 GAGCTTTGGGCACCATCGGAACCTTGGTGCCTTAGATGTGCAG
1 GAGCCTCGAGCAGCATCGGCACCTTAGTG-CTTGGATGTACGG
* * * *
15667918 GAGCCTTGAGCAGCATCGGCATCTTGGTGCTTGGATGTGCGG
1 GAGCCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGG
* * *
15667960 GAGCCTC-AGACACCATCGGCAACC-TAG-GCCCTTGG-TCGTGCCG
1 GAGCCTCGAG-CAGCATCGGC-ACCTTAGTG--CTTGGAT-GTACGG
* * * *
15668003 GAGCCTCGGGCACCATCGGTAACC-TAG-GCCCTTGG-TGGTGCGG
1 GAGCCTCGAGCAGCATCGG-CACCTTAGTG--CTTGGAT-GTACGG
* * * * * * *
15668046 GAGCCTCAAGAACCATCGGCACCTTGGTGCCTCGGATGTGCGA
1 GAGCCTCGAGCAGCATCGGCACCTTAGTG-CTTGGATGTACGG
* * * *
15668089 GAGCCTCGAGCAGCATTGGCACCTTGGTGCTTGGATGTGCAG
1 GAGCCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGG
* * * *
15668131 GAGCCTCG-GACACCATAGGCAACC-TAG-GACGTTGGATGTGCGA
1 GAGCCTCGAG-CAGCATCGGC-ACCTTAGTG-C-TTGGATGTACGG
* ** *
15668174 GTGCCTCGAGCAGCAGGGGCACCCTAGTGC
1 GAGCCTCGAGCAGCATCGGCACCTTAGTGC
15668204 CTCGAATGTG
Statistics
Matches: 425, Mismatches: 83, Indels: 65
0.74 0.14 0.11
Matches are distributed among these distances:
41 10 0.02
42 189 0.44
43 214 0.50
44 12 0.03
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.22
Consensus pattern (42 bp):
GAGCCTCGAGCAGCATCGGCACCTTAGTGCTTGGATGTACGG
Found at i:15668014 original size:128 final size:127
Alignment explanation
Indices: 15667813--15668158 Score: 322
Period size: 128 Copynumber: 2.7 Consensus size: 127
15667803 TATCGATACA
* * * ** * * * *
15667813 TTGGTGCTTGGATGTGTGGGAGCCACGGGCACCATCGATAAACAAGGCCTTTGGTCGTGCTGGAG
1 TTGGTGCTTGGATGTGCGGGAGCCTC-GACACCATCGGCAACCTAGGCCCTTGGTCGTGCAGGAG
* * * * ** * * *
15667878 CTTTGGGCACCATCGG-AACCTTGGTGCCTTAGAT-GTGCAGGAGCCTTGAGCAGCATCGGCATC
65 CCTCGGGCACCATCGGCAACCTAGG-CCCTT-GATGGTGCAGGAGCCTCAAGAACCATCGGCACC
*
15667941 TTGGTGCTTGGATGTGCGGGAGCCTCAGACACCATCGGCAACCTAGGCCCTTGGTCGTGCCGGAG
1 TTGGTGCTTGGATGTGCGGGAGCCTC-GACACCATCGGCAACCTAGGCCCTTGGTCGTGCAGGAG
* * *
15668006 CCTCGGGCACCATCGGTAACCTAGGCCCTTGGTGGTGCGGGAGCCTCAAGAACCATCGGCACC
65 CCTCGGGCACCATCGGCAACCTAGGCCCTTGATGGTGCAGGAGCCTCAAGAACCATCGGCACC
* * * * * **
15668069 TTGGTGCCTCGGATGTGCGAGAGCCTCGAGCAGCATTGGC-ACCTTGGTGCTTGGAT-GTGCAGG
1 TTGGTG-CTTGGATGTGCGGGAGCCTCGA-CACCATCGGCAACCTAGGCCCTTGG-TCGTGCAGG
* *
15668132 AGCCTCGGACACCATAGGCAACCTAGG
63 AGCCTCGGGCACCATCGGCAACCTAGG
15668159 ACGTTGGATG
Statistics
Matches: 181, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
127 2 0.01
128 145 0.80
129 34 0.19
ACGTcount: A:0.18, C:0.27, G:0.34, T:0.21
Consensus pattern (127 bp):
TTGGTGCTTGGATGTGCGGGAGCCTCGACACCATCGGCAACCTAGGCCCTTGGTCGTGCAGGAGC
CTCGGGCACCATCGGCAACCTAGGCCCTTGATGGTGCAGGAGCCTCAAGAACCATCGGCACC
Done.