Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 44 of 290
Found at i:14823066 original size:25 final size:24
Alignment explanation
Indices: 14823032--14823084 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
14823022 CACAAATGCA
*
14823032 GCTCTTTATGAG-TGTCTTGATATAG
1 GCTCTTTATGAGCT-TCCTGATAT-G
14823057 GCTCTTTATGAGCTTCCTGATATG
1 GCTCTTTATGAGCTTCCTGATATG
14823081 GCTC
1 GCTC
14823085 ACTTGAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 20 0.77
26 1 0.04
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (24 bp):
GCTCTTTATGAGCTTCCTGATATG
Found at i:14824352 original size:68 final size:68
Alignment explanation
Indices: 14824249--14824409 Score: 180
Period size: 68 Copynumber: 2.4 Consensus size: 68
14824239 AGTGTTTCTT
* * * *
14824249 ACCATACAATGTCATGTTTACTGTCATGGCGGACTTAATATGTTGCCACAACCCAACTTTGGTCT
1 ACCATACAATGTCATGTTTACTATCATGGCAGACTTAATATGTTACCACAACCCAACTATGGTCT
14824314 TAC
66 TAC
* * * * * * * * *
14824317 ACCATACTATG-CAATGTTTTCTATCCTGGCAGACTTCATATGTTATCATAGCCTAGCTATGGTC
1 ACCATACAATGTC-ATGTTTACTATCATGGCAGACTTAATATGTTACCACAACCCAACTATGGTC
14824381 TTAC
65 TTAC
*
14824385 ACCATACGATGTCATGTTTACTATC
1 ACCATACAATGTCATGTTTACTATC
14824410 TTGGTTGAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
67 1 0.01
68 74 0.97
69 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (68 bp):
ACCATACAATGTCATGTTTACTATCATGGCAGACTTAATATGTTACCACAACCCAACTATGGTCT
TAC
Found at i:14826138 original size:24 final size:24
Alignment explanation
Indices: 14826045--14826138 Score: 68
Period size: 24 Copynumber: 3.8 Consensus size: 24
14826035 AGACATGGCG
*
14826045 GTAAGCTC-TTCATGAGCTGACAAATA
1 GTAAGCTCTTTC--GAGCTGA-AAACA
* *
14826071 GTAAGCT-TTATTGAGCTAAAAACA
1 GTAAGCTCTT-TCGAGCTGAAAACA
* * *
14826095 GCAAGCTCTATT-GAGTTGAAAACG
1 GTAAGCTCT-TTCGAGCTGAAAACA
14826119 GTAAGCTCTTTCGAGCTGAA
1 GTAAGCTCTTTCGAGCTGAA
14826139 TTAGTAAGCT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
23 2 0.04
24 34 0.63
25 8 0.15
26 9 0.17
27 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTAAGCTCTTTCGAGCTGAAAACA
Found at i:14832673 original size:27 final size:27
Alignment explanation
Indices: 14832643--14832696 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
14832633 TCATACAACC
* *
14832643 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
14832670 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
14832697 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:14838473 original size:8 final size:8
Alignment explanation
Indices: 14838460--14838491 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
14838450 CTAGATCGGC
14838460 AAAAGCCG
1 AAAAGCCG
14838468 AAAAGCCG
1 AAAAGCCG
*
14838476 AAATGCCG
1 AAAAGCCG
14838484 AAAAGCCG
1 AAAAGCCG
14838492 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:14838778 original size:28 final size:28
Alignment explanation
Indices: 14838738--14838802 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
14838728 ATGTACTAGA
*
14838738 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
14838766 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
14838794 ATACCCCTA
1 ATACCCCTA
14838803 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:14838966 original size:27 final size:27
Alignment explanation
Indices: 14838908--14838997 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
14838898 AGGAAGCGTC
14838908 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
14838936 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
14838963 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
14838992 CTGGTG
1 CTGGTG
14838998 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:14839016 original size:55 final size:56
Alignment explanation
Indices: 14838908--14839022 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
14838898 AGGAAGCGTC
* *
14838908 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
14838963 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
14839019 CTGG
1 CTGG
14839023 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:14840698 original size:39 final size:38
Alignment explanation
Indices: 14840586--14840708 Score: 165
Period size: 39 Copynumber: 3.2 Consensus size: 38
14840576 TATATGAGAT
* * *
14840586 TGGAAATATATCCGGACATGAGGTCCTCAGACTATATGT
1 TGGAAATATATCCGGACATGAGGTCCGCAG-CTACATGC
14840625 TGGAAATATATCCGGACATGAGGTCCGCAGGCTACATGC
1 TGGAAATATATCCGGACATGAGGTCCGCA-GCTACATGC
* * *
14840664 TGGAAATATATCCCGACTTGAGGTCCGCACGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCA-GCTACATGC
14840703 TGGAAA
1 TGGAAA
14840709 ACTATCTGGG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 75 0.99
40 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (38 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGCTACATGC
Found at i:14841055 original size:28 final size:28
Alignment explanation
Indices: 14841023--14841086 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
14841013 TGTACTAGAG
*
14841023 TACCCCTATGTATGCAAAATTACCAT-TA
1 TACCCCTATGTATGCAAAATGACC-TCTA
14841051 TACCCCTATGTATGCAAAATGACCTCTA
1 TACCCCTATGTATGCAAAATGACCTCTA
14841079 TACCCCTA
1 TACCCCTA
14841087 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCTCTA
Found at i:14841233 original size:28 final size:29
Alignment explanation
Indices: 14841192--14841254 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
14841182 AGGAAGCGTC
* *
14841192 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCCATGCCACAAAATATCTGTAT
*
14841220 CTGGTGGCCCTGCCACAAAATATCTGTAT
1 CTGGTGGCCATGCCACAAAATATCTGTAT
14841249 CTGGTG
1 CTGGTG
14841255 ACTCTGTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 24 0.77
29 7 0.23
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCCATGCCACAAAATATCTGTAT
Found at i:14841265 original size:29 final size:28
Alignment explanation
Indices: 14841202--14841265 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
14841192 CTGGTGGCTA
* *
14841202 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACCC
*
14841230 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACCC
*
14841259 TGTCACA
1 TGCCACA
14841266 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACCC
Found at i:14853139 original size:28 final size:28
Alignment explanation
Indices: 14853099--14853191 Score: 168
Period size: 28 Copynumber: 3.3 Consensus size: 28
14853089 ATGTACTAGA
14853099 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
14853127 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
14853155 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
14853183 ATACCCCTA
1 ATACCCCTA
14853192 GGGTTAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:14853355 original size:27 final size:27
Alignment explanation
Indices: 14853297--14853386 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
14853287 AGGAAGCGTC
14853297 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
14853325 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
14853352 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
14853381 CTGGTG
1 CTGGTG
14853387 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:14853405 original size:55 final size:56
Alignment explanation
Indices: 14853297--14853411 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
14853287 AGGAAGCGTC
* *
14853297 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
14853352 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
14853408 CTGG
1 CTGG
14853412 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:14854627 original size:39 final size:39
Alignment explanation
Indices: 14854580--14854702 Score: 192
Period size: 39 Copynumber: 3.2 Consensus size: 39
14854570 TATATGAGAT
*
14854580 TGGAAATATATCCGGACATGAGGTCCGCAGACTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
14854619 TGGAAATATATCCGAACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * **
14854658 TGGAAATATATCCCGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
14854697 TGGAAA
1 TGGAAA
14854703 ACTATCTGGG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:14858161 original size:40 final size:40
Alignment explanation
Indices: 14858102--14858369 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
14858092 GAGCATTGGA
* *
14858102 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
14858142 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* *
14858182 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
14858222 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
14858262 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
14858302 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
*
14858342 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
14858370 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:14867673 original size:11 final size:12
Alignment explanation
Indices: 14867641--14867677 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14867631 TTCTTCCTCC
14867641 TTCTTGGTT-TTT
1 TTCTT-GTTCTTT
14867653 TTCTTGTTCTTT
1 TTCTTGTTCTTT
14867665 TTCTT-TTCTTT
1 TTCTTGTTCTTT
14867676 TT
1 TT
14867678 GAGAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 13 0.54
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.78
Consensus pattern (12 bp):
TTCTTGTTCTTT
Found at i:14874245 original size:20 final size:20
Alignment explanation
Indices: 14874222--14874271 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
14874212 ATTCATTTCT
*
14874222 ATTCGTATAAATTGTAATTC
1 ATTCGTATAAATAGTAATTC
* * *
14874242 ATTCATATAACTAGTAGTTC
1 ATTCGTATAAATAGTAATTC
*
14874262 ATCCGTATAA
1 ATTCGTATAA
14874272 CCAATAATTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTCGTATAAATAGTAATTC
Found at i:14874282 original size:20 final size:20
Alignment explanation
Indices: 14874236--14874309 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 20
14874226 GTATAAATTG
* * *
14874236 TAATTCATTCATATAACTAG
1 TAATTCATCCATATAACCAA
* *
14874256 TAGTTCATCCGTATAACCAA
1 TAATTCATCCATATAACCAA
*
14874276 TAATTCAT-TA-ATAACAACAA
1 TAATTCATCCATATAAC--CAA
*
14874296 TAATTTATCCATAT
1 TAATTCATCCATAT
14874310 CTACAGTAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
18 5 0.12
20 32 0.80
21 1 0.03
22 2 0.05
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (20 bp):
TAATTCATCCATATAACCAA
Found at i:14874337 original size:20 final size:20
Alignment explanation
Indices: 14874314--14874352 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14874304 CCATATCTAC
*
14874314 AGTAATTCATTCATTTCAAT
1 AGTAATTCATCCATTTCAAT
14874334 AGTAATTCATCCATTTCAA
1 AGTAATTCATCCATTTCAA
14874353 CATAGCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (20 bp):
AGTAATTCATCCATTTCAAT
Found at i:14874540 original size:23 final size:23
Alignment explanation
Indices: 14874496--14874540 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14874486 GAGCCATGAT
* *
14874496 CGGTAAGCTCCATTGAGCTGAAA
1 CGGTAAGCTCCATCGAGATGAAA
*
14874519 CGGTAAGCTCTATCGAGATGAA
1 CGGTAAGCTCCATCGAGATGAA
14874541 TAGTAAGCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (23 bp):
CGGTAAGCTCCATCGAGATGAAA
Found at i:14888796 original size:20 final size:20
Alignment explanation
Indices: 14888773--14888822 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
14888763 ATTCATTTCT
*
14888773 ATTCGTATAAATTGTAATTC
1 ATTCGTATAAATAGTAATTC
* * *
14888793 ATTCATATAACTAGTAGTTC
1 ATTCGTATAAATAGTAATTC
*
14888813 ATCCGTATAA
1 ATTCGTATAA
14888823 CCAATAATTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTCGTATAAATAGTAATTC
Found at i:14888833 original size:20 final size:20
Alignment explanation
Indices: 14888787--14888860 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 20
14888777 GTATAAATTG
* * *
14888787 TAATTCATTCATATAACTAG
1 TAATTCATCCATATAACCAA
* *
14888807 TAGTTCATCCGTATAACCAA
1 TAATTCATCCATATAACCAA
*
14888827 TAATTCAT-TA-ATAACAACAA
1 TAATTCATCCATATAAC--CAA
*
14888847 TAATTTATCCATAT
1 TAATTCATCCATAT
14888861 CTACAGTAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
18 5 0.12
20 32 0.80
21 1 0.03
22 2 0.05
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (20 bp):
TAATTCATCCATATAACCAA
Found at i:14888888 original size:20 final size:20
Alignment explanation
Indices: 14888865--14888903 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14888855 CCATATCTAC
*
14888865 AGTAATTCATTCATTTCAAT
1 AGTAATTCATCCATTTCAAT
14888885 AGTAATTCATCCATTTCAA
1 AGTAATTCATCCATTTCAA
14888904 CATAGCTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (20 bp):
AGTAATTCATCCATTTCAAT
Found at i:14889091 original size:23 final size:23
Alignment explanation
Indices: 14889047--14889091 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
14889037 GAGCCATGAT
* *
14889047 CGGTAAGCTCCATTGAGCTGAAA
1 CGGTAAGCTCCATCGAGATGAAA
*
14889070 CGGTAAGCTCTATCGAGATGAA
1 CGGTAAGCTCCATCGAGATGAA
14889092 TAGTAAGCTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (23 bp):
CGGTAAGCTCCATCGAGATGAAA
Found at i:14903586 original size:653 final size:652
Alignment explanation
Indices: 14902342--14903641 Score: 2537
Period size: 653 Copynumber: 2.0 Consensus size: 652
14902332 ATTCACTCAA
14902342 ATCACTCAAAGTGTTTAAGGTTCAATAATTAAGCACTCATTAGTCAAACATGAAAATTTATTACC
1 ATCACTCAAAGTGTTTAAGGTTCAATAATTAAGCACTCATTAGTCAAACATGAAAATTTATTACC
* *
14902407 ATAGGTTTGCATGAAAATCAAATCTCCACTACTATAAATGAGATGATACACAAATTAAAAGGTCT
66 ATAGGCTTGCATGAAAATCAAATCTCCACCACTATAAATGAGATGATACACAAATTAAAAGGTCT
*
14902472 TTAAAGGGTTGTAACAGGGCTTGGTTAAAGGTCCACAAGTAAAGGCTAAAAACAAGGTTAGAATT
131 TTAAAGGGTTGTAACAGGGCTTGGTTAAAGGTCCACAAGTAAAGGCTAAAAAAAAGGTTAGAATT
14902537 GAGATCGAATTGATAAATTACTCAACTGGAAAGATAAACTAACACTAAATAATTACATCAATCGA
196 GAGATCGAATTGATAAATTACTCAACTGGAAAGATAAACTAACACTAAATAATTACATCAATCGA
14902602 ATTTATTAAAGATAAACATGAGCTTCTTCTCAGAATATGGAATTAAATACTTAAGTTCAAACAAA
261 ATTTATTAAAGATAAACATGAGCTTCTTCTCAGAATATGGAATTAAATACTTAAGTTCAAACAAA
14902667 GAACTAATGATAATCAACATATAATTTTTTTTTAAGAATAAGAACAAGTAACGAGAGAGAATTAT
326 GAACTAATGATAATCAACATATAATTTTTTTTTAAGAATAAGAACAAGTAACGAGAGAGAATTAT
14902732 ACAAATAAAATGGAAGAAGATAGTTAGGCAATTAACCAAATCAAATCTCGACAAAAAGGGAATCA
391 ACAAATAAAATGGAAGAAGATAGTTAGGCAATTAACCAAATCAAATCTCGACAAAAAGGGAATCA
14902797 ATAAAATAGGAAAAATTCTCAACAAATCAAAAAAATATGATATAAGGGTTAAAATTCAAGGTAAA
456 ATAAAATAGGAAAAATTCTCAACAAATCAAAAAAATATGATATAAGGGTTAAAATTCAAGGTAAA
14902862 TTAAGAAATGGTTTGTTAAGATCAAAGGGGTTCACTAAGGGTTAATTATAAAGGTAGGCTTTTTG
521 TTAAGAAATGGTTTGTTAAGATCAAAGGGGTTCACTAAGGGTTAATTATAAAGGTAGGCTTTTTG
14902927 TGGGATAAGTGGATTAAAACCTAGGTGCCTTTATCATCTCGGTATATCAAAACAAAGGTGTGCCT
586 TGGGATAAGTGGATTAAAACCTAGGTGCCTTTATCATCTCGGTATATCAAAACAAAGGTGTGCCT
14902992 TC
651 TC
14902994 ATCACTCAAAGTGTTTAAGGTTCAATAATTAAGCACTCATTAGTCAAACATGAAAATTTATTACC
1 ATCACTCAAAGTGTTTAAGGTTCAATAATTAAGCACTCATTAGTCAAACATGAAAATTTATTACC
14903059 ATAGGCTTGCATGAAAATCAAATCTCCACCACTATAAATGAGATGATACACAAATTAAAAGGTCT
66 ATAGGCTTGCATGAAAATCAAATCTCCACCACTATAAATGAGATGATACACAAATTAAAAGGTCT
14903124 TTAAAGGGTTGTAACAGGGCTTGGTTAAAGGTCCACAAGTAAAGGCTGAAAAAAAAGGTTAGAAT
131 TTAAAGGGTTGTAACAGGGCTTGGTTAAAGGTCCACAAGTAAAGGCT-AAAAAAAAGGTTAGAAT
*
14903189 TGAGATTGAATTGATAAATTACTCAACTGGAAAGATAAACTAACACTAAATAATTACATCAATCG
195 TGAGATCGAATTGATAAATTACTCAACTGGAAAGATAAACTAACACTAAATAATTACATCAATCG
14903254 AATTTATTAAAGATAAACATGAGCTTCTTCTCAGAATATGGAATTAAATACTTAAGTTCAAACAA
260 AATTTATTAAAGATAAACATGAGCTTCTTCTCAGAATATGGAATTAAATACTTAAGTTCAAACAA
14903319 AGAACTAATGATAATCAACATATAATTTTTTTTTAAGAATAAGAACAAGTAACGAGAGAGAATTA
325 AGAACTAATGATAATCAACATATAATTTTTTTTTAAGAATAAGAACAAGTAACGAGAGAGAATTA
14903384 TACAAATAAAATGGAAGAAGATAGTTAGGCAATTAACCAAATCAAATCTCGACAAAAAGGGAATC
390 TACAAATAAAATGGAAGAAGATAGTTAGGCAATTAACCAAATCAAATCTCGACAAAAAGGGAATC
14903449 AATAAAATAGGAAAAATTCTCAACAAATCAAAAAAATATGATATAAGGGTTAAAATTCAAGGTAA
455 AATAAAATAGGAAAAATTCTCAACAAATCAAAAAAATATGATATAAGGGTTAAAATTCAAGGTAA
* *
14903514 ATTAAGAAATGGTTTGTTAAGATCAAAGGGGTTCATTAAGGGTTAATTATGAAGGTAGGCTTTTT
520 ATTAAGAAATGGTTTGTTAAGATCAAAGGGGTTCACTAAGGGTTAATTATAAAGGTAGGCTTTTT
14903579 GTGGGATAAGTGGATTAAAACCTAGGTGCCTTTATCATCTCGGTATATCAAAACAAAGGTGTG
585 GTGGGATAAGTGGATTAAAACCTAGGTGCCTTTATCATCTCGGTATATCAAAACAAAGGTGTG
14903642 GTCTTGACAT
Statistics
Matches: 641, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
652 175 0.27
653 466 0.73
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (652 bp):
ATCACTCAAAGTGTTTAAGGTTCAATAATTAAGCACTCATTAGTCAAACATGAAAATTTATTACC
ATAGGCTTGCATGAAAATCAAATCTCCACCACTATAAATGAGATGATACACAAATTAAAAGGTCT
TTAAAGGGTTGTAACAGGGCTTGGTTAAAGGTCCACAAGTAAAGGCTAAAAAAAAGGTTAGAATT
GAGATCGAATTGATAAATTACTCAACTGGAAAGATAAACTAACACTAAATAATTACATCAATCGA
ATTTATTAAAGATAAACATGAGCTTCTTCTCAGAATATGGAATTAAATACTTAAGTTCAAACAAA
GAACTAATGATAATCAACATATAATTTTTTTTTAAGAATAAGAACAAGTAACGAGAGAGAATTAT
ACAAATAAAATGGAAGAAGATAGTTAGGCAATTAACCAAATCAAATCTCGACAAAAAGGGAATCA
ATAAAATAGGAAAAATTCTCAACAAATCAAAAAAATATGATATAAGGGTTAAAATTCAAGGTAAA
TTAAGAAATGGTTTGTTAAGATCAAAGGGGTTCACTAAGGGTTAATTATAAAGGTAGGCTTTTTG
TGGGATAAGTGGATTAAAACCTAGGTGCCTTTATCATCTCGGTATATCAAAACAAAGGTGTGCCT
TC
Found at i:14904349 original size:6 final size:6
Alignment explanation
Indices: 14904326--14904362 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
14904316 ATAAGTCTTC
* *
14904326 AAAAAT AAATAG AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
14904363 GTAATAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:14904368 original size:12 final size:12
Alignment explanation
Indices: 14904340--14904383 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
14904330 ATAAATAGAA
*
14904340 AAATAAAAATAA
1 AAATAAAAATAG
14904352 AAATAAAAATAG
1 AAATAAAAATAG
* *
14904364 TAATAATAAT-G
1 AAATAAAAATAG
14904375 AAATAAAAA
1 AAATAAAAA
14904384 GACTCAAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (12 bp):
AAATAAAAATAG
Found at i:14905989 original size:3 final size:3
Alignment explanation
Indices: 14905977--14906027 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
14905967 GATAGAATGC
* *
14905977 ATA A-A ATA ATA ATT TTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14906024 ATA A
1 ATA A
14906028 CAAAACAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:14911190 original size:26 final size:26
Alignment explanation
Indices: 14911152--14911201 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
14911142 TTTTGGACAT
14911152 ATTCATAACCATATATGTGATTTTAG
1 ATTCATAACCATATATGTGATTTTAG
* *
14911178 ATTCATAATCATATGTGTGATTTT
1 ATTCATAACCATATATGTGATTTT
14911202 GGACAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (26 bp):
ATTCATAACCATATATGTGATTTTAG
Found at i:14911982 original size:26 final size:26
Alignment explanation
Indices: 14911953--14912002 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
14911943 TTTTGGACAT
* *
14911953 ATTCATAATCAAATATTTGATTTTGG
1 ATTCATAACCAAATATGTGATTTTGG
*
14911979 ATTCATAACCATATATGTGATTTT
1 ATTCATAACCAAATATGTGATTTT
14912003 TGACAACTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTCATAACCAAATATGTGATTTTGG
Found at i:14912093 original size:24 final size:23
Alignment explanation
Indices: 14912061--14912106 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
14912051 AAATTAAAAG
*
14912061 AAAATGTTAAAAAATAACTATTAA
1 AAAAAGTTAAAAAATAAC-ATTAA
**
14912085 AAAAAGTTACCAAATAACATTA
1 AAAAAGTTAAAAAATAACATTA
14912107 CAAATAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (23 bp):
AAAAAGTTAAAAAATAACATTAA
Found at i:14913212 original size:97 final size:96
Alignment explanation
Indices: 14913093--14913384 Score: 252
Period size: 97 Copynumber: 3.0 Consensus size: 96
14913083 ATGATAGATG
* **
14913093 AACACGTGTAATATTGAGAACTACATAATAATAAATGAAGACGCTGGTTTGTATTTGAACTCTAA
1 AACACGAGTAATATTGAGAACTACATAATAATAAATGAAGACAATGGTTTGTATTTGAACTCTAA
*
14913158 AAACTAAATCAATTATATGATCGATCTTCACA
66 AAA-TAAATCAATTATATGATCAATCTTCACA
* * * * ** *
14913190 AACACGAGTAATATTGATAACTACAT-ATGAATACATGACGATAATAATTTATATTTGAA-TCTC
1 AACACGAGTAATATTGAGAACTACATAAT-AATAAATGAAGACAATGGTTTGTATTTGAACTCT-
* * *
14913253 ATAAATTAAATAAATTATAAT-ATCCATCTTCACCA
64 A-AAAATAAATCAATTAT-ATGATCAATCTTCA-CA
* * * * * * * *
14913288 AACATGTA-TAATATTAAGAATTACATAAGAATAATTGAAGACTATGGTTTGTATTTTAACAC-A
1 AACACG-AGTAATATTGAGAACTACATAATAATAAATGAAGACAATGGTTTGTATTTGAACTCTA
* **
14913351 AAAATCAAATCAATCATCCGATCAATCTTCACA
65 AAAAT-AAATCAATTATATGATCAATCTTCACA
14913384 A
1 A
14913385 GTACGTGTAA
Statistics
Matches: 151, Mismatches: 34, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
96 12 0.08
97 88 0.58
98 48 0.32
99 3 0.02
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (96 bp):
AACACGAGTAATATTGAGAACTACATAATAATAAATGAAGACAATGGTTTGTATTTGAACTCTAA
AAATAAATCAATTATATGATCAATCTTCACA
Found at i:14922124 original size:26 final size:26
Alignment explanation
Indices: 14922083--14922132 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
14922073 TTAGGGACAT
* *
14922083 ATTCATAACTAAATATTTGATTTTGG
1 ATTCATAACCAAATATGTGATTTTGG
*
14922109 ATTCATAACCATATATGTGATTTT
1 ATTCATAACCAAATATGTGATTTT
14922133 TGACAACTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTCATAACCAAATATGTGATTTTGG
Found at i:14923690 original size:14 final size:14
Alignment explanation
Indices: 14923671--14923701 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
14923661 TCTGATGGAT
14923671 GTTATTTAATTTAG
1 GTTATTTAATTTAG
14923685 GTTATTTAATTTAG
1 GTTATTTAATTTAG
14923699 GTT
1 GTT
14923702 TCGCGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (14 bp):
GTTATTTAATTTAG
Found at i:14931873 original size:195 final size:194
Alignment explanation
Indices: 14931460--14931925 Score: 488
Period size: 195 Copynumber: 2.4 Consensus size: 194
14931450 TGAACACATC
* * ** * **
14931460 GTAATTTAAAGAACTACGTATGAATGAATGATGACAATAATTTCTATTTGAATCCTGTAAATTAA
1 GTAATATAAAGAACTACATATGAATGAATGAACACAATAATTTATATTTGAATCCCATAAATTAA
* * ** * * * * * **
14931525 ATAAACTAT-ATGATAGATATTGACAAAACATGTGTAATATTGAGAACTGCATAATTATAACAAA
66 ATAAATTATAAT-TTCCATCTTGGCAAAACACGTGCAATATTAAGAACTGCATAAAAATAACAAA
* * * **
14931589 GACGATGGTTTGTATTTGAACTCTAAAAATTAAATCAATTATACGATGGATCTTCACAAACACGA
130 GACGATGGTTTGTATTTGAACACTAAAAATCAAATCAATTATACAATCAATCTTCACAAACACGA
* * * * *
14931654 GTAATATTAATAACTACATATGAAT-AGATG-ACGATAGTAATTTATATTTGAATCTCATAAATT
1 GTAATATAAAGAACTACATATGAATGA-ATGAAC-ACAATAATTTATATTTGAATCCCATAAATT
*
14931717 AAATAAATTATAATTTCCATCTTGGCAAAACACGTGCAATATTAAGAACTGCATAAAAATAAATA
64 AAATAAATTATAATTTCCATCTTGGCAAAACACGTGCAATATTAAGAACTGCATAAAAAT-AACA
* * * * ** *
14931782 AAGCCTATGGTTTGTATTTTAACACTAAAAATCAAATCAATTATCCAATCAATCTTCACAAGTAT
128 AAGACGATGGTTTGTATTTGAACACTAAAAATCAAATCAATTATACAATCAATCTTCACAAACAC
*
14931847 GT
193 GA
* * *** *
14931849 GTAATGTAAAGAATTGTGTATGAATGAATGAACACAATAATTTATTTTTGAATCCCATAAATTAA
1 GTAATATAAAGAACTACATATGAATGAATGAACACAATAATTTATATTTGAATCCCATAAATTAA
14931914 ATAAATTATAAT
66 ATAAATTATAAT
14931926 ATTGTTCTTT
Statistics
Matches: 218, Mismatches: 48, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
193 1 0.00
194 94 0.43
195 120 0.55
196 3 0.01
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (194 bp):
GTAATATAAAGAACTACATATGAATGAATGAACACAATAATTTATATTTGAATCCCATAAATTAA
ATAAATTATAATTTCCATCTTGGCAAAACACGTGCAATATTAAGAACTGCATAAAAATAACAAAG
ACGATGGTTTGTATTTGAACACTAAAAATCAAATCAATTATACAATCAATCTTCACAAACACGA
Found at i:14933354 original size:46 final size:46
Alignment explanation
Indices: 14933286--14933376 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
14933276 TATATATACA
** * *
14933286 CATCTCATACATGTCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
14933332 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
14933377 ATACACATCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.26, C:0.32, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:14933419 original size:22 final size:22
Alignment explanation
Indices: 14933393--14933468 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
14933383 ATCCACGTTC
14933393 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
14933415 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
14933440 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
14933462 ATCACAT
1 ATCACAT
14933469 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:14933421 original size:47 final size:47
Alignment explanation
Indices: 14933390--14933603 Score: 338
Period size: 47 Copynumber: 4.6 Consensus size: 47
14933380 CACATCCACG
* *
14933390 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
14933437 TTTATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * *
14933484 TTCTTCACATTGGCCATTCAGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
14933531 TTCATCACATTGGCCATTCGGCCTTATCACATAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
14933578 TTCATCACATTTGTCATTCGGCCTTA
1 TTCATCACATTGGCCATTCGGCCTTA
14933604 GCTCATGTAT
Statistics
Matches: 152, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 152 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:14933468 original size:94 final size:94
Alignment explanation
Indices: 14933390--14933634 Score: 346
Period size: 94 Copynumber: 2.6 Consensus size: 94
14933380 CACATCCACG
* *
14933390 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCAGCCTTATCACATGTATGCATGTTCACATTCATCACATTGGCCATT
*
14933455 CGGCCTTATCACATATATGCATGTTCATA
66 CGGCCTTATCACATATATGCATGTTCACA
* **
14933484 TTCTTCACATTGGCCATTCAGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCAGCCTTATCACATGTATGCATGTTCACATTCATCACATTGGCCATT
*
14933549 CGGCCTTATCACATAAATGCATGTTCACA
66 CGGCCTTATCACATATATGCATGTTCACA
* * * * * * ** *
14933578 TTCATCACATTTGTCATTCGGCCTTAGCTCATGTATACACATTCACATCCATCACAT
1 TTCATCACATTGGCCATTCAGCCTTATCACATGTATGCATGTTCACATTCATCACAT
14933635 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 132 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (94 bp):
TTCATCACATTGGCCATTCAGCCTTATCACATGTATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACATATATGCATGTTCACA
Found at i:14933513 original size:22 final size:22
Alignment explanation
Indices: 14933488--14933562 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
14933478 TTCATATTCT
14933488 TCACATTGGCCATTCAGCCTTA
1 TCACATTGGCCATTCAGCCTTA
*
14933510 TCACACATAT-G-CATGTTCA-CATTCA
1 T--CACAT-TGGCCA--TTCAGCCTT-A
*
14933535 TCACATTGGCCATTCGGCCTTA
1 TCACATTGGCCATTCAGCCTTA
14933557 TCACAT
1 TCACAT
14933563 AAATGCATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 18
0.66 0.05 0.29
Matches are distributed among these distances:
22 12 0.29
23 11 0.27
24 11 0.27
25 7 0.17
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (22 bp):
TCACATTGGCCATTCAGCCTTA
Found at i:14933803 original size:204 final size:204
Alignment explanation
Indices: 14933563--14933969 Score: 814
Period size: 204 Copynumber: 2.0 Consensus size: 204
14933553 CTTATCACAT
14933563 AAATGCATGTTCACATTCATCACATTTGTCATTCGGCCTTAGCTCATGTATACACATTCACATCC
1 AAATGCATGTTCACATTCATCACATTTGTCATTCGGCCTTAGCTCATGTATACACATTCACATCC
14933628 ATCACATAAAATCCTAAATCAAAATATAAATTTTCATGTATTCACATCACAATTATCCAAATATA
66 ATCACATAAAATCCTAAATCAAAATATAAATTTTCATGTATTCACATCACAATTATCCAAATATA
14933693 CTTCACATACCACATATACTTTCACTTTGTCTTGGCTGAATCTACATCTATCATTTTCCAATGAA
131 CTTCACATACCACATATACTTTCACTTTGTCTTGGCTGAATCTACATCTATCATTTTCCAATGAA
14933758 TAATTCAAC
196 TAATTCAAC
14933767 AAATGCATGTTCACATTCATCACATTTGTCATTCGGCCTTAGCTCATGTATACACATTCACATCC
1 AAATGCATGTTCACATTCATCACATTTGTCATTCGGCCTTAGCTCATGTATACACATTCACATCC
14933832 ATCACATAAAATCCTAAATCAAAATATAAATTTTCATGTATTCACATCACAATTATCCAAATATA
66 ATCACATAAAATCCTAAATCAAAATATAAATTTTCATGTATTCACATCACAATTATCCAAATATA
14933897 CTTCACATACCACATATACTTTCACTTTGTCTTGGCTGAATCTACATCTATCATTTTCCAATGAA
131 CTTCACATACCACATATACTTTCACTTTGTCTTGGCTGAATCTACATCTATCATTTTCCAATGAA
14933962 TAATTCAA
196 TAATTCAA
14933970 TTTCAAGCCA
Statistics
Matches: 203, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 203 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (204 bp):
AAATGCATGTTCACATTCATCACATTTGTCATTCGGCCTTAGCTCATGTATACACATTCACATCC
ATCACATAAAATCCTAAATCAAAATATAAATTTTCATGTATTCACATCACAATTATCCAAATATA
CTTCACATACCACATATACTTTCACTTTGTCTTGGCTGAATCTACATCTATCATTTTCCAATGAA
TAATTCAAC
Found at i:14937929 original size:22 final size:21
Alignment explanation
Indices: 14937899--14937964 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
14937889 TACAAATTAA
14937899 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
14937921 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
14937942 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
14937961 ATCT
1 ATCT
14937965 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:14937951 original size:19 final size:19
Alignment explanation
Indices: 14937916--14938013 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
14937906 AGATTACAAG
14937916 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
14937937 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
14937956 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
14937973 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
14937992 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
14938011 ATC
1 ATC
14938014 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:14937980 original size:36 final size:37
Alignment explanation
Indices: 14937916--14938013 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
14937906 AGATTACAAG
14937916 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
14937956 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
14937992 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
14938014 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:14938778 original size:206 final size:206
Alignment explanation
Indices: 14938409--14939555 Score: 2037
Period size: 206 Copynumber: 5.6 Consensus size: 206
14938399 ATCTTCGATC
* * * * * *
14938409 TGTTTTCTGACAATACAAAGATGTCAAATCATCTTAGATTTGCTTCATCGTAAGTACGCGAAAAC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
* * * * * * *
14938474 CAAATCAACTATGTCTTCAATTTGCTCCTTGCAAGCATAATG-ATACCAAA-CTATCTTGGATCT
66 CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAA-GAATGCCAAATC-ATCTTGGATCT
* * * * * * * *
14938537 ACTTCAGTCTAATCATCTAAAGGTTAGATCTGCTATGTGTCTGCCCTCCATCGAATATGGAGACG
129 GCTTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATGGAGACG
14938602 CCAAACTTTGATT
194 CCAAACTTTGATT
*
14938615 TGTTCTCTGACAAGACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
14938680 CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGC
66 CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGC
14938745 TTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATGGAGACGCC
131 TTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATGGAGACGCC
14938810 AAACTTTGATT
196 AAACTTTGATT
14938821 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
14938886 CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGC
66 CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGC
14938951 TTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATGGAGACGCC
131 TTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATGGAGACGCC
14939016 AAACTTTGATT
196 AAACTTTGATT
14939027 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
14939092 CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGC
66 CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGC
14939157 TTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATGGAGACGCC
131 TTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATGGAGACGCC
14939222 AAACTTTGATT
196 AAACTTTGATT
14939233 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
14939298 CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGC
66 CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGC
14939363 TTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATGGAGACGCC
131 TTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATGGAGACGCC
14939428 AAACTTTGATT
196 AAACTTTGATT
14939439 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
1 TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
* * *
14939504 CAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
14939556 TACTATCTTC
Statistics
Matches: 913, Mismatches: 26, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
205 1 0.00
206 911 1.00
207 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (206 bp):
TGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGC
CAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGC
TTCAGTATAAACATCTGAAGGTCAAACCTGCTATGTGTCTGCTCTCCATCGAATATGGAGACGCC
AAACTTTGATT
Found at i:14939592 original size:44 final size:44
Alignment explanation
Indices: 14939517--14939814 Score: 286
Period size: 44 Copynumber: 6.8 Consensus size: 44
14939507 ATCAGCTATG
* * * * *
14939517 TCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTACTA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTACTA
*
14939561 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTACTA
* *
14939605 TCTTCAACTTGTTCCCTATAAACACAAGGATGCC--ATGCTGA-AA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTA
* * * * * * * * *
14939648 TCTTCAA-TCTGCTTCACTGTAAGCACAAGAATGTCAGATTTGCTA
1 TCTTCAACT-TG-TTCCCTATAAACACAGGGATGCCAAATCTACTA
* * *
14939693 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTACTA
* * *
14939737 TCTTCGACTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGA-AA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAAT-CT-ACTA
14939780 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
1 TCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
14939815 TGCTGAAATC
Statistics
Matches: 211, Mismatches: 32, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
42 5 0.02
43 47 0.22
44 146 0.69
45 10 0.05
46 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAATCTACTA
Found at i:14939618 original size:88 final size:88
Alignment explanation
Indices: 14939502--14939814 Score: 323
Period size: 88 Copynumber: 3.5 Consensus size: 88
14939492 GCACGTGAAA
* * * * *
14939502 GCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTACTATCTTCA
1 GCCAAATCTGCTA--TCTTCAACTTGTTCCCTATAAACACAAGGATGCCAAATCTACTATCTTCA
*
14939567 ACTTGTTCCCTATAAACACAGGGAT
64 ACTTGTTCCCTATAAGCACAGGGAT
*
14939592 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCC--ATGCTGA-AATCTTCA
1 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCAAAT-CT-ACTATCTTCA
* * * *
14939654 A-TCTGCTTCACTGTAAGCACAAGAAT
64 ACT-TG-TTCCCTATAAGCACAGGGAT
* * * * * * * *
14939680 GTCAGATTTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCGAC
1 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCAAATCTACTATCTTCAAC
14939745 TTGTTCCCTATAAGCACAGGGAT
66 TTGTTCCCTATAAGCACAGGGAT
** *
14939768 GCC--ATGCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
1 GCCAAAT-CTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCA
14939815 TGCTGAAATC
Statistics
Matches: 184, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
86 5 0.03
87 48 0.26
88 105 0.57
89 11 0.06
90 15 0.08
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (88 bp):
GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCAAATCTACTATCTTCAAC
TTGTTCCCTATAAGCACAGGGAT
Found at i:14939706 original size:132 final size:131
Alignment explanation
Indices: 14939517--14939794 Score: 416
Period size: 132 Copynumber: 2.1 Consensus size: 131
14939507 ATCAGCTATG
* *
14939517 TCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
1 TCTTCAATCTGTTCCTTGTAAGCACAAGAATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
14939582 ACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAA
66 ACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAA
14939647 A
131 A
* * * * * *
14939648 TCTTCAATCTGCTTCAC-TGTAAGCACAAGAATGTCAGATTTGCTATCTTCGATTTGTTCCCTAT
1 TCTTCAATCTG-TTC-CTTGTAAGCACAAGAATGCCAAATCTACTATCTTCAACTTGTTCCCTAT
* * *
14939712 AAACACAGGGATGCCAAATCTGCTATCTTCGACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
64 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTG
14939777 AAA
129 AAA
14939780 TCTTCAA-CTTGTTCC
1 TCTTCAATC-TGTTCC
14939795 CTATAAACAC
Statistics
Matches: 133, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
130 1 0.01
131 14 0.11
132 117 0.88
133 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (131 bp):
TCTTCAATCTGTTCCTTGTAAGCACAAGAATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAA
A
Found at i:14939845 original size:175 final size:175
Alignment explanation
Indices: 14939517--14939907 Score: 595
Period size: 175 Copynumber: 2.2 Consensus size: 175
14939507 ATCAGCTATG
* * * *
14939517 TCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
**
14939582 ACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAA
66 ACACAGGGATGCC-AATCTGAAATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAA
*
14939647 ATCTTCAATCTGCTTCACTGTAAGCACAAGAATGTCAGATTTGCTA
130 ATCTTCAATCTGCTTCACTGTAAGCACAAGAATGTCAGATCTGCTA
* * *
14939693 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCGACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
* *
14939758 GCACAGGGATGCC-ATGCTGAAATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAA
66 ACACAGGGATGCCAAT-CTGAAATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAA
* ** * *
14939822 ATCTTCGATCTGCTTTGCTGTAAGCACAGGAGTGTCAGATCTGCTA
130 ATCTTCAATCTGCTTCACTGTAAGCACAAGAATGTCAGATCTGCTA
*
14939868 TCTTCGATTTGTTCCCTGTAAACACAGGGATACCAAATCT
1 TCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAAATCT
14939908 TGTTTCTGTG
Statistics
Matches: 195, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
174 2 0.01
175 123 0.63
176 70 0.36
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (175 bp):
TCTTCGATTTGTTCCCTGTAAACACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCAATCTGAAATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAA
TCTTCAATCTGCTTCACTGTAAGCACAAGAATGTCAGATCTGCTA
Found at i:14940806 original size:9 final size:9
Alignment explanation
Indices: 14940776--14940816 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
14940766 CTCATTTTTC
*
14940776 TTTTTATTT
1 TTTTTCTTT
* *
14940785 TTTCTCTTG
1 TTTTTCTTT
14940794 TTTTTCTTT
1 TTTTTCTTT
14940803 TTTTTCTTT
1 TTTTTCTTT
14940812 TTTTT
1 TTTTT
14940817 TTGAAATAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:14947035 original size:25 final size:25
Alignment explanation
Indices: 14947007--14947055 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
14946997 ATATATATCA
14947007 TAAA-ATAGCACATAAAAGAAATAAT
1 TAAACATAGCACATAAAA-AAATAAT
*
14947032 TAAACATAGCATATAAAAAAATAA
1 TAAACATAGCACATAAAAAAATAA
14947056 AACTATGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAACATAGCACATAAAAAAATAAT
Found at i:14950375 original size:15 final size:15
Alignment explanation
Indices: 14950355--14950410 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
14950345 GTATCTTGGG
14950355 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
14950370 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
14950385 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
14950400 TTTCTTTATTC
1 TTTCTTTATTC
14950411 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:14953997 original size:22 final size:21
Alignment explanation
Indices: 14953957--14954013 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
14953947 GAAGGATATC
* *
14953957 TACAAATTAAATCTCCAAGAT
1 TACAAATCATATCTCCAAGAT
*
14953978 TACAAGATCATATCTTCAAGAT
1 TACAA-ATCATATCTCCAAGAT
*
14954000 TGCAAATCATATCT
1 TACAAATCATATCT
14954014 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (21 bp):
TACAAATCATATCTCCAAGAT
Found at i:14954019 original size:19 final size:19
Alignment explanation
Indices: 14953984--14954079 Score: 128
Period size: 17 Copynumber: 5.2 Consensus size: 19
14953974 AGATTACAAG
*
14953984 ATCATATCTTCAAGATTGCAA
1 ATCATATC-T-AAGATTGCAT
14954005 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
14954022 ATCATATCTATGATTG--T
1 ATCATATCTAAGATTGCAT
14954039 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
14954058 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
14954077 ATC
1 ATC
14954080 CTTAAAGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
17 31 0.44
19 30 0.43
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:14956315 original size:3 final size:3
Alignment explanation
Indices: 14956307--14956353 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
14956297 TTCAAGCATA
14956307 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14956354 CCATTTAACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14959036 original size:27 final size:27
Alignment explanation
Indices: 14959006--14959229 Score: 242
Period size: 27 Copynumber: 8.2 Consensus size: 27
14958996 GTGACGAATT
14959006 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGAT-CAGATATATGTGGCAGAGC
*
14959033 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATATATGTGGCAGAGC
** *
14959060 CACCAGATTGGATA-ATTGTGGCATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
*
14959087 CACCAGGA-CAGATATATGTGGGAGAGC
1 CACCA-GATCAGATATATGTGGCAGAGC
* *
14959114 CACCAGATTAGATAATTGTGTGGCAGAGC
1 CACCAGATCAGAT-A-TATGTGGCAGAGC
*
14959143 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGATCAGATATA-TGTGGCAGAGC
**
14959170 CACCAGGA-CAGATATATGTGAAAGAGC
1 CACCA-GATCAGATATATGTGGCAGAGC
* *
14959197 CACCAGATCAGATATTTGTGGCATAGC
1 CACCAGATCAGATATATGTGGCAGAGC
14959224 CACCAG
1 CACCAG
14959230 GACGCTTCCT
Statistics
Matches: 164, Mismatches: 22, Indels: 22
0.79 0.11 0.11
Matches are distributed among these distances:
26 12 0.07
27 121 0.74
28 8 0.05
29 23 0.14
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
CACCAGATCAGATATATGTGGCAGAGC
Found at i:14959161 original size:83 final size:81
Alignment explanation
Indices: 14959014--14959229 Score: 326
Period size: 83 Copynumber: 2.7 Consensus size: 81
14959004 TTCACCAGAT
* * * **
14959014 ACAGATAT-TGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATTGGATAATTG
1 ACAGATATATGTGGAAGAGCCACCAGATCAGATATTTGTGGCAGAGCCACCAGATCAGATAATTG
14959078 TGGCATAGCCACCAGG
66 TGGCATAGCCACCAGG
* *
14959094 ACAGATATATGTGGGAGAGCCACCAGATTAGATAATTGTGTGGCAGAGCCACCAGATCAGATAAT
1 ACAGATATATGTGGAAGAGCCACCAGATCAGAT-ATT-TGTGGCAGAGCCACCAGATCAGATAAT
14959159 TGTGGCATAGCCACCAGG
64 TGTGGCATAGCCACCAGG
* *
14959177 ACAGATATATGTGAAAGAGCCACCAGATCAGATATTTGTGGCATAGCCACCAG
1 ACAGATATATGTGGAAGAGCCACCAGATCAGATATTTGTGGCAGAGCCACCAG
14959230 GACGCTTCCT
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
80 8 0.07
81 37 0.30
82 5 0.04
83 73 0.59
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (81 bp):
ACAGATATATGTGGAAGAGCCACCAGATCAGATATTTGTGGCAGAGCCACCAGATCAGATAATTG
TGGCATAGCCACCAGG
Found at i:14959485 original size:16 final size:17
Alignment explanation
Indices: 14959464--14959496 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14959454 CCAACTTGGG
14959464 CCCG-TTGGCCCATTAT
1 CCCGTTTGGCCCATTAT
14959480 CCCGTTTTGGCCCATTA
1 CCCG-TTTGGCCCATTA
14959497 AGCCCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.36, G:0.18, T:0.33
Consensus pattern (17 bp):
CCCGTTTGGCCCATTAT
Found at i:14962253 original size:3 final size:3
Alignment explanation
Indices: 14962245--14962281 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
14962235 TTCAAATTGA
14962245 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14962282 ATATTTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14963334 original size:12 final size:13
Alignment explanation
Indices: 14963298--14963335 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
14963288 AAATATTTGA
14963298 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
14963311 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
14963325 CTTG-TCTTAAT
1 CTTGTTCTTAAT
14963336 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:14967934 original size:29 final size:27
Alignment explanation
Indices: 14967884--14967938 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
14967874 GATTTTTTAC
*
14967884 AAAAATGTCAATTAGGGATTAAATTGA
1 AAAAATGTAAATTAGGGATTAAATTGA
*
14967911 AAAAAGTGTAAATTGAGGGGTTAAATTG
1 AAAAA-TGTAAATT-AGGGATTAAATTG
14967939 TCAAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 7 0.29
29 12 0.50
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (27 bp):
AAAAATGTAAATTAGGGATTAAATTGA
Found at i:14968476 original size:43 final size:43
Alignment explanation
Indices: 14968428--14968573 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 43
14968418 ATCGAGATGA
* *
14968428 GATTACATGTAAGACCATGTTTGGGACATTGGAATTG-TATTGT
1 GATTACATGTAAGACCATGTTTGGGACATTGGAATCGTTA-TAT
* * *
14968471 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTTATAT
1 GATTACATGTAAGACCATGTTTGGGACATTGGAATCGTTATAT
* * * * * *
14968514 AATTTCATGTAAGACCACGTTTGGGACGTTGGCATCGATATAT
1 GATTACATGTAAGACCATGTTTGGGACATTGGAATCGTTATAT
* *
14968557 GATAACA-ATAAGACCAT
1 GATTACATGTAAGACCAT
14968574 ATCTGGGATA
Statistics
Matches: 85, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 8 0.09
43 75 0.88
44 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTTTGGGACATTGGAATCGTTATAT
Found at i:14976125 original size:43 final size:43
Alignment explanation
Indices: 14976077--14976224 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
14976067 TGAGGTTGCA
* * *
14976077 TGTAAGGCCATGTCTGGGACATTGGAATTG-TATTGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGAATCGTTA-TATGATTACG
* * * *
14976120 TGTAAGACCATGTCTAGGAAATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGAATCGTTATATGATTACG
* * * * * *
14976163 TGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATAACA
1 TGTAAGACCATGTCTGGGACATTGGAATCGTTATATGATTACG
*
14976206 TGTAAGACCATATCTGGGA
1 TGTAAGACCATGTCTGGGA
14976225 TATGGCATTG
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
43 85 0.98
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGAATCGTTATATGATTACG
Found at i:14976593 original size:43 final size:43
Alignment explanation
Indices: 14976534--14976620 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
14976524 TACTTTGTGT
* * * * *
14976534 GTTCATTCTCTGTTTTATAGATTATTAAAGCTAGTTCAGACTC
1 GTTCATTCTCTATTTTACAGATTATCAAAGCAAGCTCAGACTC
* *
14976577 GTTCGTTCTCTATTTTACAGATTATCGAAGCAAGCTCAGACTC
1 GTTCATTCTCTATTTTACAGATTATCAAAGCAAGCTCAGACTC
14976620 G
1 G
14976621 AGGATCATCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (43 bp):
GTTCATTCTCTATTTTACAGATTATCAAAGCAAGCTCAGACTC
Found at i:14977101 original size:51 final size:51
Alignment explanation
Indices: 14977046--14977147 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
14977036 TGGTTGAGAG
14977046 CTTAAGTAGTGAAATGGCTGATTATGAAATGATATGAATTATATGTGATTT
1 CTTAAGTAGTGAAATGGCTGATTATGAAATGATATGAATTATATGTGATTT
14977097 CTTAAGTAGTGAAATGGCTGATTATGAAATGATATGAATTATATGTGATTT
1 CTTAAGTAGTGAAATGGCTGATTATGAAATGATATGAATTATATGTGATTT
14977148 GGTATATTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (51 bp):
CTTAAGTAGTGAAATGGCTGATTATGAAATGATATGAATTATATGTGATTT
Found at i:14980103 original size:41 final size:41
Alignment explanation
Indices: 14980048--14980225 Score: 144
Period size: 41 Copynumber: 4.4 Consensus size: 41
14980038 GCACAAACGT
* * * *
14980048 CCTTCAAAATCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGAAACCAAGCCCGATTATGAGCACTGGCTCAAAAGC
* * * ** *
14980089 CCTTCGAGACCAAGCTCGGATTA-GACCACTGGCTTGAAGGC
1 CCTTCGAAACCAAGC-CCGATTATGAGCACTGGCTCAAAAGC
* * * * *
14980130 CCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTCTAAAGC
1 CCTTCGAAACCAAGCCCGATTATGAGCACTGGCTCAAAAGC
* ** * * *
14980170 CCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAGGC
1 CCTTCGAAACCAAGCCCGATTATGAGCACTGGCTCAAAAGC
14980211 CCTTCGAAACCAAGC
1 CCTTCGAAACCAAGC
14980226 TAGAATTTAA
Statistics
Matches: 108, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
40 39 0.36
41 64 0.59
42 5 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (41 bp):
CCTTCGAAACCAAGCCCGATTATGAGCACTGGCTCAAAAGC
Found at i:14982660 original size:16 final size:17
Alignment explanation
Indices: 14982639--14982671 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14982629 AACATTACGG
*
14982639 GCAAAATTAT-AATTTT
1 GCAAAATCATAAATTTT
14982655 GCAAAATCATAAATTTT
1 GCAAAATCATAAATTTT
14982672 AGACTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (17 bp):
GCAAAATCATAAATTTT
Found at i:14984328 original size:27 final size:28
Alignment explanation
Indices: 14984287--14984340 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
14984277 ATCATTATCC
14984287 ATGCTCAAACGTAAGTCTATAAACGAAT
1 ATGCTCAAACGTAAGTCTATAAACGAAT
14984315 ATGCTC-AACGTAAGTCTATAAACGAA
1 ATGCTCAAACGTAAGTCTATAAACGAA
14984341 GTAAAATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (28 bp):
ATGCTCAAACGTAAGTCTATAAACGAAT
Found at i:14985565 original size:21 final size:21
Alignment explanation
Indices: 14985539--14985582 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
14985529 CCAATACGTC
14985539 CCTTTCATCTCGAGTATTCCT
1 CCTTTCATCTCGAGTATTCCT
14985560 CCTTTCATCTCGAGTATTCCT
1 CCTTTCATCTCGAGTATTCCT
14985581 CC
1 CC
14985583 ATTTGAGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.36, G:0.09, T:0.41
Consensus pattern (21 bp):
CCTTTCATCTCGAGTATTCCT
Found at i:14985810 original size:93 final size:93
Alignment explanation
Indices: 14985696--14985867 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
14985686 GCCCATAAGT
* * *
14985696 GAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14985761 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
14985789 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
14985854 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
14985868 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:14985863 original size:46 final size:46
Alignment explanation
Indices: 14985688--14985863 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
14985678 TGTAACCCGC
* * * *
14985688 CCATAAGTGAACTCGGACTCAGCTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
14985734 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
14985784 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
14985827 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
14985864 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 64 0.58
47 28 0.25
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:14985882 original size:46 final size:46
Alignment explanation
Indices: 14985739--14985882 Score: 129
Period size: 46 Copynumber: 3.1 Consensus size: 46
14985729 CGCATCCATA
* * *
14985739 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATC-CT
* *
14985788 --CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC-T
*
14985831 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCT
14985878 AGTGA
1 AGTGA
14985883 CATGTCACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 5 0.06
46 34 0.44
47 29 0.38
48 4 0.05
50 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCT
Found at i:14988280 original size:15 final size:15
Alignment explanation
Indices: 14988254--14988309 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
14988244 CAAGGAAACC
14988254 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
14988269 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
14988284 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
14988299 GAATAAAGAAA
1 GAATAAAGAAA
14988310 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:14989467 original size:10 final size:10
Alignment explanation
Indices: 14989449--14989481 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
14989439 AAATTGTATA
*
14989449 TCATTAACAT
1 TCATCAACAT
14989459 TCATCAACAT
1 TCATCAACAT
14989469 TCATCAACAT
1 TCATCAACAT
14989479 TCA
1 TCA
14989482 ACGTCCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.33
Consensus pattern (10 bp):
TCATCAACAT
Found at i:14997602 original size:46 final size:46
Alignment explanation
Indices: 14997552--14997727 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
14997542 TGATTGAGCA
14997552 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
14997598 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
14997643 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
14997691 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14997728 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:14997708 original size:93 final size:93
Alignment explanation
Indices: 14997549--14997720 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
14997539 GGATGATTGA
*
14997549 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
14997614 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
14997642 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
14997706 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
14997721 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15011868 original size:6 final size:6
Alignment explanation
Indices: 15011853--15011888 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
15011843 TTTCTTAATG
15011853 TTTA-T TTTATT TTTATT TTTATT TTTA-T TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
15011889 CTTTCGGCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.31
6 20 0.69
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:15011869 original size:11 final size:11
Alignment explanation
Indices: 15011853--15011888 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
15011843 TTTCTTAATG
15011853 TTTATTTTATT
1 TTTATTTTATT
15011864 TTTATTTTTATT
1 TTTA-TTTTATT
15011876 TTTATTTTATT
1 TTTATTTTATT
15011887 TT
1 TT
15011889 CTTTCGGCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:15014969 original size:15 final size:15
Alignment explanation
Indices: 15014949--15014979 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15014939 AAGTATATAT
15014949 CTAGTTCAGACTTAA
1 CTAGTTCAGACTTAA
*
15014964 CTAGTTTAGACTTAA
1 CTAGTTCAGACTTAA
15014979 C
1 C
15014980 ATTATCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (15 bp):
CTAGTTCAGACTTAA
Found at i:15020797 original size:27 final size:27
Alignment explanation
Indices: 15020759--15020812 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
15020749 CCAAAGAGCC
15020759 AGATGACATTGAAATAAATGATTCATT
1 AGATGACATTGAAATAAATGATTCATT
15020786 AGATGACATTGAAATAAATGATTCATT
1 AGATGACATTGAAATAAATGATTCATT
15020813 CCCTGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (27 bp):
AGATGACATTGAAATAAATGATTCATT
Found at i:15029593 original size:9 final size:9
Alignment explanation
Indices: 15029576--15029608 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
15029566 TAAAAACTTA
15029576 ATCATCTAC
1 ATCATCTAC
*
15029585 ATTATCTAC
1 ATCATCTAC
15029594 ATCATCTAC
1 ATCATCTAC
15029603 ATCATC
1 ATCATC
15029609 CTCTCCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.36
Consensus pattern (9 bp):
ATCATCTAC
Found at i:15032820 original size:16 final size:17
Alignment explanation
Indices: 15032794--15032828 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15032784 CTAAACCCCC
*
15032794 TAAATACCTAAGAGGAA
1 TAAATACCTAAGACGAA
15032811 TAAA-ACCTAAGACGAA
1 TAAATACCTAAGACGAA
15032827 TA
1 TA
15032829 TTATTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.17
Consensus pattern (17 bp):
TAAATACCTAAGACGAA
Found at i:15038078 original size:96 final size:96
Alignment explanation
Indices: 15037914--15038096 Score: 330
Period size: 96 Copynumber: 1.9 Consensus size: 96
15037904 AACCCCTCGG
*
15037914 AAAAATATGATGGAGCCATATTCCAGCCCATGCGACAAAAACAGAACAACTCATGAAGAACAAAT
1 AAAAATATGATGGAGCCACATTCCAGCCCATGCGACAAAAACAGAACAACTCATGAAGAACAAAT
15037979 GTTATAGATCGATGAACTAGACGAATCTCAA
66 GTTATAGATCGATGAACTAGACGAATCTCAA
* * *
15038010 AAAAATGTGATGGAGCCACATTCCAGCCCATGCGACAGAAACAGAACAACTCATGAAGAACGAAT
1 AAAAATATGATGGAGCCACATTCCAGCCCATGCGACAAAAACAGAACAACTCATGAAGAACAAAT
15038075 GTTATAGATCGATGAACTAGAC
66 GTTATAGATCGATGAACTAGAC
15038097 AAATGGCGAA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.18
Consensus pattern (96 bp):
AAAAATATGATGGAGCCACATTCCAGCCCATGCGACAAAAACAGAACAACTCATGAAGAACAAAT
GTTATAGATCGATGAACTAGACGAATCTCAA
Found at i:15038512 original size:32 final size:32
Alignment explanation
Indices: 15038471--15038534 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
15038461 CCCGAGTGTT
*
15038471 AACACTGCTAATTTTCTTAATTTTATTTCATG
1 AACACTGCTAAGTTTCTTAATTTTATTTCATG
15038503 AACACTGCTAAGTTTCTTAATTTTATTTCATG
1 AACACTGCTAAGTTTCTTAATTTTATTTCATG
15038535 TTATTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (32 bp):
AACACTGCTAAGTTTCTTAATTTTATTTCATG
Found at i:15039476 original size:10 final size:11
Alignment explanation
Indices: 15039460--15039489 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
15039450 TCATTCTTTC
15039460 TTTTTATTTTA
1 TTTTTATTTTA
15039471 -TTTTATTTTA
1 TTTTTATTTTA
15039481 TTTTTATTT
1 TTTTTATTT
15039490 ATCTGGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:15041217 original size:7 final size:7
Alignment explanation
Indices: 15041205--15041254 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
15041195 AGTCTATTTG
15041205 TTTTATT
1 TTTTATT
15041212 TTTTATT
1 TTTTATT
15041219 TTTT-TAT
1 TTTTAT-T
15041226 TTTTA-T
1 TTTTATT
15041232 TTTTA-T
1 TTTTATT
*
15041238 GTTTA-T
1 TTTTATT
15041244 TTTTATT
1 TTTTATT
15041251 TTTT
1 TTTT
15041255 TAGAGTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 17 0.45
7 21 0.55
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:15041220 original size:6 final size:6
Alignment explanation
Indices: 15041205--15041253 Score: 62
Period size: 6 Copynumber: 7.7 Consensus size: 6
15041195 AGTCTATTTG
*
15041205 TTTTATT TTTTATTT TTTTAT TTTTAT TTTTAT GTTTAT TTTTAT TTTT
1 TTTTA-T TTTTA--T TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
15041254 TTAGAGTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
6 27 0.69
7 5 0.13
8 7 0.18
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:15044318 original size:67 final size:67
Alignment explanation
Indices: 15044210--15044362 Score: 191
Period size: 67 Copynumber: 2.3 Consensus size: 67
15044200 GTGTATTGTG
** * * * *
15044210 ATATATGTGTAATGTGATGAATGTCTAAATGATTATGTGGTTGCCTATGCAAATTATCTTAAA-A
1 ATATATGTGTAATGTGATGAATACCCAAATGAGTATGTGGTT-ACTATGCAAATTATCCTAAATA
*
15044274 TGT
65 TGA
* *
15044277 ATATATGTGTAATGTGATGTATACCCAAATGAGTGTGTGGTTACTATGCAAATTATCCTAAATTA
1 ATATATGTGTAATGTGATGAATACCCAAATGAGTATGTGGTTACTATGCAAATTATCCTAAA-TA
15044342 TGA
65 TGA
*
15044345 ATATATGTGTATTGTGAT
1 ATATATGTGTAATGTGAT
15044363 ATTTGTTTAT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
66 18 0.24
67 36 0.49
68 20 0.27
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.40
Consensus pattern (67 bp):
ATATATGTGTAATGTGATGAATACCCAAATGAGTATGTGGTTACTATGCAAATTATCCTAAATAT
GA
Found at i:15044461 original size:39 final size:39
Alignment explanation
Indices: 15044418--15044493 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
15044408 ATGTTTTTGA
*
15044418 GTATTGCGATATATGCTTCAATGTTATGTGATTATATGG
1 GTATTGCGATATATGCTTCAATGTTAGGTGATTATATGG
* ***
15044457 GTATTGTGATATATGCTTGTGTGTTAGGTGATTATAT
1 GTATTGCGATATATGCTTCAATGTTAGGTGATTATAT
15044494 ATGTAATATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.24, C:0.05, G:0.25, T:0.46
Consensus pattern (39 bp):
GTATTGCGATATATGCTTCAATGTTAGGTGATTATATGG
Found at i:15044509 original size:39 final size:39
Alignment explanation
Indices: 15044425--15044514 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 39
15044415 TGAGTATTGC
*** * * * *
15044425 GATATATGCTTCAATGTTATGTGATTATATGGGTATTGT
1 GATATATGCTTGTGTGTTAGGTGATTATATAGGTAATAT
*
15044464 GATATATGCTTGTGTGTTAGGTGATTATATATGTAATAT
1 GATATATGCTTGTGTGTTAGGTGATTATATAGGTAATAT
*
15044503 GGTATATGCTTG
1 GATATATGCTTG
15044515 AAAGTGAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.46
Consensus pattern (39 bp):
GATATATGCTTGTGTGTTAGGTGATTATATAGGTAATAT
Found at i:15046841 original size:51 final size:50
Alignment explanation
Indices: 15046751--15046854 Score: 118
Period size: 51 Copynumber: 2.1 Consensus size: 50
15046741 TGTTTCTGGG
* * *** *
15046751 GGAGAATGTGTAGCCAACGAGCTTGGCACTTAGTGCCCAGGCGTGTTTTT
1 GGAGAATGTGTAGCCAACAAGCTTGGCACTCAAAACCCAGGCGTGTTCTT
* * *
15046801 GGAGAGATGTTTAGCCTACAAGCTTGGCACTCAAAACCCAGGTGTGTTCTT
1 GGAGA-ATGTGTAGCCAACAAGCTTGGCACTCAAAACCCAGGCGTGTTCTT
15046852 GGA
1 GGA
15046855 TGGTATAGCT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
50 5 0.11
51 39 0.89
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (50 bp):
GGAGAATGTGTAGCCAACAAGCTTGGCACTCAAAACCCAGGCGTGTTCTT
Found at i:15047792 original size:32 final size:32
Alignment explanation
Indices: 15047750--15047826 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
15047740 AAGGTGTAGC
* * * *
15047750 CATGTAGGCCACATGAGCTAGGCCAGA-CTGGG
1 CATGTGGGCCACACGAGCAAGGCCA-ATCTGGA
*
15047782 CATGTGGGCCACACGGGCAAGGCCAATCTGGA
1 CATGTGGGCCACACGAGCAAGGCCAATCTGGA
*
15047814 CGTGTGGGCCACA
1 CATGTGGGCCACA
15047827 AGGGCATATG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 1 0.03
32 37 0.97
ACGTcount: A:0.23, C:0.27, G:0.35, T:0.14
Consensus pattern (32 bp):
CATGTGGGCCACACGAGCAAGGCCAATCTGGA
Found at i:15053866 original size:43 final size:43
Alignment explanation
Indices: 15053813--15054030 Score: 260
Period size: 43 Copynumber: 5.1 Consensus size: 43
15053803 TGCATATAGA
* * *
15053813 CATCGATATGTGATTACGTGTAAGATCACGTCTAGGATGTTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
* * *
15053856 CATCGGTATGTGATTACATGTAAGACCACGTCTGGGACGTTAG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
15053899 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
* * * * * *
15053942 CATCTATATGTGTTTATGAGTAAGATCC-TGTTTGGGACAG-TGG
1 CATCGATATGTGATTACGTGTAAGA-CCACGTCTGGGAC-GTTGG
* * * *
15053985 CATCGATATGAGATTACATGTAAGACCACATCAGGGACGTTGG
1 CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
15054028 CAT
1 CAT
15054031 TGTACCATAT
Statistics
Matches: 146, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
42 3 0.02
43 140 0.96
44 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
CATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGG
Found at i:15054349 original size:23 final size:24
Alignment explanation
Indices: 15054309--15054353 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
15054299 ATAATTGGCC
15054309 AAATGAAAAGTATATGTGATTTTGT
1 AAATGAAAAGTATATGTG-TTTTGT
15054334 AAATG-AAA-TATATGTGTTTT
1 AAATGAAAAGTATATGTGTTTT
15054354 CATATTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 3 0.15
25 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (24 bp):
AAATGAAAAGTATATGTGTTTTGT
Found at i:15057623 original size:23 final size:24
Alignment explanation
Indices: 15057579--15057625 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
15057569 AATCACCCTT
* *
15057579 TTTTTTTTCCTTTTTCATTTCTTCC
1 TTTTTTTTCCCTTCTCA-TTCTTCC
15057604 TTTTTTTTCCCTTCTC-TTCTTC
1 TTTTTTTTCCCTTCTCATTCTTC
15057626 ATCTATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
25 14 0.70
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTTTTCCCTTCTCATTCTTCC
Found at i:15065981 original size:27 final size:27
Alignment explanation
Indices: 15065943--15065998 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
15065933 ACTCTTTTTT
*
15065943 TTAAGTTAGTCACTTTGAATAAAATAA
1 TTAAGTTAGTCACTTTAAATAAAATAA
*
15065970 TTAAGTTAGTCACTTTAAATGAAATAA
1 TTAAGTTAGTCACTTTAAATAAAATAA
15065997 TT
1 TT
15065999 GTGTAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (27 bp):
TTAAGTTAGTCACTTTAAATAAAATAA
Found at i:15066613 original size:12 final size:12
Alignment explanation
Indices: 15066596--15066620 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15066586 TGCCTTTGTG
15066596 AAAATAAAATAA
1 AAAATAAAATAA
15066608 AAAATAAAATAA
1 AAAATAAAATAA
15066620 A
1 A
15066621 GAACACATAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:15067086 original size:20 final size:19
Alignment explanation
Indices: 15067057--15067095 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
15067047 AAAATCTGTG
15067057 TTTTTATTTTATTTTTTTA
1 TTTTTATTTTATTTTTTTA
15067076 TTTTTACTTTTATTTTTTTA
1 TTTTTA-TTTTATTTTTTTA
15067096 AAACAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTATTTTTTTA
Found at i:15074000 original size:31 final size:30
Alignment explanation
Indices: 15073963--15074024 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
15073953 TGTAATAATG
* * *
15073963 ATATATACACAATATGGTA-TTAAGAATAT
1 ATATATATACAATATAGTATTTAAAAATAT
15073992 ATATATATACAATATAGTATTTAAAAATAT
1 ATATATATACAATATAGTATTTAAAAATAT
15074022 ATA
1 ATA
15074025 CATAAGATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (30 bp):
ATATATATACAATATAGTATTTAAAAATAT
Found at i:15074040 original size:24 final size:23
Alignment explanation
Indices: 15074013--15074073 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 23
15074003 ATATAGTATT
15074013 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
*
15074037 TAAAAATATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
15074061 TAAGAAATATATA
1 TAA-AAATATATA
15074074 TAATTAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 20 0.62
25 10 0.31
26 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:15074262 original size:20 final size:21
Alignment explanation
Indices: 15074209--15074300 Score: 73
Period size: 21 Copynumber: 4.2 Consensus size: 21
15074199 ACACATATAT
*
15074209 ATATA-AATAATAGTATTAGAA
1 ATATACAAT-ATAATATTAGAA
*
15074230 ATATGCAATATAATATTAGAA
1 ATATACAATATAATATTAGAA
*
15074251 ATATAC-ATATAATAGTATAAAAA
1 ATATACAATATAATA-T-T-AGAA
*
15074274 ATATATAACTAATAATATTA-AA
1 ATATACAA-T-ATAATATTAGAA
15074296 ATATA
1 ATATA
15074301 TATAATAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
20 8 0.14
21 21 0.36
22 11 0.19
23 9 0.15
24 2 0.03
25 2 0.03
26 6 0.10
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (21 bp):
ATATACAATATAATATTAGAA
Found at i:15074292 original size:46 final size:44
Alignment explanation
Indices: 15074239--15074325 Score: 131
Period size: 45 Copynumber: 1.9 Consensus size: 44
15074229 AATATGCAAT
15074239 ATAATATTAGAAATATACAT-ATAATAGTATAAAAAATATATAACTA
1 ATAATATTA-AAATATACATAATAATA-TATAAAAAA-ATATAACTA
*
15074285 ATAATATTAAAATATATATAATAATATATAAAAAAATATAA
1 ATAATATTAAAATATACATAATAATATATAAAAAAATATAA
15074326 TATTGAAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 6 0.15
45 18 0.46
46 15 0.38
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (44 bp):
ATAATATTAAAATATACATAATAATATATAAAAAAATATAACTA
Found at i:15074311 original size:10 final size:10
Alignment explanation
Indices: 15074257--15074327 Score: 54
Period size: 10 Copynumber: 6.8 Consensus size: 10
15074247 AGAAATATAC
*
15074257 ATATAATAGT
1 ATATAATAAT
*
15074267 ATA-AAAAAT
1 ATATAATAAT
15074276 ATATAACTAAT
1 ATATAA-TAAT
*
15074287 AATATTAAAATAT
1 -ATA-TAATA-AT
15074300 ATATAATAAT
1 ATATAATAAT
* *
15074310 ATATAAAAAA
1 ATATAATAAT
15074320 ATATAATA
1 ATATAATA
15074328 TTGAAAACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
9 7 0.15
10 22 0.46
11 7 0.15
12 7 0.15
13 5 0.10
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
ATATAATAAT
Found at i:15074430 original size:3 final size:3
Alignment explanation
Indices: 15074422--15074722 Score: 64
Period size: 3 Copynumber: 99.7 Consensus size: 3
15074412 AAATAATGAC
* *
15074422 TAA TAA TAA TAA TAA TAT TAA AAA TAA TAA TGAA GTATA TAA -AA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA -TA-A TAA TAA TAA
* * * *
15074468 GAA -AA T-A TAA T-A TAA TAG TAA TAT TAA -AA TAA -AG TAA TTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* *
15074509 -AA TAG TAC T-A TATA TAA -ATA TATA TACA TACA TATA TAA T-A TACA
1 TAA TAA TAA TAA TA-A TAA TA-A TA-A TA-A TA-A TA-A TAA TAA TA-A
* * *
15074554 TACA CTAG TAT TAA TAA TAA TAA TAA -AA CTAGA -AA TAA TAA TAA TTAG
1 TA-A -TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA TAA TAA -TAA
* * * * ** *
15074602 TAA TAA TAA TACG TTA GAA -AA CAA TTAA T-A TGT TAA TAA AAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
* * * *
15074647 TAG TAA TGAA -AA TAA TAC TAA CAA TAA TAA TAA -AGA AAA TAA TAGA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A
* *
15074693 -AA TAA -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
15074723 TGTAAAAAAT
Statistics
Matches: 222, Mismatches: 42, Indels: 68
0.67 0.13 0.20
Matches are distributed among these distances:
2 32 0.14
3 144 0.65
4 41 0.18
5 5 0.02
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:15074552 original size:17 final size:16
Alignment explanation
Indices: 15074526--15074557 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15074516 CTATATATAA
15074526 ATATATATACATACAT
1 ATATATATACATACAT
15074542 ATATAATATACATACA
1 ATAT-ATATACATACA
15074558 CTAGTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATATATACATACAT
Found at i:15074742 original size:44 final size:41
Alignment explanation
Indices: 15074640--15074720 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
15074630 TATGTTAATA
*
15074640 AAAATAATAGTAATGAAAATAATACTAACAATAATAATAAAG
1 AAAATAATAGAAAT-AAAATAATACTAACAATAATAATAAAG
* * *
15074682 AAAATAATAGAAATAAAATAATAGTAATAATATTAATAA
1 AAAATAATAGAAATAAAATAATACTAACAATAATAATAA
15074721 TATGTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.26
Consensus pattern (41 bp):
AAAATAATAGAAATAAAATAATACTAACAATAATAATAAAG
Found at i:15075184 original size:11 final size:11
Alignment explanation
Indices: 15075151--15075191 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
15075141 AAATTATTTT
15075151 GAAGAGAGAAA
1 GAAGAGAGAAA
*
15075162 GAA-A-AAAAA
1 GAAGAGAGAAA
*
15075171 GAAGGGAGAAA
1 GAAGAGAGAAA
15075182 GAAGAGAGAA
1 GAAGAGAGAA
15075192 GGGAGGGGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 7 0.29
10 1 0.04
11 16 0.67
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:15079601 original size:3 final size:3
Alignment explanation
Indices: 15079593--15079626 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
15079583 AAGGTAAGTG
*
15079593 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15079627 CAAGAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15079744 original size:11 final size:11
Alignment explanation
Indices: 15079728--15079765 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
15079718 GAATAGATGA
15079728 TAATAAAATAG
1 TAATAAAATAG
15079739 TAAT--AATAG
1 TAATAAAATAG
15079748 ATAATAAAATAG
1 -TAATAAAATAG
15079760 TAATAA
1 TAATAA
15079766 TAATGCAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 5 0.21
10 4 0.17
11 10 0.42
12 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (11 bp):
TAATAAAATAG
Found at i:15079754 original size:24 final size:21
Alignment explanation
Indices: 15079726--15079767 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
15079716 ATGAATAGAT
15079726 GATAATAAAATAGTAATAATA
1 GATAATAAAATAGTAATAATA
15079747 GATAATAAAATAGTAATAATA
1 GATAATAAAATAGTAATAATA
15079768 ATGCAGGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (21 bp):
GATAATAAAATAGTAATAATA
Found at i:15079862 original size:4 final size:4
Alignment explanation
Indices: 15079853--15079975 Score: 63
Period size: 4 Copynumber: 30.8 Consensus size: 4
15079843 ACAAGGATTA
* * * * * *
15079853 AAAT AAAT AAAT AAAT AAAC AAGT GAAT AAA- ATAT AAAT AGAT AAGT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * ** * * *
15079900 AAAT GAAC AAGC AAAT GAAT GAAAT AAA- AGGAAT -AAT GAAT AAAT AAAC
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT AAAT
* *
15079949 AAGT AAAT AAAT AAAT GAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
15079976 AGAATTAAAA
Statistics
Matches: 86, Mismatches: 27, Indels: 12
0.69 0.22 0.10
Matches are distributed among these distances:
3 6 0.07
4 75 0.87
5 5 0.06
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:15079934 original size:53 final size:47
Alignment explanation
Indices: 15079853--15079987 Score: 110
Period size: 53 Copynumber: 2.7 Consensus size: 47
15079843 ACAAGGATTA
* * * ** * *
15079853 AAATAAATAAATAAATAAACAAGTGAATAAAATATAAATAGATAAGT
1 AAATAAACAAATGAATAAATAAAAGAATAAAATATAAATAAACAAGT
*
15079900 AAATGAACAAGCAAATGAATGAAATAAAAGGAATAATGA-ATAAATAAACAAGT
1 AAAT--A-AA-CAAATGAAT-AAATAAAA-GAATAA-AATATAAATAAACAAGT
*
15079953 AAATAAATAAATGAATAAATAAAAGAATTAAAATA
1 AAATAAACAAATGAATAAATAAAAGAA-TAAAATA
15079988 AAAAGGGTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
47 8 0.12
48 12 0.17
49 9 0.13
50 4 0.06
51 8 0.12
52 5 0.07
53 22 0.32
54 1 0.01
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.21
Consensus pattern (47 bp):
AAATAAACAAATGAATAAATAAAAGAATAAAATATAAATAAACAAGT
Found at i:15086985 original size:15 final size:14
Alignment explanation
Indices: 15086959--15086999 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 14
15086949 AAATTTAGTC
15086959 TTTATATTTTAATTT
1 TTTAT-TTTTAATTT
15086974 TATTATTTTTAATTT
1 T-TTATTTTTAATTT
15086989 TTGTATTTTTA
1 TT-TATTTTTA
15087000 GAATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.04
15 19 0.79
16 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTATTTTTAATTT
Found at i:15090471 original size:21 final size:22
Alignment explanation
Indices: 15090440--15090481 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
15090430 TAATCATAAA
*
15090440 AATCAACAATTTAAATCTATTT
1 AATCAACAATTCAAATCTATTT
*
15090462 AATCAA-AATTCAAATTTATT
1 AATCAACAATTCAAATCTATT
15090482 CGACCCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (22 bp):
AATCAACAATTCAAATCTATTT
Found at i:15101095 original size:17 final size:16
Alignment explanation
Indices: 15101054--15101095 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
15101044 AACATCTTCA
15101054 TTTCTTCTCTTCTTTT
1 TTTCTTCTCTTCTTTT
*
15101070 TCTTTTTCTCTTCTTCTT
1 T-TTCTTCTCTTCTT-TT
15101088 TTTCTTCT
1 TTTCTTCT
15101096 ACTACCTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 18 0.82
18 3 0.14
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTCTCTTCTTTT
Found at i:15101990 original size:6 final size:6
Alignment explanation
Indices: 15101979--15102141 Score: 131
Period size: 6 Copynumber: 26.8 Consensus size: 6
15101969 AACCAAAATG
* *
15101979 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AG-AATC
* *
15102027 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTAA-C AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AG-AATC AGAATC
* * * * *
15102076 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AAAATT ACGTGA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
15102125 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
15102142 GTGAATGCAA
Statistics
Matches: 125, Mismatches: 18, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
5 10 0.08
6 104 0.83
7 9 0.07
8 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:15102006 original size:24 final size:24
Alignment explanation
Indices: 15101979--15102112 Score: 172
Period size: 24 Copynumber: 5.8 Consensus size: 24
15101969 AACCAAAATG
15101979 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* *
15102003 AGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
*
15102027 AGAATCAGAATCAGAATTAGGT---
1 AGAATCAGAATCAGAATCA-GTAAC
15102049 -G-A-CAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* *
15102070 AGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
15102094 AGAATCAGAATCAGAATCA
1 AGAATCAGAATCAGAATCA
15102113 AAATTACGTG
Statistics
Matches: 95, Mismatches: 8, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
18 2 0.02
19 13 0.14
20 1 0.01
21 1 0.01
22 1 0.01
23 1 0.01
24 74 0.78
25 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:15102062 original size:67 final size:67
Alignment explanation
Indices: 15101984--15102110 Score: 254
Period size: 67 Copynumber: 1.9 Consensus size: 67
15101974 AAATGAGAAT
15101984 CAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATTAGGT
1 CAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATTAGGT
15102049 GA
66 GA
15102051 CAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
15102111 CAAAATTACG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (67 bp):
CAGAATCAGAATCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATTAGGT
GA
Done.