Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 37 of 54
Found at i:14832496 original size:25 final size:25
Alignment explanation
Indices: 14832443--14832517 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
14832433 TACATGGCAA
* * *
14832443 GGCCACGGGTTGATATACGTGGCTA
1 GGCCACAGGTTGATATACGTGGTTG
*
14832468 GGCCACAGGTTGATATATGTGGTTG
1 GGCCACAGGTTGATATACGTGGTTG
* *
14832493 GGCCA-TGAGTTGATATAGGTGGTTG
1 GGCCACAG-GTTGATATACGTGGTTG
14832518 TAACCACATG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 1 0.02
25 42 0.98
ACGTcount: A:0.20, C:0.13, G:0.37, T:0.29
Consensus pattern (25 bp):
GGCCACAGGTTGATATACGTGGTTG
Found at i:14833022 original size:16 final size:17
Alignment explanation
Indices: 14832981--14833025 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
14832971 ATTTGAGTTT
*
14832981 AAATTGTTTATATATTC
1 AAATTTTTTATATATTC
*
14832998 ATATGTTTTTA-ATATTC
1 AAAT-TTTTTATATATTC
14833015 AAATTTTTTAT
1 AAATTTTTTAT
14833026 CCTTGGCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 6 0.26
17 12 0.52
18 5 0.22
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (17 bp):
AAATTTTTTATATATTC
Found at i:14839671 original size:43 final size:43
Alignment explanation
Indices: 14839609--14839988 Score: 394
Period size: 43 Copynumber: 8.9 Consensus size: 43
14839599 CCCGCCCCGG
* * *
14839609 GTCATCATCAACTTATGTGCACTCCCTACTCGCACATAACCGA
1 GTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCCGA
* *
14839652 GTCATTATCAGCTCATGTGCACTCCCTACTCACACATAGCC-A
1 GTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCCGA
** * * *
14839694 GGTCATCATTTGCTTATATGCACTCCCTACTTGCACATAGCCGA
1 -GTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCCGA
* * *
14839738 GTCATCATCAGCTCATGTGCACTCCCTACTTGCACATAGTCGG
1 GTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCCGA
** *
14839781 GTCATCATCAGCTCATGTGCACTCCC-AC-CGCACATAGTTGG
1 GTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCCGA
* *
14839822 GTTATCATCGGCTCATGTGCACTCCCTACTCGCACATAGCC-A
1 GTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCCGA
* * * *** *
14839864 GGTCATCATCAGCTCATGTGAACTCTC-AC-CACACATAATTGG
1 -GTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCCGA
* ** * * *
14839906 GTCATCATCAGCGCATGTGCACTCTTTACTCGTACATAGTCGG
1 GTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCCGA
* * *
14839949 GTTATCATAAGCTCATGTGCACTCCCTACTCTCACATAGC
1 GTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGC
14839989 TGGGTCATTA
Statistics
Matches: 280, Mismatches: 49, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
41 65 0.23
42 9 0.03
43 205 0.73
44 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (43 bp):
GTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCCGA
Found at i:14839857 original size:84 final size:86
Alignment explanation
Indices: 14839605--14839996 Score: 450
Period size: 84 Copynumber: 4.6 Consensus size: 86
14839595 CCATCCCGCC
* * * * * *
14839605 CCGGGTCATCATCAACTTATGTGCACTCCCTACTCGCACATAACCGAGTCATTATCAGCTCATGT
1 CCGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGT
*
14839670 GCACTCCCTACTCACACATAG
66 GCACTCCCTACTCGCACATAG
* ** * * * * *
14839691 CCAGGTCATCATTTGCTTATATGCACTCCCTACTTGCACATAGCCGAGTCATCATCAGCTCATGT
1 CCGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGT
*
14839756 GCACTCCCTACTTGCACATAG
66 GCACTCCCTACTCGCACATAG
* * * *
14839777 TCGGGTCATCATCAGCTCATGTGCACTCCC-AC-CGCACATAGTTGGGTTATCATCGGCTCATGT
1 CCGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGT
14839840 GCACTCCCTACTCGCACATAG
66 GCACTCCCTACTCGCACATAG
* * * * ** *
14839861 CCAGGTCATCATCAGCTCATGTGAACTCTC-AC-CACACATAATTGGGTCATCATCAGCGCATGT
1 CCGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGT
** *
14839924 GCACTCTTTACTCGTACATAG
66 GCACTCCCTACTCGCACATAG
* * * *
14839945 TCGGGTTATCATAAGCTCATGTGCACTCCCTACTCTCACATAGCTGGGTCAT
1 CCGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCAT
14839997 TATTATCACA
Statistics
Matches: 260, Mismatches: 44, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
84 141 0.54
85 4 0.02
86 115 0.44
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (86 bp):
CCGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAGCTGGGTCATCATCAGCTCATGT
GCACTCCCTACTCGCACATAG
Found at i:14839995 original size:127 final size:128
Alignment explanation
Indices: 14839605--14839996 Score: 459
Period size: 127 Copynumber: 3.1 Consensus size: 128
14839595 CCATCCCGCC
* * * * *
14839605 CCGGGTCATCATCAACTTATGTGCACTCCCTACTCGCACATAACCGAGTCATTATCAGCTCATGT
1 CCGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAATCGGGTCATCATCAGCTCATGT
* * * * ** * *
14839670 GCACTCCCTACTCACACATAGCCAGGTCATCATTTGCTTATATGCACTCCCTACT-TGCACATAG
66 GCACT-CCTACTCGCACATAGTCGGGTTATCATAAGCTCATGTGCACTCCCTACTCT-CACATAG
* * *
14839734 CCGAGTCATCATCAGCTCATGTGCACTCCCTACTTGCACATAGTCGGGTCATCATCAGCTCATGT
1 CCGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAATCGGGTCATCATCAGCTCATGT
* * ** *
14839799 GCACTCCCAC-CGCACATAGTTGGGTTATCATCGGCTCATGTGCACTCCCTACTCGCACATAG
66 GCACTCCTACTCGCACATAGTCGGGTTATCATAAGCTCATGTGCACTCCCTACTCTCACATAG
* * * * * *
14839861 CCAGGTCATCATCAGCTCATGTGAACTCTC-AC-CACACATAATTGGGTCATCATCAGCGCATGT
1 CCGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAATCGGGTCATCATCAGCTCATGT
* *
14839924 GCACTCTTTACTCGTACATAGTCGGGTTATCATAAGCTCATGTGCACTCCCTACTCTCACATAG
66 GCACTC-CTACTCGCACATAGTCGGGTTATCATAAGCTCATGTGCACTCCCTACTCTCACATAG
*
14839988 CTGGGTCAT
1 CCGGGTCAT
14839997 TATTATCACA
Statistics
Matches: 223, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
125 32 0.14
126 4 0.02
127 121 0.54
128 4 0.02
129 62 0.28
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (128 bp):
CCGGGTCATCATCAGCTCATGTGCACTCCCTACTCGCACATAATCGGGTCATCATCAGCTCATGT
GCACTCCTACTCGCACATAGTCGGGTTATCATAAGCTCATGTGCACTCCCTACTCTCACATAG
Found at i:14841657 original size:80 final size:80
Alignment explanation
Indices: 14841501--14841889 Score: 550
Period size: 80 Copynumber: 4.9 Consensus size: 80
14841491 TATCATCATA
* * * *
14841501 CTTAGCCCATAGTGTATATGACTATCTTAGCACATA-ATTTCATGACATACATTTCATAATCTCA
1 CTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAATCTCA
14841565 TAAATCACTTACATG
66 TAAATCACTTACATG
* *
14841580 TTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAGTCTCA
1 CTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAATCTCA
*
14841645 TAAATCATTTACATG
66 TAAATCACTTACATG
* * **
14841660 CTTAGCCCATAGTGTATATAACTATCTCAACATATACATCTCATGGCATACATTTCATAGCCTCA
1 CTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAATCTCA
14841725 TAAATCACTTACATG
66 TAAATCACTTACATG
* * *
14841740 CTTAGCCTATAGTGTATATGACTATCTCAACATATACATCTCATGGCATACATTTCATAACCTCA
1 CTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAATCTCA
*
14841805 TAAATCACTAACATG
66 TAAATCACTTACATG
* * * * * *
14841820 TTTAGCCCATAGTGTACATGA-TATGCTTAAAACATACATCTCATGGAATACATGTT-ACAATCT
1 CTTAGCCCATAGTGTATATGACTAT-CTCAACACATACATCTCATGGCATACAT-TTCATAATCT
14841883 CATAAAT
64 CATAAAT
14841890 GGAACTCATG
Statistics
Matches: 282, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
79 36 0.13
80 244 0.87
81 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (80 bp):
CTTAGCCCATAGTGTATATGACTATCTCAACACATACATCTCATGGCATACATTTCATAATCTCA
TAAATCACTTACATG
Found at i:14843299 original size:15 final size:15
Alignment explanation
Indices: 14843279--14843320 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
14843269 TAACATTATA
14843279 ATTAAAATAAAAAAC
1 ATTAAAATAAAAAAC
*
14843294 ATTAAAATAAAAAAT
1 ATTAAAATAAAAAAC
*
14843309 A-TAATATAAAAA
1 ATTAAAATAAAAA
14843321 TTAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (15 bp):
ATTAAAATAAAAAAC
Found at i:14843358 original size:53 final size:52
Alignment explanation
Indices: 14843281--14843393 Score: 120
Period size: 53 Copynumber: 2.1 Consensus size: 52
14843271 ACATTATAAT
** *
14843281 TAAAATAAAAAACATTAAAATAAAA-AATATAATATAAAAATTAAAAATTAAAA
1 TAAAATAAAAAACAAGAAAATAAAATAATATAATAT--AAATAAAAAATTAAAA
* * * **
14843334 TAAAATAAAATACAAGAAATTAAAATTTATATAATATAGGTAAAAAATTAAAA
1 TAAAATAAAAAACAAGAAAATAAAA-TAATATAATATAAATAAAAAATTAAAA
14843387 TAAAATA
1 TAAAATA
14843394 TATAATATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 41 0.82
55 9 0.18
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (52 bp):
TAAAATAAAAAACAAGAAAATAAAATAATATAATATAAATAAAAAATTAAAA
Found at i:14843359 original size:15 final size:13
Alignment explanation
Indices: 14843278--14843441 Score: 64
Period size: 13 Copynumber: 11.7 Consensus size: 13
14843268 GTAACATTAT
14843278 AATTAAAATAAAAA
1 AATTAAAAT-AAAA
14843292 ACATTAAAATAAAA
1 A-ATTAAAATAAAA
*
14843306 AA-TATAATATAAA
1 AATTAAAATA-AAA
14843319 AATTAAAAATTAAAATA
1 AATT-AAAA-T-AAA-A
*
14843336 AAATAAAATACAAGA
1 AATTAAAATA-AA-A
* *
14843351 AATTAAAATTTATAT
1 AATTAAAA--TAAAA
**
14843366 AA-TATAGGTAAAA
1 AATTA-AAATAAAA
14843379 AATTAAAATAAAA
1 AATTAAAATAAAA
* *
14843392 TATATAATATAAAA
1 AAT-TAAAATAAAA
* *
14843406 AA-TATATTAAAAA
1 AATTAAAAT-AAAA
*
14843419 AATAAAAATAAAA
1 AATTAAAATAAAA
*
14843432 TATATAAAAT
1 AAT-TAAAAT
14843442 TATAATAAGA
Statistics
Matches: 110, Mismatches: 24, Indels: 32
0.66 0.14 0.19
Matches are distributed among these distances:
12 9 0.08
13 31 0.28
14 30 0.27
15 25 0.23
16 8 0.07
17 7 0.06
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (13 bp):
AATTAAAATAAAA
Found at i:14843440 original size:14 final size:14
Alignment explanation
Indices: 14843382--14843441 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
14843372 GGTAAAAAAT
14843382 TAAAATAAAATATA
1 TAAAATAAAATATA
* *
14843396 TAATATAAAAAATA
1 TAAAATAAAATATA
*
14843410 TATTAA-AAAA-ATA
1 TA-AAATAAAATATA
14843423 -AAAATAAAATATA
1 TAAAATAAAATATA
14843436 TAAAAT
1 TAAAAT
14843442 TATAATAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
11 2 0.05
12 5 0.14
13 6 0.16
14 23 0.62
15 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAAATAAAATATA
Found at i:14843449 original size:26 final size:26
Alignment explanation
Indices: 14843386--14843455 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
14843376 AAAAATTAAA
*
14843386 ATAAAATATATAAT-ATAA-AAAATAT
1 ATAAAAT-TATAATAAAAATAAAATAT
14843411 ATTAAAA--A-AATAAAAATAAAATAT
1 A-TAAAATTATAATAAAAATAAAATAT
14843435 ATAAAATTATAATAAGAAATA
1 ATAAAATTATAATAA-AAATA
14843456 TGACATTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
22 3 0.08
23 9 0.24
24 8 0.22
25 2 0.05
26 10 0.27
27 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (26 bp):
ATAAAATTATAATAAAAATAAAATAT
Found at i:14843692 original size:15 final size:15
Alignment explanation
Indices: 14843672--14843737 Score: 89
Period size: 15 Copynumber: 4.3 Consensus size: 15
14843662 TTATTTTCTC
14843672 TGTAATCACATTGCT
1 TGTAATCACATTGCT
*
14843687 TGTAATCACATTACT
1 TGTAATCACATTGCT
*
14843702 TGTAATCACATT-AT
1 TGTAATCACATTGCT
14843716 CTGTAATCACATTGCAT
1 -TGTAATCACATTGC-T
14843733 TGTAA
1 TGTAA
14843738 AGTACCAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
14 1 0.02
15 38 0.84
16 5 0.11
17 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (15 bp):
TGTAATCACATTGCT
Found at i:14846025 original size:62 final size:62
Alignment explanation
Indices: 14845907--14846025 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
14845897 TTTAGGCGGT
* * ** * **
14845907 AAAACAGAATGTTTCTCGCTGCAGCGAGAATTCATTCTCGTTGCAGCGAGTTGCAGGTAACA
1 AAAACAGAATGTTTCTCGCTACAACGAGAAAGCATTCTCGTTGCAACGAGAAGCAGGTAACA
14845969 AAAACAGAATGTTTCTCGCTACAACGAGAAAGCATTCTC-TCTGCAACGAGAAGCAGG
1 AAAACAGAATGTTTCTCGCTACAACGAGAAAGCATTCTCGT-TGCAACGAGAAGCAGG
14846026 GCACTTAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
61 1 0.02
62 48 0.98
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (62 bp):
AAAACAGAATGTTTCTCGCTACAACGAGAAAGCATTCTCGTTGCAACGAGAAGCAGGTAACA
Found at i:14846277 original size:40 final size:39
Alignment explanation
Indices: 14846220--14846359 Score: 130
Period size: 36 Copynumber: 3.6 Consensus size: 39
14846210 AGCCAGCTCA
* *
14846220 TGTGCATCCCCCAACATCGTGCACATAGCTAGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCTA-AGACATCG
* *
14846260 CGTGCATCCCCCCACATCGTG--CATAGGTACAGACATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCTA-AGACATCG
* * * *
14846298 TGTGC-T-CCCCTACATCGCGCAC--AGTTAATGCCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCTAA-GACATCG
14846334 TGTGCATTCCCCCCACATCGTGCACA
1 TGTGCA-TCCCCCCACATCGTGCACA
14846360 CTGTCAATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
35 1 0.01
36 26 0.32
37 1 0.01
38 20 0.25
39 14 0.17
40 19 0.23
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (39 bp):
TGTGCATCCCCCCACATCGTGCACATAGCTAAGACATCG
Found at i:14846474 original size:2 final size:2
Alignment explanation
Indices: 14846467--14846500 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
14846457 TATGACATAG
14846467 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14846501 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14858186 original size:35 final size:35
Alignment explanation
Indices: 14858121--14858187 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
14858111 CCACTTTTGG
*
14858121 TTTTAGTTGAGCTTGTGAAAAACTAGTGTAAAAGA
1 TTTTAGTTGAGCTTGTGAAAAACCAGTGTAAAAGA
* * *
14858156 TTTTGGTTGAGCTTAGT-AAAAGCCATTGTAAA
1 TTTTAGTTGAGCTT-GTGAAAAACCAGTGTAAA
14858188 GCTTGATGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 25 0.93
36 2 0.07
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (35 bp):
TTTTAGTTGAGCTTGTGAAAAACCAGTGTAAAAGA
Found at i:14870176 original size:35 final size:35
Alignment explanation
Indices: 14870145--14870216 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
14870135 TTAAAAGTGA
14870145 TTGTGAGGGTTTTACTTAATCTCGTTAAAAAGCAC
1 TTGTGAGGGTTTTACTTAATCTCGTTAAAAAGCAC
* * *
14870180 TTGTGAGGGTTTTGCTTGATCTCGTTGAAAAGCAC
1 TTGTGAGGGTTTTACTTAATCTCGTTAAAAAGCAC
14870215 TT
1 TT
14870217 TCCGTAGTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.39
Consensus pattern (35 bp):
TTGTGAGGGTTTTACTTAATCTCGTTAAAAAGCAC
Found at i:14877179 original size:28 final size:28
Alignment explanation
Indices: 14877042--14877194 Score: 166
Period size: 28 Copynumber: 5.3 Consensus size: 28
14877032 TGGCATCTTT
14877042 AACATATTTGTCTTAATTTAGACAAGAA
1 AACATATTTGTCTTAATTTAGACAAGAA
*
14877070 AACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATATTT-GTCTTAATTTAGACAAGAA
* * * *
14877099 AATATGTTTATCTTAATTTAAGATAAGAA
1 AACATATTTGTCTTAATTT-AGACAAGAA
* *
14877128 AA-ATATTTTTTGTGTTAATCTAGACAAGAA
1 AACATA---TTTGTCTTAATTTAGACAAGAA
*
14877158 AACATATTTGTCTCAATTTAGACAAGATA
1 AACATATTTGTCTTAATTTAGACAAGA-A
14877187 AA-ATATTT
1 AACATATTT
14877195 TTATCTTAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
28 43 0.41
29 40 0.38
30 10 0.09
31 13 0.12
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (28 bp):
AACATATTTGTCTTAATTTAGACAAGAA
Found at i:14877215 original size:59 final size:56
Alignment explanation
Indices: 14877042--14877206 Score: 188
Period size: 59 Copynumber: 2.9 Consensus size: 56
14877032 TGGCATCTTT
* *
14877042 AACATATTTGTCTTAATTTAGACAAGAAAACAT-GTTTGGTCTTAATTTAGACAAGAA
1 AACATATTTGTCTTAATTTAGACAAGAAAA-ATATTTTTGTCTTAA-TTAGACAAGAA
* * * * *
14877099 AATATGTTTATCTTAATTTAAGATAAGAAAAATATTTTTTGTGTTAATCTAGACAAGAA
1 AACATATTTGTCTTAATTT-AGACAAGAAAAATA-TTTTTGTCTTAAT-TAGACAAGAA
* *
14877158 AACATATTTGTCTCAATTTAGACAAGATAAAATATTTTTATCTTAATTA
1 AACATATTTGTCTTAATTTAGACAAGA-AAAATATTTTTGTCTTAATTA
14877207 AAAACAAGAG
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
57 20 0.22
58 29 0.33
59 40 0.45
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (56 bp):
AACATATTTGTCTTAATTTAGACAAGAAAAATATTTTTGTCTTAATTAGACAAGAA
Found at i:14879921 original size:9 final size:9
Alignment explanation
Indices: 14879907--14879943 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
14879897 AGGACTTAAC
14879907 TTATTTTAT
1 TTATTTTAT
14879916 TTA-TTTAT
1 TTATTTTAT
14879924 TT-TTTCTAT
1 TTATTT-TAT
14879933 TTATTTTAT
1 TTATTTTAT
14879942 TT
1 TT
14879944 TTGGTCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
8 9 0.36
9 13 0.52
10 3 0.12
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTTAT
Found at i:14879925 original size:13 final size:13
Alignment explanation
Indices: 14879907--14879943 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
14879897 AGGACTTAAC
14879907 TTATTTTATTTAT
1 TTATTTTATTTAT
14879920 TTATTTT-TTCTAT
1 TTATTTTATT-TAT
14879933 TTATTTTATTT
1 TTATTTTATTT
14879944 TTGGTCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (13 bp):
TTATTTTATTTAT
Found at i:14890674 original size:13 final size:13
Alignment explanation
Indices: 14890656--14890680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14890646 TTCTAGAAAA
14890656 TTTATAAAATCAT
1 TTTATAAAATCAT
14890669 TTTATAAAATCA
1 TTTATAAAATCA
14890681 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:14898018 original size:36 final size:36
Alignment explanation
Indices: 14897977--14898050 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
14897967 CGGAGTCATT
**
14897977 ATGTGCACCCCCACATTGCGCACAG-CTAAGGCCATC
1 ATGTGCACCCCCACATCACGCACAGAC-AAGGCCATC
* *
14898013 ATGTGCACCCTCACATCACGCACAGACAATGCCATC
1 ATGTGCACCCCCACATCACGCACAGACAAGGCCATC
14898049 AT
1 AT
14898051 TCACACTCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.28, C:0.38, G:0.16, T:0.18
Consensus pattern (36 bp):
ATGTGCACCCCCACATCACGCACAGACAAGGCCATC
Found at i:14902876 original size:31 final size:30
Alignment explanation
Indices: 14902841--14902976 Score: 164
Period size: 31 Copynumber: 4.4 Consensus size: 30
14902831 TTCTTTTTGT
*
14902841 ATCCTCGGTGGAGGAATGCTTAGGATATTAG
1 ATCCTCGGTGGAGGAAT-CTTAAGATATTAG
14902872 ATCCTCGGTGGAGGAACTCTTAAGATATTAG
1 ATCCTCGGTGGAGGAA-TCTTAAGATATTAG
*
14902903 ATCCTCGGTGAAGGAATTCTTAAGATATTAG
1 ATCCTCGGTGGAGGAA-TCTTAAGATATTAG
* * * * *
14902934 ATCTTCGATGGAGGAATTTTTAAAATATTAA
1 ATCCTCGGTGGAGGAA-TCTTAAGATATTAG
*
14902965 AACCTCGGTGGA
1 ATCCTCGGTGGA
14902977 AGGATATTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
31 91 0.99
32 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (30 bp):
ATCCTCGGTGGAGGAATCTTAAGATATTAG
Found at i:14902946 original size:62 final size:62
Alignment explanation
Indices: 14902841--14902980 Score: 181
Period size: 62 Copynumber: 2.2 Consensus size: 62
14902831 TTCTTTTTGT
* * * * *
14902841 ATCCTCGGTGGAGGAATGCTTAGGATATTAGATCCTCGGTGGAGGAACTCTTAAGATATTAG
1 ATCCTCGGTGAAGGAATGCTTAAGATATTAGATCCTCGATGGAGGAACTCTTAAAATATTAA
* * * *
14902903 ATCCTCGGTGAAGGAATTCTTAAGATATTAGATCTTCGATGGAGGAATTTTTAAAATATTAA
1 ATCCTCGGTGAAGGAATGCTTAAGATATTAGATCCTCGATGGAGGAACTCTTAAAATATTAA
*
14902965 AACCTCGGTGGAAGGA
1 ATCCTCGGT-GAAGGA
14902981 TATTAAATCT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
62 61 0.91
63 6 0.09
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (62 bp):
ATCCTCGGTGAAGGAATGCTTAAGATATTAGATCCTCGATGGAGGAACTCTTAAAATATTAA
Found at i:14903036 original size:84 final size:84
Alignment explanation
Indices: 14902895--14903321 Score: 401
Period size: 84 Copynumber: 5.0 Consensus size: 84
14902885 GAACTCTTAA
* ** *
14902895 GATATTAGATCCTCGGT-GAAGGAATTCTTAAGATATTAGAT-CTTCGATGGAGGAATTTTTAAA
1 GATATTAGATCCTCGGTAG-AGGAATTCTTAAGATATTAGATACTT-GGTAAAGGAATTCTTAAA
* *
14902958 ATATTAAAACCTCGGTGGAAG
64 ATATTAGAACCTCGATGGAAG
* * * * * *
14902979 GATATTAAATCTTCGGTATAGGAATTCTTAAGATATTAGATCCTTGGTAAATGAATTTTTAAAAT
1 GATATTAGATCCTCGGTAGAGGAATTCTTAAGATATTAGATACTTGGTAAAGGAATTCTTAAAAT
* *
14903044 AGTAGAACCTCGATGGAGG
66 ATTAGAACCTCGATGGAAG
* * * ** * *
14903063 GATATTAGATCCTCAGTAGAAGAATTCTTAAGATATTAGATCCTCAGTCAAGGAATTCTTAAGAT
1 GATATTAGATCCTCGGTAGAGGAATTCTTAAGATATTAGATACTTGGTAAAGGAATTCTTAAAAT
* *
14903128 ATTAGAACCTTGATGGAGG
66 ATTAGAACCTCGATGGAAG
* * ** * * *
14903147 GATATTAGATCCTCGGTGGAGGAATTCTTAAGATATTAAATACTCAGCAAAAGAATTCTTAAGAT
1 GATATTAGATCCTCGGTAGAGGAATTCTTAAGATATTAGATACTTGGTAAAGGAATTCTTAAAAT
14903212 ATTAGAACCTCGATGGAGGGAGG
66 ATTAGAACCTCGATGGA---A-G
* * * * * * **
14903235 GATATTAGATCTTTGGTGGAGGAATTCTTAAGTTATCAGATACTTGGTGAAA-GAATTCTGAAGT
1 GATATTAGATCCTCGGTAGAGGAATTCTTAAGATATTAGATACTTGGT-AAAGGAATTCTTAAAA
* * *
14903299 TATTGGAACCTTGATGGAGG
65 TATTAGAACCTCGATGGAAG
14903319 GAT
1 GAT
14903322 TTTTAAATTT
Statistics
Matches: 289, Mismatches: 47, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
84 216 0.75
85 3 0.01
88 67 0.23
89 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (84 bp):
GATATTAGATCCTCGGTAGAGGAATTCTTAAGATATTAGATACTTGGTAAAGGAATTCTTAAAAT
ATTAGAACCTCGATGGAAG
Found at i:14903100 original size:31 final size:31
Alignment explanation
Indices: 14903063--14903133 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
14903053 TCGATGGAGG
14903063 GATATTAGATCCTCAGT-AGAAGAATTCTTAA
1 GATATTAGATCCTCAGTCA-AAGAATTCTTAA
*
14903094 GATATTAGATCCTCAGTCAAGGAATTCTTAA
1 GATATTAGATCCTCAGTCAAAGAATTCTTAA
14903125 GATATTAGA
1 GATATTAGA
14903134 ACCTTGATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (31 bp):
GATATTAGATCCTCAGTCAAAGAATTCTTAA
Found at i:14903166 original size:22 final size:22
Alignment explanation
Indices: 14903125--14903168 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14903115 GAATTCTTAA
*
14903125 GATATTAGAACCTTGATGGAGG
1 GATATTAGAACCTCGATGGAGG
* *
14903147 GATATTAGATCCTCGGTGGAGG
1 GATATTAGAACCTCGATGGAGG
14903169 AATTCTTAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.34, T:0.27
Consensus pattern (22 bp):
GATATTAGAACCTCGATGGAGG
Found at i:14903173 original size:168 final size:167
Alignment explanation
Indices: 14902895--14903321 Score: 460
Period size: 168 Copynumber: 2.5 Consensus size: 167
14902885 GAACTCTTAA
* * * *
14902895 GATATTAGATCCTCGGTGAAGGAATTCTTAAGATATTAGATCTTCGATGGAGGAATTTTTAAAAT
1 GATATTAGATCCTCGGTGAA-GAATTCTTAAGATATTAGATCCTCG-TGAAGGAATTCTTAAGAT
* * * * * * * * **
14902960 ATTAAAACCTCGGTGGAAGGATATTAAATCTTCGGTATAGGAATTCTTAAGATATTAGATCCTTG
64 ATTAGAACCTTGATGGAGGGATATTAAATCCTCGGTAGAGGAATTCTTAAGATATTAAATACTCA
* * *
14903025 GTAAATGAATTTTTAAAATAGTAGAACCTCGAT-GGAGG
129 GCAAAAGAATTCTTAAAATAGTAGAACCTCGATGGGAGG
* *
14903063 GATATTAGATCCTCAGTAGAAGAATTCTTAAGATATTAGATCCTCAGTCAAGGAATTCTTAAGAT
1 GATATTAGATCCTCGGT-GAAGAATTCTTAAGATATTAGATCCTC-GTGAAGGAATTCTTAAGAT
* *
14903128 ATTAGAACCTTGATGGAGGGATATTAGATCCTCGGTGGAGGAATTCTTAAGATATTAAATACTCA
64 ATTAGAACCTTGATGGAGGGATATTAAATCCTCGGTAGAGGAATTCTTAAGATATTAAATACTCA
* *
14903193 GCAAAAGAATTCTTAAGATATTAGAACCTCGATGGAGGGAGG
129 GCAAAAGAATTCTTAAAATAGTAGAACCTCGAT---GGGAGG
* * * * * * * * * *
14903235 GATATTAGATCTTTGGTGGAGGAATTCTTAAGTTATCAGATACTTGGTGAAAGAATTCTGAAGTT
1 GATATTAGATCCTCGGT-GAAGAATTCTTAAGATATTAGAT-CCTCGTGAAGGAATTCTTAAGAT
*
14903300 ATTGGAACCTTGATGGAGGGAT
64 ATTAGAACCTTGATGGAGGGAT
14903322 TTTTAAATTT
Statistics
Matches: 215, Mismatches: 37, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
168 134 0.62
169 4 0.02
172 75 0.35
173 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (167 bp):
GATATTAGATCCTCGGTGAAGAATTCTTAAGATATTAGATCCTCGTGAAGGAATTCTTAAGATAT
TAGAACCTTGATGGAGGGATATTAAATCCTCGGTAGAGGAATTCTTAAGATATTAAATACTCAGC
AAAAGAATTCTTAAAATAGTAGAACCTCGATGGGAGG
Found at i:14903182 original size:31 final size:31
Alignment explanation
Indices: 14903147--14903230 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 31
14903137 TTGATGGAGG
14903147 GATATTAGATCCTCGGTGGAGGAATTCTTAA
1 GATATTAGATCCTCGGTGGAGGAATTCTTAA
* * * *** *
14903178 GATATTAAATACTCAGCAAAAGAATTCTTAA
1 GATATTAGATCCTCGGTGGAGGAATTCTTAA
* *
14903209 GATATTAGAACCTCGATGGAGG
1 GATATTAGATCCTCGGTGGAGG
14903231 GAGGGATATT
Statistics
Matches: 37, Mismatches: 16, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (31 bp):
GATATTAGATCCTCGGTGGAGGAATTCTTAA
Found at i:14903836 original size:17 final size:17
Alignment explanation
Indices: 14903814--14903851 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
14903804 TTAAGGAATG
* *
14903814 ATGGGTTTATAATCCAA
1 ATGGGTTCATAAACCAA
14903831 ATGGGTTCATAAACCAA
1 ATGGGTTCATAAACCAA
14903848 ATGG
1 ATGG
14903852 ATCAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (17 bp):
ATGGGTTCATAAACCAA
Found at i:14913373 original size:2 final size:2
Alignment explanation
Indices: 14913366--14913392 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14913356 ATTCAAATCT
14913366 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
14913393 TGTTCTGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14913761 original size:22 final size:22
Alignment explanation
Indices: 14913729--14913770 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
14913719 TTAATGCCCT
14913729 GTTTCTGGCTGCAGCGAGAATG
1 GTTTCTGGCTGCAGCGAGAATG
*
14913751 GTTTCTTGCTGCAGCGAGAA
1 GTTTCTGGCTGCAGCGAGAA
14913771 ACTCTCTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (22 bp):
GTTTCTGGCTGCAGCGAGAATG
Found at i:14915162 original size:15 final size:17
Alignment explanation
Indices: 14915135--14915189 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
14915125 CAATTAACAG
14915135 TTCTCTATCTTCA-A-AC
1 TTCTCT-TCTTCAGAGAC
14915151 TTCTCTTCTTCAGTAGAC
1 TTCTCTTCTTCAG-AGAC
14915169 TTCTCTTCTTCAGTAGAC
1 TTCTCTTCTTCAG-AGAC
14915187 TTC
1 TTC
14915190 CTCTAACTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.17
16 6 0.17
17 1 0.03
18 23 0.64
ACGTcount: A:0.18, C:0.29, G:0.07, T:0.45
Consensus pattern (17 bp):
TTCTCTTCTTCAGAGAC
Found at i:14915172 original size:18 final size:18
Alignment explanation
Indices: 14915149--14915189 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
14915139 CTATCTTCAA
14915149 ACTTCTCTTCTTCAGTAG
1 ACTTCTCTTCTTCAGTAG
14915167 ACTTCTCTTCTTCAGTAG
1 ACTTCTCTTCTTCAGTAG
14915185 ACTTC
1 ACTTC
14915190 CTCTAACTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.29, G:0.10, T:0.44
Consensus pattern (18 bp):
ACTTCTCTTCTTCAGTAG
Found at i:14917770 original size:30 final size:30
Alignment explanation
Indices: 14917736--14917806 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
14917726 TGCCTAAAGG
14917736 TATGTGCCTAGGCTAGAGAACAAGTATGAT
1 TATGTGCCTAGGCTAGAGAACAAGTATGAT
14917766 TATGTGCCTAGGCTAGAGAACAAGTATGAT
1 TATGTGCCTAGGCTAGAGAACAAGTATGAT
14917796 TATGTGCCTAG
1 TATGTGCCTAG
14917807 ACGAGAATGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (30 bp):
TATGTGCCTAGGCTAGAGAACAAGTATGAT
Found at i:14927352 original size:8 final size:8
Alignment explanation
Indices: 14927336--14927373 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
14927326 GTACATTTAT
*
14927336 AAAAGAGA
1 AAAAAAGA
14927344 AAAAAAGA
1 AAAAAAGA
*
14927352 AAAAGA-A
1 AAAAAAGA
14927359 AAAAAAGA
1 AAAAAAGA
14927367 AAAAAAG
1 AAAAAAG
14927374 GGTTAGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:14927371 original size:16 final size:16
Alignment explanation
Indices: 14927336--14927370 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
14927326 GTACATTTAT
14927336 AAAAGAGAAAAAAAGA
1 AAAAGAGAAAAAAAGA
14927352 AAAAGA-AAAAAAAGA
1 AAAAGAGAAAAAAAGA
14927367 AAAA
1 AAAA
14927371 AAGGGTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAGAGAAAAAAAGA
Found at i:14932345 original size:15 final size:14
Alignment explanation
Indices: 14932325--14932358 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
14932315 ATATGATATT
14932325 TTAAATTTAAACAAA
1 TTAAATTTAAA-AAA
14932340 TTAAATTTAAAAAA
1 TTAAATTTAAAAAA
14932354 -TAAAT
1 TTAAAT
14932359 AATCCTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 3 0.16
15 11 0.58
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAATTTAAAAAA
Found at i:14938208 original size:47 final size:47
Alignment explanation
Indices: 14938080--14938594 Score: 766
Period size: 47 Copynumber: 11.0 Consensus size: 47
14938070 TTTTGCATAC
* * * *
14938080 AATTTTACTTAACAAATAAATAAAATAATTGCACTATGCATTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATTATGCATTTTATA
* **
14938127 AATTTTGCCTTTTCAAATAAGTAAAATAATTACATTATGCATTTTATA
1 AATTTTACC-TAACAAATAAGTAAAATAATTACATTATGCATTTTATA
* *
14938175 AATTTTACCTAACAAATAAGTAAAATAAATACATCATGCATTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATTATGCATTTTATA
*
14938222 AATTTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATTATGCATTTTATA
* *
14938269 AATTTTACCTAACAAATAAGTAAAATAATTGCATTACGCATTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATTATGCATTTTATA
*
14938316 AATTTTACCTAACAAATAAGTAAAATAATTACATCATGCATTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATTATGCATTTTATA
* *
14938363 AATTTTACCTAACAAATAAGTAAAATAAATACATAATGCATTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATTATGCATTTTATA
* *
14938410 AATTTTACGTAACAAATAAGTAAAATAATTACATCATGCATTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATTATGCATTTTATA
* * * * *
14938457 AGTTTTGCTTCT-TCAAAAAAGTAAAATAATTACATTATGCACTTTATA
1 AATTTTAC--CTAACAAATAAGTAAAATAATTACATTATGCATTTTATA
* *
14938505 AATTTTACCTAACAAATAAGTAAAATAAATACATAATGCATTTTATA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATTATGCATTTTATA
14938552 AATTTTACCTAACAAATAAGTAAAATAATTACA-TA-GCATTTTA
1 AATTTTACCTAACAAATAAGTAAAATAATTACATTATGCATTTTA
14938595 CAACATATGT
Statistics
Matches: 424, Mismatches: 40, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
45 8 0.02
46 3 0.01
47 333 0.79
48 79 0.19
49 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (47 bp):
AATTTTACCTAACAAATAAGTAAAATAATTACATTATGCATTTTATA
Found at i:14939348 original size:155 final size:155
Alignment explanation
Indices: 14939066--14939376 Score: 563
Period size: 155 Copynumber: 2.0 Consensus size: 155
14939056 GTTGCCATCC
14939066 ATAAGGCACCATGTGGCCTTAGACCAATGCACCTTTTTGCATTGGATTAAAGCCTTATCTTTTTC
1 ATAAGGCACCATGTGGCCTTAGACCAATGCACCTTTTTGCATTGGATTAAAGCCTTATCTTTTTC
14939131 AACAATTTCAAAAATAATCAGTATCGGTAATCATAATCAAAACAAGTTTTCAAAATATACAC-AA
66 AACAATTTCAAAAATAATCAGTATCGGTAATCATAATCAAAACAAGTTTTCAAAATATACACAAA
*
14939195 TTAAAAAGATA-AAAGCAAGTCAAAA
131 TTAAAAAGA-AGAAAGCAAGCCAAAA
14939220 NATAAGGCACCATGTGGCCTTAGACCAATGCACCTTTTTGCATTGGATTAAAGCCTTATCTTTTT
1 -ATAAGGCACCATGTGGCCTTAGACCAATGCACCTTTTTGCATTGGATTAAAGCCTTATCTTTTT
14939285 CAACAATTTCAAAAATAATCAGTATCGGTAATCATAATCAAAACAAGTTTTCAAAATATACACAA
65 CAACAATTTCAAAAATAATCAGTATCGGTAATCATAATCAAAACAAGTTTTCAAAATATACAC-A
*
14939350 AATTAAAAGGAAGAAAGCAAGCCAAAA
129 AATTAAAAAGAAGAAAGCAAGCCAAAA
14939377 CCTGCTCTGA
Statistics
Matches: 151, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
155 127 0.84
156 1 0.01
157 23 0.15
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (155 bp):
ATAAGGCACCATGTGGCCTTAGACCAATGCACCTTTTTGCATTGGATTAAAGCCTTATCTTTTTC
AACAATTTCAAAAATAATCAGTATCGGTAATCATAATCAAAACAAGTTTTCAAAATATACACAAA
TTAAAAAGAAGAAAGCAAGCCAAAA
Found at i:14939746 original size:15 final size:15
Alignment explanation
Indices: 14939726--14939794 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
14939716 ATAGGATATT
14939726 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
*
14939741 TTAAATTTAAATACAA
1 TTAAATTTAAACA-AA
** * * *
14939757 -TGGA--TAGATAAT
1 TTAAATTTAAACAAA
14939769 TTAAATTTAAACAAA
1 TTAAATTTAAACAAA
14939784 TTAAATTTAAA
1 TTAAATTTAAA
14939795 TTTATCCTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
12 1 0.03
13 7 0.17
15 30 0.75
16 2 0.05
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (15 bp):
TTAAATTTAAACAAA
Found at i:14943907 original size:24 final size:24
Alignment explanation
Indices: 14943875--14943922 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
14943865 TTGAGCTAAT
14943875 GATGCTAGTTTTATGTTACTTATA
1 GATGCTAGTTTTATGTTACTTATA
14943899 GATGCTAGTTTTATGTTACTTATA
1 GATGCTAGTTTTATGTTACTTATA
14943923 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (24 bp):
GATGCTAGTTTTATGTTACTTATA
Found at i:14943932 original size:20 final size:23
Alignment explanation
Indices: 14943879--14943934 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
14943869 GCTAATGATG
14943879 CTAGTTTTATGTTACTTATAGAT
1 CTAGTTTTATGTTACTTATAGAT
14943902 GCTAGTTTTATGTTACTTATA-AT
1 -CTAGTTTTATGTTACTTATAGAT
14943925 -TA-TTTTATGT
1 CTAGTTTTATGT
14943935 CGTTATAGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.25
21 2 0.06
23 2 0.06
24 20 0.62
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.55
Consensus pattern (23 bp):
CTAGTTTTATGTTACTTATAGAT
Found at i:14945033 original size:42 final size:42
Alignment explanation
Indices: 14944974--14945103 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 42
14944964 TGTTAATGTG
*
14944974 GACCTAGCTATGTGCGAGTAGGAGTGCGCATACA-CCGATGAT
1 GACCTGGCTATGTGCGAGTAGGAGTGCGCATA-AGCCGATGAT
* *
14945016 GACCTGGCTATGTGCGAGTAGAAGTGCGCATAAGTCGATGAT
1 GACCTGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
* * * * * *
14945058 GA-CTCGGCTATGTGCAAGTAAGAGTGCACATAGGCCAATGCT
1 GACCT-GGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
14945100 GACC
1 GACC
14945104 CAGCCATGTG
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.04
42 70 0.95
43 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (42 bp):
GACCTGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGAT
Found at i:14952692 original size:42 final size:42
Alignment explanation
Indices: 14952563--14952703 Score: 160
Period size: 42 Copynumber: 3.4 Consensus size: 42
14952553 TGTTGATGTG
* *
14952563 GACCCGACTATGTGCGAGT-CGAAGTACGCATACA-CCGATGAT
1 GACCCGGCTATGTGCGAGTACG-AGTGCGCATA-AGCCGATGAT
* * *
14952605 GACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCAATAAT
1 GACCCGGCTATGTGCGAGTACGAGTGCGCATAAGCCGATGAT
* * *
14952647 GACCCGGCTATGTGCGAGTATGAGTGCACATAAGCCGATGCT
1 GACCCGGCTATGTGCGAGTACGAGTGCGCATAAGCCGATGAT
* *
14952689 GACCCAGCCATGTGC
1 GACCCGGCTATGTGC
14952704 TAGTGGGGAG
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 83 0.98
43 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTACGAGTGCGCATAAGCCGATGAT
Found at i:14962493 original size:16 final size:16
Alignment explanation
Indices: 14962474--14962508 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14962464 GTATAAATTT
*
14962474 CATTTTTATTAAAAAA
1 CATTTTAATTAAAAAA
*
14962490 CATTTTAATTGAAAAA
1 CATTTTAATTAAAAAA
14962506 CAT
1 CAT
14962509 AATATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (16 bp):
CATTTTAATTAAAAAA
Found at i:14963760 original size:20 final size:20
Alignment explanation
Indices: 14963743--14963780 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14963733 CCTCAAATCT
14963743 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
14963763 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
14963781 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:14965179 original size:72 final size:72
Alignment explanation
Indices: 14965075--14965213 Score: 181
Period size: 72 Copynumber: 1.9 Consensus size: 72
14965065 GGGGAGGGGT
* * * *
14965075 TTTATATATGGGAAGGGGGGTCATATTAGGGTAATGGGTTGCCTAATGTTGGTAGCCCATAATAG
1 TTTATAAATGGGAAGGGGGGTCATATTAGGGTAATGGGTTGCCCAATGTTGGCAGCCCATAACAG
14965140 AGGGAGC
66 AGGGAGC
* * * * *
14965147 TTTATAAATGGGAGGTGGGGGTGA-ATTTGGGTAGTGGGTTGCCCAATGTTGGCAGTCCATAACA
1 TTTATAAATGGGAAG-GGGGGTCATATTAGGGTAATGGGTTGCCCAATGTTGGCAGCCCATAACA
14965211 GAG
65 GAG
14965214 AGGCCACGGC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 50 0.88
73 7 0.12
ACGTcount: A:0.25, C:0.10, G:0.36, T:0.29
Consensus pattern (72 bp):
TTTATAAATGGGAAGGGGGGTCATATTAGGGTAATGGGTTGCCCAATGTTGGCAGCCCATAACAG
AGGGAGC
Found at i:14967280 original size:174 final size:174
Alignment explanation
Indices: 14966990--14967339 Score: 691
Period size: 174 Copynumber: 2.0 Consensus size: 174
14966980 CCTACTGCAG
14966990 TAAGCTAATCAAATAACCCACCAAATCAATAAAAATTTCGACAGCATGACATGGTAAATATAATA
1 TAAGCTAATCAAATAACCCACCAAATCAATAAAAATTTCGACAGCATGACATGGTAAATATAATA
14967055 TTACCCAACCTGTCAACGTAAAACAAAATAGTTTATATAATCCACAAACCATAAATCCAGCCATT
66 TTACCCAACCTGTCAACGTAAAACAAAATAGTTTATATAATCCACAAACCATAAATCCAGCCATT
14967120 CATGCCATCACATTGTCATAAGCCATCAATTCAAACCATATATA
131 CATGCCATCACATTGTCATAAGCCATCAATTCAAACCATATATA
14967164 TAAGCTAATCAAATAACCCACCAAATCAATAAAAATTTCGACAGCATGACATGGTAAATATAATA
1 TAAGCTAATCAAATAACCCACCAAATCAATAAAAATTTCGACAGCATGACATGGTAAATATAATA
*
14967229 TTACCCAACCTGTCAAGGTAAAACAAAATAGTTTATATAATCCACAAACCATAAATCCAGCCATT
66 TTACCCAACCTGTCAACGTAAAACAAAATAGTTTATATAATCCACAAACCATAAATCCAGCCATT
14967294 CATGCCATCACATTGTCATAAGCCATCAATTCAAACCATATATA
131 CATGCCATCACATTGTCATAAGCCATCAATTCAAACCATATATA
14967338 TA
1 TA
14967340 TATATATAGA
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 175 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (174 bp):
TAAGCTAATCAAATAACCCACCAAATCAATAAAAATTTCGACAGCATGACATGGTAAATATAATA
TTACCCAACCTGTCAACGTAAAACAAAATAGTTTATATAATCCACAAACCATAAATCCAGCCATT
CATGCCATCACATTGTCATAAGCCATCAATTCAAACCATATATA
Found at i:14971125 original size:12 final size:12
Alignment explanation
Indices: 14971108--14971132 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14971098 AAGAAAATGA
14971108 AATATTTTATTT
1 AATATTTTATTT
14971120 AATATTTTATTT
1 AATATTTTATTT
14971132 A
1 A
14971133 GTTTGATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATATTTTATTT
Found at i:14974836 original size:25 final size:25
Alignment explanation
Indices: 14974801--14974851 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
14974791 AATTTTTTGT
14974801 TTAATTATATAAATAAAGTCAAAAA
1 TTAATTATATAAATAAAGTCAAAAA
* *
14974826 TTAATTTTATAAATAAAGTTAAAAA
1 TTAATTATATAAATAAAGTCAAAAA
14974851 T
1 T
14974852 AAATGACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (25 bp):
TTAATTATATAAATAAAGTCAAAAA
Found at i:14977580 original size:44 final size:44
Alignment explanation
Indices: 14977481--14977583 Score: 131
Period size: 42 Copynumber: 2.4 Consensus size: 44
14977471 TTTGGCACCA
* * *
14977481 ATCGGGCTTCTCTCTTTTTATCCTATCGTCGCTCCGGTCAAAGAG
1 ATCGGGC-TCTCTCTCTCTATCCTACCGTCGCTCCGGTCAAAGAG
*
14977526 ATCGAG--CTCTCTCTCTATCCTACCG-CTGCTCCGGTCAAAGAG
1 ATCGGGCTCTCTCTCTCTATCCTACCGTC-GCTCCGGTCAAAGAG
14977568 ATCGGGCTCTCTCTCT
1 ATCGGGCTCTCTCTCT
14977584 GCCCAAGATC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 36 0.72
44 8 0.16
45 5 0.10
ACGTcount: A:0.16, C:0.33, G:0.19, T:0.32
Consensus pattern (44 bp):
ATCGGGCTCTCTCTCTCTATCCTACCGTCGCTCCGGTCAAAGAG
Found at i:14978051 original size:23 final size:23
Alignment explanation
Indices: 14978025--14978143 Score: 102
Period size: 23 Copynumber: 5.3 Consensus size: 23
14978015 TTTCTTTTCA
14978025 TTTTTTCATTTTTTGTTTCTTGT
1 TTTTTTCATTTTTTGTTTCTTGT
**
14978048 TTTTTCTC-CCTTTT-TTTC-T-T
1 TTTTT-TCATTTTTTGTTTCTTGT
* * * *
14978068 TGTTTTAAATTTTTATTTCTTGT
1 TTTTTTCATTTTTTGTTTCTTGT
* *
14978091 TTCTTCTCATTTTTTGTCTCTTGT
1 TT-TTTTCATTTTTTGTTTCTTGT
* *
14978115 TTTTCTCATTTTTTGTTTCTCGT
1 TTTTTTCATTTTTTGTTTCTTGT
14978138 TTTTTT
1 TTTTTT
14978144 TTGTAATGTT
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
19 1 0.01
20 9 0.12
21 5 0.07
22 5 0.07
23 35 0.47
24 20 0.27
ACGTcount: A:0.06, C:0.14, G:0.07, T:0.73
Consensus pattern (23 bp):
TTTTTTCATTTTTTGTTTCTTGT
Found at i:14978088 original size:43 final size:44
Alignment explanation
Indices: 14978034--14978117 Score: 118
Period size: 43 Copynumber: 1.9 Consensus size: 44
14978024 ATTTTTTCAT
* * *
14978034 TTTTTGTTTCTTGTTTTTTCTCCCTTTTTT-TCT-TTGTTTTAAA
1 TTTTTATTTCTTGTTTCTTCT-CATTTTTTGTCTCTTGTTTTAAA
14978077 TTTTTATTTCTTGTTTCTTCTCATTTTTTGTCTCTTGTTTT
1 TTTTTATTTCTTGTTTCTTCTCATTTTTTGTCTCTTGTTTT
14978118 TCTCATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 7 0.19
43 22 0.61
44 7 0.19
ACGTcount: A:0.06, C:0.14, G:0.07, T:0.73
Consensus pattern (44 bp):
TTTTTATTTCTTGTTTCTTCTCATTTTTTGTCTCTTGTTTTAAA
Found at i:14986992 original size:22 final size:22
Alignment explanation
Indices: 14986967--14987021 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
14986957 GAGAGAAAGG
*
14986967 GAAAGAATGAGAGAAAAGTCAA
1 GAAAGAAAGAGAGAAAAGTCAA
* *
14986989 GAAAGAAAGGGAGAAAAGTCGA
1 GAAAGAAAGAGAGAAAAGTCAA
*
14987011 GGAAGAAAGAG
1 GAAAGAAAGAG
14987022 GAAGAGAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.56, C:0.04, G:0.35, T:0.05
Consensus pattern (22 bp):
GAAAGAAAGAGAGAAAAGTCAA
Found at i:14986992 original size:56 final size:56
Alignment explanation
Indices: 14986892--14987024 Score: 130
Period size: 56 Copynumber: 2.4 Consensus size: 56
14986882 AAAGAGGGAA
* * * * *
14986892 AAAAGCC-A-AGAGAGAGAGGGAAGGAAGGAAAGAGAAGCCGAGAAAGAGAGAGAG
1 AAAAGCCGAGAGAGAGAAAGGGAAAGAAGGAAAGAAAAGCCAAGAAAGAAAGAGAG
* * * * *
14986946 AGAAGCCGAGAGAGAGAAAGGGAAAGAATGAGAGAAAAGTCAAGAAAGAAAGGGAG
1 AAAAGCCGAGAGAGAGAAAGGGAAAGAAGGAAAGAAAAGCCAAGAAAGAAAGAGAG
*
14987002 AAAAGTCGAG-GA-AGAAAGAGGAA
1 AAAAGCCGAGAGAGAGAAAG-GGAA
14987025 GAGAGAAGAA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
54 12 0.19
55 7 0.11
56 45 0.70
ACGTcount: A:0.53, C:0.06, G:0.38, T:0.02
Consensus pattern (56 bp):
AAAAGCCGAGAGAGAGAAAGGGAAAGAAGGAAAGAAAAGCCAAGAAAGAAAGAGAG
Found at i:14987042 original size:48 final size:46
Alignment explanation
Indices: 14987009--14987100 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 46
14986999 GAGAAAAGTC
14987009 GAGGAAGAAAGA-G-GAAGAGAGAAGAAGGAAAAGAAAAAAGAAAAA
1 GAGGAAGAAAGACGAGAAGAGAG-AGAAGGAAAAGAAAAAAGAAAAA
14987054 GAGGAAGAAAGATCGAGAAGAGAGAGAAGGAAGAA-ATAAAAAGAAAA
1 GAGGAAGAAAGA-CGAGAAGAGAGAGAAGGAA-AAGA-AAAAAGAAAA
14987101 CAAAGAAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
45 12 0.29
47 10 0.24
48 20 0.48
ACGTcount: A:0.64, C:0.01, G:0.33, T:0.02
Consensus pattern (46 bp):
GAGGAAGAAAGACGAGAAGAGAGAGAAGGAAAAGAAAAAAGAAAAA
Found at i:14998410 original size:66 final size:66
Alignment explanation
Indices: 14998336--14998471 Score: 245
Period size: 66 Copynumber: 2.1 Consensus size: 66
14998326 TCCAAAACTG
*
14998336 TTCATATATTTCATGCCAACCTAAAAAATTTAGCCATCATGCTACCATAGTGTCATAAGCCACAA
1 TTCATATATTTCATGCCAACCCAAAAAATTTAGCCATCATGCTACCATAGTGTCATAAGCCACAA
*
14998401 N
66 T
*
14998402 TTCATATATTTCATGCCAACCCCAAAAATTTAGCCATCATGCTACCATAGTGTCATAAGCCACAA
1 TTCATATATTTCATGCCAACCCAAAAAATTTAGCCATCATGCTACCATAGTGTCATAAGCCACAA
14998467 T
66 T
14998468 TTCA
1 TTCA
14998472 ATAACATATA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.29
Consensus pattern (66 bp):
TTCATATATTTCATGCCAACCCAAAAAATTTAGCCATCATGCTACCATAGTGTCATAAGCCACAA
T
Found at i:14998583 original size:18 final size:19
Alignment explanation
Indices: 14998560--14998595 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14998550 GTATAAATCT
*
14998560 CATTTTTATT-AAAAAAAA
1 CATTTTAATTGAAAAAAAA
14998578 CATTTTAATTGAAAAAAA
1 CATTTTAATTGAAAAAAA
14998596 TAATATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.36
Consensus pattern (19 bp):
CATTTTAATTGAAAAAAAA
Found at i:14999729 original size:27 final size:28
Alignment explanation
Indices: 14999699--14999752 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
14999689 ATGTTCTGGT
*
14999699 GGTGG-AAAATTACAATTTTGCCCCTAG
1 GGTGGCAAAATTACAATTTTACCCCTAG
*
14999726 GGTGGCAAAATTACCATTTTACCCCTA
1 GGTGGCAAAATTACAATTTTACCCCTA
14999753 TAATCTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (28 bp):
GGTGGCAAAATTACAATTTTACCCCTAG
Found at i:15000596 original size:43 final size:43
Alignment explanation
Indices: 15000535--15000619 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
15000525 TTGTGTGATA
15000535 ATGATGACCAAGCTATGTGCGGTGTGGGAGTGCACATGAGCTT
1 ATGATGACCAAGCTATGTGCGGTGTGGGAGTGCACATGAGCTT
*
15000578 ATGATGACCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCT
1 ATGATGACCAAGCTATGTGCGGTGTGGGAGTGCACATGAGCT
15000620 GAGTGTGGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (43 bp):
ATGATGACCAAGCTATGTGCGGTGTGGGAGTGCACATGAGCTT
Found at i:15003070 original size:3 final size:3
Alignment explanation
Indices: 15003062--15003102 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15003052 AAGAAAAAAG
15003062 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15003103 GATGTTGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15015550 original size:3 final size:3
Alignment explanation
Indices: 15015536--15015576 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
15015526 CTTCCAACAG
* * *
15015536 CTT CTC CTT CTT CTT CTT CAT CAT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
15015577 CCCTTTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.05, C:0.37, G:0.00, T:0.59
Consensus pattern (3 bp):
CTT
Found at i:15030161 original size:20 final size:20
Alignment explanation
Indices: 15030135--15030180 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
15030125 TATCTTACTT
* *
15030135 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
15030156 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
15030177 TTTT
1 TTTT
15030181 TCCACCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:15030182 original size:22 final size:22
Alignment explanation
Indices: 15030140--15030180 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15030130 TACTTTTTTT
*
15030140 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
15030162 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
15030181 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:15034904 original size:24 final size:24
Alignment explanation
Indices: 15034877--15034922 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15034867 GGCGCGTAAG
* *
15034877 CTAGTAGGCAGATTGGCGCACAAC
1 CTAGTAGGAAAATTGGCGCACAAC
*
15034901 CTAGTAGGAAAATTGGTGCACA
1 CTAGTAGGAAAATTGGCGCACA
15034923 GGCTTGCAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (24 bp):
CTAGTAGGAAAATTGGCGCACAAC
Found at i:15036859 original size:29 final size:28
Alignment explanation
Indices: 15036814--15036955 Score: 149
Period size: 28 Copynumber: 4.9 Consensus size: 28
15036804 GGCAGCTTTG
15036814 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
* *
15036842 ACATGTTTGGTCTTAATTTGGATAAGAAA
1 ACATGTTT-GTCTTAATTTAGACAAGAAA
* * * *
15036871 ATATGTTTGCCTTAATTGAAGATAAGAAAA
1 ACATGTTTGTCTTAATT-TAGACAAG-AAA
* * *
15036901 ATATTTTTTGTCTTAATTTAGTCAAGAAA
1 ACA-TGTTTGTCTTAATTTAGACAAGAAA
* *
15036930 ACATATTTGTCTAAATTTAGACAAGA
1 ACATGTTTGTCTTAATTTAGACAAGA
15036956 TAAAATATTT
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
28 36 0.38
29 36 0.38
30 11 0.12
31 12 0.13
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:15036928 original size:59 final size:58
Alignment explanation
Indices: 15036814--15036978 Score: 190
Period size: 59 Copynumber: 2.8 Consensus size: 58
15036804 GGCAGCTTTG
* * * *
15036814 ACATGTTTGTCTTAATTTAGACAAG-AAAACATGTTTGGTCTTAATTTGGATAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTAGATAAGAAA
* * * *
15036871 ATATGTTTGCCTTAATTGAAGATAAGAAAAATATTTTTTGTCTTAATTTAG-TCAAGAAA
1 ACATGTTTGTCTTAATT-TAGACAAGAAAAATATTTTTTGTCTTAATTTAGAT-AAGAAA
* *
15036930 ACATATTTGTCTAAATTTAGACAAGATAAAATATTTTTTTGTCTTAATT
1 ACATGTTTGTCTTAATTTAGACAAGA-AAAATA-TTTTTTGTCTTAATT
15036979 ACAAACAGGA
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
57 15 0.17
58 14 0.16
59 45 0.51
60 15 0.17
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (58 bp):
ACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTAGATAAGAAA
Found at i:15037152 original size:17 final size:17
Alignment explanation
Indices: 15037130--15037162 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15037120 ATAATAATAA
15037130 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
15037147 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
15037163 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:15039561 original size:28 final size:28
Alignment explanation
Indices: 15039529--15039727 Score: 220
Period size: 28 Copynumber: 7.0 Consensus size: 28
15039519 TGACAGCTTT
*
15039529 AACATGTTTGTTTTAATTTAGACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* *
15039557 AACATGTTTGTCTTAATTTAAACAAGTA
1 AACATGTTTGTCTTAATTTAGACAAGAA
*
15039585 AACATGTTTGTCTTAATTTAAACAAGAA
1 AACATGTTTGTCTTAATTTAGACAAGAA
* * *
15039613 AATATGTTTGGTCTTAATTTATATAAGAA
1 AACATGTTT-GTCTTAATTTAGACAAGAA
*
15039642 AATATGTTTGTCTTAATTTAAGACAAGAAA
1 AACATGTTTGTCTTAATTT-AGACAAG-AA
* * *
15039672 AATATTTTTTGTCTTAATCTAGACAA-AA
1 AACA-TGTTTGTCTTAATTTAGACAAGAA
* * *
15039700 AATCATATTTGTCTCAATTTAGATAAGA
1 AA-CATGTTTGTCTTAATTTAGACAAGA
15039728 CAAAAAAATT
Statistics
Matches: 149, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
28 91 0.61
29 33 0.22
30 12 0.08
31 13 0.09
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (28 bp):
AACATGTTTGTCTTAATTTAGACAAGAA
Found at i:15039654 original size:57 final size:56
Alignment explanation
Indices: 15039532--15039720 Score: 218
Period size: 57 Copynumber: 3.3 Consensus size: 56
15039522 CAGCTTTAAC
* * * * *
15039532 ATGTTTGTTTTAATTTAGACAAGAAAACATGTTTGTCTTAATTTAAACAAGTAAAC
1 ATGTTTGTCTTAATTTAAACAAGAAAATATGTTTGTCTTAATTTAAACAAGAAAAT
* *
15039588 ATGTTTGTCTTAATTTAAACAAGAAAATATGTTTGGTCTTAATTTATATAAGAAAAT
1 ATGTTTGTCTTAATTTAAACAAGAAAATATGTTT-GTCTTAATTTAAACAAGAAAAT
* * *
15039645 ATGTTTGTCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATCTAGACAA-AAAAT
1 ATGTTTGTCTTAATTTAA-ACAAG-AAAATA-TGTTTGTCTTAATTTAAACAAGAAAAT
* *
15039703 CATATTTGTCTCAATTTA
1 -ATGTTTGTCTTAATTTA
15039721 GATAAGACAA
Statistics
Matches: 115, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
56 31 0.27
57 36 0.31
58 10 0.09
59 34 0.30
60 4 0.03
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (56 bp):
ATGTTTGTCTTAATTTAAACAAGAAAATATGTTTGTCTTAATTTAAACAAGAAAAT
Found at i:15039709 original size:31 final size:31
Alignment explanation
Indices: 15039591--15039701 Score: 101
Period size: 29 Copynumber: 3.8 Consensus size: 31
15039581 AGTAAACATG
* *
15039591 TTTGTCTTAATTTAA-ACAAG-AAAATATGT
1 TTTGTCTTAATCTAAGACAAGAAAAATATTT
* * * * *
15039620 TTGGTCTTAAT-TTATATAAG-AAAATA-TG
1 TTTGTCTTAATCTAAGACAAGAAAAATATTT
*
15039648 TTTGTCTTAATTTAAGACAAGAAAAATATTT
1 TTTGTCTTAATCTAAGACAAGAAAAATATTT
15039679 TTTGTCTTAATCT-AGACAA-AAAA
1 TTTGTCTTAATCTAAGACAAGAAAA
15039702 TCATATTTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 12 0.18
29 30 0.45
30 12 0.18
31 13 0.19
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (31 bp):
TTTGTCTTAATCTAAGACAAGAAAAATATTT
Found at i:15040135 original size:166 final size:165
Alignment explanation
Indices: 15039936--15040270 Score: 609
Period size: 166 Copynumber: 2.0 Consensus size: 165
15039926 TTTATTTATC
*
15039936 AAGAACTCTAAATGATAATTTAAAGAATTAAATTATTTATTCTTTAATTTTAATTTTGATAATTA
1 AAGAACTCTAAATGATAATTTAAAGAATTAAATTATTTATTCGTTAATTTTAATTTTGATAATTA
15040001 TGGTGCATGTTTGATTCTTTCATAACTCTAAATGGATGGTCAAGATTGATTCAAAGGTATTTGAT
66 TGGTGCATGTTTGATTCTTTCATAACTCTAAATGGATGGTCAAGATTGATTCAAAGGTATTTGAT
* *
15040066 TTTGATTAAACCTTTGAGGCAAGAGTTTTTAATAAA
131 ATTGATCAAACCTTTGAGGCAAGAG-TTTTAATAAA
15040102 AAGANACTCTAAATGATAA-TTAAAGAATTAAATTATTTATTCGTTAATTTTAATTTTGATAATT
1 AAGA-ACTCTAAATGATAATTTAAAGAATTAAATTATTTATTCGTTAATTTTAATTTTGATAATT
15040166 ATGGTGCATGTTTGATTCTTTCATAACTCTAAATGGATGGTCAAGATTGATTCAAAGGTATTTGA
65 ATGGTGCATGTTTGATTCTTTCATAACTCTAAATGGATGGTCAAGATTGATTCAAAGGTATTTGA
*
15040231 TATTGATCAAACCTTTTAGGCAAGAGTTTTAATAAA
130 TATTGATCAAACCTTTGAGGCAAGAGTTTTAATAAA
15040267 AAGA
1 AAGA
15040271 GAAAAGACTA
Statistics
Matches: 164, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
165 14 0.09
166 136 0.83
167 14 0.09
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (165 bp):
AAGAACTCTAAATGATAATTTAAAGAATTAAATTATTTATTCGTTAATTTTAATTTTGATAATTA
TGGTGCATGTTTGATTCTTTCATAACTCTAAATGGATGGTCAAGATTGATTCAAAGGTATTTGAT
ATTGATCAAACCTTTGAGGCAAGAGTTTTAATAAA
Found at i:15044115 original size:72 final size:72
Alignment explanation
Indices: 15043957--15044138 Score: 179
Period size: 72 Copynumber: 2.5 Consensus size: 72
15043947 AAACATAAAG
* ** ** *
15043957 ATTACACAACCATAGTCGACTATAGAGGAAGCATAGTTGACCCTAACAAGTTAGAGGCAAGAAAA
1 ATTAAACAACCATAGTCGACTATAGAGGAAGCATAGTCAACCCTAACAAGCCAAAGGCAAGAAAA
*
15044022 AGTCAAG
66 AGTCAAC
* * * ** *
15044029 ATTACACAACCATAGTCGACTATAGAGGACGTATAGTCAACCCTAACAAGCCAAATTCGAA-AAG
1 ATTAAACAACCATAGTCGACTATAGAGGAAGCATAGTCAACCCTAACAAGCCAAAGGC-AAGAAA
15044093 AAGTCAAC
65 AAGTCAAC
* * * *
15044101 TTTAAACAAACATAGTCAACTATA-AGAGAGGCATAGTC
1 ATTAAACAACCATAGTCGACTATAGAG-GAAGCATAGTC
15044139 GACTACAAAA
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
71 2 0.02
72 87 0.96
73 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (72 bp):
ATTAAACAACCATAGTCGACTATAGAGGAAGCATAGTCAACCCTAACAAGCCAAAGGCAAGAAAA
AGTCAAC
Found at i:15048103 original size:61 final size:61
Alignment explanation
Indices: 15048007--15048185 Score: 304
Period size: 62 Copynumber: 2.9 Consensus size: 61
15047997 CTTTTTCCCA
* *
15048007 AAAAAAAAAGTTTTAATTTTGGTATGTAATTCTTTCCATTTTATGGTTGAAAATAAAAAATT
1 AAAAAATAGGTTTTAATTTT-GTATGTAATTCTTTCCATTTTATGGTTGAAAATAAAAAATT
15048069 AAAAAATAGGTTTTAATTTTGTATGTAATTCTTTCCATTTTATGGTTGAAAATAAAAAAATT
1 AAAAAATAGGTTTTAATTTTGTATGTAATTCTTTCCATTTTATGGTTGAAAAT-AAAAAATT
* *
15048131 AAAAAATAGGTTTTAATTTTGTATGTAATTCTTTCCTTTTTATAGTTGAAAATAA
1 AAAAAATAGGTTTTAATTTTGTATGTAATTCTTTCCATTTTATGGTTGAAAATAA
15048186 GAATAGAGGT
Statistics
Matches: 112, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
61 35 0.31
62 77 0.69
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (61 bp):
AAAAAATAGGTTTTAATTTTGTATGTAATTCTTTCCATTTTATGGTTGAAAATAAAAAATT
Found at i:15054559 original size:2 final size:2
Alignment explanation
Indices: 15054552--15054647 Score: 113
Period size: 2 Copynumber: 47.5 Consensus size: 2
15054542 CTAGGCAAAC
* * * *
15054552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ANT CT AGG CT A- AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT AT AT
15054595 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
15054637 AC AT AC AT AT A
1 AT AT AT AT AT A
15054648 ATCTATTCTA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
1 1 0.01
2 78 0.98
3 1 0.01
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:15054602 original size:43 final size:42
Alignment explanation
Indices: 15054540--15054626 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 42
15054530 AGGCTCATCC
15054540 ATCTAGGCAAACATATATATATATATATATATATATATATAT
1 ATCTAGGCAAACATATATATATATATATATATATATATATAT
*
15054582 ANTCTAGGCTAACATATATATATATATATATATATATATATAT
1 A-TCTAGGCAAACATATATATATATATATATATATATATATAT
15054625 AT
1 AT
15054627 ATATATATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 2 0.05
43 41 0.95
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (42 bp):
ATCTAGGCAAACATATATATATATATATATATATATATATAT
Found at i:15065193 original size:20 final size:21
Alignment explanation
Indices: 15065159--15065198 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15065149 TCACAAAAAG
*
15065159 GTTTCAATCGATTAACACAAA
1 GTTTCAATCGATTAAAACAAA
*
15065180 GTTT-AATCGTTTAAAACAA
1 GTTTCAATCGATTAAAACAA
15065199 CACTAAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
GTTTCAATCGATTAAAACAAA
Found at i:15066758 original size:244 final size:242
Alignment explanation
Indices: 15066377--15066836 Score: 597
Period size: 244 Copynumber: 1.9 Consensus size: 242
15066367 AAGTCAAAAC
* * * * *
15066377 AAATATAATTTTTGTGAAAATTAAATATTTAAATTTATGTTATTGAGCTAAAAGTTTTTAATGGT
1 AAATATAATTTTTGTGAAAATTAAACATTTAAATTGATATTATTGAGCTAAAAG-TTATAATAGT
*
15066442 TTACAAATTTTAATTTATAATGAAATAATAATAAGGATAAAAATACATATAATGAAAATTCACAA
65 TTACAAATTTTAATTTATAATGAAATAATAATAAGGATAAAAATAAATATAATGAAAATTCACAA
* * * * * *
15066507 TTGAAAAACCTTAACGTAAACTTGTAAGAAATAACGTAAAAAATAATAAAAGTGGAA-ATAGCAT
130 CTGAAAAACCTTAACGTAAACCTATAAGAAATAACGCAAAAAATAATAAAAGTAGAACA-AACAT
15066571 TGTCAAAATATTGACGTAAATATATAAAATTGACCGTAACAAGTCAATT
194 TGTCAAAATATTGACGTAAATATATAAAATTGACCGTAACAAGTCAATT
* *
15066620 AAATATATTTTTTG-GAAAATTAAACATTTAAATTGATATTGTTGAGCTAAAAG-TATAACGTAC
1 AAATATAATTTTTGTGAAAATTAAACATTTAAATTGATATTATTGAGCTAAAAGTTATAA--T--
* *
15066683 AGTTTGCAAATTTTAATTTATAAATG-AATAATAATAAGGATAAAAATAAATATAGTGAAAATT-
62 AGTTTACAAATTTTAATTTAT-AATGAAATAATAATAAGGATAAAAATAAATATAATGAAAATTC
* * * * * *
15066746 AGCAACTGAAAAACTTTGATGTAAACCTATAAGAATTAACGCAAAAAATTATAAAGGTAGAACAA
126 A-CAACTGAAAAACCTTAACGTAAACCTATAAGAAATAACGCAAAAAATAATAAAAGTAGAACAA
* *
15066811 ACATTGTTAAAATATTGATGTAAATA
190 ACATTGTCAAAATATTGACGTAAATA
15066837 CGTGAGATTT
Statistics
Matches: 186, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
240 4 0.02
242 36 0.19
243 14 0.08
244 127 0.68
245 5 0.03
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.33
Consensus pattern (242 bp):
AAATATAATTTTTGTGAAAATTAAACATTTAAATTGATATTATTGAGCTAAAAGTTATAATAGTT
TACAAATTTTAATTTATAATGAAATAATAATAAGGATAAAAATAAATATAATGAAAATTCACAAC
TGAAAAACCTTAACGTAAACCTATAAGAAATAACGCAAAAAATAATAAAAGTAGAACAAACATTG
TCAAAATATTGACGTAAATATATAAAATTGACCGTAACAAGTCAATT
Found at i:15072976 original size:213 final size:216
Alignment explanation
Indices: 15072582--15073083 Score: 551
Period size: 213 Copynumber: 2.3 Consensus size: 216
15072572 TTTTCCTTAG
**
15072582 GGGAGATACTTACAAGCAAAATGATTTTTTATTAATTTACTTAGTTTTTTTTTTTAAAAAAGTTA
1 GGGAGATACTTACAAGCAAAATGATTTTTTATTAATTTA--TA-TTAATTTTTTT-AAAAA-TTA
** * * * * *
15072647 GCATTGTTAACTTTAAAAAGCGTGCAACTCTTTCTTACATGTAGAATAGCTCTTAACGGCTTGCG
61 ATATTATTAACTTTAAAAAGCGTGCAACTCTATCTTACATATAGAATAGCTCTTAACGACTCGCG
* **
15072712 CGATCCTTGAGAAGAGAACAAAGAATTTATTTTTTAGAACAATGAAAAATATAATAAGAGGGTAA
126 CGATCCATGAGAAGAGAACAAAGAATTTATTTTTTAGAACAATGAAAAATATAATAAGAGGCCAA
* * *
15072777 AGTATTAGCTTCCAAAAAGTTT-GAA
191 AGTACTAGCTTCCAAAAAATTTCCAA
15072802 GGGAGATACTTACAAGCAAAATGATTTTTTATTTAATTTAT-TTAATTTTTTTAAAAATTAATAT
1 GGGAGATACTTACAAGCAAAATGATTTTTTA-TTAATTTATATTAATTTTTTTAAAAATTAATAT
* * *
15072866 TATTAACTTTACAAAA-CGTTCGACTCTATCTTACCA-ATATG-ATA-CT-TTAATGACTCGCGC
65 TATTAACTTTA-AAAAGCGTGCAACTCTATCTTA-CATATA-GAATAGCTCTTAACGACTCGCGC
* * *
15072926 GATCCATGCA-AAGAGAATAAAGAATTTATTTTTTTA-AACAATGGAAAATATAGTAAGAGGCCA
127 GATCCATG-AGAAGAGAACAAAGAATTTA-TTTTTTAGAACAATGAAAAATATAATAAGAGGCCA
15072989 AAGTACTAGCTTCCAAAAAATTTCCAA
190 AAGTACTAGCTTCCAAAAAATTTCCAA
* * * *
15073016 -GGAGATACTTAATTACAAGCAAAAT-TTTTTTTATGAATTT-TATTAATTTTATTAAAAAAATA
1 GGGAGATAC----TTACAAGCAAAATGATTTTTTATTAATTTATATTAATTTT-TTTAAAAATTA
15073078 ATATTA
61 ATATTA
15073084 NACTTTGGGA
Statistics
Matches: 244, Mismatches: 25, Indels: 30
0.82 0.08 0.10
Matches are distributed among these distances:
213 87 0.36
214 13 0.05
215 48 0.20
216 34 0.14
217 22 0.09
219 1 0.00
220 31 0.13
221 8 0.03
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (216 bp):
GGGAGATACTTACAAGCAAAATGATTTTTTATTAATTTATATTAATTTTTTTAAAAATTAATATT
ATTAACTTTAAAAAGCGTGCAACTCTATCTTACATATAGAATAGCTCTTAACGACTCGCGCGATC
CATGAGAAGAGAACAAAGAATTTATTTTTTAGAACAATGAAAAATATAATAAGAGGCCAAAGTAC
TAGCTTCCAAAAAATTTCCAA
Found at i:15073240 original size:2 final size:2
Alignment explanation
Indices: 15073235--15073285 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
15073225 GAGAGAGAGA
15073235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15073277 AT AT AT AT A
1 AT AT AT AT A
15073286 AACTATTGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15075484 original size:762 final size:757
Alignment explanation
Indices: 15074012--15075516 Score: 2524
Period size: 762 Copynumber: 2.0 Consensus size: 757
15074002 ACTCTAATTT
15074012 GTGAGATCTTAAGGTTGTTGTAGACAAGAAAAGGGACTTAGCATTATTAATAACTCTATTATATA
1 GTGAGATCTTAAGGTTGTTGTAGACAAGAAAAGGGACTTAGCATTATTAATAACTCTATTATATA
15074077 GAGTTATTTAGCCACATTTTGGGGTATTAATGTAGCTAAGTCCTTGTGTTTTAAGTAGTTTTTAG
66 GAGTTATTTAGCCACATTTTGGGGTATTAATGTAGCTAAGTCCTTGTGTTTTAAGTAGTTTTTAG
* *
15074142 ACATATTTTATGTTTTTGATTGATTAGTTTAATGTATATGAATTTAGTCTAATTCATGTAATTCT
131 ACAAATTTTATGTTTTTGATTGATTAGTTTAAAGTATATGAATTTAGTCTAATTCATGTAATTCT
15074207 AGTATATTTTCATATTGAAGGTTCTATTTTAAGCCAATGCTAGTCCTTGTGTTTGTAGGTTTTCA
196 AGTATATTTTCATATTGAAGGTTCTATTTTAAGCCAATGCTAGTCCTTGTGTTTGTAGGTTTTCA
* *
15074272 AGTGCATAAAGTTGAATGATGATAAATTATGCAATGGAGACTAAGTGCAGATTTTCACTGAACAT
261 AGCGCATAAAGTTAAATGATGATAAATTATGCAATGGAGACTAAGTGCAGATTTTCACTGAACAT
*
15074337 GTTGTAGTAATTTGGACATAACTCAAGCTATAGAGATCCAATCAATGTGATTCTTAGACTATAAG
326 GTTATAGTAATTTGGACATAACTCAAGCTATAGAGATCCAATCAATGTGATTCTTAGACTATAAG
*
15074402 AAAGCTAAAAGGTAGACTACAACTTTCATTTTTACCATTTCACCCAGATCAACCTTGAGGTAGGA
391 AAAGCTAAAAGGTAGACTACAACTTTCATTTTTACCATTTCACCCAGATCAACCTCGAGGTAGGA
* * * * *
15074467 GAAAATCACGTTACAAGATGGAACATTACAATAGCTTGCACCAAGGCAGCATAAGGAGGAACAAC
456 GAAAATCACATTACAAGATGGAACACTACAACAGCTTGCACCAAGGCAACATAAAGAGGAACAAC
* * *
15074532 ATGATAGCCTTGTAGAGCTCAAAGTCGCCGCGCCCAGGAGAAGTTGCATGGCAGCCATACAAAAA
521 ATGACAGCCTTGTAGAGCTCAAAGTCGCAGAGCCCAGGAGAAGTTGCATGGCAGCCATACAAAAA
* * * **
15074597 CTAGACAATCCAGTGTCGTAGTGCCCAAGGATGAGAGCCATGATGCTGGTTGAAAAACAAGGAAA
586 CCAGACAATCCAGTGCCGTAGTGCCCAAGGATGAGAGCCACGACACTGGTTGAAAAACAAGGAAA
* * * * *
15074662 AAAATACCTAAATCATCAACGCCACGACGCTTGTGGAGTAAGGTTGCGGTGGTTTGACAAGGATT
651 AAAATACCTAAATCATCAACGCCACGACCCCTATGGAGTAAGGCTGCGGTGGTCTGACAAGGATT
*
15074727 ATGAGAATTTAGCTAATTGAGAATTGAGAATTGAGCTGATTA
716 ATGAGAATTTAGCCAATTGAGAATTGAGAATTGAGCTGATTA
* * *
15074769 GTGAGATCTTAATGTTGTTGTAGACAAGAGAAGGGACTTAGCATTATTAATAACTTTATTATATA
1 GTGAGATCTTAAGGTTGTTGTAGACAAGAAAAGGGACTTAGCATTATTAATAACTCTATTATATA
* *
15074834 GAGTTATTTAGTCACATTTTGGGGTATTAATGTAGCTAAGTTCTTGTGTTTTAAGTAGTTTTTAG
66 GAGTTATTTAGCCACATTTTGGGGTATTAATGTAGCTAAGTCCTTGTGTTTTAAGTAGTTTTTAG
*
15074899 ACAAATTTTATGTTTTTGATTGATTAGTTTAAAGTATATGAATTTAGTTTAATTCATGTAATTCT
131 ACAAATTTTATGTTTTTGATTGATTAGTTTAAAGTATATGAATTTAGTCTAATTCATGTAATTCT
15074964 AGTATATTTTCATATTGAAGGTTCTATTTTAAGCCAATGCTAATTTAGTCCTTGTGTTTGTAGGT
196 AGTATATTTTCATATTGAAGGTTCTATTTTAAGCCAATGC-----TAGTCCTTGTGTTTGTAGGT
15075029 TTTCAAGCGCATAAAGTTAAATGATGATAAATTATGCAATGGAGACTAAGTGCAGATTTTCACTG
256 TTTCAAGCGCATAAAGTTAAATGATGATAAATTATGCAATGGAGACTAAGTGCAGATTTTCACTG
15075094 AACATGTTATAGTAATTTGGACATAACTCAAGCTATAGAGATCCAATCAATGTGATTCTTAGACT
321 AACATGTTATAGTAATTTGGACATAACTCAAGCTATAGAGATCCAATCAATGTGATTCTTAGACT
* * * * *
15075159 ATAGGAAATCTAAAAGGTAGACTACAACTTTCATTTTTACTATTTCACCTAGATCAGCCTCGAGG
386 ATAAGAAAGCTAAAAGGTAGACTACAACTTTCATTTTTACCATTTCACCCAGATCAACCTCGAGG
* **
15075224 TAGGAGAAAATCACATTACAAGATGTAACACTGTAACAGCTTGCACCAAGGCAACATAAAGAGGA
451 TAGGAGAAAATCACATTACAAGATGGAACACTACAACAGCTTGCACCAAGGCAACATAAAGAGGA
* * * *
15075289 GCAGCATGACAGCCTTGTAGAGCTCAAGGTCGCAGAGCCCAGGAGAAGTTGCATGGTAGCCATAC
516 ACAACATGACAGCCTTGTAGAGCTCAAAGTCGCAGAGCCCAGGAGAAGTTGCATGGCAGCCATAC
* * **
15075354 AAAAACCAGCCAATCCAGTGCCGTAGTGCCCAAGGATGAGCGCTGCGACACTGGTTGAAAAACAA
581 AAAAACCAGACAATCCAGTGCCGTAGTGCCCAAGGATGAGAGCCACGACACTGGTTGAAAAACAA
* *
15075419 GGAAAAAAATACCTAAGTCATCAACGCCACGACCCCTATGGAGTAAGGCTGTGGTGGTCTGACAA
646 GGAAAAAAATACCTAAATCATCAACGCCACGACCCCTATGGAGTAAGGCTGCGGTGGTCTGACAA
15075484 GGATTATGAGAATTTAGCCAATTGAGAATTGAG
711 GGATTATGAGAATTTAGCCAATTGAGAATTGAG
15075517 TTATTTAGGG
Statistics
Matches: 694, Mismatches: 49, Indels: 5
0.93 0.07 0.01
Matches are distributed among these distances:
757 227 0.33
762 467 0.67
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (757 bp):
GTGAGATCTTAAGGTTGTTGTAGACAAGAAAAGGGACTTAGCATTATTAATAACTCTATTATATA
GAGTTATTTAGCCACATTTTGGGGTATTAATGTAGCTAAGTCCTTGTGTTTTAAGTAGTTTTTAG
ACAAATTTTATGTTTTTGATTGATTAGTTTAAAGTATATGAATTTAGTCTAATTCATGTAATTCT
AGTATATTTTCATATTGAAGGTTCTATTTTAAGCCAATGCTAGTCCTTGTGTTTGTAGGTTTTCA
AGCGCATAAAGTTAAATGATGATAAATTATGCAATGGAGACTAAGTGCAGATTTTCACTGAACAT
GTTATAGTAATTTGGACATAACTCAAGCTATAGAGATCCAATCAATGTGATTCTTAGACTATAAG
AAAGCTAAAAGGTAGACTACAACTTTCATTTTTACCATTTCACCCAGATCAACCTCGAGGTAGGA
GAAAATCACATTACAAGATGGAACACTACAACAGCTTGCACCAAGGCAACATAAAGAGGAACAAC
ATGACAGCCTTGTAGAGCTCAAAGTCGCAGAGCCCAGGAGAAGTTGCATGGCAGCCATACAAAAA
CCAGACAATCCAGTGCCGTAGTGCCCAAGGATGAGAGCCACGACACTGGTTGAAAAACAAGGAAA
AAAATACCTAAATCATCAACGCCACGACCCCTATGGAGTAAGGCTGCGGTGGTCTGACAAGGATT
ATGAGAATTTAGCCAATTGAGAATTGAGAATTGAGCTGATTA
Found at i:15076059 original size:36 final size:36
Alignment explanation
Indices: 15076012--15076082 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
15076002 AGTTAGGTGA
15076012 TAGTTTTGCATTTAGGATAGACATATACCTAAATAC
1 TAGTTTTGCATTTAGGATAGACATATACCTAAATAC
15076048 TAGTTTTGCATTTAGGATAGACATATACCTAAATA
1 TAGTTTTGCATTTAGGATAGACATATACCTAAATA
15076083 TTTTAGGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (36 bp):
TAGTTTTGCATTTAGGATAGACATATACCTAAATAC
Found at i:15080874 original size:35 final size:35
Alignment explanation
Indices: 15080828--15080907 Score: 160
Period size: 35 Copynumber: 2.3 Consensus size: 35
15080818 TGCGACAGTA
15080828 CACATGATGATATTGTAATGTACGGTGTGAGAGTG
1 CACATGATGATATTGTAATGTACGGTGTGAGAGTG
15080863 CACATGATGATATTGTAATGTACGGTGTGAGAGTG
1 CACATGATGATATTGTAATGTACGGTGTGAGAGTG
15080898 CACATGATGA
1 CACATGATGA
15080908 CCTAGCTATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (35 bp):
CACATGATGATATTGTAATGTACGGTGTGAGAGTG
Found at i:15080919 original size:35 final size:35
Alignment explanation
Indices: 15080828--15080939 Score: 129
Period size: 35 Copynumber: 3.2 Consensus size: 35
15080818 TGCGACAGTA
* *
15080828 CACATGATGATATTGTAATGTACGGTGTGAGAGTG
1 CACATGATGACATAGTAATGTACGGTGTGAGAGTG
* *
15080863 CACATGATGATATTGTAATGTACGGTGTGAGAGTG
1 CACATGATGACATAGTAATGTACGGTGTGAGAGTG
* **
15080898 CACATGATGACCTAGCT-ATGTACAATGTG-GTAGTG
1 CACATGATGACATAG-TAATGTACGGTGTGAG-AGTG
15080933 CACATGA
1 CACATGA
15080940 GTTGGGGGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 68 0.97
36 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (35 bp):
CACATGATGACATAGTAATGTACGGTGTGAGAGTG
Found at i:15101093 original size:35 final size:35
Alignment explanation
Indices: 15101054--15101206 Score: 207
Period size: 35 Copynumber: 4.4 Consensus size: 35
15101044 GATGTGGGTA
** *
15101054 GGAGTACATGTGATGATATTGAAATGTGCATGTAG
1 GGAGTACACATGATGATATTGAAATGTGCGTGTAG
* *
15101089 GGAGTGCACATGATGATATTGAAATGTGCTTGTAG
1 GGAGTACACATGATGATATTGAAATGTGCGTGTAG
15101124 GGAGTACACATGATGATATTGAAATGTGCGTGTAG
1 GGAGTACACATGATGATATTGAAATGTGCGTGTAG
* * ***
15101159 GGACTGCACATGATGATATTGCCCTGTGCGTGTAG
1 GGAGTACACATGATGATATTGAAATGTGCGTGTAG
*
15101194 GGAGTGCACATGA
1 GGAGTACACATGA
15101207 GCTGAGTAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 106 1.00
ACGTcount: A:0.28, C:0.11, G:0.32, T:0.29
Consensus pattern (35 bp):
GGAGTACACATGATGATATTGAAATGTGCGTGTAG
Found at i:15110977 original size:2 final size:2
Alignment explanation
Indices: 15110970--15111026 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
15110960 NNNNNNGGTG
15110970 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15111012 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
15111027 GCTATAGACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15116491 original size:30 final size:30
Alignment explanation
Indices: 15116455--15116511 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15116445 ATTGTTACAG
15116455 AGATAAAATG-TTATCAAGTTATCTTATCTA
1 AGAT-AAATGATTATCAAGTTATCTTATCTA
**
15116485 AGATAAATGATTATTGAGTTATCTTAT
1 AGATAAATGATTATCAAGTTATCTTAT
15116512 ACATGATTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (30 bp):
AGATAAATGATTATCAAGTTATCTTATCTA
Found at i:15121170 original size:16 final size:15
Alignment explanation
Indices: 15121149--15121178 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15121139 TAAAATTTAG
15121149 ATTTTGATTCTTTTTT
1 ATTTTGATT-TTTTTT
15121165 ATTTTGATTTTTTT
1 ATTTTGATTTTTTT
15121179 GATATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.03, G:0.07, T:0.77
Consensus pattern (15 bp):
ATTTTGATTTTTTTT
Found at i:15122552 original size:37 final size:37
Alignment explanation
Indices: 15122511--15122617 Score: 88
Period size: 37 Copynumber: 3.1 Consensus size: 37
15122501 AGGTGATTAA
15122511 GTATGCATGATTAATGCCATGAGAATATGTATATGAT
1 GTATGCATGATTAATGCCATGAGAATATGTATATGAT
* * *
15122548 GTATGTTCCAT-A-TACT-ACATGAG-ATA---AT-T-AA
1 GTATG---CATGATTAATGCCATGAGAATATGTATATGAT
*
15122579 GTATGCATGATTAATGCCATAAGAATATGTATATGAT
1 GTATGCATGATTAATGCCATGAGAATATGTATATGAT
15122616 GT
1 GT
15122618 GTATTTCATA
Statistics
Matches: 51, Mismatches: 7, Indels: 24
0.62 0.09 0.29
Matches are distributed among these distances:
28 3 0.06
29 1 0.02
30 3 0.06
31 11 0.22
32 4 0.08
33 2 0.04
35 2 0.04
36 4 0.08
37 14 0.27
38 3 0.06
39 1 0.02
40 3 0.06
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (37 bp):
GTATGCATGATTAATGCCATGAGAATATGTATATGAT
Found at i:15122703 original size:65 final size:67
Alignment explanation
Indices: 15122381--15122712 Score: 303
Period size: 68 Copynumber: 4.9 Consensus size: 67
15122371 GCATGTTGGT
* * * * * * *
15122381 ATGATGAATGCCATAAGATTATGTATATGATGTACATTGCATATACCATATGAGATGATCAAGTA
1 ATGAT-AATGCCATGAGAATATGTATATGATGTAAATTCCATATACTACATGAGATGATTAAGTA
15122446 TGC
65 TGC
* * * * * * * * *
15122449 ATGATGCATACTAT-AGGATGGTGCATATGATGTAAATTCCATATACCATATGAGGTGATTAAGT
1 ATGAT-AATGCCATGAGAAT-ATGTATATGATGTAAATTCCATATACTACATGAGATGATTAAGT
15122513 ATGC
64 ATGC
** *
15122517 ATGATTAATGCCATGAGAATATGTATATGATGTATGTTCCATATACTACATGAGATAATTAAGTA
1 ATGA-TAATGCCATGAGAATATGTATATGATGTAAATTCCATATACTACATGAGATGATTAAGTA
15122582 TGC
65 TGC
* ** * * *
15122585 ATGATTAATGCCATAAGAATATGTATATGATGTGTATTTCATATACTACATGAGATGATTGAGCA
1 ATGA-TAATGCCATGAGAATATGTATATGATGTAAATTCCATATACTACATGAGATGATTAAGTA
*
15122650 AGC
65 TGC
* * * * *
15122653 AT-A-AATGCCATGAGATTAAGTATATGATGTAAATTCCCTATACCT-TATGAGATGAGTAAG
1 ATGATAATGCCATGAGAATATGTATATGATGTAAATTCCATATA-CTACATGAGATGATTAAG
15122713 CATGTATGTG
Statistics
Matches: 219, Mismatches: 41, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
65 44 0.20
66 2 0.01
67 4 0.02
68 164 0.75
69 5 0.02
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (67 bp):
ATGATAATGCCATGAGAATATGTATATGATGTAAATTCCATATACTACATGAGATGATTAAGTAT
GC
Found at i:15122876 original size:31 final size:31
Alignment explanation
Indices: 15122835--15122924 Score: 117
Period size: 31 Copynumber: 2.9 Consensus size: 31
15122825 TCATAAAATG
*
15122835 CCCAAGGTGCAATAGGGATATACGTTGCTAA
1 CCCAAGGTGCAATGGGGATATACGTTGCTAA
* * *
15122866 CCTAAGGTGCAATGGGGTTATACGTTGCTAG
1 CCCAAGGTGCAATGGGGATATACGTTGCTAA
* * *
15122897 CCCAAGGTTCAATGGGGATGTACATTGC
1 CCCAAGGTGCAATGGGGATATACGTTGC
15122925 CAGGCCAAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (31 bp):
CCCAAGGTGCAATGGGGATATACGTTGCTAA
Found at i:15122933 original size:31 final size:31
Alignment explanation
Indices: 15122834--15122936 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
15122824 ATCATAAAAT
* * * *
15122834 GCCCAAGGTGCAATAGGGATATACGTTGCTA
1 GCCCAAGGTTCAATGGGGATATACATTGCCA
* * * * * *
15122865 ACCTAAGGTGCAATGGGGTTATACGTTGCTA
1 GCCCAAGGTTCAATGGGGATATACATTGCCA
*
15122896 GCCCAAGGTTCAATGGGGATGTACATTGCCA
1 GCCCAAGGTTCAATGGGGATATACATTGCCA
*
15122927 GGCCAAGGTT
1 GCCCAAGGTT
15122937 GATAGGGGTC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (31 bp):
GCCCAAGGTTCAATGGGGATATACATTGCCA
Found at i:15128833 original size:64 final size:66
Alignment explanation
Indices: 15128676--15128833 Score: 182
Period size: 70 Copynumber: 2.4 Consensus size: 66
15128666 GTTTTCAAAC
** *
15128676 GGTGTGAGGTAACATTCCACACTG-GGTAAATTACGTTTAGTATGATGATGATCATGATAACGCT
1 GGTGTGAGGTAACATTCCACA-TGTGGTAAATTACGCCTAATATGATGATGATCATGAT-A---T
15128740 TCACAT
61 TCACAT
*
15128746 GGTGTGAGGTAACATTCTC-CATGTGGTAAATTATGCCTAATATGATGATGAT-A-GCAT-TTCA
1 GGTGTGAGGTAACATTC-CACATGTGGTAAATTACGCCTAATATGATGATGATCATG-ATATTCA
15128807 CAT
64 CAT
15128810 GGTGTGAGGTAACATTCCACATGT
1 GGTGTGAGGTAACATTCCACATGT
15128834 CATGCTAATA
Statistics
Matches: 80, Mismatches: 4, Indels: 14
0.82 0.04 0.14
Matches are distributed among these distances:
63 1 0.01
64 29 0.36
68 1 0.01
69 5 0.06
70 43 0.54
71 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (66 bp):
GGTGTGAGGTAACATTCCACATGTGGTAAATTACGCCTAATATGATGATGATCATGATATTCACA
T
Found at i:15129779 original size:20 final size:21
Alignment explanation
Indices: 15129749--15129791 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
15129739 GCTTCACAAA
*
15129749 AAAGTTTTAATCGATTAACAC
1 AAAGTTTTAATCGATTAAAAC
*
15129770 AAAG-TTTAATTGATTAAAAC
1 AAAGTTTTAATCGATTAAAAC
15129790 AA
1 AA
15129792 CACTAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (21 bp):
AAAGTTTTAATCGATTAAAAC
Found at i:15131568 original size:254 final size:248
Alignment explanation
Indices: 15130911--15131702 Score: 794
Period size: 254 Copynumber: 3.1 Consensus size: 248
15130901 AAGTATTGCC
* * * * * *
15130911 AAAATATTGATGTAAATTTATAAAATTTAACGTAA-AAAGTCAATTAAGTCAAAATAAATATAAT
1 AAAATATTGATGTAAATGTGTGAGATTT-ACATAACAAA-TCAATTAAGTAAAAATAAATATAAT
* * * * *
15130975 TTTTGTGAAAATTAAATATTAAAATATATGTTATTGAGTTAAAAGTTTTTAACGGTTTACAAATT
64 TTTT-TGAAAATTAAAAATT-AAATATATATTATTGAGTTAAAAGTATTTAATGATTTACAAATT
* *
15131040 TTAATTTAT-AATGAAATAATAATAAGGATAAAAATACATATAATGAAAATTCA-CAATTGAAAA
127 TTAATTTATAAAT-AAATAATAATAAAGATAAAAATA-ATAT-GTGAAAATT-AGCAATTGAAAA
* * * * * * * **
15131103 ACCTTGATGTAAACTTGTAAGAAATAACGTAAGAAATAATAAAAATGGAACTAGCATTGCC
188 ATCTTGATGTAAACTTATAAGAATTAACGTAAAAAATTATAAAAGTGGAACAAGCATTGTT
* * * * * * *
15131164 CAAATATTGACGTAAATGTATGAGATTTAACATAATAAGTCAATTAAGTTAAAATAAATATATTT
1 AAAATATTGATGTAAATGTGTGAGATTT-ACATAACAAATCAATTAAGTAAAAATAAATATAATT
* * * * * *
15131229 TTTTGAAAATTAGACATTTAAAT-TGATATTGTTGAGCTAAAAGTA-TAACATATAGTTTACAAA
65 TTTTGAAAATTA-AAAATTAAATAT-ATATTATTGAGTTAAAAGTATTTA-AT-GA-TTTACAAA
* *
15131292 TTTTAATTTATAAATGAATAATAATAAAGATAAAAATAATTATGGTGAAAATTAGCAACTGAAAA
125 TTTTAATTTATAAATAAATAATAATAAAGATAAAAATAA-TAT-GTGAAAATTAGCAATTGAAAA
*
15131357 ATCTTGATGTAAACCTATAAGAATTAACGTAAAAAATTATAAAAGTGGAACAAGCATTGTT
188 ATCTTGATGTAAACTTATAAGAATTAACGTAAAAAATTATAAAAGTGGAACAAGCATTGTT
* *
15131418 AAAATATTGATATAAATGTGTGAGATTTACTATAACAAATCTATTAAGTAAAAATAAATATAATT
1 AAAATATTGATGTAAATGTGTGAGATTTAC-ATAACAAATCAATTAAGTAAAAATAAATATAATT
** * ** * * *
15131483 TTTTGAAAGCTAAAAATGTAAATATATATTCTCAAATTAAAA-TATTTAATGACTTAAAAATTTT
65 TTTTGAAAATTAAAAAT-TAAATATATATTATTGAGTTAAAAGTATTTAATGATTTACAAATTTT
15131547 AATTTATAAAGTAAA-AATAATACAA-ATAAAAAT-ATA-GTGAAAATTAGCAATTGAAAAATCT
129 AATTTATAAA-TAAATAATAATA-AAGATAAAAATAATATGTGAAAATTAGCAATTGAAAAATCT
** * * * * * *
15131608 TGACCTAAATTTATAAGAATTAACGTAAAAAATTATAAAGGTAGAATAAGTATTTTT
192 TGATGTAAACTTATAAGAATTAACGTAAAAAATTATAAAAGTGGAACAAGCATTGTT
* * *
15131665 AAAATATTAATGTAATTGTGTGAGATTTAACGTAACAA
1 AAAATATTGATGTAAATGTGTGAGATTT-ACATAACAA
15131703 GTCATAATGA
Statistics
Matches: 451, Mismatches: 72, Indels: 38
0.80 0.13 0.07
Matches are distributed among these distances:
247 103 0.23
248 2 0.00
249 2 0.00
250 1 0.00
251 38 0.08
252 36 0.08
253 70 0.16
254 195 0.43
255 4 0.01
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (248 bp):
AAAATATTGATGTAAATGTGTGAGATTTACATAACAAATCAATTAAGTAAAAATAAATATAATTT
TTTGAAAATTAAAAATTAAATATATATTATTGAGTTAAAAGTATTTAATGATTTACAAATTTTAA
TTTATAAATAAATAATAATAAAGATAAAAATAATATGTGAAAATTAGCAATTGAAAAATCTTGAT
GTAAACTTATAAGAATTAACGTAAAAAATTATAAAAGTGGAACAAGCATTGTT
Found at i:15136538 original size:211 final size:211
Alignment explanation
Indices: 15136008--15136560 Score: 602
Period size: 214 Copynumber: 2.6 Consensus size: 211
15135998 AAAGCATGCA
* * * *
15136008 ACTCTTTCTTACATATA-GAATAGTT-CTTAACGACTCGCGCGATCCT-TGAGAAGACAACAAAG
1 ACTCTTTTTTACATATACG-ATA-TTCCTTAAAGACTCG-ACGAT-CTATGAGAAGAGAACAAAG
* * ** * *
15136070 AATTTATTTTTAGAACAATGAAAAATATAATAAGAGGGTAAAGTACTAGCTTCCAAAAAGTTTGA
62 AATTTATTTTTAGAACAATGGAAAATATAGTAAGAGGCCAAAGTACTAGCTTCCAAAAAATTTTA
* * * *
15136135 AGGGAGATAGTTACGAGCAAAATGATTTTTTATTAATTTATTTAAAATTTAAAAAAATTAATATT
127 AGGGAGATACTTACAAGCAAAATGATTTCTTATTAATTAATTTAAAATTTAAAAAAATTAATATT
*
15136200 ATTAACTTTACAAAATGTTCG
192 ATTAACTTTA-AAAATATTCG
* * * ** * *
15136221 ACTCTTTTTTACCTATACGATATTCCTTAATGTCTCGTGTGATCTATGAGAAGAGAATAAAAAAT
1 ACTCTTTTTTACATATACGATATTCCTTAAAGACTCG-ACGATCTATGAGAAGAGAACAAAGAAT
* * * * *
15136286 TTATTTTTTAGAACGATGGAAAAGATAGTAAAAGGCCAAAGTAGTAGCTTCCAAAAAATTTTTAG
65 TTA-TTTTTAGAACAATGGAAAATATAGTAAGAGGCCAAAGTACTAGCTTCCAAAAAATTTTAAG
* ** **
15136351 GGAGATACTTACAAGCAAAATTATTATCTT-TTAATTAATTTAATTTTTTTTAAAAA-TAATATT
129 GGAGATACTTACAAGCAAAATGATT-TCTTATTAATTAATTTAA-AATTTAAAAAAATTAATATT
15136414 ATTAACTTT-AAAATCATTCG
192 ATTAACTTTAAAAAT-ATTCG
* * *
15136434 ACT-TTTTCTTATATATAGGATATTGCTTAAAGACTC-ACGATCTATGCA-AAGAGAACAAAGAA
1 ACTCTTTT-TTACATATACGATATTCCTTAAAGACTCGACGATCTATG-AGAAGAGAACAAAGAA
*
15136496 TTTATCTTTTAGAACAATGGAAAATATAGTAAGAGTCCAAAGTACTAGCTTCCAAAAAATTTTAA
64 TTTAT-TTTTAGAACAATGGAAAATATAGTAAGAGGCCAAAGTACTAGCTTCCAAAAAATTTTAA
15136561 CACTACAAAG
Statistics
Matches: 284, Mismatches: 46, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
210 1 0.00
211 77 0.27
212 14 0.05
213 80 0.28
214 101 0.36
215 11 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.35
Consensus pattern (211 bp):
ACTCTTTTTTACATATACGATATTCCTTAAAGACTCGACGATCTATGAGAAGAGAACAAAGAATT
TATTTTTAGAACAATGGAAAATATAGTAAGAGGCCAAAGTACTAGCTTCCAAAAAATTTTAAGGG
AGATACTTACAAGCAAAATGATTTCTTATTAATTAATTTAAAATTTAAAAAAATTAATATTATTA
ACTTTAAAAATATTCG
Found at i:15142196 original size:15 final size:15
Alignment explanation
Indices: 15142148--15142199 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
15142138 CTAAATAAGT
*
15142148 AAAATAAGT-AAATA
1 AAAATAAATAAAATA
*
15142162 AATAATATATAACAAT-
1 AA-AATAAATAA-AATA
15142178 AAAATAAATAAAATA
1 AAAATAAATAAAATA
15142193 AAAATAA
1 AAAATAA
15142200 TTTCCATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 20 0.65
16 3 0.10
17 3 0.10
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (15 bp):
AAAATAAATAAAATA
Found at i:15146331 original size:53 final size:54
Alignment explanation
Indices: 15146243--15146399 Score: 253
Period size: 53 Copynumber: 2.9 Consensus size: 54
15146233 ATTCGTATAC
* *
15146243 CACCCCATCTCACCCAGCTCATGTGCATCCTCCCACATCGTGCACATAGCAAGA
1 CACCTCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCAAGA
* **
15146297 CACCT-ATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTGGA
1 CACCTCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCAAGA
*
15146350 CACCTCATCTCACCCAGCTCATGTGCATCCCCCCACATTGTGCACATAGC
1 CACCTCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGC
15146400 TGGAGTCATC
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 49 0.52
54 46 0.48
ACGTcount: A:0.24, C:0.42, G:0.13, T:0.20
Consensus pattern (54 bp):
CACCTCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCAAGA
Found at i:15146384 original size:54 final size:54
Alignment explanation
Indices: 15146243--15146403 Score: 261
Period size: 54 Copynumber: 3.0 Consensus size: 54
15146233 ATTCGTATAC
* * **
15146243 CACCCCATCTCACCCAGCTCATGTGCATCCTCCCACATCGTGCACATAGCAAGA
1 CACCTCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTGGA
*
15146297 CACCT-ATCTCAACCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTGGA
1 CACCTCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTGGA
*
15146350 CACCTCATCTCACCCAGCTCATGTGCATCCCCCCACATTGTGCACATAGCTGGA
1 CACCTCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTGGA
15146404 GTCATCGTGT
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 49 0.49
54 50 0.51
ACGTcount: A:0.24, C:0.41, G:0.14, T:0.20
Consensus pattern (54 bp):
CACCTCATCTCACCCAGCTCATGTGCATCCCCCCACATCGTGCACATAGCTGGA
Found at i:15153695 original size:53 final size:53
Alignment explanation
Indices: 15153632--15153786 Score: 229
Period size: 54 Copynumber: 2.9 Consensus size: 53
15153622 ATTCGTATAC
* * *
15153632 CACCCTATCTCACCTAGCTCGTTTGCATCCCCCCATATCGTGCACATAACCGGA
1 CACCC-ATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAACCGGA
* *
15153686 CACCCATCTCACCTAGCTCATGTGCATCCCCCTACATCGTGCACATAATCGGA
1 CACCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAACCGGA
* *
15153739 CACCCCATCTCACCCAGCTTATGTGCATCCCCCCACATCGTGCACATA
1 CA-CCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATA
15153787 GCTAGAGTCA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 45 0.49
54 47 0.51
ACGTcount: A:0.23, C:0.42, G:0.12, T:0.23
Consensus pattern (53 bp):
CACCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAACCGGA
Found at i:15153770 original size:54 final size:54
Alignment explanation
Indices: 15153632--15153786 Score: 231
Period size: 53 Copynumber: 2.9 Consensus size: 54
15153622 ATTCGTATAC
* * * *
15153632 CACCCTATCTCACCTAGCTCGTTTGCATCCCCCCATATCGTGCACATAACCGGA
1 CACCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAACCGGA
* *
15153686 CA-CCCATCTCACCTAGCTCATGTGCATCCCCCTACATCGTGCACATAATCGGA
1 CACCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAACCGGA
* *
15153739 CACCCCATCTCACCCAGCTTATGTGCATCCCCCCACATCGTGCACATA
1 CACCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATA
15153787 GCTAGAGTCA
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 47 0.52
54 44 0.48
ACGTcount: A:0.23, C:0.42, G:0.12, T:0.23
Consensus pattern (54 bp):
CACCCCATCTCACCTAGCTCATGTGCATCCCCCCACATCGTGCACATAACCGGA
Found at i:15153815 original size:40 final size:40
Alignment explanation
Indices: 15153760--15153903 Score: 186
Period size: 40 Copynumber: 3.6 Consensus size: 40
15153750 ACCCAGCTTA
*
15153760 TGTGCATCCCCCCACATCGTGCACATAGCTAGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCTAGAGCCATCG
*
15153800 TGTGCATCCCCCCACATCGTGCACATAGCTGGAGCCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCTAGAGCCATCG
* * * *
15153840 TGTGCATCACCCCACATCGTG--TATAGTTA-ATGCCATTG
1 TGTGCATCCCCCCACATCGTGCACATAGCTAGA-GCCATCG
*
15153878 TGTACATCCCCCCCACATCGTGCACA
1 TGTGCAT-CCCCCCACATCGTGCACA
15153904 CGGATAGTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
37 1 0.01
38 17 0.19
39 13 0.14
40 58 0.64
41 1 0.01
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (40 bp):
TGTGCATCCCCCCACATCGTGCACATAGCTAGAGCCATCG
Found at i:15165289 original size:30 final size:30
Alignment explanation
Indices: 15165255--15165311 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
15165245 ATTGTTATAG
**
15165255 AGATAAAATGTTATCAAGTTATCTTATCTA
1 AGATAAAACATTATCAAGTTATCTTATCTA
**
15165285 AGATAAAACATTATTGAGTTATCTTAT
1 AGATAAAACATTATCAAGTTATCTTAT
15165312 ACATGATTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (30 bp):
AGATAAAACATTATCAAGTTATCTTATCTA
Found at i:15165689 original size:24 final size:23
Alignment explanation
Indices: 15165647--15165695 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
15165637 ATCTTTTCAT
15165647 TTAAAAATTATTTATTATTTAATA
1 TTAAAAATTATTTATTA-TTAATA
*
15165671 TTAAAAATATGTTTA-TATTAATA
1 TTAAAAAT-TATTTATTATTAATA
15165694 TT
1 TT
15165696 TTAACAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 10 0.43
25 5 0.22
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTAAAAATTATTTATTATTAATA
Found at i:15165691 original size:23 final size:24
Alignment explanation
Indices: 15165647--15165695 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
15165637 ATCTTTTCAT
15165647 TTAAAAATTATTTATTATTTAATA
1 TTAAAAATTATTTATTATTTAATA
*
15165671 TTAAAAA-TATGT-TTATATTAATA
1 TTAAAAATTATTTATTAT-TTAATA
15165694 TT
1 TT
15165696 TTAACAAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 12 0.52
24 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAAAAATTATTTATTATTTAATA
Found at i:15168274 original size:68 final size:68
Alignment explanation
Indices: 15168109--15168372 Score: 289
Period size: 68 Copynumber: 3.9 Consensus size: 68
15168099 GCATGTTGGA
* * * * *
15168109 ATGATGAATGCCATAAGATTATGTATATGATGTACATTCCATATGCCATATGAGATGATTAAGTA
1 ATGATTAATGCCATAAGAATATGTATATGATGTATATTCCATATACCACATGAGATGATTAAGTA
15168174 TGC
66 TGC
* * * * * * * *
15168177 ATGATGT-ATACGAT-AGGATGGTGTTTATGATGTAAATTCCATATACCATATGAGGTGATTAAG
1 ATGAT-TAATGCCATAAGAAT-ATGTATATGATGTATATTCCATATACCACATGAGATGATTAAG
15168240 TATGC
64 TATGC
** * * * * *
15168245 ATGATTAATGCCATGGGAATATGTATATGATGTGTGTTCCATATACTACATGAGATAATTAAGCA
1 ATGATTAATGCCATAAGAATATGTATATGATGTATATTCCATATACCACATGAGATGATTAAGTA
15168310 TGC
66 TGC
* * *
15168313 ATGATTAATGCCATGATAATATGTATATGATGTATATTCCATATACTACATGAGATGATT
1 ATGATTAATGCCATAAGAATATGTATATGATGTATATTCCATATACCACATGAGATGATT
15168373 GAGCTAGCAC
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
67 4 0.02
68 156 0.96
69 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (68 bp):
ATGATTAATGCCATAAGAATATGTATATGATGTATATTCCATATACCACATGAGATGATTAAGTA
TGC
Found at i:15172582 original size:68 final size:68
Alignment explanation
Indices: 15172417--15172742 Score: 313
Period size: 68 Copynumber: 4.8 Consensus size: 68
15172407 GCATGTTGGA
* * * * * *
15172417 ATGATGAATGCCATAAGATTATGTATATGATGTACATTCCATATGCCATATGAGATGATCAAGTA
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
15172482 TGC
66 TGC
* * * * * *
15172485 ATGATGT-ATACGAT-AGGATGGTGTTTATGATGTAAATTCCATATACCATATGAGGTGATTAAG
1 ATGAT-TAATGCCATGAGAAT-ATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAG
15172548 TATGC
64 TATGC
* *** * * * *
15172553 ATGATTAATGCCATGGGAATATGTATATGATGTGTGTTCTATATACTAAATGAGATAATTAAGTA
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
15172618 TGC
66 TGC
* * * * * *
15172621 ATGATTAATGGCATGAGAATATGTATATGATGTATATTCCTTATACTACATGAGATGATTGAGCT
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAG-T
15172686 A-GC
65 ATGC
* * * *
15172689 AT-A--AATGCCATGAGATTAAGTATATGATGTAAATTCCCTATACCTTATGAGATG
1 ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCATATGAGATG
15172743 TGTAAGCATG
Statistics
Matches: 211, Mismatches: 42, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
65 43 0.20
67 5 0.02
68 158 0.75
69 5 0.02
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (68 bp):
ATGATTAATGCCATGAGAATATGTATATGATGTAAATTCCATATACCATATGAGATGATTAAGTA
TGC
Found at i:15172913 original size:31 final size:31
Alignment explanation
Indices: 15172878--15172945 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
15172868 ATGCCTAAGA
15172878 TGCAATAAGGATATACGTTGCCAGCCCAAGG
1 TGCAATAAGGATATACGTTGCCAGCCCAAGG
** * * *
15172909 TGCAATGGGGTTATATGTTGCTAGCCCAAGG
1 TGCAATAAGGATATACGTTGCCAGCCCAAGG
*
15172940 TTCAAT
1 TGCAAT
15172946 GGAGATGTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGCAATAAGGATATACGTTGCCAGCCCAAGG
Found at i:15172946 original size:31 final size:31
Alignment explanation
Indices: 15172889--15172947 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
15172879 GCAATAAGGA
15172889 TATACGTTGCCAGCCCAAGGTGCAATGGGGT
1 TATACGTTGCCAGCCCAAGGTGCAATGGGGT
* * *
15172920 TATATGTTGCTAGCCCAAGGTTCAATGG
1 TATACGTTGCCAGCCCAAGGTGCAATGG
15172948 AGATGTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (31 bp):
TATACGTTGCCAGCCCAAGGTGCAATGGGGT
Found at i:15178372 original size:22 final size:21
Alignment explanation
Indices: 15178338--15178382 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
15178328 TATAAAGATC
*
15178338 TCATTGTTTCCAGCAGCTTCT
1 TCATTGTTTCCAGCAACTTCT
*
15178359 TCATTTTTCTCCAGCAACTTCT
1 TCATTGTT-TCCAGCAACTTCT
15178381 TC
1 TC
15178383 TTCTTCCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.16, C:0.31, G:0.09, T:0.44
Consensus pattern (21 bp):
TCATTGTTTCCAGCAACTTCT
Found at i:15178584 original size:2 final size:2
Alignment explanation
Indices: 15178577--15178617 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
15178567 TGAAATGTGT
*
15178577 AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
15178618 TTTCATGGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15179357 original size:38 final size:39
Alignment explanation
Indices: 15179288--15179390 Score: 111
Period size: 38 Copynumber: 2.6 Consensus size: 39
15179278 ATATTGCCCG
* ** *
15179288 TGTGCATGATGTGGGGGGATGTACATGATGACAT-TAAC-
1 TGTGCATGATGTGGGGGGATGCACACAATGAC-TCCAACA
* *
15179326 TGTGCATGATGTGGGGGGATGCACGCAATGACTCCAGCTA
1 TGTGCATGATGTGGGGGGATGCACACAATGACTCCAAC-A
*
15179366 TGTGCACGATGTGGGGGGATGCACA
1 TGTGCATGATGTGGGGGGATGCACA
15179391 TGAGCTGGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.02
38 30 0.56
40 23 0.43
ACGTcount: A:0.23, C:0.16, G:0.37, T:0.24
Consensus pattern (39 bp):
TGTGCATGATGTGGGGGGATGCACACAATGACTCCAACA
Found at i:15179672 original size:61 final size:61
Alignment explanation
Indices: 15179592--15179753 Score: 198
Period size: 62 Copynumber: 2.6 Consensus size: 61
15179582 GGTGCCCTGC
* * * * *
15179592 TTCTCGCTGCAGCGAGAAACTTTCTGTTTTACTGCCTGTAACTCGCTGCAGCGAGAATGCT
1 TTCTCGCTGCAGCGAGAAACTTTCTGTTTTACTACCTGCAACTCACTGCAGCGAGAATCCA
* * * *
15179653 TTCTCGCTGTAGCAAGAAACTTTCTGTTTTTGCTACCTGCAACTCACTGCAGTGAGAATCCA
1 TTCTCGCTGCAGCGAGAAACTTTCTG-TTTTACTACCTGCAACTCACTGCAGCGAGAATCCA
* * *
15179715 TTATCGCTGCAGCGAGAAACATTCTGTTTTGACCACCTG
1 TTCTCGCTGCAGCGAGAAACTTTCTGTTTT-ACTACCTG
15179754 AATCTCGCTA
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
61 28 0.33
62 56 0.67
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (61 bp):
TTCTCGCTGCAGCGAGAAACTTTCTGTTTTACTACCTGCAACTCACTGCAGCGAGAATCCA
Found at i:15179677 original size:21 final size:22
Alignment explanation
Indices: 15179633--15179677 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
15179623 CTGCCTGTAA
* *
15179633 CTCGCTGCAGCGAGAATGCTTT
1 CTCGCTGCAGCAAGAATACTTT
*
15179655 CTCGCTGTAGCAAGAA-ACTTT
1 CTCGCTGCAGCAAGAATACTTT
15179676 CT
1 CT
15179678 GTTTTTGCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (22 bp):
CTCGCTGCAGCAAGAATACTTT
Found at i:15181452 original size:19 final size:19
Alignment explanation
Indices: 15181412--15181452 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
15181402 ACAGGTTTGA
*
15181412 TGAGAAACCCTCGACCACT
1 TGAGAAACCCTCGACCAAT
* *
15181431 TGAGAAACCCTTGGCCAAT
1 TGAGAAACCCTCGACCAAT
15181450 TGA
1 TGA
15181453 CAATTTGAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.20
Consensus pattern (19 bp):
TGAGAAACCCTCGACCAAT
Found at i:15189853 original size:54 final size:54
Alignment explanation
Indices: 15189771--15189976 Score: 290
Period size: 54 Copynumber: 3.8 Consensus size: 54
15189761 TATGACTCTG
* *
15189771 GCTATGTGCACGATGTGGTGGAATGCACATGAGCTGAATGAGATGTGATGTCCA
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGAGTGAGATGTGATGTCCA
* * *
15189825 GCTATGTGCACGATGTGTTGGGATGCACATGAG-TAGGGTGAGATGTGATGTCTA
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCT-GAGTGAGATGTGATGTCCA
* * * *
15189879 GCTATATGCACGATGTGGTGCGATGCACATGAGCT-AGGTGAGATGTGGTGTCCG
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGA-GTGAGATGTGATGTCCA
*
15189933 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGAT
1 GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGAGTGAGAT
15189977 AATATGTTTT
Statistics
Matches: 133, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 131 0.98
55 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.37, T:0.27
Consensus pattern (54 bp):
GCTATGTGCACGATGTGGTGGGATGCACATGAGCTGAGTGAGATGTGATGTCCA
Found at i:15189914 original size:32 final size:31
Alignment explanation
Indices: 15189878--15189967 Score: 81
Period size: 32 Copynumber: 3.1 Consensus size: 31
15189868 TGTGATGTCT
*
15189878 AGCTATATGCACGATGTGGTGCGATGCACATG
1 AGCTATGTGCACGATGTGGTG-GATGCACATG
*
15189910 AGCTAGGTG-A-GATGTGGT-G-T-C-C--G
1 AGCTATGTGCACGATGTGGTGGATGCACATG
15189933 -GCTATGTGCACGATGTGGTGGGATGCACATG
1 AGCTATGTGCACGATGTGGT-GGATGCACATG
15189964 AGCT
1 AGCT
15189968 GGGTGAGATA
Statistics
Matches: 45, Mismatches: 3, Indels: 20
0.66 0.04 0.29
Matches are distributed among these distances:
22 7 0.16
23 2 0.04
24 8 0.18
25 1 0.02
26 2 0.04
27 2 0.04
28 2 0.04
29 1 0.02
30 8 0.18
31 2 0.04
32 10 0.22
ACGTcount: A:0.21, C:0.17, G:0.37, T:0.26
Consensus pattern (31 bp):
AGCTATGTGCACGATGTGGTGGATGCACATG
Found at i:15191468 original size:23 final size:23
Alignment explanation
Indices: 15191442--15191507 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
15191432 TGTGAAATGC
* *
15191442 CATGGTGGGAATGTGTGACACGG
1 CATGGTGGGAATATGTGACAAGG
* *
15191465 CATGGTGGGAACATGTGACAAGT
1 CATGGTGGGAATATGTGACAAGG
*
15191488 CATGGTGAGAATATGTGACA
1 CATGGTGGGAATATGTGACA
15191508 TGACTGTGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.36, T:0.23
Consensus pattern (23 bp):
CATGGTGGGAATATGTGACAAGG
Done.