Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 113 of 345
Found at i:37431566 original size:21 final size:22
Alignment explanation
Indices: 37431525--37431566 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
37431515 GTCAAGAAGG
*
37431525 CCACATGGGCGTGTCGCCCCTT
1 CCACACGGGCGTGTCGCCCCTT
*
37431547 CCACACGGGTGTGT-GCCCCT
1 CCACACGGGCGTGTCGCCCCT
37431567 GTTTTAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.10, C:0.40, G:0.29, T:0.21
Consensus pattern (22 bp):
CCACACGGGCGTGTCGCCCCTT
Found at i:37438656 original size:17 final size:19
Alignment explanation
Indices: 37438605--37438673 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
37438595 TTTCTTTTAC
*
37438605 AATTTTATATAAATTACTAAT
1 AATTTTATA-ATATTA-TAAT
*
37438626 AATTTTTTACATATT-TAA-
1 AATTTTATA-ATATTATAAT
37438644 AATTTTATAATATTATAAT
1 AATTTTATAATATTATAAT
*
37438663 AACTTTATAAT
1 AATTTTATAAT
37438674 TGTAAAAACT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
17 5 0.12
18 11 0.27
19 13 0.32
21 12 0.29
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTTATAATATTATAAT
Found at i:37439676 original size:18 final size:20
Alignment explanation
Indices: 37439640--37439678 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
37439630 CAAATGTCAG
*
37439640 TTTTTTATTCTAATTTTAAA
1 TTTTTTATTCTAATGTTAAA
37439660 TTTTTTA-TC-AATGTTAAA
1 TTTTTTATTCTAATGTTAAA
37439678 T
1 T
37439679 GATTCACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTTTATTCTAATGTTAAA
Found at i:37442005 original size:19 final size:20
Alignment explanation
Indices: 37441976--37442013 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
37441966 AGATTTTAAA
37441976 ATAATTATATTATATTATTG
1 ATAATTATATTATATTATTG
37441996 ATAA-TATATTATATTATT
1 ATAATTATATTATATTATT
37442014 TTTAACTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATAATTATATTATATTATTG
Found at i:37443331 original size:17 final size:17
Alignment explanation
Indices: 37443309--37443369 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
37443299 ATTGAATCAC
37443309 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** *
37443326 TACATAAGTCTTTGAAACAC
1 TACATAA---TTAAAAACAT
37443346 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
37443363 TACATAA
1 TACATAA
37443370 GTATTGAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 21 0.60
20 14 0.40
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:37443341 original size:37 final size:37
Alignment explanation
Indices: 37443300--37443371 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
37443290 ATTAGCCGAA
*
37443300 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAAACACTACATAATTAAAAACATTACATAAGTCT
37443337 TTGAAACACTACATAATTAAAAACATTACATAAGT
1 TTGAAACACTACATAATTAAAAACATTACATAAGT
37443372 ATTGAAATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.31
Consensus pattern (37 bp):
TTGAAACACTACATAATTAAAAACATTACATAAGTCT
Found at i:37447084 original size:27 final size:27
Alignment explanation
Indices: 37447054--37447204 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
37447044 ATATTGAGTC
* * *
37447054 CGCACACTCAGTGCTATATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37447081 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37447109 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37447136 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37447163 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
37447190 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
37447205 GTACAATTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
27 81 0.77
28 24 0.23
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37447166 original size:82 final size:81
Alignment explanation
Indices: 37447054--37447203 Score: 221
Period size: 82 Copynumber: 1.8 Consensus size: 81
37447044 ATATTGAGTC
* *
37447054 CGCACACTCAGTGCTATATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTCAGTGCTATATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCACACACTTA
37447119 GTGCCGCATGGTCAATT
65 GTGCCGCATGGTCAATT
* * **
37447136 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCACACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACACACTTA
37447200 GTGC
65 GTGC
37447204 TGTACAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.26
82 45 0.74
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCACACACTTAG
TGCCGCATGGTCAATT
Found at i:37452859 original size:9 final size:9
Alignment explanation
Indices: 37452845--37452895 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
37452835 GCTATGACAC
37452845 TTTTGAAGG
1 TTTTGAAGG
37452854 TTTTGAAGG
1 TTTTGAAGG
**
37452863 TTTT-ACCG
1 TTTTGAAGG
*
37452871 TTTTGAGAGA
1 TTTTGA-AGG
*
37452881 TTTTGAAAG
1 TTTTGAAGG
37452890 TTTTGA
1 TTTTGA
37452896 GAGATTTCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
8 6 0.18
9 21 0.64
10 6 0.18
ACGTcount: A:0.24, C:0.04, G:0.25, T:0.47
Consensus pattern (9 bp):
TTTTGAAGG
Found at i:37454610 original size:26 final size:25
Alignment explanation
Indices: 37454578--37454631 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
37454568 AAAACAAGAA
*
37454578 AAAGAAACAGAGAA-AAAACGAAATAG
1 AAAGAAACAAAGAAGAAAA-GAAA-AG
*
37454604 AAAGAAAGAAAGAAGAAAAGAAAAG
1 AAAGAAACAAAGAAGAAAAGAAAAG
37454629 AAA
1 AAA
37454632 AAGGAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 16 0.64
27 4 0.16
ACGTcount: A:0.74, C:0.04, G:0.20, T:0.02
Consensus pattern (25 bp):
AAAGAAACAAAGAAGAAAAGAAAAG
Found at i:37454613 original size:22 final size:21
Alignment explanation
Indices: 37454554--37454631 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
37454544 TTAATTTATT
37454554 AAATA-AAAGAAAGAAAAACAAG
1 AAATAGAAAGAAAG-AAAA-AAG
* * *
37454576 AAAAAGAAACAGAGAAAAAACG
1 AAATAGAAAGAAAGAAAAAA-G
*
37454598 AAATAGAAAGAAAGAAAGAAG
1 AAATAGAAAGAAAGAAAAAAG
37454619 AAA-AGAAAAGAAA
1 AAATAG-AAAGAAA
37454632 AAGGAGAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
20 2 0.04
21 13 0.28
22 25 0.54
23 6 0.13
ACGTcount: A:0.76, C:0.04, G:0.18, T:0.03
Consensus pattern (21 bp):
AAATAGAAAGAAAGAAAAAAG
Found at i:37458446 original size:50 final size:50
Alignment explanation
Indices: 37458390--37458552 Score: 181
Period size: 50 Copynumber: 3.3 Consensus size: 50
37458380 CATGCCTCAG
* * *
37458390 ACATGGTCTTGCACTAGCACTCAAATATCG-GTGCTGATGCCATGTTCTAA
1 ACATGGTCTTACACTAGC-CTCAAATATTGAGTGCTGATGCCATGTTCCAA
* * * *
37458440 ACATGGTCCTAAACTAGCCT-ACATGTTGAGT-CTGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCCTCAAATATTGAGTGCTGATGCCATGTTCCAA
* * **
37458488 ACATGGTCTTACACAAGCTCTCATATATTGAG-GCCAATGCCATGTTCCAA
1 ACATGGTCTTACACTAGC-CTCAAATATTGAGTGCTGATGCCATGTTCCAA
37458538 ACATGGTCTTACACT
1 ACATGGTCTTACACT
37458553 GGTTCACATA
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
48 36 0.38
49 6 0.06
50 52 0.55
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (50 bp):
ACATGGTCTTACACTAGCCTCAAATATTGAGTGCTGATGCCATGTTCCAA
Found at i:37458484 original size:48 final size:50
Alignment explanation
Indices: 37458422--37458545 Score: 153
Period size: 48 Copynumber: 2.5 Consensus size: 50
37458412 AAATATCGGT
* * *
37458422 GCTGATGCCATGTTCTAAACATGGTCCTAAACTAGC-CT-ACATGTTGAG
1 GCTGATGCCATGTTCCAAACATGGTCCTAAACAAGCTCTCACATATTGAG
* * * *
37458470 TCTGATGCCATGTTCCAAACATGGTCTTACACAAGCTCTCATATATTGAG
1 GCTGATGCCATGTTCCAAACATGGTCCTAAACAAGCTCTCACATATTGAG
**
37458520 GCCAATGCCATGTTCCAAACATGGTC
1 GCTGATGCCATGTTCCAAACATGGTC
37458546 TTACACTGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 31 0.48
49 2 0.03
50 31 0.48
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (50 bp):
GCTGATGCCATGTTCCAAACATGGTCCTAAACAAGCTCTCACATATTGAG
Found at i:37465861 original size:48 final size:48
Alignment explanation
Indices: 37465801--37465981 Score: 193
Period size: 48 Copynumber: 3.8 Consensus size: 48
37465791 AACGGTACTG
* * * * * *
37465801 ATGCCATGTCCCAGACATGGTCTTATACGAGACCTCATATCGATGCCA
1 ATGCCATATCCCAGATATGATCTTATACGGGATCTCATATCAATGCCA
* * * * *
37465849 ATGTCATATCCCAGATATGATCTTACATGGGATCTCATA-CTAATACTA
1 ATGCCATATCCCAGATATGATCTTATACGGGATCTCATATC-AATGCCA
* * * *
37465897 ATGCCATATCCCATATATGGTCTTATACGGGATCTCTTATCAATGCCG
1 ATGCCATATCCCAGATATGATCTTATACGGGATCTCATATCAATGCCA
* *
37465945 ATGCCATTTCCCAGATATGATCTTACACGGGATCTCA
1 ATGCCATATCCCAGATATGATCTTATACGGGATCTCA
37465982 ATACTCACAT
Statistics
Matches: 106, Mismatches: 25, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
47 1 0.01
48 104 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (48 bp):
ATGCCATATCCCAGATATGATCTTATACGGGATCTCATATCAATGCCA
Found at i:37465917 original size:96 final size:97
Alignment explanation
Indices: 37465796--37465986 Score: 267
Period size: 96 Copynumber: 2.0 Consensus size: 97
37465786 CTCATAACGG
* * * *
37465796 TACTGATGCCATGTCCCAGACATGGTCTTATACGAGACCTCATATCGATGCCAATGTCATATCCC
1 TACTAATGCCATATCCCAGACATGGTCTTATACGAGACCTCATATCAATGCCAATGCCATATCCC
*
37465861 AGATATGATCTTACATGGGATCTC-ATACTAA
66 AGATATGATCTTACACGGGATCTCAATACTAA
* * * * * * *
37465892 TACTAATGCCATATCCCATATATGGTCTTATACGGGATCTCTTATCAATGCCGATGCCATTTCCC
1 TACTAATGCCATATCCCAGACATGGTCTTATACGAGACCTCATATCAATGCCAATGCCATATCCC
37465957 AGATATGATCTTACACGGGATCTCAATACT
66 AGATATGATCTTACACGGGATCTCAATACT
37465987 CACATGTCGT
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
96 77 0.94
97 5 0.06
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (97 bp):
TACTAATGCCATATCCCAGACATGGTCTTATACGAGACCTCATATCAATGCCAATGCCATATCCC
AGATATGATCTTACACGGGATCTCAATACTAA
Found at i:37466112 original size:6 final size:6
Alignment explanation
Indices: 37466101--37466130 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
37466091 ATAAAGAAAA
37466101 ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT
37466131 TTCATGCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:37469591 original size:50 final size:49
Alignment explanation
Indices: 37469516--37469753 Score: 291
Period size: 50 Copynumber: 4.8 Consensus size: 49
37469506 TAAGATGCCT
* * * * * *
37469516 ATGCCATTTTCCAGACATGGTCTTACACTGGATCTCATGTATAAGTGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATATGAG-GCCG
* *
37469566 ATGCCATGTTCCAAACATGGTCTTACACTAGC-C-CACATGTCGAGGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAT-GAGGCCG
* * *
37469614 ATGCCATGTTCTAAACATGGTCTTACACTAGCTCTTATATATCGAGGTCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAT-GAGGCCG
* *
37469664 ATGCCATGCTCCAAACATGGTCTTACACTAGCTCTCGTATATCGAGGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAT-GAGGCCG
* *
37469714 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAT
37469754 CCCTAGTATC
Statistics
Matches: 163, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
48 39 0.24
49 4 0.02
50 120 0.74
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (49 bp):
ATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATATGAGGCCG
Found at i:37469754 original size:98 final size:97
Alignment explanation
Indices: 37469516--37469754 Score: 302
Period size: 98 Copynumber: 2.4 Consensus size: 97
37469506 TAAGATGCCT
* * * *
37469516 ATGCCATTTTCCAGACATGGTCTTACACTGGATCTCATGTAT-AAGTGCCGATGCCATGTTCCAA
1 ATGCCATGTTCCAAACATGGTCTTACACTGG--CTCATATATCAAGTGCCGATGCCATGCTCCAA
*
37469580 ACATGGTCTTACACTAGCCCACATGTCGAGGCCG
64 ACATGGTCTTACACTAGCCCACATATCGAGGCCG
* * * *
37469614 ATGCCATGTTCTAAACATGGTCTTACACTAGCTCTTATATATCGAG-GTCGATGCCATGCTCCAA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTC--ATATATCAAGTGCCGATGCCATGCTCCAA
**
37469678 ACATGGTCTTACACTAGCTCTCGTATATCGAGGCCG
64 ACATGGTCTTACACTAGC-C-CACATATCGAGGCCG
*
37469714 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATC
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCATATATC
37469755 CCTAGTATCA
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
96 3 0.02
98 72 0.59
99 3 0.02
100 44 0.36
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (97 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCATATATCAAGTGCCGATGCCATGCTCCAAAC
ATGGTCTTACACTAGCCCACATATCGAGGCCG
Found at i:37472298 original size:30 final size:30
Alignment explanation
Indices: 37472264--37472322 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
37472254 AATTTTCGAG
*
37472264 TCTAGGGGCAAAATGGTCATTTTGTCAAAT
1 TCTAGGGGCAAAATGGTCATTTTGCCAAAT
*
37472294 TCTAGGGGCAAAATGGTCGTTTTGCCAAA
1 TCTAGGGGCAAAATGGTCATTTTGCCAAA
37472323 GATATGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
TCTAGGGGCAAAATGGTCATTTTGCCAAAT
Found at i:37472742 original size:46 final size:44
Alignment explanation
Indices: 37472655--37472781 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 44
37472645 CACTTGTGTG
37472655 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGACGT
** *
37472700 AAGCTAGTGTAAGACATGAATGGGACATGCATCGGCTACGAGATGT
1 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGACGT
* *
37472746 -GTTAGTGTAAGACCATGTCTGGGGCATGGCATCGGC
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
37472782 ACAGATTTGC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
44 11 0.15
45 13 0.18
46 47 0.66
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (44 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGACGT
Found at i:37478062 original size:38 final size:38
Alignment explanation
Indices: 37477973--37478087 Score: 203
Period size: 38 Copynumber: 3.0 Consensus size: 38
37477963 AAGACACTGC
* *
37477973 AAATGTATCCGGGCTAAAGTCCCGCAGGGTTTGTGCTAG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCT-G
37478012 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
37478050 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
37478088 GTAATATAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 39 0.53
39 35 0.47
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (38 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:37480466 original size:14 final size:14
Alignment explanation
Indices: 37480430--37480464 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
37480420 AATATAGAAA
37480430 ATTATAAATAAATT
1 ATTATAAATAAATT
*
37480444 ATTATAAATAAGTT
1 ATTATAAATAAATT
37480458 -TTATAAA
1 ATTATAAA
37480465 ATGTAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (14 bp):
ATTATAAATAAATT
Found at i:37480502 original size:59 final size:62
Alignment explanation
Indices: 37480422--37480564 Score: 143
Period size: 59 Copynumber: 2.3 Consensus size: 62
37480412 AATATAATAA
* * * *
37480422 TATAGAAAATTATAAATAAATTATTATAAA-T-AAGTTTTATAAAATGTAGAAAA-TATTAAAAA
1 TATA-AAAA-TATAAA-AAATTAGTAAAAAGTGAA-TTTTATAAAATCTAGAAAAGTATAAAAAA
37480484 T
62 T
** * *
37480485 TATTTAAA-ATAAAAAATT-GTAAAAAGTGAATTTTTTAAAATCTAGAAAAGTGTAAAAAAT
1 TATAAAAATATAAAAAATTAGTAAAAAGTGAATTTTATAAAATCTAGAAAAGTATAAAAAAT
37480545 TATAAAAATATAAAAAATTA
1 TATAAAAATATAAAAAATTA
37480565 CAAAAAAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
58 5 0.08
59 23 0.35
60 21 0.32
61 10 0.15
62 3 0.05
63 3 0.05
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (62 bp):
TATAAAAATATAAAAAATTAGTAAAAAGTGAATTTTATAAAATCTAGAAAAGTATAAAAAAT
Found at i:37480551 original size:18 final size:18
Alignment explanation
Indices: 37480537--37480657 Score: 61
Period size: 18 Copynumber: 6.4 Consensus size: 18
37480527 TAGAAAAGTG
*
37480537 TAAAAAATTATAAAAATA
1 TAAAAAATTACAAAAATA
37480555 TAAAAAATTACAAAAAAATA
1 TAAAAAATTAC--AAAAATA
*
37480575 TTATTACAAATTATTCAAAAATA
1 -TA--AAAAATTA--CAAAAATA
* *
37480598 -AAATAGAATTATAAAAAGA
1 TAAA-A-AATTACAAAAATA
* *
37480617 -ATAAAATTATATAAAATA
1 TAAAAAATTACA-AAAATA
*
37480635 T-AAAAA-TATAAAAATA
1 TAAAAAATTACAAAAATA
37480651 TAAAAAA
1 TAAAAAA
37480658 ATGTTTAGAA
Statistics
Matches: 83, Mismatches: 8, Indels: 25
0.72 0.07 0.22
Matches are distributed among these distances:
16 7 0.08
17 16 0.19
18 20 0.24
19 9 0.11
20 8 0.10
21 8 0.10
23 14 0.17
25 1 0.01
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAAAATTACAAAAATA
Found at i:37480659 original size:10 final size:8
Alignment explanation
Indices: 37480607--37480656 Score: 64
Period size: 8 Copynumber: 6.0 Consensus size: 8
37480597 AAAATAGAAT
37480607 TATAAAAA
1 TATAAAAA
* *
37480615 GAATAAAAT
1 -TATAAAAA
37480624 TATATAAAA
1 TATA-AAAA
37480633 TATAAAAA
1 TATAAAAA
37480641 TATAAAAA
1 TATAAAAA
37480649 TATAAAAA
1 TATAAAAA
37480657 AATGTTTAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
8 23 0.64
9 13 0.36
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (8 bp):
TATAAAAA
Found at i:37481120 original size:8 final size:9
Alignment explanation
Indices: 37481105--37481131 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
37481095 TTTTTTTAAA
37481105 TATAAAAAT
1 TATAAAAAT
37481114 TATAAAAAT
1 TATAAAAAT
37481123 TATAAAAAT
1 TATAAAAAT
37481132 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TATAAAAAT
Found at i:37484121 original size:133 final size:134
Alignment explanation
Indices: 37483934--37484181 Score: 317
Period size: 133 Copynumber: 1.9 Consensus size: 134
37483924 GTTGATAGCT
* * *
37483934 AAAATCTGCTCCTATTGCCGATACGTGAAGATAAGATCTGTAATTTTCAGTCTGCTTC-CTTGCT
1 AAAATCTGCTCCTATTGCCGATACGTGAAGATAAGATCTGCAATCTTCAGTCTGCTTCAC-TACT
*
37483998 ACCTCAGGAAGATAAGACTTGT-ATCTTCAACCTGCTTTCTTGCTACCTCAGAGGGACAAGGCTG
65 -CCTCAGGAAGATAAGACTTGTAATCTTCAACCTGCTTCCTTGCTACCTCAGAGGGACAAGGCTG
37484062 ATGGCA
129 ATGGCA
* *
37484068 AAAATCTGCTCC-ATTGCCGATACGTGGAGATAAGA-CTCGCCATCTTC-GATCTGCTTCACTAC
1 AAAATCTGCTCCTATTGCCGATACGTGAAGATAAGATCT-GCAATCTTCAG-TCTGCTTCACTAC
* * * * **
37484130 TCCTTAGGGAGATAAGATTTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAG
64 TCCTCAGGAAGATAAGACTTGTAATCTTCAACCTGCTTCCTTGCTACCTCAG
37484182 GAAGGTAAGA
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
132 21 0.21
133 64 0.65
134 13 0.13
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (134 bp):
AAAATCTGCTCCTATTGCCGATACGTGAAGATAAGATCTGCAATCTTCAGTCTGCTTCACTACTC
CTCAGGAAGATAAGACTTGTAATCTTCAACCTGCTTCCTTGCTACCTCAGAGGGACAAGGCTGAT
GGCA
Found at i:37484258 original size:177 final size:177
Alignment explanation
Indices: 37483962--37485563 Score: 2361
Period size: 177 Copynumber: 9.1 Consensus size: 177
37483952 CGATACGTGA
37483962 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
1 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* * * * * * *
37484027 ACCTGCTTTCTTGCTACCTCAGAGGGACAAGGCTGATGGCAAAAATCTGCTCCATTGCCGATACG
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
* * *
37484092 TGGAGATAAGACTCGCCATCTTCGATCTGCTTCACTACTCCTTAGGG
131 TGGAGATAAGACTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGG
* * *
37484139 AGATAAGATTTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGGTAAGACTTGTATCTTTA
1 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* * * * *
37484204 ACCTGCTCTCCTGCTACCTCAGATAGATAAGGCTGGTGGCTAAAATTTGCTCCATAACTGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
* ** *
37484269 TAGAGATAAGACTCGCCATTTTTTATCTGCTCCACTACTGCTTAGGA
131 TGGAGATAAGACTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGG
* *
37484316 AGATAAGATCTGTAATTTTTAGTTTGCTTCCTTGCTACCTCAGGAAGATAAGACTTG-----T--
1 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* *
37484374 A--T--TCTCTTGCTACCTCAGAGAGATAAGGATGGTGGCTAAAATCTGCTCCATAACCGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
** * *
37484435 -GGAGATAAGACTCGCCATTTTTTATCTGCTCCACTATTGTTTAGGG
131 TGGAGATAAGACTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGG
* *
37484481 AGATAAGATCTGTAATTTTTAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGAATCTTCA
1 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* *
37484546 ACCTACTCTCTTGCTACCTCGGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
* *
37484611 TGGAGATAAGACTCACCATTTTCGATCTGCTCCACCACTGCTTAGGG
131 TGGAGATAAGACTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGG
*
37484658 AGATAAGATCTGTAATTTTCAGTCTGCTTCATTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
1 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* * * * *
37484723 ACCTGCTCTCTTGCTACTTCATAGAGATAAGACTAGTGGCTAAAATTTGCTCCATAGCCGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
* *
37484788 TGGAGATAAGACTCGCCATTTTCAATCTGCTCCACCACTGCTTAGGG
131 TGGAGATAAGACTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGG
37484835 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
1 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* * * *
37484900 ACCTGCTCTCTTGCTACCTCAGAGAAATAAGCCTGGTGGCTAAAATCTACTCCATAACCGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
* * * * *
37484965 TGAAGATAAGACTCACCATTTTCAATATGC-CACACTACTGCTTAAGG
131 TGGAGATAAGACTCGCCATTTTCGATCTGCTC-CACTACTGCTTAGGG
37485012 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
1 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
** *
37485077 ACCTGCTCTCTTGCTACCTTGGAGAGATAAGGCTGGTGGCTAAAATTTGCTCCATAGCCGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
* * *
37485142 TAGAGATAAGACTCGCCATTTTTGATCTGCTCCACTACTACTTAGGG
131 TGGAGATAAGACTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGG
* * *
37485189 AGATAAGATCTGTAATTTTCAGTCTACTTCCTTTCTACCTTAGGAAGATAAGACTTGTATCTTCA
1 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
* *
37485254 ACCTGCTCTCTTGCTACCTCGGAGAGATAAAGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
* * * **
37485319 TGGAGATAAGACCCGCTA-TTTCTGATCTTCTCCACTACTGCTTAGAA
131 TGGAGATAAGACTCGCCATTTTC-GATCTGCTCCACTACTGCTTAGGG
* * * *
37485366 AGATAAGATCTGTAATTTTTAGTCTGCTTCCTTGCTATCTTAGGAAGATAAGACTTGTATCTTTA
1 AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
*
37485431 ACCTGCTCTCTTGCTACCTC-GAAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGTCGATAC
66 ACCTGCTCTCTTGCTACCTCAG-AGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATAC
* * * *
37485495 ATGGAGATAAGACTTGCCATTTCCAATCTGTTCCACTACTGCTTAGGG
130 ATGGAGATAAGACTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGG
*
37485543 AGATAAGATCTATAATTTTCA
1 AGATAAGATCTGTAATTTTCA
37485564 CCGATGTCGC
Statistics
Matches: 1290, Mismatches: 118, Indels: 34
0.89 0.08 0.02
Matches are distributed among these distances:
165 98 0.08
166 54 0.04
168 1 0.00
170 2 0.00
172 2 0.00
174 1 0.00
176 61 0.05
177 1067 0.83
178 4 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (177 bp):
AGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACA
TGGAGATAAGACTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGG
Found at i:37503898 original size:28 final size:27
Alignment explanation
Indices: 37503866--37503983 Score: 96
Period size: 28 Copynumber: 4.2 Consensus size: 27
37503856 CTATATAATG
37503866 TATATGGCCCA-CTAGGCCCAATCTCATT
1 TATATGGCCCATC-AGGCCCAAT-TCATT
* *
37503894 TATATGGCCCGTCCGGCCCAATTCACGTT
1 TATATGGCCCATCAGGCCCAATTCA--TT
*
37503923 CATAT-GCCCATCAGGCCCAATTCATAT
1 TATATGGCCCATCAGGCCCAATTCAT-T
* * * *
37503950 TCATATTGCCTATTAGGCCCAATCACATT
1 T-ATATGGCCCATCAGGCCCAAT-TCATT
37503979 TATAT
1 TATAT
37503984 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
26 1 0.01
27 4 0.05
28 43 0.58
29 23 0.31
30 3 0.04
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.31
Consensus pattern (27 bp):
TATATGGCCCATCAGGCCCAATTCATT
Found at i:37503969 original size:29 final size:28
Alignment explanation
Indices: 37503879--37503983 Score: 97
Period size: 28 Copynumber: 3.8 Consensus size: 28
37503869 ATGGCCCACT
* * *
37503879 AGGCCCAA-TCTCATTTATATGGCCCGTC
1 AGGCCCAATTCACATTCATAT-GCCCATC
* *
37503907 CGGCCCAATTCACGTTCATATGCCCATC
1 AGGCCCAATTCACATTCATATGCCCATC
* * *
37503935 AGGCCCAATTCATATTCATATTGCCTATT
1 AGGCCCAATTCACATTCATA-TGCCCATC
*
37503964 AGGCCCAA-TCACATTTATAT
1 AGGCCCAATTCACATTCATAT
37503984 TCATGCTCAC
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.02
28 39 0.62
29 23 0.37
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (28 bp):
AGGCCCAATTCACATTCATATGCCCATC
Found at i:37507317 original size:40 final size:39
Alignment explanation
Indices: 37507114--37507317 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 39
37507104 TGGGCTTTAA
* * *
37507114 CCGGATATAGCCACTCGCTCAAATGCCTTCGAGACTTAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
37507154 CCGAATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGC
*
37507194 CCGGATATAGTACTTCGCACAAATGCCTTCGGAACTTAGC
1 CCGGATATAGTAC-TCGCACAAATGCCTTCGGGACTTAGC
37507234 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* *
37507274 CCGGA-ATTAGTCACTAGCACAAATGCCTTTGGGACTTAGC
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
37507314 CCGG
1 CCGG
37507318 TTATCATCCG
Statistics
Matches: 148, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 2 0.01
40 144 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37509428 original size:19 final size:20
Alignment explanation
Indices: 37509404--37509449 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
37509394 TTTTGAAATT
* *
37509404 TAATGCACATG-ATGCGATG
1 TAATGCAAATGCATGAGATG
37509423 TAATGCAAATGCATGAGATG
1 TAATGCAAATGCATGAGATG
37509443 -AATGCAA
1 TAATGCAA
37509450 GACTAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (20 bp):
TAATGCAAATGCATGAGATG
Found at i:37525249 original size:15 final size:17
Alignment explanation
Indices: 37525215--37525253 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
37525205 AATCATATTT
*
37525215 TTTATATTTTCTGGTAA
1 TTTATATTTTCTGATAA
37525232 TTTATATTTT-T-ATAA
1 TTTATATTTTCTGATAA
37525247 TTTATAT
1 TTTATAT
37525254 AAAATCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.48
16 1 0.05
17 10 0.48
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (17 bp):
TTTATATTTTCTGATAA
Found at i:37525302 original size:20 final size:20
Alignment explanation
Indices: 37525257--37525343 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
37525247 TTTATATAAA
37525257 ATCATTTTTAATAAA-TTTT
1 ATCATTTTTAATAAATTTTT
* *
37525276 -GCAATTTTTACTAAATTTTT
1 ATC-ATTTTTAATAAATTTTT
*
37525296 ATCATTTAT-ATAAATTTTTT
1 ATCATTTTTAATAAA-TTTTT
* *
37525316 GTCATTTATAAT-AATTTTT
1 ATCATTTTTAATAAATTTTT
37525335 AT-ATTTTTA
1 ATCATTTTTA
37525344 TTTTTCTTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
18 7 0.13
19 21 0.38
20 24 0.44
21 3 0.05
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (20 bp):
ATCATTTTTAATAAATTTTT
Found at i:37526431 original size:21 final size:22
Alignment explanation
Indices: 37526385--37526431 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
37526375 AATGTAAGGT
*
37526385 TTGTTATTATGTTTTAATTTAG
1 TTGTTATTATGTGTTAATTTAG
37526407 -TGTTATTATCGTGTT-ATTT-G
1 TTGTTATTAT-GTGTTAATTTAG
37526427 TTGTT
1 TTGTT
37526432 TTTAAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.17, C:0.02, G:0.17, T:0.64
Consensus pattern (22 bp):
TTGTTATTATGTGTTAATTTAG
Found at i:37532229 original size:10 final size:9
Alignment explanation
Indices: 37532210--37532291 Score: 51
Period size: 9 Copynumber: 8.6 Consensus size: 9
37532200 ATAAACTTAT
37532210 AAAAATATA
1 AAAAATATA
37532219 AAAAATCAT-
1 AAAAAT-ATA
37532228 AAAAATATA
1 AAAAATATA
**
37532237 AACACTTATA
1 AA-AAATATA
37532247 AAAAATAATA
1 AAAAAT-ATA
*
37532257 AATTAAAAATA
1 AA--AAATATA
*
37532268 AATAAT-TA
1 AAAAATATA
37532276 CAAAAATTATA
1 -AAAAA-TATA
37532287 AAAAA
1 AAAAA
37532292 GTCATTTATT
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
8 4 0.07
9 22 0.39
10 20 0.36
11 7 0.12
12 3 0.05
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATATA
Found at i:37532231 original size:18 final size:17
Alignment explanation
Indices: 37532207--37532291 Score: 68
Period size: 18 Copynumber: 5.0 Consensus size: 17
37532197 AGTATAAACT
37532207 TATAAAAATATAAAAAA
1 TATAAAAATATAAAAAA
**
37532224 TCATAAAAATATAAACACT
1 T-ATAAAAATATAAA-AAA
*
37532243 TATAAAAA-ATAATAAA
1 TATAAAAATATAAAAAA
* *
37532259 T-TAAAAATA-AATAAT
1 TATAAAAATATAAAAAA
*
37532274 TACAAAAATTATAAAAAA
1 TATAAAAA-TATAAAAAA
37532292 GTCATTTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
15 12 0.23
16 8 0.15
17 7 0.13
18 24 0.45
19 2 0.04
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
TATAAAAATATAAAAAA
Found at i:37535223 original size:15 final size:15
Alignment explanation
Indices: 37535200--37535237 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
37535190 TGTAAAACTA
37535200 ATGTATGGTATTTTT
1 ATGTATGGTATTTTT
*
37535215 ATGTTTGGTATTTTT
1 ATGTATGGTATTTTT
37535230 ATGCTATG
1 ATG-TATG
37535238 CTTTTATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.18, C:0.03, G:0.21, T:0.58
Consensus pattern (15 bp):
ATGTATGGTATTTTT
Found at i:37537229 original size:21 final size:21
Alignment explanation
Indices: 37537203--37537255 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
37537193 TGTTGTTTCT
* *
37537203 AATCTCACCGCTATAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
37537224 AATCTCACTGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
37537245 AATCTCACCGC
1 AATCTCACCGC
37537256 CACCGTTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:37537587 original size:20 final size:18
Alignment explanation
Indices: 37537564--37537614 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
37537554 TTTTAAAATT
*
37537564 ATTTTTATCAGTTTTTATGA
1 ATTTTTATAAG-TTTTAT-A
*
37537584 ATTTTCTAGAAGTTTTATA
1 ATTTT-TATAAGTTTTATA
37537603 ATTTTTATAAGT
1 ATTTTTATAAGT
37537615 ATACATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 6 0.22
19 6 0.22
20 11 0.41
21 4 0.15
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (18 bp):
ATTTTTATAAGTTTTATA
Found at i:37537649 original size:22 final size:21
Alignment explanation
Indices: 37537622--37537681 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
37537612 AGTATACATA
37537622 AAATTTTAATACTTTTTTTTAT
1 AAATTTTAATA-TTTTTTTTAT
* *
37537644 AAATTTT-ATAATATTTTTAT
1 AAATTTTAATATTTTTTTTAT
* *
37537664 TAATTTTAAATAATTTTT
1 AAATTTT-AATATTTTTT
37537682 ATATTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 14 0.44
21 3 0.09
22 15 0.47
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
AAATTTTAATATTTTTTTTAT
Found at i:37537662 original size:20 final size:20
Alignment explanation
Indices: 37537637--37537684 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
37537627 TTAATACTTT
37537637 TTTTTATAAATTTTATAAT-A
1 TTTTTATAAATTTTA-AATAA
*
37537657 TTTTTATTAATTTTAAATAA
1 TTTTTATAAATTTTAAATAA
37537677 TTTTTATA
1 TTTTTATA
37537685 TTTTAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTATAAATTTTAAATAA
Found at i:37542116 original size:18 final size:18
Alignment explanation
Indices: 37542093--37542132 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
37542083 TCAAACAAGG
37542093 TTAAACTTATAAAAAAAA
1 TTAAACTTATAAAAAAAA
37542111 TTAAACTTATAAAAAAAA
1 TTAAACTTATAAAAAAAA
37542129 TTAA
1 TTAA
37542133 GTCCTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAACTTATAAAAAAAA
Found at i:37546234 original size:27 final size:27
Alignment explanation
Indices: 37546177--37546235 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
37546167 ATACATCTCA
* *
37546177 TAGGGGCATATCAGTCATTTTACCATG
1 TAGGGGCATATCAATCATTTTACAATG
*
37546204 TAGGGGCATTTCAATCATTTTATCAAT-
1 TAGGGGCATATCAATCATTTTA-CAATG
37546231 TAGGG
1 TAGGG
37546236 AGTCTAGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (27 bp):
TAGGGGCATATCAATCATTTTACAATG
Found at i:37546479 original size:10 final size:10
Alignment explanation
Indices: 37546464--37546488 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
37546454 CAGCTCAGTT
37546464 TGGCCCAAAA
1 TGGCCCAAAA
37546474 TGGCCCAAAA
1 TGGCCCAAAA
37546484 TGGCC
1 TGGCC
37546489 TCGACCCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (10 bp):
TGGCCCAAAA
Found at i:37549791 original size:23 final size:23
Alignment explanation
Indices: 37549762--37549824 Score: 90
Period size: 24 Copynumber: 2.7 Consensus size: 23
37549752 TATCAACTCA
37549762 TAAGAGCTTACTGTTTCAGCACG
1 TAAGAGCTTACTGTTTCAGCACG
*
37549785 TAAGAGCTTACTGTTTTCAGCTCG
1 TAAGAGCTTACTG-TTTCAGCACG
* *
37549809 TCAGAGCTTACCGTTT
1 TAAGAGCTTACTGTTT
37549825 TAGCTCAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 16 0.44
24 20 0.56
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (23 bp):
TAAGAGCTTACTGTTTCAGCACG
Found at i:37549814 original size:24 final size:23
Alignment explanation
Indices: 37549764--37549845 Score: 96
Period size: 23 Copynumber: 3.5 Consensus size: 23
37549754 TCAACTCATA
*
37549764 AGAGCTTACTG-TTTCAGCACGT
1 AGAGCTTACTGTTTTCAGCTCGT
37549786 AAGAGCTTACTGTTTTCAGCTCGT
1 -AGAGCTTACTGTTTTCAGCTCGT
* *
37549810 CAGAGCTTACCGTTTT-AGCTCAAT
1 -AGAGCTTACTGTTTTCAGCTC-GT
37549834 AGAGCTTACTGT
1 AGAGCTTACTGT
37549846 CCATCAGCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 27 0.52
24 25 0.48
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (23 bp):
AGAGCTTACTGTTTTCAGCTCGT
Found at i:37549991 original size:19 final size:19
Alignment explanation
Indices: 37549967--37550110 Score: 98
Period size: 19 Copynumber: 7.5 Consensus size: 19
37549957 AGAAGCTATG
37549967 TGTTATATGAATGAATTAC
1 TGTTATATGAATGAATTAC
* *
37549986 TGTTATATGGATGAAATAC
1 TGTTATATGAATGAATTAC
* * *
37550005 TGTTTAGACGAATGAGTTAC
1 TG-TTATATGAATGAATTAC
*
37550025 TGTTA-AAGAATGAATTAC
1 TGTTATATGAATGAATTAC
* * *
37550043 TATTATATGGAT-ACAGTAC
1 TGTTATATGAATGA-ATTAC
* **
37550062 TGTTTAGACAAAT-AAGTTAC
1 TG-TTATATGAATGAA-TTAC
*
37550082 TGTTAT-CGAATGAATTAC
1 TGTTATATGAATGAATTAC
37550100 TGTTTATATGA
1 TG-TTATATGA
37550111 TTGATAGTGA
Statistics
Matches: 95, Mismatches: 22, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
18 26 0.27
19 41 0.43
20 28 0.29
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTTATATGAATGAATTAC
Found at i:37550063 original size:57 final size:57
Alignment explanation
Indices: 37549975--37550109 Score: 182
Period size: 57 Copynumber: 2.4 Consensus size: 57
37549965 TGTGTTATAT
* * *
37549975 GAATGAATTACTGTTATATGGATGAAATACTGTTTAGACGAATGAGTTACTGTTAAA
1 GAATGAATTACTATTATATGGATGAAATACTGTTTAGACAAATAAGTTACTGTTAAA
* **
37550032 GAATGAATTACTATTATATGGAT-ACAGTACTGTTTAGACAAATAAGTTACTGTTATC
1 GAATGAATTACTATTATATGGATGA-AATACTGTTTAGACAAATAAGTTACTGTTAAA
*
37550089 GAATGAATTACTGTTTATATG
1 GAATGAATTACT-ATTATATG
37550110 ATTGATAGTG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
56 1 0.01
57 61 0.88
58 7 0.10
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (57 bp):
GAATGAATTACTATTATATGGATGAAATACTGTTTAGACAAATAAGTTACTGTTAAA
Found at i:37565208 original size:44 final size:43
Alignment explanation
Indices: 37565089--37565217 Score: 129
Period size: 44 Copynumber: 3.0 Consensus size: 43
37565079 TCTGAACTCA
** *
37565089 TTCACCAGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCAGCATTAAAGCCTGCTAGGCTCGAAGCCCGATATCAT
* * *
37565131 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATT
1 TTCACCAGCATTAAAGCCTGCTAGGCTCGAAGCCCGAT-ATCA-T
* *
37565175 ATTCACCAGC-TTAAAGCTTGCTAGGCTCAAAGCCCGAATATCA
1 -TTCACCAGCATTAAAGCCTGCTAGGCTCGAAGCCCG-ATATCA
37565218 CCATTATAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
42 11 0.15
43 23 0.32
44 27 0.38
45 11 0.15
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
TTCACCAGCATTAAAGCCTGCTAGGCTCGAAGCCCGATATCAT
Found at i:37565367 original size:28 final size:28
Alignment explanation
Indices: 37565336--37565407 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
37565326 TTGATATTTT
*
37565336 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* *
37565364 GCACACTAAGTGCCATTCTTAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
37565392 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
37565408 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:37581911 original size:40 final size:40
Alignment explanation
Indices: 37581827--37582051 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
37581817 TTGAATGATG
* * * *
37581827 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
37581867 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37581907 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37581946 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37581986 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
37582027 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37582052 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37582073 original size:119 final size:119
Alignment explanation
Indices: 37581827--37582074 Score: 281
Period size: 119 Copynumber: 2.1 Consensus size: 119
37581817 TTGAATGATG
* *
37581827 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
37581892 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
37581946 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
37582009 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
37582066 TCC-GGTTAA
1 TCCGGGTTAA
37582075 ATTCGAAGGT
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 75 0.69
120 31 0.28
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:37589822 original size:40 final size:40
Alignment explanation
Indices: 37589738--37589961 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
37589728 TTGAATGATG
* * * *
37589738 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
37589778 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37589818 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37589857 TCCGGGTTAA-TCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37589896 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
37589937 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37589962 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 70 0.43
40 83 0.51
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37589930 original size:79 final size:80
Alignment explanation
Indices: 37589738--37589961 Score: 271
Period size: 79 Copynumber: 2.8 Consensus size: 80
37589728 TTGAATGATG
* * * * * *
37589738 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-GTTAGATCCCGAAGGCAT
*
37589801 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
37589818 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTA-ATCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAGATCCCGAAGGCATTT
*
37589881 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* *
37589896 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTA-GATCCCGAAGGCAT
37589959 TTG
64 TTG
37589962 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
77 2 0.02
78 37 0.29
79 53 0.42
80 34 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAGATCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:37589983 original size:79 final size:79
Alignment explanation
Indices: 37589738--37589994 Score: 222
Period size: 79 Copynumber: 3.3 Consensus size: 79
37589728 TTGAATGATG
* * * * * * *
37589738 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCT-A-ATCCCGAAGGCAT
** *
37589801 TTGTGCGAGAT-ACTAAT
63 TTGAACGAG-TGACTAAA
* *
37589818 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAATCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAATCCCGAAGGCATTTG
** *
37589882 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
37589896 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTA-ATCCCGAAGGCATT
*
37589960 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
37589976 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
37589995 TACGTGATTT
Statistics
Matches: 152, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
77 3 0.02
78 35 0.23
79 69 0.45
80 45 0.30
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAATCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:37605661 original size:33 final size:33
Alignment explanation
Indices: 37605624--37605690 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
37605614 ACTTGTTAAC
*
37605624 CCCAAAATCGTTACTTTTAGTCATTCGCTTTTA
1 CCCAAAATCGTTACTTCTAGTCATTCGCTTTTA
37605657 CCCAAAATCGTTACTTCTAGTCATTCGCTTTTA
1 CCCAAAATCGTTACTTCTAGTCATTCGCTTTTA
37605690 C
1 C
37605691 ACATTTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.09, T:0.40
Consensus pattern (33 bp):
CCCAAAATCGTTACTTCTAGTCATTCGCTTTTA
Found at i:37611811 original size:28 final size:28
Alignment explanation
Indices: 37611763--37611818 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
37611753 ACAAAGTGCA
*
37611763 AATAACGATAAGCACCGAAGTGCAAATT
1 AATAACGATAAGCACCAAAGTGCAAATT
* * *
37611791 AATAACGATATGCATCAAAGTGTAAATT
1 AATAACGATAAGCACCAAAGTGCAAATT
37611819 TTTACAGCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.23
Consensus pattern (28 bp):
AATAACGATAAGCACCAAAGTGCAAATT
Found at i:37614536 original size:15 final size:16
Alignment explanation
Indices: 37614516--37614545 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37614506 TAACAACTAA
37614516 TATATAAT-TATATTT
1 TATATAATATATATTT
37614531 TATATAATATATATT
1 TATATAATATATATT
37614546 ACTTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:37616189 original size:3 final size:3
Alignment explanation
Indices: 37616181--37616215 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
37616171 TAAGGATCCC
37616181 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
37616216 TCCTACAGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:37618860 original size:18 final size:21
Alignment explanation
Indices: 37618819--37618859 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
37618809 CACACACATC
37618819 TCTTCATTTCTTTCTTCCATTT
1 TCTTCATTTCTTTC-TCCATTT
37618841 TCTTCATTT-TTTC-CCATTT
1 TCTTCATTTCTTTCTCCATTT
37618860 CCTTTGTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (21 bp):
TCTTCATTTCTTTCTCCATTT
Found at i:37620684 original size:53 final size:53
Alignment explanation
Indices: 37620501--37620712 Score: 208
Period size: 53 Copynumber: 3.9 Consensus size: 53
37620491 ATTAGGGTTT
* * * * * *
37620501 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
37620555 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
37620610 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * * *
37620663 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTTTATAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAA
37620713 AGGAAAGGTA
Statistics
Matches: 126, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 48 0.38
54 38 0.30
55 40 0.32
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:37625858 original size:48 final size:48
Alignment explanation
Indices: 37625806--37625991 Score: 212
Period size: 48 Copynumber: 3.9 Consensus size: 48
37625796 TACGAAGTCT
*
37625806 CATATCAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
1 CATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACA
*
37625854 CATATCA-TCGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCACA
1 CATATCAGT-GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACA
* *** ** * * *
37625902 CATATTAACACTGATGCCATGTTCCAGACATGGTCTTACACTAGCTCT
1 CATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACA
* * * *
37625950 CATCTCTGATGCCAATGTCATGTCCCTGACATGGTCTTACAC
1 CATATCAG-TGCCAATGCCATGTCCCAGACATGGTCTTACAC
37625992 GGGATCTCAT
Statistics
Matches: 113, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
47 1 0.01
48 86 0.76
49 26 0.23
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (48 bp):
CATATCAGTGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCACA
Found at i:37632436 original size:48 final size:48
Alignment explanation
Indices: 37632384--37632617 Score: 261
Period size: 48 Copynumber: 4.9 Consensus size: 48
37632374 TACGAAGTCT
** * * *
37632384 CATATCAGTGCCGATGCCATGTCCCAGACATGGTCTTACATTGGAAAA
1 CATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
* *
37632432 CATATCAATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCACA
1 CATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
* * * **
37632480 CATATCAACGCCTATGCTATGTCGCAGACATGGTCTTACACTACCACA
1 CATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
* * * *
37632528 CATATCAACGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCT
1 CATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
* * * * * *
37632576 CATCTCGGATGCCTATGCCATGTCCTAGACATGGTCCTACAC
1 CATATC-AACGCCGATGCCATGTCCCAGACATGGTCTTACAC
37632618 GGGATCTCAT
Statistics
Matches: 160, Mismatches: 25, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
48 131 0.82
49 29 0.18
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
CATATCAACGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
Found at i:37634452 original size:20 final size:20
Alignment explanation
Indices: 37634416--37634453 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
37634406 TCACTTTTTA
*
37634416 AAAAAGAAAGAAGAAGAAGC
1 AAAAAGAAAGAAAAAGAAGC
37634436 AAAAAGAAA-ACAAAAGAA
1 AAAAAGAAAGA-AAAAGAA
37634454 AAAACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.76, C:0.05, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAGAAAAAGAAGC
Found at i:37634519 original size:17 final size:17
Alignment explanation
Indices: 37634485--37634537 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
37634475 TAGAAAGAGG
*
37634485 AAAA-AAATAAAATCAAT
1 AAAAGAAATAAAA-AAAT
* *
37634502 AAAATAAATAAACAAAT
1 AAAAGAAATAAAAAAAT
*
37634519 AAAAGATATAAAAAAAT
1 AAAAGAAATAAAAAAAT
37634536 AA
1 AA
37634538 TTATAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 23 0.77
18 7 0.23
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAAGAAATAAAAAAAT
Found at i:37638268 original size:13 final size:13
Alignment explanation
Indices: 37638252--37638277 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37638242 ATGATTCAGG
37638252 TAGGAGATTAGCA
1 TAGGAGATTAGCA
37638265 TAGGAGATTAGCA
1 TAGGAGATTAGCA
37638278 AGAAAATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
TAGGAGATTAGCA
Found at i:37644470 original size:30 final size:30
Alignment explanation
Indices: 37644434--37644508 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
37644424 ACGGCCTAAG
* *
37644434 ACACGGGCTTGTGTCTCAGCCGTGTGTGAC
1 ACACGGGCTTGTGTCTCAACCATGTGTGAC
**
37644464 ACACGGGGGTGTGTCTCAACCATGTGTGAC
1 ACACGGGCTTGTGTCTCAACCATGTGTGAC
*
37644494 ACACGGCCTTGTGTC
1 ACACGGGCTTGTGTC
37644509 CCCTATAGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.16, C:0.27, G:0.32, T:0.25
Consensus pattern (30 bp):
ACACGGGCTTGTGTCTCAACCATGTGTGAC
Found at i:37650098 original size:46 final size:47
Alignment explanation
Indices: 37650031--37650251 Score: 200
Period size: 48 Copynumber: 4.7 Consensus size: 47
37650021 TATGTGTGCT
*
37650031 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCTCAGTATGAGAGCC
* *
37650077 AGTGTAAGACATGTCCGGGACATGCATCAGC-CTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCTC-AG-TA-TGAGAGCC
* * * * * ** *
37650125 AGTGTAAGACATGTTTAGGACATGCATCGGCTTTGAG-ACAAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCTCAGTATGAGAGCC
* * * * *
37650171 AGCGTAAGACACGTCTGGGACATGCATCAGCCTCGCAGTA-GACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTCTCAGTATGA-GAGCC
*
37650219 AGTGTAAGACTTGTCTGGGACATGGCATCAGCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCT
37650252 TGTCGTGTGT
Statistics
Matches: 141, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 61 0.43
47 7 0.05
48 62 0.44
49 10 0.07
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTCTCAGTATGAGAGCC
Found at i:37650137 original size:48 final size:46
Alignment explanation
Indices: 37650031--37650250 Score: 212
Period size: 46 Copynumber: 4.7 Consensus size: 46
37650021 TATGTGTGCT
*
37650031 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTAT-AGAGCC
*
37650077 AGTGTAAGACATGTCCGGGACATGCATCAGCCTCGAGATATTTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAG-TA--TAGAGCC
* * * * * * *
37650125 AGTGTAAGACATGTTTAGGACATGCATCGGCTTTGAG-ACAAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTA-TAGAGCC
* * * * *
37650171 AGCGTAAGACACGTCTGGGACATGCATCAGCCTCGCAGTAGACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCG-AGTATA-GAGCC
*
37650219 AGTGTAAGACTTGTCTGGGACATGGCATCAGC
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGC
37650251 TTGTCGTGTG
Statistics
Matches: 142, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 64 0.45
47 5 0.04
48 62 0.44
49 9 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGTATAGAGCC
Found at i:37650223 original size:94 final size:95
Alignment explanation
Indices: 37650031--37650252 Score: 236
Period size: 94 Copynumber: 2.4 Consensus size: 95
37650021 TATGTGTGCT
* *** ** * *
37650031 AGTGTAAGACATGTCTGGGACAT-GCATCAGC-CACAGTATGAGAGCCAGTGTAAGACATGTCCG
1 AGTGTAAGACATGTCTAGGACATGGCATCAGCTTTGAG-ACAAGAGCCAGCGTAAGACACGTCCG
***
37650094 GGACATGCATCAGCCTCGAGATATTTAAGCC
65 GGACATGCATCAGCCTCGAGATAGACAAGCC
* * * *
37650125 AGTGTAAGACATGTTTAGGACAT-GCATCGGCTTTGAGACAAGAGCTAGCGTAAGACACGTCTGG
1 AGTGTAAGACATGTCTAGGACATGGCATCAGCTTTGAGACAAGAGCCAGCGTAAGACACGTCCGG
*
37650189 GACATGCATCAGCCTCGCAG-TAGACAAGCT
66 GACATGCATCAGCCTCG-AGATAGACAAGCC
* *
37650219 AGTGTAAGACTTGTCTGGGACATGGCATCAGCTT
1 AGTGTAAGACATGTCTAGGACATGGCATCAGCTT
37650253 GTCGTGTGTT
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
94 92 0.88
95 13 0.12
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (95 bp):
AGTGTAAGACATGTCTAGGACATGGCATCAGCTTTGAGACAAGAGCCAGCGTAAGACACGTCCGG
GACATGCATCAGCCTCGAGATAGACAAGCC
Found at i:37655684 original size:19 final size:20
Alignment explanation
Indices: 37655660--37655697 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
37655650 GGTACCACCA
37655660 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
37655679 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
37655698 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:37656086 original size:93 final size:93
Alignment explanation
Indices: 37655927--37656097 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
37655917 GCCCCTAAGT
* * *
37655927 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
37655992 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
37656020 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
37656085 CGAGTTCGGATGC
66 CGAGTTCGGATGC
37656098 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:37656094 original size:46 final size:46
Alignment explanation
Indices: 37655922--37656094 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
37655912 AACCCGCCCC
* * * * *
37655922 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
37655968 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
37656016 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
37656061 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37656095 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:37656551 original size:30 final size:30
Alignment explanation
Indices: 37656517--37656576 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
37656507 ATTTAATACG
37656517 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
37656547 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
37656577 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:37661989 original size:46 final size:47
Alignment explanation
Indices: 37661935--37662056 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 47
37661925 TGTGTGCTAG
* * **
37661935 TGTAAGACATGTCTGGGAAATGCATCAGCCA-CAATATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCAGCCATCAAGACAAGAGCCAA
* * * * *
37661981 TGTAAGACATGTCTGGGACATCCATC-GCCATCGAGACAAGATCTAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCATCAAGACAAGAGCCAA
*
37662027 CGTAAGACATGTCTGGGACATGCATCAGCC
1 TGTAAGACATGTCTGGGACATGCATCAGCC
37662057 TCACGGTAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
45 4 0.06
46 56 0.89
47 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCATCAAGACAAGAGCCAA
Found at i:37662176 original size:49 final size:49
Alignment explanation
Indices: 37662117--37662239 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 49
37662107 GTCGTGTGCT
* *
37662117 AGTGTAAGACCTGTCTGGGACATGGCATCAACAC-CAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAAC-CTCAATACATGAAAGCC
* * * **
37662166 AGTGTAAGACCTATCTGAGACATGGCATCATCCTCGCTACATGAAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCAACCTCAATACATGAAAGCC
37662215 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACC-TGTCTGGGACATG
37662240 ACGTTGGCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 51 0.81
50 11 0.17
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCAACCTCAATACATGAAAGCC
Found at i:37662188 original size:93 final size:96
Alignment explanation
Indices: 37662023--37662239 Score: 223
Period size: 93 Copynumber: 2.3 Consensus size: 96
37662013 GAGACAAGAT
* * * * * *
37662023 CTAGCGTAAGACATGTCTGGGACAT-GCATCAGCCTCACGGTAGATAAGCTAGTGTAAGACCTGT
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCAC-ATAGATAAGCCAGTGTAAGACCTAT
* * * * *
37662087 TTGGGACATGGCGTCAT-CTCG-T-CGTG-TG
65 CTGAGACATGGCATCATCCTCGCTACATGAAG
37662115 CTAGTGTAAGACCTGTCTGGGACATGGCATCAACAC-CA-ATAGATGAGAGCCAGTGTAAGACCT
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCAAC-CTCACATAGAT-A-AGCCAGTGTAAGACCT
37662178 ATCTGAGACATGGCATCATCCTCGCTACATGAAAG
63 ATCTGAGACATGGCATCATCCTCGCTACATG-AAG
*
37662213 CCAGTGTAAGACCATGTCTGGGACATG
1 CTAGTGTAAGACC-TGTCTGGGACATG
37662240 ACGTTGGCAT
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
91 5 0.05
92 24 0.23
93 39 0.38
94 5 0.05
95 1 0.01
96 3 0.03
98 13 0.13
99 13 0.13
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (96 bp):
CTAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCACATAGATAAGCCAGTGTAAGACCTATC
TGAGACATGGCATCATCCTCGCTACATGAAG
Found at i:37664073 original size:70 final size:71
Alignment explanation
Indices: 37663975--37664125 Score: 180
Period size: 70 Copynumber: 2.1 Consensus size: 71
37663965 AGTATTGCAC
* * * * *
37663975 CCAGCGCTAGTCGGATAAATCGATGATAGATGTGCCCTTCACTAGCCAAATAAACTTACAACATC
1 CCAGTGCTAGTCAGATAAATCGAAGATAGATGTGCCCTGCACTAGCCAAATAAACTGACAACATC
37664040 TTGTG-
66 TTGTGT
* *** *
37664045 CCAGTGCTAGTCAGATAAA-CTGAAGATAGGTGTGCCCTGCACTAGTTTAATAAACTGACACCAT
1 CCAGTGCTAGTCAGATAAATC-GAAGATAGATGTGCCCTGCACTAGCCAAATAAACTGACAACAT
37664109 CTTGTGT
65 CTTGTGT
*
37664116 CCAGTTCTAG
1 CCAGTGCTAG
37664126 GCGAATAAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
69 1 0.01
70 58 0.85
71 9 0.13
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (71 bp):
CCAGTGCTAGTCAGATAAATCGAAGATAGATGTGCCCTGCACTAGCCAAATAAACTGACAACATC
TTGTGT
Found at i:37668017 original size:37 final size:37
Alignment explanation
Indices: 37667964--37668035 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
37667954 TGTCGTGGCA
*
37667964 TGTTATCGGTTAGATTAGCTCTTATAAGCGATTGGTG
1 TGTTATCGGGTAGATTAGCTCTTATAAGCGATTGGTG
*
37668001 TGTTATCGGGTGGATTAGCTCTTATAAGCGATTGG
1 TGTTATCGGGTAGATTAGCTCTTATAAGCGATTGG
37668036 CATGTTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (37 bp):
TGTTATCGGGTAGATTAGCTCTTATAAGCGATTGGTG
Found at i:37672299 original size:37 final size:37
Alignment explanation
Indices: 37672258--37672355 Score: 178
Period size: 37 Copynumber: 2.6 Consensus size: 37
37672248 AGTTCCCGCG
*
37672258 CGTAGTTATCGGGTCTTACCCGGACAAAATCTCCACA
1 CGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACA
*
37672295 CGTAGTCATCGGGTCTTACCCGGACATAATCTCCACA
1 CGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACA
37672332 CGTAGTCATCGGGTCTTACCCGGA
1 CGTAGTCATCGGGTCTTACCCGGA
37672356 ATATATTTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (37 bp):
CGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACA
Found at i:37672554 original size:48 final size:48
Alignment explanation
Indices: 37672496--37672632 Score: 238
Period size: 48 Copynumber: 2.9 Consensus size: 48
37672486 ATATACACAC
*
37672496 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
37672544 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
37672592 ATCTCATACATATTTCATATTAGTCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
37672633 CACATATATA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:37677532 original size:216 final size:216
Alignment explanation
Indices: 37677158--37677560 Score: 689
Period size: 216 Copynumber: 1.9 Consensus size: 216
37677148 ACCTTAGTTT
* *
37677158 CATATTACTCTTAGTCTTGTAATTGTGATAGATTTACCCAAACTTTATTTTATACTTGGATTAAG
1 CATATTACTCTTAGTCTTGTAATTATGATAGATATACCCAAACTTTATTTTATACTTGGATTAAG
37677223 GGTAAGGGTCATTGGCGATCATGACATCTATCGATGAACATATATGCTCATAGTTTTGCTTTACC
66 GGTAAGGGTCATTGGCGATCATGACATCTATCGATGAACATATATGCTCATAGTTTTGCTTTACC
* *
37677288 TAGAGCATTGATTTGGTTGAGTATGAAACTCATAGTGATTGGCATTATAAGTGTTTTATCATGCT
131 TAGAGCATTGATTTGGTTGAGTATGAAACTCATAGTGATTAGCAATATAAGTGTTTTATCATGCT
37677353 AAGCATGGTTTTTGATTATTC
196 AAGCATGGTTTTTGATTATTC
* * ** * *
37677374 CATATTACTTTTAGTCTTGTAATTATGATGGATATGTCCTAACTTTATTTTATACTTGGCTTAAG
1 CATATTACTCTTAGTCTTGTAATTATGATAGATATACCCAAACTTTATTTTATACTTGGATTAAG
* * *
37677439 GTTAAGGGTCATTGGTGATCATGACATCTATCGATGAACATTTATGCTCATAGTTTTGCTTTACC
66 GGTAAGGGTCATTGGCGATCATGACATCTATCGATGAACATATATGCTCATAGTTTTGCTTTACC
37677504 TAGAGCATTGATTTGGTTGAGTATGAAACTCATAGTGATTAGCAATATAAGTGTTTT
131 TAGAGCATTGATTTGGTTGAGTATGAAACTCATAGTGATTAGCAATATAAGTGTTTT
37677561 GCTATTCTAA
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
216 174 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (216 bp):
CATATTACTCTTAGTCTTGTAATTATGATAGATATACCCAAACTTTATTTTATACTTGGATTAAG
GGTAAGGGTCATTGGCGATCATGACATCTATCGATGAACATATATGCTCATAGTTTTGCTTTACC
TAGAGCATTGATTTGGTTGAGTATGAAACTCATAGTGATTAGCAATATAAGTGTTTTATCATGCT
AAGCATGGTTTTTGATTATTC
Found at i:37678968 original size:46 final size:46
Alignment explanation
Indices: 37678914--37679087 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
37678904 TGGTTGAGCA
* *
37678914 TCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
37678960 TCCAAACTCGTTGAGTT-AGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
37679006 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
37679052 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCGCTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
37679088 AGCGGGTTAC
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
42 6 0.06
44 3 0.03
45 11 0.11
46 63 0.62
47 11 0.11
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:37679068 original size:92 final size:93
Alignment explanation
Indices: 37678911--37679081 Score: 263
Period size: 92 Copynumber: 1.8 Consensus size: 93
37678901 GGATGGTTGA
* * *
37678911 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCAAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTCATGGATGCAAACGCCCAAACTCGTTGAGT
37678976 T-AGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
37679003 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTCATGGATGCAAACGCCCAAACTCGTTGAGT
37679068 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37679082 CTTATGAGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 58 0.83
93 12 0.17
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTCATGGATGCAAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37685388 original size:20 final size:20
Alignment explanation
Indices: 37685363--37685408 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
37685353 CTTATAACTT
*
37685363 AAAATCTAAACATTTTAGTC
1 AAAATCTAAACATTTTAATC
*
37685383 AAAATCTAACCATTTTAATC
1 AAAATCTAAACATTTTAATC
37685403 AAAATC
1 AAAATC
37685409 CATGTTAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.17, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAATCTAAACATTTTAATC
Found at i:37687756 original size:24 final size:24
Alignment explanation
Indices: 37687724--37687787 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
37687714 TCTTACTTAT
37687724 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTTTTC
*
37687748 TCGCACACATAGTGCCACTTTTTC
1 TCGCACACATAGTGCCACGTTTTC
37687772 TCGCACACATAGTGCC
1 TCGCACACATAGTGCC
37687788 GCATAACCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.22, C:0.34, G:0.16, T:0.28
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTTTTC
Found at i:37687819 original size:48 final size:48
Alignment explanation
Indices: 37687700--37687820 Score: 120
Period size: 48 Copynumber: 2.5 Consensus size: 48
37687690 TTTGAAAGTC
* * ***
37687700 TGCACACATAGTGCTCTTACTTAT-TCGCACACATAGTGCCACGTTTTCT
1 TGCACACATAGTGCTC-TA-TTTTCTCGCACACATAGTGCCACATAACCT
* * *
37687749 CGCACACATAGTGCCACT-TTTTCTCGCACACATAGTGCCGCATAACCT
1 TGCACACATAGTG-CTCTATTTTCTCGCACACATAGTGCCACATAACCT
*
37687797 TGCACACATAGTGCTGTATTTTCT
1 TGCACACATAGTGCTCTATTTTCT
37687821 TATCTATAGC
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
47 5 0.09
48 38 0.66
49 13 0.22
50 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (48 bp):
TGCACACATAGTGCTCTATTTTCTCGCACACATAGTGCCACATAACCT
Found at i:37698247 original size:25 final size:24
Alignment explanation
Indices: 37698214--37698300 Score: 106
Period size: 24 Copynumber: 3.6 Consensus size: 24
37698204 TTGAAAGTCT
37698214 GCACACATAGTGCTCTTAC-TTAT-TC
1 GCACACATAGTGC-C--ACGTTATCTC
*
37698239 GCACACATAGTGCCACGTTTTCTC
1 GCACACATAGTGCCACGTTATCTC
* *
37698263 GCACACATAGTGCCATGTAATCTC
1 GCACACATAGTGCCACGTTATCTC
37698287 GCACACATAGTGCC
1 GCACACATAGTGCC
37698301 GCATAGCCTT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
22 2 0.04
23 3 0.05
24 38 0.68
25 13 0.23
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (24 bp):
GCACACATAGTGCCACGTTATCTC
Found at i:37698269 original size:24 final size:24
Alignment explanation
Indices: 37698237--37698323 Score: 102
Period size: 24 Copynumber: 3.6 Consensus size: 24
37698227 TCTTACTTAT
**
37698237 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTAATC
*
37698261 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTAATC
* * **
37698285 TCGCACACATAGTGCCGCATAGCC
1 TCGCACACATAGTGCCACGTAATC
*
37698309 TTGCACACATAGTGC
1 TCGCACACATAGTGC
37698324 TGTATTTTCT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.24
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTAATC
Found at i:37707854 original size:28 final size:28
Alignment explanation
Indices: 37707821--37707880 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
37707811 TAAAAAGGGC
37707821 TAGTTTGCCAAGTTGTAAGATAAGGTGT
1 TAGTTTGCCAAGTTGTAAGATAAGGTGT
37707849 TAGTTTGCCAAGTTGTAAGATAAGGTGT
1 TAGTTTGCCAAGTTGTAAGATAAGGTGT
37707877 TAGT
1 TAGT
37707881 GTTTGTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.37
Consensus pattern (28 bp):
TAGTTTGCCAAGTTGTAAGATAAGGTGT
Found at i:37711092 original size:46 final size:46
Alignment explanation
Indices: 37711039--37711443 Score: 521
Period size: 46 Copynumber: 8.8 Consensus size: 46
37711029 AGTGTGCTCT
* * *
37711039 CTGATATGGAATGTGTAAGACCATGGTTGAAAAATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
37711085 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
37711131 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
37711177 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
37711223 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
37711269 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
37711315 ATG--ACGAAGATAAATAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAA-ATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
37711360 ATGACGA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGA-TATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
37711407 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
37711444 TATGACATCA
Statistics
Matches: 330, Mismatches: 24, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
44 4 0.01
45 36 0.11
46 248 0.75
47 39 0.12
48 3 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:37713952 original size:19 final size:19
Alignment explanation
Indices: 37713928--37714015 Score: 176
Period size: 19 Copynumber: 4.6 Consensus size: 19
37713918 TGGGTTCGGG
37713928 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
37713947 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
37713966 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
37713985 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
37714004 ACACGGGCGTGT
1 ACACGGGCGTGT
37714016 GCTCTATACC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (19 bp):
ACACGGGCGTGTCCCTAGC
Found at i:37716741 original size:46 final size:46
Alignment explanation
Indices: 37716597--37716850 Score: 221
Period size: 46 Copynumber: 5.4 Consensus size: 46
37716587 TTTGTGATCT
* * * *
37716597 AGTGTAAGACATGTCTGGGACATGCATTGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGAGCC
* * * *
37716643 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGAGCC
*
37716691 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGCC
* * * *
37716737 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAAATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGAGCC
* * * * *
37716783 AATGTAAGACCGTGTCTGGGACATGGCATC-GACTTGAGA-TATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA-GAGCC
*
37716830 AGTGTAAGACCGTGTCTGGGA
1 AGTGTAAGA-CATGTCTGGGA
37716851 TATAGAATCG
Statistics
Matches: 173, Mismatches: 25, Indels: 19
0.80 0.12 0.09
Matches are distributed among these distances:
45 3 0.02
46 73 0.42
47 66 0.38
48 30 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGCC
Found at i:37716805 original size:93 final size:94
Alignment explanation
Indices: 37716639--37716850 Score: 227
Period size: 93 Copynumber: 2.3 Consensus size: 94
37716629 ACATTATGAG
* * * *
37716639 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAACGAGAGCTAATGTAAGACATG
* *
37716704 TCTAGGACAT-GCATCGGCCTCGAGACGTA
66 TCTAGGACATGGCATC-GACTCGAGACATA
* *
37716733 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAAATGATAG-TCAATGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAAACGAGAGCT-AATGTAAGA-C
* * * * *
37716794 GTGTCTGGGACATGGCATCGACTTGAGATATG
63 ATGTCTAGGACATGGCATCGACTCGAGACATA
*
37716826 AGCCAGTGTAAGACCGTGTCTGGGA
1 AGCCAGTGTAAGACCATGTCTGGGA
37716851 TATAGAATCG
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
91 2 0.02
92 23 0.23
93 46 0.46
94 28 0.28
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAACGAGAGCTAATGTAAGACATG
TCTAGGACATGGCATCGACTCGAGACATA
Found at i:37720142 original size:36 final size:36
Alignment explanation
Indices: 37720095--37720165 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
37720085 AGTAAACTCT
* *
37720095 ATTCAGTTCAGCAATCTTTT-GGATCTATTCTAACTG
1 ATTCAGTTCAGC-AGCTTTTCAGATCTATTCTAACTG
37720131 ATTCAGTTCAGCAGCTTTTCAGATCTATTCTAACT
1 ATTCAGTTCAGCAGCTTTTCAGATCTATTCTAACT
37720166 TATGTGCTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (36 bp):
ATTCAGTTCAGCAGCTTTTCAGATCTATTCTAACTG
Found at i:37724456 original size:20 final size:18
Alignment explanation
Indices: 37724431--37724481 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
37724421 GTGGGGAGGG
37724431 ATTAATTTATTTTTATATAA
1 ATTAATTT-TTTTTATA-AA
*
37724451 ATTAATTTGTTTTATAAA
1 ATTAATTTTTTTTATAAA
*
37724469 GTTAATTTTTTTT
1 ATTAATTTTTTTT
37724482 TCAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 13 0.46
19 7 0.25
20 8 0.29
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (18 bp):
ATTAATTTTTTTTATAAA
Found at i:37724468 original size:17 final size:17
Alignment explanation
Indices: 37724439--37724480 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
37724429 GGATTAATTT
*
37724439 ATTTTTATATAAA-TTA
1 ATTTTTTTATAAAGTTA
37724455 ATTTGTTTTATAAAGTTA
1 ATTT-TTTTATAAAGTTA
37724473 ATTTTTTT
1 ATTTTTTT
37724481 TTCAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 12 0.52
18 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
ATTTTTTTATAAAGTTA
Found at i:37724475 original size:18 final size:16
Alignment explanation
Indices: 37724434--37724480 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
37724424 GGGAGGGATT
* *
37724434 AATTTATTTTTATATA
1 AATTAATTTTTTTATA
37724450 AATTAATTTGTTTTATA
1 AATTAATTT-TTTTATA
37724467 AAGTTAATTTTTTT
1 AA-TTAATTTTTTT
37724481 TTCAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 8 0.30
17 12 0.44
18 7 0.26
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (16 bp):
AATTAATTTTTTTATA
Found at i:37728827 original size:45 final size:45
Alignment explanation
Indices: 37728751--37728925 Score: 226
Period size: 45 Copynumber: 3.9 Consensus size: 45
37728741 CTTTCCTTTC
** * * *
37728751 TGGCTGTGCAGCCTTTTTGGAATGACCCTCATCAGGAATAGTCTT
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
* ** * *
37728796 TGACTGTGCAGCCTTTTTGGATTGACTCTCATCAGGTATACTTTT
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
*
37728841 TGGCTGTGCAGCCTTTTCAG-ATCGACTCCCATCAGGTATACTCTT
1 TGGCTGTGCAGCCTTTTCAGAAT-GACTCTCATCAGGTATACTCTT
*
37728886 TGGCTGAGCAGCCTTTTCAGAATGACTCTCATCAGGTATA
1 TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATA
37728926 GACCCACTTG
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.01
45 111 0.97
46 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (45 bp):
TGGCTGTGCAGCCTTTTCAGAATGACTCTCATCAGGTATACTCTT
Found at i:37729705 original size:47 final size:48
Alignment explanation
Indices: 37729653--37729748 Score: 151
Period size: 47 Copynumber: 2.0 Consensus size: 48
37729643 ATTAAGGAGA
37729653 ATAAATCAGTTATAACTTCAATGAAG-A-CATAACAGATTTTATTAAGC
1 ATAAATCAGTTATAACTTCAATGAAGAAGCATAACAGATTTTA-TAAGC
*
37729700 ATAAATCAGTTGTAACTTCAATGAAGAAGGCATAACAGATTTTATAAGC
1 ATAAATCAGTTATAACTTCAATGAAGAA-GCATAACAGATTTTATAAGC
37729749 CAACGACACA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 25 0.56
48 1 0.02
49 5 0.11
50 14 0.31
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (48 bp):
ATAAATCAGTTATAACTTCAATGAAGAAGCATAACAGATTTTATAAGC
Found at i:37731780 original size:94 final size:94
Alignment explanation
Indices: 37731619--37731811 Score: 341
Period size: 94 Copynumber: 2.1 Consensus size: 94
37731609 AAAAAGCATC
* * *
37731619 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGTTATTAAACTATTAGAGTACCTAAAATAT
1 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCAAAAATAT
37731684 TAAGACAATCAGTCAGTTGTAGCATGATT
66 TAAGACAATCAGTCAGTTGTAGCATGATT
* *
37731713 CACTAACATGCACTAGTGTAAGGTAGAGCACAAAGGATATTAAACTATTAGAGCACCAAAAATAT
1 CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCAAAAATAT
37731778 TAAGACAATCAGTCAGTTGTAGCATGATT
66 TAAGACAATCAGTCAGTTGTAGCATGATT
37731807 CACTA
1 CACTA
37731812 GTCACAAAAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (94 bp):
CACTAACATGCACTAGCGTAAGGTAGAACACAAAGGATATTAAACTATTAGAGCACCAAAAATAT
TAAGACAATCAGTCAGTTGTAGCATGATT
Found at i:37733962 original size:22 final size:22
Alignment explanation
Indices: 37733932--37733986 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
37733922 ATATATACCT
*
37733932 AATAGAATTAATTCCAAAATTA
1 AATAAAATTAATTCCAAAATTA
*
37733954 AATAAAATTCATTCCAAAATTA
1 AATAAAATTAATTCCAAAATTA
37733976 AACT-AAATTAA
1 AA-TAAAATTAA
37733987 AAATATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (22 bp):
AATAAAATTAATTCCAAAATTA
Found at i:37734484 original size:8 final size:7
Alignment explanation
Indices: 37734459--37734503 Score: 51
Period size: 6 Copynumber: 6.6 Consensus size: 7
37734449 ATATTCCAAA
37734459 TTTTTA-
1 TTTTTAT
37734465 TTTTTA-
1 TTTTTAT
37734471 TTTTTACT
1 TTTTTA-T
37734479 TTTTTATT
1 TTTTTA-T
37734487 TTTTTAT
1 TTTTTAT
37734494 TTTTT-T
1 TTTTTAT
37734500 TTTT
1 TTTT
37734504 GAAATAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 17 0.47
7 6 0.17
8 13 0.36
ACGTcount: A:0.11, C:0.02, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:37734492 original size:16 final size:14
Alignment explanation
Indices: 37734465--37734503 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
37734455 CAAATTTTTA
*
37734465 TTTTTATTTTTACTT
1 TTTTTTTTTTTA-TT
37734480 TTTTATTTTTTTATT
1 TTTT-TTTTTTTATT
37734495 TTTTTTTTT
1 TTTTTTTTT
37734504 GAAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 10 0.45
16 7 0.32
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTTTATT
Found at i:37735122 original size:45 final size:45
Alignment explanation
Indices: 37735072--37735179 Score: 155
Period size: 45 Copynumber: 2.4 Consensus size: 45
37735062 AGCAGCAGCA
* * *
37735072 GTAACAGTAACAATAACAGTATTCAACACACAAAGTG-CTGAATCT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-AAATCG
* *
37735117 GTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCAAATCG
1 GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATCG
37735162 GTAACAGTAACAGTAACA
1 GTAACAGTAACAGTAACA
37735180 ATAGTCGGCA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 55 0.98
46 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAATCG
Found at i:37736288 original size:3 final size:3
Alignment explanation
Indices: 37736280--37736304 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37736270 TATTAACTTT
37736280 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
37736305 ATATCTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:37736579 original size:20 final size:20
Alignment explanation
Indices: 37736556--37736610 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
37736546 TTATTTTTAA
37736556 TAATAATAATAATCATAATT
1 TAATAATAATAATCATAATT
*
37736576 TAATAAT-ATAAATTATAATT
1 TAATAATAAT-AATCATAATT
37736596 TAATAGAATAATAAT
1 TAAT--AATAATAAT
37736611 AAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 20 0.67
22 6 0.20
23 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATAATAATAATCATAATT
Found at i:37741118 original size:26 final size:26
Alignment explanation
Indices: 37741089--37741142 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
37741079 ATCCTCTCTC
37741089 GAGCCATATAA-CAGGAAACTCACAAA
1 GAGCCAT-TAATCAGGAAACTCACAAA
* *
37741115 GAGCCATTAATCAGGGAGCTCACAAA
1 GAGCCATTAATCAGGAAACTCACAAA
37741141 GA
1 GA
37741143 TCCTATCGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.13
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAACTCACAAA
Found at i:37741204 original size:25 final size:24
Alignment explanation
Indices: 37741176--37741252 Score: 64
Period size: 26 Copynumber: 3.0 Consensus size: 24
37741166 CTATATAACG
37741176 GGAAGCTCACACAGAGCCATAATCA
1 GGAAGCTCACA-AGAGCCATAATCA
* * **
37741201 GGAAGTTCACATAGAACTTTTAATCA
1 GGAAGCTCACA-AGAGC-CATAATCA
*
37741227 GGAAGCTCATGAAGAGCCATTAATCA
1 GGAAGCTCA-CAAGAGCCA-TAATCA
37741253 AGAGCTTCAG
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
25 14 0.36
26 24 0.62
27 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (24 bp):
GGAAGCTCACAAGAGCCATAATCA
Found at i:37744140 original size:16 final size:16
Alignment explanation
Indices: 37744116--37744155 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
37744106 ATGTGAATAA
37744116 TATTATTAAAAATTAT
1 TATTATTAAAAATTAT
*
37744132 TATT-TT-TAAATT-T
1 TATTATTAAAAATTAT
37744145 TATTATTAAAA
1 TATTATTAAAA
37744156 TAAAATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 5
0.74 0.07 0.19
Matches are distributed among these distances:
13 5 0.25
14 7 0.35
15 4 0.20
16 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTATTAAAAATTAT
Found at i:37744300 original size:9 final size:9
Alignment explanation
Indices: 37744275--37744304 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
37744265 TGAAAAATAT
37744275 AATATTTTA
1 AATATTTTA
37744284 AATAATTTTA
1 AAT-ATTTTA
37744294 AATATTTTA
1 AATATTTTA
37744303 AA
1 AA
37744305 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATATTTTA
Found at i:37745869 original size:18 final size:18
Alignment explanation
Indices: 37745839--37745876 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
37745829 CCTTTTCAAG
*
37745839 TACATATACAAATATAAA
1 TACATATACAAATACAAA
37745857 TACA-ATACAAAATACAAA
1 TACATATAC-AAATACAAA
37745875 TA
1 TA
37745877 ATACGATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.24
Consensus pattern (18 bp):
TACATATACAAATACAAA
Found at i:37747899 original size:23 final size:24
Alignment explanation
Indices: 37747873--37747918 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
37747863 AAGGAAGAAG
*
37747873 ATAAGAAAA-AAGAATAAAAAAAA
1 ATAAGAAAAGAAAAATAAAAAAAA
*
37747896 ATAAGAAAAGAAAAATATAAAAA
1 ATAAGAAAAGAAAAATAAAAAAA
37747919 TAATTAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (24 bp):
ATAAGAAAAGAAAAATAAAAAAAA
Found at i:37748649 original size:19 final size:19
Alignment explanation
Indices: 37748604--37748664 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
37748594 ATCTAATTAC
37748604 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
37748625 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
37748644 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
37748663 AA
1 AA
37748665 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:37748939 original size:13 final size:13
Alignment explanation
Indices: 37748900--37748944 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
37748890 AAATTTTTCC
*
37748900 AAAGCACTTCTCG
1 AAAGCACTTCTCA
* *
37748913 AAAGTAATTCTCA
1 AAAGCACTTCTCA
*
37748926 AAAGCACTTTTCA
1 AAAGCACTTCTCA
37748939 AAAGCA
1 AAAGCA
37748945 ACGAAGAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.24
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:37752828 original size:66 final size:66
Alignment explanation
Indices: 37752747--37752873 Score: 254
Period size: 66 Copynumber: 1.9 Consensus size: 66
37752737 GAAATTGTGC
37752747 AACCTAAAGAAGGGTGGAGTTTGGTATTTAGGCAACTAACTAAATTTAATGTTGTTTTTCTGGAA
1 AACCTAAAGAAGGGTGGAGTTTGGTATTTAGGCAACTAACTAAATTTAATGTTGTTTTTCTGGAA
37752812 A
66 A
37752813 AACCTAAAGAAGGGTGGAGTTTGGTATTTAGGCAACTAACTAAATTTAATGTTGTTTTTCT
1 AACCTAAAGAAGGGTGGAGTTTGGTATTTAGGCAACTAACTAAATTTAATGTTGTTTTTCT
37752874 AAAAAAACAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (66 bp):
AACCTAAAGAAGGGTGGAGTTTGGTATTTAGGCAACTAACTAAATTTAATGTTGTTTTTCTGGAA
A
Found at i:37752897 original size:60 final size:60
Alignment explanation
Indices: 37752756--37752899 Score: 193
Period size: 66 Copynumber: 2.3 Consensus size: 60
37752746 CAACCTAAAG
37752756 AAGGGTGGAGTTTGGTATTTAGGCAACTAACTAAATTTAATGTTGTTTTTCTGGAAAAACCTAAA
1 AAGGGTGGAGTTTGGTATTTAGGCAACTAACTAAATTTAATGTTGTTTTTCT-GAAAAA-C---A
37752821 GAAGGGTGGAGTTTGGTATTTAGGCAACTAACTAAATTTAATGTTGTTTTTCT-AAAAA-A
1 -AAGGGTGGAGTTTGGTATTTAGGCAACTAACTAAATTTAATGTTGTTTTTCTGAAAAACA
*
37752880 ACAGGGTTGGAGGTTGGTAT
1 A-AGGG-TGGAGTTTGGTAT
37752900 GCAATCCTAC
Statistics
Matches: 75, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
58 1 0.01
59 5 0.07
60 12 0.16
64 5 0.07
66 52 0.69
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (60 bp):
AAGGGTGGAGTTTGGTATTTAGGCAACTAACTAAATTTAATGTTGTTTTTCTGAAAAACA
Found at i:37760271 original size:16 final size:16
Alignment explanation
Indices: 37760249--37760364 Score: 164
Period size: 16 Copynumber: 7.2 Consensus size: 16
37760239 CTGAATTATT
37760249 CATTACAGA-TCTATT-
1 CATTACA-ACTCTATTA
* *
37760264 CTATTACAGCTCTATTC
1 C-ATTACAACTCTATTA
37760281 CATTACAACTCTATTA
1 CATTACAACTCTATTA
37760297 CATTACAACTCTATTA
1 CATTACAACTCTATTA
37760313 CATTACAACTCTATTA
1 CATTACAACTCTATTA
37760329 CATTACAACTCTATTA
1 CATTACAACTCTATTA
* *
37760345 CATTACAGCTCTATTC
1 CATTACAACTCTATTA
37760361 CATT
1 CATT
37760365 CCTCCTAACC
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
15 1 0.01
16 91 0.98
17 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.39
Consensus pattern (16 bp):
CATTACAACTCTATTA
Found at i:37765619 original size:16 final size:15
Alignment explanation
Indices: 37765594--37765623 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37765584 ACACACACAC
37765594 AAAAAAAAAAAAGAA
1 AAAAAAAAAAAAGAA
37765609 AAAAGAAAAAAAAGA
1 AAAA-AAAAAAAAGA
37765624 GAGATGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAA
Done.