Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 86 of 106
Found at i:32674133 original size:252 final size:253
Alignment explanation
Indices: 32673682--32674180 Score: 786
Period size: 252 Copynumber: 2.0 Consensus size: 253
32673672 TTTTTCTTTT
* * *
32673682 TATTCCTAAGACCACATTACTTTGGTAGAATATGCATGCAATTTTTTTTTCTTTCCTCAGTTAAT
1 TATTACTAAGACCACATTACTTTGGCAGAATATGCATGCAATTTTTTTTTCTTTCCTAAGTTAAT
*
32673747 AATGCCAAGTCTTGTTGGTAGCAAATGCAAGAAATCCTTATCTATTGACTATCTATTGCATGCAA
66 AATGCCAAGTCTTCTTGGTAGCAAATGCAAGAAATCCTTATCTATTGACTATCTATTGCATGCAA
** * *
32673812 ATCTTATCTTATTACATAGATATTAATGGTAAGGATAGGGAAACTAGATTGAAAGGCCATTAATT
131 ATCTTATCTTATTACATAGATATTAACAGCAAAGATAGGGAAACTAGATTGAAAGGCCATTAATT
* * * * * *
32673877 TTATTCTCTATTCTCTTGCCAAAACCGAACTTATCTTGAAATCTAGAAACTAAAATAC
196 TTATTATCTATTCTCTTGCCAAAACCAAACCTACCTCGAAATCTAAAAACTAAAATAC
*
32673935 TATTACTAAGACCACATTACTTTGGCAGAATATGCATGCAA-TTTTTTTTCTTTTCTAAGTTAAT
1 TATTACTAAGACCACATTACTTTGGCAGAATATGCATGCAATTTTTTTTTCTTTCCTAAGTTAAT
* * * *
32673999 AATGCCGAGTCTTCTTGGTAGCAAATGCAAGAAATCCTTATTTATTGGCTGTCTATTGCATGCAA
66 AATGCCAAGTCTTCTTGGTAGCAAATGCAAGAAATCCTTATCTATTGACTATCTATTGCATGCAA
*
32674064 ATCTTATCTTATTACATAGTTATTAACAGCAAAGAT-GGTGAAACTAGATTGAAAGGCCATTAAT
131 ATCTTATCTTATTACATAGATATTAACAGCAAAGATAGG-GAAACTAGATTGAAAGGCCATTAAT
*
32674128 TTTATTATCTCTTCTCTTGCCAAAACCAAACCTACCTCGAAATCTAAAAACTA
195 TTTATTATCTATTCTCTTGCCAAAACCAAACCTACCTCGAAATCTAAAAACTA
32674181 GAACACTACA
Statistics
Matches: 224, Mismatches: 21, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
251 2 0.01
252 183 0.82
253 39 0.17
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (253 bp):
TATTACTAAGACCACATTACTTTGGCAGAATATGCATGCAATTTTTTTTTCTTTCCTAAGTTAAT
AATGCCAAGTCTTCTTGGTAGCAAATGCAAGAAATCCTTATCTATTGACTATCTATTGCATGCAA
ATCTTATCTTATTACATAGATATTAACAGCAAAGATAGGGAAACTAGATTGAAAGGCCATTAATT
TTATTATCTATTCTCTTGCCAAAACCAAACCTACCTCGAAATCTAAAAACTAAAATAC
Found at i:32675509 original size:20 final size:21
Alignment explanation
Indices: 32675484--32675522 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
32675474 GAAATTGTGA
*
32675484 ATATGCATGATGG-TTTTAGG
1 ATATGCATCATGGCTTTTAGG
32675504 ATATGCATCATGGCTTTTA
1 ATATGCATCATGGCTTTTA
32675523 AATGAGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (21 bp):
ATATGCATCATGGCTTTTAGG
Found at i:32677595 original size:40 final size:38
Alignment explanation
Indices: 32677504--32677606 Score: 129
Period size: 38 Copynumber: 2.7 Consensus size: 38
32677494 ATACTGCCCG
*
32677504 TGTGCACGATGTGGGGGGATGCACACGATTGCATTAAT
1 TGTGCACGATGTGGAGGGATGCACACGATTGCATTAAT
**
32677542 TGTGCACGATGTGGAGGGATGCACACGA-TG-ACTCTGGCT
1 TGTGCACGATGTGGAGGGATGCACACGATTGCA-T-T-AAT
32677581 ATGTGCACGATGTGGAGGGATGCACA
1 -TGTGCACGATGTGGAGGGATGCACA
32677607 TGAGCTGGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
36 1 0.02
37 3 0.05
38 28 0.48
39 1 0.02
40 25 0.43
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.23
Consensus pattern (38 bp):
TGTGCACGATGTGGAGGGATGCACACGATTGCATTAAT
Found at i:32679861 original size:30 final size:30
Alignment explanation
Indices: 32679827--32679898 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
32679817 GAATCAGAGA
32679827 AAACCTTGTTCATGGAGAATGAAAACAAAG
1 AAACCTTGTTCATGGAGAATGAAAACAAAG
* ** * *
32679857 AAACCTTATTTGTGGAGAATGAAATCAAGG
1 AAACCTTGTTCATGGAGAATGAAAACAAAG
*
32679887 AAACCCTGTTCA
1 AAACCTTGTTCA
32679899 AAATAATAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (30 bp):
AAACCTTGTTCATGGAGAATGAAAACAAAG
Found at i:32688974 original size:26 final size:26
Alignment explanation
Indices: 32688938--32688992 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
32688928 GTTATAACTC
32688938 TTAATCTAGGATTATGGTGGATGCTA
1 TTAATCTAGGATTATGGTGGATGCTA
*
32688964 TTAATCTAGGATTATGGTGGATGTTA
1 TTAATCTAGGATTATGGTGGATGCTA
32688990 TTA
1 TTA
32688993 CGTAGTTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.27, C:0.05, G:0.25, T:0.42
Consensus pattern (26 bp):
TTAATCTAGGATTATGGTGGATGCTA
Found at i:32699755 original size:43 final size:43
Alignment explanation
Indices: 32699701--32699784 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
32699691 GAAATATTTT
*
32699701 GTTGAACTTTATCAAACATCACTGAATGCTT-AAAGAAAAAAAC
1 GTTGAACTTTATCAAACATCACTAAATG-TTAAAAGAAAAAAAC
* *
32699744 GTTGAATTTTATCAAGCATCACTAAATGTTAAAAGAAAAAA
1 GTTGAACTTTATCAAACATCACTAAATGTTAAAAGAAAAAA
32699785 TATCGAAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (43 bp):
GTTGAACTTTATCAAACATCACTAAATGTTAAAAGAAAAAAAC
Found at i:32705724 original size:21 final size:20
Alignment explanation
Indices: 32705697--32705746 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
32705687 AACCCAGATC
*
32705697 GAGCTCTCTAGGGGAGCACCG
1 GAGCTCTCTA-AGGAGCACCG
*
32705718 TAGCTCTCCTAAGGAGCACCG
1 GAGCTCT-CTAAGGAGCACCG
32705739 GAGCTCTC
1 GAGCTCTC
32705747 CTGGAGAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (20 bp):
GAGCTCTCTAAGGAGCACCG
Found at i:32705747 original size:21 final size:21
Alignment explanation
Indices: 32705709--32705748 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32705699 GCTCTCTAGG
*
32705709 GGAGCACCGTAGCTCTCCTAA
1 GGAGCACCGGAGCTCTCCTAA
32705730 GGAGCACCGGAGCTCTCCT
1 GGAGCACCGGAGCTCTCCT
32705749 GGAGAGCTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (21 bp):
GGAGCACCGGAGCTCTCCTAA
Found at i:32705755 original size:21 final size:21
Alignment explanation
Indices: 32705697--32705755 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
32705687 AACCCAGATC
*
32705697 GAGCTCT-CTAGGGGAGCACCG
1 GAGCTCTCCT-GGAGAGCACCG
* *
32705718 TAGCTCTCCT-AAGGAGCACCG
1 GAGCTCTCCTGGA-GAGCACCG
32705739 GAGCTCTCCTGGAGAGC
1 GAGCTCTCCTGGAGAGC
32705756 TCGATTAAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
21 27 0.90
22 3 0.10
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.17
Consensus pattern (21 bp):
GAGCTCTCCTGGAGAGCACCG
Found at i:32714183 original size:152 final size:152
Alignment explanation
Indices: 32713904--32714208 Score: 522
Period size: 152 Copynumber: 2.0 Consensus size: 152
32713894 ATGTGTTCTT
* * *
32713904 TTTGAGCTTTGATCATTCGTTCCTCAGACACCATGCTTTGAGTGTTGATTTATGATTATTTGAAT
1 TTTGAGCTTTGATCATTAGTTCCTCAAACACCATGCTTTGAGTGTTGATTTATCATTATTTGAAT
*
32713969 CAGTAGGGCGTGCAAAAAATCCAAAGTGTAATGTGTTTTAGGAAATTTAGATTTACACGGTTCCT
66 CAGTAGGGCCTGCAAAAAATCCAAAGTGTAATGTGTTTTAGGAAATTTAGATTTACACGGTTCCT
*
32714034 TATTTTTTCCGTATCTTCAATA
131 TACTTTTTCCGTATCTTCAATA
*
32714056 TTTGAG-TTCTGATCATTAGTTCCTCAAACACCATGCTTTGAGTGTTGCTTTATCATTATTTGAA
1 TTTGAGCTT-TGATCATTAGTTCCTCAAACACCATGCTTTGAGTGTTGATTTATCATTATTTGAA
* *
32714120 TCAGTAGGGCCTGCAAAAAATCCAAGGTGTAATGTGTTTTAGGAAATTTAGATTTACATGGTTCC
65 TCAGTAGGGCCTGCAAAAAATCCAAAGTGTAATGTGTTTTAGGAAATTTAGATTTACACGGTTCC
32714185 TTACTTTTTCCGTATCTTCAATA
130 TTACTTTTTCCGTATCTTCAATA
32714208 T
1 T
32714209 CATTAAAATA
Statistics
Matches: 144, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
151 2 0.01
152 142 0.99
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (152 bp):
TTTGAGCTTTGATCATTAGTTCCTCAAACACCATGCTTTGAGTGTTGATTTATCATTATTTGAAT
CAGTAGGGCCTGCAAAAAATCCAAAGTGTAATGTGTTTTAGGAAATTTAGATTTACACGGTTCCT
TACTTTTTCCGTATCTTCAATA
Found at i:32714381 original size:2 final size:2
Alignment explanation
Indices: 32714374--32714399 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32714364 CATTATTAGA
32714374 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
32714400 TGCTAAAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:32714566 original size:89 final size:89
Alignment explanation
Indices: 32714415--32714583 Score: 230
Period size: 89 Copynumber: 1.9 Consensus size: 89
32714405 AAAGCAAGAC
* * ** * * *
32714415 CATTGTTTTATTAAAATTTAGTTCAAACTGTGATATCTTGCATTGTAAGTTGCCTAGATATATAC
1 CATTGTTTCATTAAAATTTAATTCAAACTACGATATCCTGCATTATAAGTTACCTAGATATATAC
* *
32714480 ATGACATATAACTATTCTGATGAT
66 AGGACAGATAACTATTCTGATGAT
* * *
32714504 CATTGTTTCATTAAAATTTAATTGAAATTACGATATCCTGCATTATAGGTTACCTAGATATATAC
1 CATTGTTTCATTAAAATTTAATTCAAACTACGATATCCTGCATTATAAGTTACCTAGATATATAC
32714569 AGGACAGATAACTAT
66 AGGACAGATAACTAT
32714584 ACTTGTGATA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (89 bp):
CATTGTTTCATTAAAATTTAATTCAAACTACGATATCCTGCATTATAAGTTACCTAGATATATAC
AGGACAGATAACTATTCTGATGAT
Found at i:32730024 original size:2 final size:2
Alignment explanation
Indices: 32730017--32730054 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
32730007 TTTTAGAGAA
32730017 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32730055 TAAAATCCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32731083 original size:2 final size:2
Alignment explanation
Indices: 32731072--32731108 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
32731062 TTTATCAACA
32731072 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32731109 TGAATTACTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:32737840 original size:20 final size:22
Alignment explanation
Indices: 32737815--32737855 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
32737805 AGACTTCATC
*
32737815 AATAAAT-TT-GTCTTTCAAAA
1 AATAAATATTGGTATTTCAAAA
32737835 AATAAATATTGGTATTTCAAA
1 AATAAATATTGGTATTTCAAA
32737856 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (22 bp):
AATAAATATTGGTATTTCAAAA
Found at i:32738087 original size:2 final size:2
Alignment explanation
Indices: 32738069--32738164 Score: 142
Period size: 2 Copynumber: 48.0 Consensus size: 2
32738059 GTCAAAAACC
*
32738069 TA TA TA CA TA TA CTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
32738112 TA TA NA -A CTA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32738153 TA TA TA TA TA TA
1 TA TA TA TA TA TA
32738165 ATACAGTTAA
Statistics
Matches: 87, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
1 2 0.02
2 82 0.94
3 3 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:32758756 original size:15 final size:15
Alignment explanation
Indices: 32758695--32758749 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
32758685 AACATTATAA
*
32758695 AATTATA-TTCTCAAT
1 AATTATATTTCT-AAC
*
32758710 AATTATATATCTAAC
1 AATTATATTTCTAAC
* *
32758725 AATCACATTTCTAAC
1 AATTATATTTCTAAC
32758740 AATTATATTT
1 AATTATATTT
32758750 TCAACAACAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
15 29 0.91
16 3 0.09
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTATATTTCTAAC
Found at i:32760231 original size:17 final size:17
Alignment explanation
Indices: 32760211--32760243 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32760201 TGAAAAACTC
32760211 TAAAAA-AATAATTTTTT
1 TAAAAATAA-AATTTTTT
32760228 TAAAAATAAAATTTTT
1 TAAAAATAAAATTTTT
32760244 AAAAAAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAAATAAAATTTTTT
Found at i:32760234 original size:15 final size:15
Alignment explanation
Indices: 32760214--32760248 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
32760204 AAAACTCTAA
**
32760214 AAAAATAATTTTTTT
1 AAAAATAAAATTTTT
32760229 AAAAATAAAATTTTT
1 AAAAATAAAATTTTT
32760244 AAAAA
1 AAAAA
32760249 AAGAGCTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAAATAAAATTTTT
Found at i:32760585 original size:28 final size:28
Alignment explanation
Indices: 32760546--32760668 Score: 84
Period size: 28 Copynumber: 4.6 Consensus size: 28
32760536 CATAAGAAGA
32760546 AATTA-TTA-ATTTTATATATTGAATTT
1 AATTATTTATATTTTATATATTGAATTT
* *
32760572 AATTATTTATATTTTACATATTATAATTT
1 AATTATTTATATTTTATATATT-GAATTT
* *
32760601 -TTTATTTA-ATTTTATAT-TTCAATTAT
1 AATTATTTATATTTTATATATTGAATT-T
* *
32760627 CAATT-TTTTTATTTT-T-GATTGAATTT
1 -AATTATTTATATTTTATATATTGAATTT
*
32760653 AATATATTAAT-TTTTA
1 AAT-TATTTATATTTTA
32760669 AAATTTTTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
25 7 0.09
26 14 0.19
27 24 0.32
28 25 0.33
29 5 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
AATTATTTATATTTTATATATTGAATTT
Found at i:32760612 original size:12 final size:12
Alignment explanation
Indices: 32760551--32760624 Score: 58
Period size: 12 Copynumber: 5.5 Consensus size: 12
32760541 GAAGAAATTA
32760551 TTAATTTTATAT
1 TTAATTTTATAT
*
32760563 ATTGAATTTAATTAT
1 -TT-AATTTTA-TAT
32760578 TTATATTTTACATAT
1 TTA-ATTTT--ATAT
*
32760593 TATAATTTTTTAT
1 T-TAATTTTATAT
32760606 TTAATTTTATAT
1 TTAATTTTATAT
32760618 TTCAATT
1 TT-AATT
32760625 ATCAATTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
12 12 0.24
13 11 0.22
14 12 0.24
15 12 0.24
16 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (12 bp):
TTAATTTTATAT
Found at i:32760640 original size:33 final size:36
Alignment explanation
Indices: 32760568--32760640 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 36
32760558 TATATATTGA
32760568 ATTTAATTATTTATATTTTACATATTATAATTTTTT
1 ATTTAATTATTTATATTTTACATATTATAATTTTTT
32760604 ATTTAA-T-TTTATA-TTT-CA-ATTATCAATTTTTTT
1 ATTTAATTATTTATATTTTACATATTAT-AA-TTTTTT
32760637 ATTT
1 ATTT
32760641 TTGATTGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
31 5 0.14
32 4 0.11
33 13 0.37
34 6 0.17
35 1 0.03
36 6 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (36 bp):
ATTTAATTATTTATATTTTACATATTATAATTTTTT
Found at i:32762371 original size:21 final size:21
Alignment explanation
Indices: 32762342--32762385 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
32762332 AAATTTTATA
*
32762342 TTAACTATATTGATATGACAT
1 TTAACTATATTAATATGACAT
* *
32762363 TTAATTATATTAATATGATAT
1 TTAACTATATTAATATGACAT
32762384 TT
1 TT
32762386 TTTATTGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (21 bp):
TTAACTATATTAATATGACAT
Found at i:32782258 original size:78 final size:78
Alignment explanation
Indices: 32782064--32782270 Score: 276
Period size: 77 Copynumber: 2.7 Consensus size: 78
32782054 AAAATGTTAA
* * * * * *
32782064 ATTTACATATTGGCACCATCATACCTTCATGTATAATAGGAATGCCACATGCTCACTTATCATAT
1 ATTTACATATTGGCATCATAATACCTTAACGTATAATAGAAATGCCACATGCTCACTTATCACAT
32782129 GAGCCTTGATGGT
66 GAGCCTTGATGGT
*
32782142 -TTTACATATTGGCATCATAATACCTTAACGTATAATAGAAATGCCACATG-TCCATTTATCACA
1 ATTTACATATTGGCATCATAATACCTTAACGTATAATAGAAATGCCACATGCT-CACTTATCACA
32782205 T-AGACCTTGATGGT
65 TGAG-CCTTGATGGT
* * * *
32782219 ATTTATATATTGGCATCATTATACCTTAACGAATGATAGAAATGCCACATGC
1 ATTTACATATTGGCATCATAATACCTTAACGTATAATAGAAATGCCACATGC
32782271 ACATAACTTG
Statistics
Matches: 114, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
76 3 0.03
77 65 0.57
78 46 0.40
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (78 bp):
ATTTACATATTGGCATCATAATACCTTAACGTATAATAGAAATGCCACATGCTCACTTATCACAT
GAGCCTTGATGGT
Found at i:32785117 original size:30 final size:30
Alignment explanation
Indices: 32785012--32785119 Score: 100
Period size: 30 Copynumber: 3.8 Consensus size: 30
32785002 ATCTTGGCCT
* * *
32785012 AGGGAGCACTCAACGGTGCTCCCAAAACCA
1 AGGGAGCACTCGACGGTGCTCCCCAAGCCA
32785042 AGGGA--AC-CGA--GTGCTCCCCAAGCCA
1 AGGGAGCACTCGACGGTGCTCCCCAAGCCA
* * * * *
32785067 GGGGAGCACTTGACGATGCTCCTCAAGCTA
1 AGGGAGCACTCGACGGTGCTCCCCAAGCCA
*
32785097 AGGGAGCACTCGATGGTGCTCCC
1 AGGGAGCACTCGACGGTGCTCCC
32785120 AGGCCATGGA
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
25 17 0.28
27 4 0.07
28 4 0.07
30 35 0.58
ACGTcount: A:0.26, C:0.31, G:0.29, T:0.14
Consensus pattern (30 bp):
AGGGAGCACTCGACGGTGCTCCCCAAGCCA
Found at i:32787313 original size:2 final size:2
Alignment explanation
Indices: 32787308--32787363 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
32787298 ACACACACAC
32787308 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32787350 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
32787364 GTATTAAGTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32791820 original size:34 final size:34
Alignment explanation
Indices: 32791773--32791844 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 34
32791763 AATTTGTCTC
32791773 ATCA-ATCTCACCTCGTACTCCCATATCACCCAA
1 ATCATATCTCACCTCGTACTCCCATATCACCCAA
*
32791806 ATCATATCTCACCTCGTACTCCCATATCACCTAA
1 ATCATATCTCACCTCGTACTCCCATATCACCCAA
32791840 ATCAT
1 ATCAT
32791845 GCATTCCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 4 0.11
34 33 0.89
ACGTcount: A:0.31, C:0.39, G:0.03, T:0.28
Consensus pattern (34 bp):
ATCATATCTCACCTCGTACTCCCATATCACCCAA
Found at i:32791837 original size:18 final size:18
Alignment explanation
Indices: 32791780--32791837 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
32791770 CTCATCAATC
32791780 TCACCTCGTACTCCCATA
1 TCACCTCGTACTCCCATA
* * ** *
32791798 TCACC-C-AAATCATATC
1 TCACCTCGTACTCCCATA
32791814 TCACCTCGTACTCCCATA
1 TCACCTCGTACTCCCATA
32791832 TCACCT
1 TCACCT
32791838 AAATCATGCA
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
16 10 0.36
17 2 0.07
18 16 0.57
ACGTcount: A:0.26, C:0.43, G:0.03, T:0.28
Consensus pattern (18 bp):
TCACCTCGTACTCCCATA
Found at i:32792224 original size:39 final size:39
Alignment explanation
Indices: 32792181--32792273 Score: 168
Period size: 39 Copynumber: 2.4 Consensus size: 39
32792171 CTATTTATTA
*
32792181 AGACTCATTAATAAGATCCCATCTCATGTCTAAGGAGAT
1 AGACTCATTAATAAGATCCCATCTCATGTCTAAGGAGAC
32792220 AGACTCATTAATAAGATCCCATCTCATGTCTAAGGAGAC
1 AGACTCATTAATAAGATCCCATCTCATGTCTAAGGAGAC
32792259 AGGACTCATTAATAA
1 A-GACTCATTAATAA
32792274 TATCATATTG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 39 0.75
40 13 0.25
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (39 bp):
AGACTCATTAATAAGATCCCATCTCATGTCTAAGGAGAC
Found at i:32799516 original size:24 final size:24
Alignment explanation
Indices: 32799484--32799539 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
32799474 CAAATAATTA
32799484 TGTTGGAAAACAAACAATTATATT
1 TGTTGGAAAACAAACAATTATATT
* * *
32799508 TGTTGGAAAATAAACAATTGTGTT
1 TGTTGGAAAACAAACAATTATATT
32799532 TGTTGGAA
1 TGTTGGAA
32799540 CAGTCACTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (24 bp):
TGTTGGAAAACAAACAATTATATT
Found at i:32802343 original size:18 final size:18
Alignment explanation
Indices: 32802317--32802363 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 18
32802307 TTTCCAAGAT
32802317 TTTTGAAAATTTGGATTA
1 TTTTGAAAATTTGGATTA
*
32802335 TTTTCAAAAATTTGGATTA
1 TTTT-GAAAATTTGGATTA
32802354 TTTTGAAAAT
1 TTTTGAAAAT
32802364 GGTGGGAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 17 0.65
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (18 bp):
TTTTGAAAATTTGGATTA
Found at i:32802511 original size:24 final size:24
Alignment explanation
Indices: 32802477--32802571 Score: 84
Period size: 24 Copynumber: 4.0 Consensus size: 24
32802467 ATTATATTGG
*
32802477 AAAACAAACAATTATGTTTGTTGA
1 AAAATAAACAATTATGTTTGTTGA
* *
32802501 AAAATAGACAATTATGATTGTTG-
1 AAAATAAACAATTATGTTTGTTGA
* * *
32802524 GAAATAAACAATTGTGTTTATTTGA
1 AAAATAAACAATTATGTTT-GTTGA
* * * *
32802549 AACAGACACAATTGTGTTTGTTG
1 AAAATAAACAATTATGTTTGTTG
32802572 GAATAGTAAC
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
23 15 0.27
24 26 0.46
25 15 0.27
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (24 bp):
AAAATAAACAATTATGTTTGTTGA
Found at i:32802550 original size:48 final size:47
Alignment explanation
Indices: 32802473--32802574 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 47
32802463 AGTAATTATA
* *
32802473 TTGGAAAACAAACAATTATGTTTGTTGAAAAATAGACAATTATGATTG
1 TTGG-AAACAAACAATTATGTTTGTTGAAAAAGACACAATTATGATTG
* * * * * *
32802521 TTGGAAATAAACAATTGTGTTTATTTGAAACAGACACAATTGTGTTTG
1 TTGGAAACAAACAATTATGTTT-GTTGAAAAAGACACAATTATGATTG
32802569 TTGGAA
1 TTGGAA
32802575 TAGTAACTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
47 16 0.36
48 29 0.64
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (47 bp):
TTGGAAACAAACAATTATGTTTGTTGAAAAAGACACAATTATGATTG
Found at i:32803936 original size:2 final size:2
Alignment explanation
Indices: 32803929--32803956 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32803919 AATTTAATAC
32803929 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32803957 TAAATTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32804401 original size:29 final size:29
Alignment explanation
Indices: 32804368--32804424 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
32804358 TATTCAGAAA
32804368 AATTCAATTAAACCTTTATATTTTTATTG
1 AATTCAATTAAACCTTTATATTTTTATTG
32804397 AATTCAATTAAACCTTTATATTTTTATT
1 AATTCAATTAAACCTTTATATTTTTATT
32804425 TTGAGCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.02, T:0.53
Consensus pattern (29 bp):
AATTCAATTAAACCTTTATATTTTTATTG
Found at i:32807346 original size:19 final size:19
Alignment explanation
Indices: 32807318--32807355 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
32807308 CCATTTGACT
*
32807318 TATTGTAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
*
32807337 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
32807356 GTTGTGAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:32821529 original size:28 final size:29
Alignment explanation
Indices: 32821486--32821545 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
32821476 ACAAGTGTCC
* *
32821486 TGGTGGTGAAAAATTACGATTTTGCCCCTA
1 TGGTGGT-AAAAATTACCATTTTACCCCTA
32821516 TGGTGGT-AAAATTACCATTTTACCCCTA
1 TGGTGGTAAAAATTACCATTTTACCCCTA
32821544 TG
1 TG
32821546 CTCCGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 21 0.75
30 7 0.25
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (29 bp):
TGGTGGTAAAAATTACCATTTTACCCCTA
Found at i:32821780 original size:19 final size:19
Alignment explanation
Indices: 32821756--32821792 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32821746 TGAGACTTTA
32821756 AAATTCTCAATTTCACCTT
1 AAATTCTCAATTTCACCTT
* *
32821775 AAATTCTCTATTTGACCT
1 AAATTCTCAATTTCACCT
32821793 AGTTCGAAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.03, T:0.43
Consensus pattern (19 bp):
AAATTCTCAATTTCACCTT
Found at i:32822761 original size:30 final size:30
Alignment explanation
Indices: 32822720--32822789 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
32822710 ACGTTCAATC
* *
32822720 AAGCCCTTATACTTTTATTTTGAGCCAAAT
1 AAGCTCTTATACTTTTATTTTGAACCAAAT
* *
32822750 AAGCTTTTATACTTTTATTTTGAATCAAAT
1 AAGCTCTTATACTTTTATTTTGAACCAAAT
32822780 AAGCTCTTAT
1 AAGCTCTTAT
32822790 GACTAATGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (30 bp):
AAGCTCTTATACTTTTATTTTGAACCAAAT
Found at i:32823028 original size:22 final size:22
Alignment explanation
Indices: 32823000--32823051 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
32822990 GTGGATACAA
32823000 AATGACAAGTAGCATTTTAACT
1 AATGACAAGTAGCATTTTAACT
32823022 AATGACAAGTAGCATTTTAACT
1 AATGACAAGTAGCATTTTAACT
32823044 AATGACAA
1 AATGACAA
32823052 TTAATAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (22 bp):
AATGACAAGTAGCATTTTAACT
Found at i:32853039 original size:33 final size:33
Alignment explanation
Indices: 32852925--32853040 Score: 126
Period size: 33 Copynumber: 3.5 Consensus size: 33
32852915 TGGCATTCAC
* * * *
32852925 ATCATCACCACCAACTCTAATAGCAACATCCAT
1 ATCATCATCACTAACTCTAGTAGCAGCATCCAT
* * * *
32852958 ATCGTGATCACTAATTC-AGTAGCAGCATCCAC
1 ATCATCATCACTAACTCTAGTAGCAGCATCCAT
* *
32852990 ATCATCACCACCAACTCTAGTAGCAGCATCCAT
1 ATCATCATCACTAACTCTAGTAGCAGCATCCAT
*
32853023 ATCATTATCACTAACTCT
1 ATCATCATCACTAACTCT
32853041 TATAATGTCA
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
32 24 0.37
33 41 0.63
ACGTcount: A:0.34, C:0.33, G:0.08, T:0.25
Consensus pattern (33 bp):
ATCATCATCACTAACTCTAGTAGCAGCATCCAT
Found at i:32866247 original size:34 final size:34
Alignment explanation
Indices: 32866209--32866276 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
32866199 AAGGAAGACC
32866209 TAGGTCACATCTATAAAAAAGAAGAAGAAAACGT
1 TAGGTCACATCTATAAAAAAGAAGAAGAAAACGT
32866243 TAGGTCACATCTATAAAAAAGAAGAAGAAAACGT
1 TAGGTCACATCTATAAAAAAGAAGAAGAAAACGT
32866277 ATTCTCTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (34 bp):
TAGGTCACATCTATAAAAAAGAAGAAGAAAACGT
Found at i:32869813 original size:29 final size:30
Alignment explanation
Indices: 32869771--32869831 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
32869761 CAATCAAATC
*
32869771 TTGTATTTTAATTTAGA-TTAAATAAATTT
1 TTGTATTTTAATTTAGAGTCAAATAAATTT
* *
32869800 TTGTACTTTT-ATTTTGAGTCAAATAAGTTT
1 TTGTA-TTTTAATTTAGAGTCAAATAAATTT
32869830 TT
1 TT
32869832 ATAATTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (30 bp):
TTGTATTTTAATTTAGAGTCAAATAAATTT
Found at i:32877074 original size:15 final size:16
Alignment explanation
Indices: 32877054--32877083 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32877044 AATTTAACCA
32877054 ATAATAAAA-AATTTG
1 ATAATAAAATAATTTG
32877069 ATAATAAAATAATTT
1 ATAATAAAATAATTT
32877084 TATATAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
ATAATAAAATAATTTG
Found at i:32879661 original size:20 final size:19
Alignment explanation
Indices: 32879627--32879665 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
32879617 CCTTGAAAAG
* *
32879627 GATTCTCCTTTCAACTCTTT
1 GATTCTCATTACAAC-CTTT
32879647 GATTCTCATTACAACCTTT
1 GATTCTCATTACAACCTTT
32879666 TACAAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.21, C:0.28, G:0.05, T:0.46
Consensus pattern (19 bp):
GATTCTCATTACAACCTTT
Found at i:32879843 original size:3 final size:3
Alignment explanation
Indices: 32879825--32879859 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
32879815 AATAGTATCC
*
32879825 ATA ATT ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
32879860 CTAAGAGACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:32885213 original size:16 final size:16
Alignment explanation
Indices: 32885192--32885222 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32885182 AAGAAGGGTA
32885192 CTTTTCAATTTATTTT
1 CTTTTCAATTTATTTT
*
32885208 CTTTTCCATTTATTT
1 CTTTTCAATTTATTT
32885223 ATTTTGGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (16 bp):
CTTTTCAATTTATTTT
Found at i:32893279 original size:29 final size:28
Alignment explanation
Indices: 32893234--32893289 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
32893224 CTCACATTTA
*
32893234 TCTTGTTTATTTGATTTAATTTTTTTTC
1 TCTTGTTTATTTGATTTAATTATTTTTC
*
32893262 TCTTGATTTAATTT-ATTTTATTATTTTT
1 TCTTG-TTT-ATTTGATTTAATTATTTTT
32893290 ATTACTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 15 0.62
30 4 0.17
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.71
Consensus pattern (28 bp):
TCTTGTTTATTTGATTTAATTATTTTTC
Found at i:32894992 original size:4 final size:4
Alignment explanation
Indices: 32894985--32895015 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
32894975 AAGTTATATA
32894985 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
32895016 AAGCATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:32898836 original size:29 final size:28
Alignment explanation
Indices: 32898770--32898837 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
32898760 TATGATTCAA
32898770 TATTGATTTTATCATTGTACTTCAATTT
1 TATTGATTTTATCATTGTACTTCAATTT
* **
32898798 TATTAAATTTTATCATTGTGTTTTCAATTT
1 TATT-GATTTTATCATTGT-ACTTCAATTT
*
32898828 TGTTGATTTT
1 TATTGATTTT
32898838 TGAACAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
28 4 0.12
29 18 0.55
30 11 0.33
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.60
Consensus pattern (28 bp):
TATTGATTTTATCATTGTACTTCAATTT
Found at i:32909898 original size:24 final size:24
Alignment explanation
Indices: 32909860--32909936 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
32909850 ATTATTACAA
**
32909860 GTCATATGTAAAAACATGTGACAC
1 GTCATATACAAAAACATGTGACAC
* *
32909884 G-CTATGTACAAAAACATGTGATAC
1 GTC-ATATACAAAAACATGTGACAC
*
32909908 GTCATATACAAAAATATGTGACAC
1 GTCATATACAAAAACATGTGACAC
32909932 GTCAT
1 GTCAT
32909937 GGTTAGGTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 1 0.02
24 42 0.95
25 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.26
Consensus pattern (24 bp):
GTCATATACAAAAACATGTGACAC
Found at i:32912219 original size:23 final size:23
Alignment explanation
Indices: 32912193--32912524 Score: 132
Period size: 26 Copynumber: 13.5 Consensus size: 23
32912183 GTAATGCCTA
*
32912193 AGTCACACAATGCTTTACTAACT
1 AGTCACGCAATGCTTTACTAACT
* * *
32912216 AGTCACGCAATGTTTTATTAACA
1 AGTCACGCAATGCTTTACTAACT
* * *
32912239 AGTCATGCAATGCCTTACTAACA
1 AGTCACGCAATGCTTTACTAACT
*
32912262 AGTCACGCAATGC-CTA-TCAACT
1 AGTCACGCAATGCTTTACT-AACT
* * **
32912284 AGCCACGCAATACCTTATTAGAAACT
1 AGTCACGCAAT-GC-T-TTACTAACT
* *
32912310 AGTCACACAATGCTTTATTAGAAACT
1 AGTCACGCAATGCTTTACT---AACT
** *
32912336 AGTCACATAATGCTTTATTAGAAACT
1 AGTCACGCAATGCTTTACT---AACT
**
32912362 AGTCACGCAATGCCTTATCAAAAACT
1 AGTCACGCAATG-CTT-T-ACTAACT
**
32912388 AGTCACGCAAT-CCCTA-TCAACT
1 AGTCACGCAATGCTTTACT-AACT
* *
32912410 AGTCACGCAATGCCTTATCAGAAGCT
1 AGTCACGCAATGCTTTA-C-TAA-CT
* **
32912436 AGTCATGCAATGTCTTATCAAAAACT
1 AGTCACGCAATG-CTT-T-ACTAACT
**
32912462 AGTCACGCAATGTCTTATCAAAAACT
1 AGTCACGCAATG-CTT-T-ACTAACT
**
32912488 AGTCACGCAATGCCTTATCAGAAACT
1 AGTCACGCAATG-CTT-T-ACTAACT
32912514 AGTCACGCAAT
1 AGTCACGCAAT
32912525 ATCTTATCAA
Statistics
Matches: 251, Mismatches: 37, Indels: 39
0.77 0.11 0.12
Matches are distributed among these distances:
21 1 0.00
22 31 0.12
23 59 0.24
24 2 0.01
25 3 0.01
26 144 0.57
27 7 0.03
28 2 0.01
29 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.27
Consensus pattern (23 bp):
AGTCACGCAATGCTTTACTAACT
Found at i:32912309 original size:26 final size:26
Alignment explanation
Indices: 32912262--32912556 Score: 336
Period size: 26 Copynumber: 11.7 Consensus size: 26
32912252 CTTACTAACA
32912262 AGTCACGCAATGCC-TATC---AACT
1 AGTCACGCAATGCCTTATCAGAAACT
* * *
32912284 AGCCACGCAATACCTTATTAGAAACT
1 AGTCACGCAATGCCTTATCAGAAACT
* * *
32912310 AGTCACACAATGCTTTATTAGAAACT
1 AGTCACGCAATGCCTTATCAGAAACT
** * *
32912336 AGTCACATAATGCTTTATTAGAAACT
1 AGTCACGCAATGCCTTATCAGAAACT
*
32912362 AGTCACGCAATGCCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAGAAACT
*
32912388 AGTCACGCAAT-CCCTATC---AACT
1 AGTCACGCAATGCCTTATCAGAAACT
*
32912410 AGTCACGCAATGCCTTATCAGAAGCT
1 AGTCACGCAATGCCTTATCAGAAACT
* * *
32912436 AGTCATGCAATGTCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAGAAACT
* *
32912462 AGTCACGCAATGTCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAGAAACT
32912488 AGTCACGCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCCTTATCAGAAACT
** *
32912514 AGTCACGCAATATCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAGAAACT
*
32912540 AGTCACGTAATGCCTTA
1 AGTCACGCAATGCCTTA
32912557 AGTCAGTCAC
Statistics
Matches: 236, Mismatches: 29, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
22 27 0.11
23 9 0.04
25 6 0.03
26 194 0.82
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (26 bp):
AGTCACGCAATGCCTTATCAGAAACT
Found at i:32912355 original size:52 final size:52
Alignment explanation
Indices: 32912212--32912556 Score: 308
Period size: 52 Copynumber: 6.9 Consensus size: 52
32912202 ATGCTTTACT
** * * *
32912212 AACTAGTCACGCAATG-TTT-T-ATTAACAAGTCATGCAATGCCTTACT---
1 AACTAGTCACGCAATGCTTTATCAAAAACTAGTCACGCAATGCCTTATTAGA
* * * *
32912258 AACAAGTCACGCAATGC-CTATC---AACTAGCCACGCAATACCTTATTAGA
1 AACTAGTCACGCAATGCTTTATCAAAAACTAGTCACGCAATGCCTTATTAGA
* * * ** *
32912306 AACTAGTCACACAATGCTTTATTAGAAACTAGTCACATAATGCTTTATTAGA
1 AACTAGTCACGCAATGCTTTATCAAAAACTAGTCACGCAATGCCTTATTAGA
* * *
32912358 AACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAAT-CCCTA-T--C
1 AACTAGTCACGCAATGCTTTATCAAAAACTAGTCACGCAATGCCTTATTAGA
* * * * * * *
32912406 AACTAGTCACGCAATGCCTTATCAGAAGCTAGTCATGCAATGTCTTATCAAA
1 AACTAGTCACGCAATGCTTTATCAAAAACTAGTCACGCAATGCCTTATTAGA
*
32912458 AACTAGTCACGCAATG-TCTTATCAAAAACTAGTCACGCAATGCCTTATCAGA
1 AACTAGTCACGCAATGCT-TTATCAAAAACTAGTCACGCAATGCCTTATTAGA
* *
32912510 AACTAGTCACGCAAT-ATCTTATCAAAAACTAGTCACGTAATGCCTTA
1 AACTAGTCACGCAATGCT-TTATCAAAAACTAGTCACGCAATGCCTTA
32912557 AGTCAGTCAC
Statistics
Matches: 244, Mismatches: 39, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
45 18 0.07
46 16 0.07
47 1 0.00
48 53 0.22
49 6 0.02
50 1 0.00
51 3 0.01
52 146 0.60
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (52 bp):
AACTAGTCACGCAATGCTTTATCAAAAACTAGTCACGCAATGCCTTATTAGA
Found at i:32912410 original size:100 final size:103
Alignment explanation
Indices: 32912262--32912556 Score: 322
Period size: 100 Copynumber: 2.9 Consensus size: 103
32912252 CTTACTAACA
* * * * *
32912262 AGTCACGCAATGCC-TATC---AACTAGCCACGCAATACCTTATTAGAAACTAGTCACACAATGC
1 AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCCTA-T-CAAACTAGTCACGCAATGC
* * * *
32912323 TTTATTAGAAACTAGTCACATAATGCT-TTATTAGAAACT
64 TTTATCAGAAACTAGTCACGTAATGCTCTTATCAAAAACT
*
32912362 AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAAT-CCCTATC-AACTAGTCACGCAATGCCT
1 AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCCTATCAAACTAGTCACGCAATGCTT
* * *
32912425 TATCAGAAGCTAGTCATGCAATG-TCTTATCAAAAACT
66 TATCAGAAACTAGTCACGTAATGCTCTTATCAAAAACT
* * *
32912462 AGTCACGCAATGTCTTATCAAAAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAAT-A
1 AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCCTATC--AAACTAGTCACGCAATGC
*
32912526 TCTTATCAAAAACTAGTCACGTAATGC-CTTA
64 T-TTATCAGAAACTAGTCACGTAATGCTCTTA
32912557 AGTCAGTCAC
Statistics
Matches: 164, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
99 1 0.01
100 95 0.58
101 10 0.06
102 1 0.01
103 4 0.02
104 53 0.32
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (103 bp):
AGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATGCCCTATCAAACTAGTCACGCAATGCTT
TATCAGAAACTAGTCACGTAATGCTCTTATCAAAAACT
Found at i:32912438 original size:126 final size:122
Alignment explanation
Indices: 32912193--32912556 Score: 382
Period size: 126 Copynumber: 2.9 Consensus size: 122
32912183 GTAATGCCTA
* * *
32912193 AGTCACACAATGCTTTACT--AACTAGTCACGCAATGTTTTATT--AACAAGTCATGCAATGCCT
1 AGTCACACAATGCTTTATTAAAACTAGTCACGCAATG-TTTATTAAAACTAGTCACGCAATGCCT
* * * * * *
32912254 TA-C-TAACAAGTCACGCAATGCCTATCAACTAGCCACGCAATACCTTATTAGAAACT
65 TATCAAAACTAGTCACGCAATCCCTATCAACTAGTCACGCAATGCCTTATCAGAAACT
**
32912310 AGTCACACAATGCTTTATTAGAAACTAGTCACATAATGCTTTATTAGAAACTAGTCACGCAATGC
1 AGTCACACAATGCTTTATTA-AAACTAGTCACGCAATG-TTTATTA-AAACTAGTCACGCAATGC
*
32912375 CTTATCAAAAACTAGTCACGCAATCCCTATCAACTAGTCACGCAATGCCTTATCAGAAGCT
63 CTTATC-AAAACTAGTCACGCAATCCCTATCAACTAGTCACGCAATGCCTTATCAGAAACT
** * *
32912436 AGTCATGCAATG-TCTTATCAAAAACTAGTCACGCAATGTCTTATCAAAAACTAGTCACGCAATG
1 AGTCACACAATGCT-TTAT-TAAAACTAGTCACGCAATGT-TTAT-TAAAACTAGTCACGCAATG
* * *
32912500 CCTTATCAGAAACTAGTCACGCAATATCTTATCAAAAACTAGTCACGTAATGCCTTA
62 CCTTATCA-AAACTAGTCACGCAAT-CCCTATC---AACTAGTCACGCAATGCCTTA
32912557 AGTCAGTCAC
Statistics
Matches: 207, Mismatches: 22, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
117 18 0.09
120 20 0.10
123 19 0.09
124 1 0.00
125 3 0.01
126 119 0.57
127 7 0.03
130 20 0.10
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (122 bp):
AGTCACACAATGCTTTATTAAAACTAGTCACGCAATGTTTATTAAAACTAGTCACGCAATGCCTT
ATCAAAACTAGTCACGCAATCCCTATCAACTAGTCACGCAATGCCTTATCAGAAACT
Found at i:32912614 original size:152 final size:151
Alignment explanation
Indices: 32912305--32912598 Score: 359
Period size: 152 Copynumber: 2.0 Consensus size: 151
32912295 ACCTTATTAG
* * * * *
32912305 AAACTAGTCACACAATGCTTTATTAGAAACTAGTCACATAATGCTTTATTAGAAACTAGTCACGC
1 AAACTAGTCACACAATGCTTTATCAAAAACTAGTCACACAATGCCTTATCAGAAACTAGTCACGC
* *
32912370 AATGCCTTATCAAAAACTAGTCACGCAATCCCTATCAACTAGTCACGCAATGCCTTATCAGAAGC
66 AATACCTTATCAAAAACTAGTCACGCAATCCCTATCAACTAGTCACGCAATGCCTTA-CAGAAAC
** *
32912435 TAGTCATGCAATGTCTTATCAA
130 TAGTCACACAATGTCTAATCAA
* *
32912457 AAACTAGTCACGCAATG-TCTTATCAAAAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACG
1 AAACTAGTCACACAATGCT-TTATCAAAAACTAGTCACACAATGCCTTATCAGAAACTAGTCACG
* * * *
32912521 CAATATCTTATCAAAAACTAGTCACGTAATGCCT-T-AAGTCAGTCACGCAATGCC-TA-A-AAA
65 CAATACCTTATCAAAAACTAGTCACGCAATCCCTATCAACT-AGTCACGCAATGCCTTACAGAAA
*
32912581 CTAGTCACATAAT-TCTAA
129 CTAGTCACACAATGTCTAA
32912599 AAAATCACCA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
146 4 0.03
147 12 0.10
148 1 0.01
150 5 0.04
151 16 0.13
152 85 0.69
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (151 bp):
AAACTAGTCACACAATGCTTTATCAAAAACTAGTCACACAATGCCTTATCAGAAACTAGTCACGC
AATACCTTATCAAAAACTAGTCACGCAATCCCTATCAACTAGTCACGCAATGCCTTACAGAAACT
AGTCACACAATGTCTAATCAA
Found at i:32913489 original size:28 final size:30
Alignment explanation
Indices: 32913458--32913513 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
32913448 TTAAGAAAAA
32913458 TCAAATAAATTT-T-TATTTTTTTATTACT
1 TCAAATAAATTTATATATTTTTTTATTACT
* *
32913486 TCAATTAAGTTTATATATTTTTTTATTA
1 TCAAATAAATTTATATATTTTTTTATTA
32913514 AATAAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
29 1 0.04
30 13 0.54
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (30 bp):
TCAAATAAATTTATATATTTTTTTATTACT
Found at i:32914439 original size:29 final size:28
Alignment explanation
Indices: 32914386--32914460 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
32914376 GATATTAAAG
* * *
32914386 TGTAGCAAAATA-TTTTTGAATATGGCA
1 TGTAACAAAATATTTTTTCAACATGGCA
**
32914413 TGTAACAATAATATTTTTTCAACATGGTG
1 TGTAACAA-AATATTTTTTCAACATGGCA
32914442 TGTAACAACAATATTTTTT
1 TGTAACAA-AATATTTTTT
32914461 TTTCAACATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 7 0.17
28 4 0.10
29 29 0.73
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.41
Consensus pattern (28 bp):
TGTAACAAAATATTTTTTCAACATGGCA
Found at i:32914462 original size:32 final size:32
Alignment explanation
Indices: 32914416--32914482 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
32914406 TATGGCATGT
* *
32914416 AACAATAATATTTTTTCAACATGGTGTGTAAC
1 AACAATAATATTTTTTCAACATAGCGTGTAAC
* *
32914448 AACAATATTTTTTTTTCAACATAGCGTGTAAC
1 AACAATAATATTTTTTCAACATAGCGTGTAAC
32914480 AAC
1 AAC
32914483 CTTTTTTAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (32 bp):
AACAATAATATTTTTTCAACATAGCGTGTAAC
Found at i:32914606 original size:24 final size:24
Alignment explanation
Indices: 32914574--32914642 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
32914564 AACCGTGGCG
*
32914574 TGTCACATGTTTTTATACATGACA
1 TGTCACATGTTTTTGTACATGACA
*
32914598 TGTCACATGTTTTTGTATATGACA
1 TGTCACATGTTTTTGTACATGACA
* *
32914622 TGTCATATGTTTCTGTACATG
1 TGTCACATGTTTTTGTACATG
32914643 GTGTGTAACG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (24 bp):
TGTCACATGTTTTTGTACATGACA
Found at i:32917755 original size:19 final size:19
Alignment explanation
Indices: 32917731--32917777 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
32917721 CTTTTTCTTT
32917731 TTTTCTTTT-TCTCTTTCAC
1 TTTTCTTTTGTC-CTTTCAC
*
32917750 TTTTCTTTTGTCCTTTCAT
1 TTTTCTTTTGTCCTTTCAC
32917769 TTTTACTTT
1 TTTT-CTTT
32917778 ACTCATTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTCTTTTGTCCTTTCAC
Found at i:32925851 original size:19 final size:19
Alignment explanation
Indices: 32925824--32925869 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
32925814 AGGAGACAAG
* *
32925824 ATAAAATTTTTTTAAAAAA
1 ATAATATTTTATTAAAAAA
*
32925843 ATAATATTTTATTAATAAA
1 ATAATATTTTATTAAAAAA
*
32925862 TTAATATT
1 ATAATATT
32925870 AAAATATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATATTTTATTAAAAAA
Found at i:32925859 original size:14 final size:15
Alignment explanation
Indices: 32925842--32925883 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
32925832 TTTTTAAAAA
*
32925842 AATAATATT-TTATT
1 AATAATATTAATATT
32925856 AATAA-ATTAATATT
1 AATAATATTAATATT
32925870 AA-AATATTAATATT
1 AATAATATTAATATT
32925884 TAGCCGGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATAATATTAATATT
Found at i:32932441 original size:23 final size:24
Alignment explanation
Indices: 32932397--32932441 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
32932387 TCTCCTCAAG
32932397 GAGCACCCGATCAGTGCTCCCTAA
1 GAGCACCCGATCAGTGCTCCCTAA
32932421 GAGCACCC-ATC-GATGCTCCCT
1 GAGCACCCGATCAG-TGCTCCCT
32932442 CCAAGGGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 11 0.55
24 8 0.40
ACGTcount: A:0.22, C:0.40, G:0.20, T:0.18
Consensus pattern (24 bp):
GAGCACCCGATCAGTGCTCCCTAA
Found at i:32937836 original size:3 final size:3
Alignment explanation
Indices: 32937828--32937873 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
32937818 TTATCATGAC
32937828 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
32937874 TGTTCTTCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:32940369 original size:28 final size:28
Alignment explanation
Indices: 32940329--32940397 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
32940319 TTCGTAAGTG
* *
32940329 ACAACAACATTTTAG-ATATTAAAGTGTA
1 ACAACAATATTTTTGAATA-TAAAGTGTA
* *
32940357 ACAA-AATGTTTTTGAATATAACGTGTA
1 ACAACAATATTTTTGAATATAAAGTGTA
32940384 ACAACAATATTTTT
1 ACAACAATATTTTT
32940398 TCAATATGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (28 bp):
ACAACAATATTTTTGAATATAAAGTGTA
Found at i:32940382 original size:27 final size:28
Alignment explanation
Indices: 32940352--32940471 Score: 92
Period size: 30 Copynumber: 4.4 Consensus size: 28
32940342 AGATATTAAA
*
32940352 GTGTAACAA-AATGTTTTTGAATATAAC
1 GTGTAACAACAATGTTTTTCAATATAAC
* **
32940379 GTGTAACAACAATATTTTTTCAATATGGC
1 GTGTAACAACAAT-GTTTTTCAATATAAC
*
32940408 GTGT---AAC-ATGTTTTT-ATACATAAC
1 GTGTAACAACAATGTTTTTCA-ATATAAC
*
32940432 GTGTAATAACAGTAT-TTTGTTCAATATAAC
1 GTGTAACAACA--ATGTTT-TTCAATATAAC
32940462 GTGTAACAAC
1 GTGTAACAAC
32940472 CTAATCATGG
Statistics
Matches: 72, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
23 1 0.01
24 13 0.18
25 2 0.03
26 3 0.04
27 12 0.17
28 3 0.04
29 18 0.25
30 19 0.26
31 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.38
Consensus pattern (28 bp):
GTGTAACAACAATGTTTTTCAATATAAC
Found at i:32940410 original size:29 final size:27
Alignment explanation
Indices: 32940352--32940470 Score: 86
Period size: 29 Copynumber: 4.3 Consensus size: 27
32940342 AGATATTAAA
*
32940352 GTGTAACAAAATGTTTTTGAATATAAC
1 GTGTAACAAAATGTTTTTCAATATAAC
* **
32940379 GTGTAACAACAATATTTTTTCAATATGGC
1 GTGTAACAA-AAT-GTTTTTCAATATAAC
*
32940408 GTGTAAC---ATGTTTTT-ATACATAAC
1 GTGTAACAAAATGTTTTTCA-ATATAAC
*
32940432 GTGTAATAACAGTAT-TTTGTTCAATATAAC
1 GTGTAACAA-A--ATGTTT-TTCAATATAAC
32940462 GTGTAACAA
1 GTGTAACAA
32940471 CCTAATCATG
Statistics
Matches: 70, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
23 1 0.01
24 15 0.21
25 2 0.03
27 9 0.13
28 3 0.04
29 21 0.30
30 18 0.26
31 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (27 bp):
GTGTAACAAAATGTTTTTCAATATAAC
Found at i:32940534 original size:24 final size:25
Alignment explanation
Indices: 32940482--32940536 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
32940472 CTAATCATGG
*
32940482 TGTGTAACATGTTTTTGTACATAGA
1 TGTGTAACATATTTTTGTACATAGA
*
32940507 -GTGTAACATATTTTTGTAGAT-GA
1 TGTGTAACATATTTTTGTACATAGA
32940530 TGTGTAA
1 TGTGTAA
32940537 TTTCTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 25 0.93
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (25 bp):
TGTGTAACATATTTTTGTACATAGA
Found at i:32945617 original size:25 final size:25
Alignment explanation
Indices: 32945567--32945652 Score: 102
Period size: 25 Copynumber: 3.4 Consensus size: 25
32945557 ACGAACTATA
* **
32945567 CTTGATATCTTAATCACGAACCTCG
1 CTTGATATCTTGATCACGAATTTCG
32945592 CTTGATATCTTGATCACGAATTTCG
1 CTTGATATCTTGATCACGAATTTCG
* * *
32945617 CTTGAAAACTTGATCATGAACTTT-G
1 CTTGATATCTTGATCACGAA-TTTCG
32945642 CTTGATATCTT
1 CTTGATATCTT
32945653 CACTTTAGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 49 0.94
26 3 0.06
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (25 bp):
CTTGATATCTTGATCACGAATTTCG
Found at i:32951268 original size:30 final size:30
Alignment explanation
Indices: 32951211--32951267 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
32951201 TATTGAAAGT
* * *
32951211 ATTTTGATTGGTCAGACTTTGAGTTTTTGA
1 ATTTTAATTGGTCAGAATTTAAGTTTTTGA
32951241 ATTTTAATTGGTCA-AATTTAAGTTTTT
1 ATTTTAATTGGTCAGAATTTAAGTTTTT
32951268 TCTCTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.25, C:0.05, G:0.18, T:0.53
Consensus pattern (30 bp):
ATTTTAATTGGTCAGAATTTAAGTTTTTGA
Found at i:32960085 original size:28 final size:28
Alignment explanation
Indices: 32960053--32960106 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
32960043 TAAGATCTTG
* *
32960053 GAAGATGTAAATTGCAATAAAACTATTT
1 GAAGAAGTAAATTGCAACAAAACTATTT
*
32960081 GAAGAAGTATATTGCAACAAAACTAT
1 GAAGAAGTAAATTGCAACAAAACTAT
32960107 AATCTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (28 bp):
GAAGAAGTAAATTGCAACAAAACTATTT
Found at i:32969183 original size:40 final size:39
Alignment explanation
Indices: 32969120--32969357 Score: 164
Period size: 35 Copynumber: 6.3 Consensus size: 39
32969110 TCCTTGGAAT
*
32969120 GTGCTCTTTACAATAG-CAC---TTGTTGATCTTTGGAG
1 GTGCTCTTTATAATAGACACAATTTGTTGATCTTTGGAG
* *
32969155 GTGCTATTTATAATAGCACACAATTTGTTGATCTTTGAAGG
1 GTGCTCTTTATAATAG-ACACAATTTGTTGATCTTTGGA-G
* * *
32969196 GTGCTCGTTACAATA-ACAC---TTATTGATCTTTAGG-G
1 GTGCTCTTTATAATAGACACAATTTGTTGATCTTT-GGAG
* *
32969231 GTGCTTTTTATAATAGTACATAATTTGTTGAT-TCTTGGAAG
1 GTGCTCTTTATAATAG-ACACAATTTGTTGATCT-TTGG-AG
* *
32969272 GTACTCTTTATAATAG-CAC---TTGTTGATCCTTAGG-G
1 GTGCTCTTTATAATAGACACAATTTGTTGAT-CTTTGGAG
* * *
32969307 TTGCCCTTTATAATAGCACACAATTTGTTGATCTTAGGAGG
1 GTGCTCTTTATAATAG-ACACAATTTGTTGATCTTTGGA-G
*
32969348 GTACTCTTTA
1 GTGCTCTTTA
32969358 CAGCAACACT
Statistics
Matches: 156, Mismatches: 23, Indels: 42
0.71 0.10 0.19
Matches are distributed among these distances:
35 41 0.26
36 19 0.12
37 13 0.08
38 1 0.01
39 15 0.10
40 31 0.20
41 36 0.23
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (39 bp):
GTGCTCTTTATAATAGACACAATTTGTTGATCTTTGGAG
Found at i:32969246 original size:76 final size:76
Alignment explanation
Indices: 32969123--32969408 Score: 333
Period size: 76 Copynumber: 3.8 Consensus size: 76
32969113 TTGGAATGTG
* * * *
32969123 CTCTTTACAATAGCACTTGTTGAT-CTTTGGAGGTGCTATTTATAATAGCACACAATTTGTTGAT
1 CTCTTTACAATAACACTTATTGATCCTTAGG-GGTGCTTTTTATAATAGCACACAATTTGTTGAT
* *
32969187 CTTTGAAGGGTG
65 CTTAGAAGGGTA
* * * *
32969199 CTCGTTACAATAACACTTATTGATCTTTAGGGGTGCTTTTTATAATAGTACATAATTTGTTGATT
1 CTCTTTACAATAACACTTATTGATCCTTAGGGGTGCTTTTTATAATAGCACACAATTTGTTGA-T
*
32969264 CTTGGAA-GGTA
65 CTTAGAAGGGTA
* * * * **
32969275 CTCTTTATAATAGCACTTGTTGATCCTTAGGGTTGCCCTTTATAATAGCACACAATTTGTTGATC
1 CTCTTTACAATAACACTTATTGATCCTTAGGGGTGCTTTTTATAATAGCACACAATTTGTTGATC
*
32969340 TTAGGAGGGTA
66 TTAGAAGGGTA
** * * *
32969351 CTCTTTACAGCAACACTTATTGATCCTTAAGTGTGCTTTTTATAATAACACACAATTT
1 CTCTTTACAATAACACTTATTGATCCTTAGGGGTGCTTTTTATAATAGCACACAATTT
32969409 AGAATCACCA
Statistics
Matches: 174, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
75 6 0.03
76 157 0.90
77 11 0.06
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (76 bp):
CTCTTTACAATAACACTTATTGATCCTTAGGGGTGCTTTTTATAATAGCACACAATTTGTTGATC
TTAGAAGGGTA
Found at i:32969388 original size:152 final size:152
Alignment explanation
Indices: 32969112--32969397 Score: 412
Period size: 152 Copynumber: 1.9 Consensus size: 152
32969102 CCAATAGATC
* * * *
32969112 CTTGGAATGTGCTCTTTACAATAGCACTTGTTGATCTTTGGAGGTGCTATTTATAATAGCACACA
1 CTTGGAAGGTACTCTTTACAATAGCACTTGTTGATCTTAGGAGGTGCCATTTATAATAGCACACA
* * * * *
32969177 ATTTGTTGATCTTTGAAGGGTGCTCGTTACAATAACACTTATTGATCTTTAGGGGTGCTTTTTAT
66 ATTTGTTGATCTTAGAAGGGTACTCGTTACAACAACACTTATTGATCCTTAAGGGTGCTTTTTAT
32969242 AATAGTACATAATTTGTTGATT
131 AATAGTACATAATTTGTTGATT
* * *
32969264 CTTGGAAGGTACTCTTTATAATAGCACTTGTTGATCCTTAGG-GTTGCCCTTTATAATAGCACAC
1 CTTGGAAGGTACTCTTTACAATAGCACTTGTTGAT-CTTAGGAGGTGCCATTTATAATAGCACAC
* * * *
32969328 AATTTGTTGATCTTAGGAGGGTACTCTTTACAGCAACACTTATTGATCCTTAAGTGTGCTTTTTA
65 AATTTGTTGATCTTAGAAGGGTACTCGTTACAACAACACTTATTGATCCTTAAGGGTGCTTTTTA
32969393 TAATA
130 TAATA
32969398 ACACACAATT
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
152 112 0.96
153 5 0.04
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (152 bp):
CTTGGAAGGTACTCTTTACAATAGCACTTGTTGATCTTAGGAGGTGCCATTTATAATAGCACACA
ATTTGTTGATCTTAGAAGGGTACTCGTTACAACAACACTTATTGATCCTTAAGGGTGCTTTTTAT
AATAGTACATAATTTGTTGATT
Found at i:32977805 original size:25 final size:26
Alignment explanation
Indices: 32977766--32977925 Score: 174
Period size: 25 Copynumber: 6.5 Consensus size: 26
32977756 TGTCTTGACA
* *
32977766 ACTTGAT-T-TTGATCACGAACTAT-
1 ACTTGATATCTTGATCACAAACTTTC
32977789 ACTTGATATCTTGATCACAAACTTT-
1 ACTTGATATCTTGATCACAAACTTTC
* * *
32977814 GCTTGATATCTTAATCGCAAA-TTTC
1 ACTTGATATCTTGATCACAAACTTTC
*
32977839 ACTTGATATCTTGATCACGAAC-TTC
1 ACTTGATATCTTGATCACAAACTTTC
* *
32977864 ACTTAATAACTTGATCACAAACTTT-
1 ACTTGATATCTTGATCACAAACTTTC
*
32977889 GCTTGATATCTTGATCACAAAC-TTC
1 ACTTGATATCTTGATCACAAACTTTC
*
32977914 ACTTTATATCTT
1 ACTTGATATCTT
32977926 CACTTTAGAA
Statistics
Matches: 114, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
23 7 0.06
24 6 0.05
25 99 0.87
26 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (26 bp):
ACTTGATATCTTGATCACAAACTTTC
Found at i:32977883 original size:75 final size:75
Alignment explanation
Indices: 32977766--32977925 Score: 236
Period size: 75 Copynumber: 2.2 Consensus size: 75
32977756 TGTCTTGACA
* *
32977766 ACTTGAT-T-TTGATCACGAACTATACTTGATATCTTGATCACAAACTTTGCTTGATATCTTAAT
1 ACTTGATATCTTGATCACGAACTATACTTAATAACTTGATCACAAACTTTGCTTGATATCTTAAT
* *
32977829 CGCAAATTTC
66 CACAAACTTC
*
32977839 ACTTGATATCTTGATCACGAACT-TCACTTAATAACTTGATCACAAACTTTGCTTGATATCTTGA
1 ACTTGATATCTTGATCACGAACTAT-ACTTAATAACTTGATCACAAACTTTGCTTGATATCTTAA
32977903 TCACAAACTTC
65 TCACAAACTTC
*
32977914 ACTTTATATCTT
1 ACTTGATATCTT
32977926 CACTTTAGAA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
73 7 0.09
74 2 0.03
75 69 0.88
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (75 bp):
ACTTGATATCTTGATCACGAACTATACTTAATAACTTGATCACAAACTTTGCTTGATATCTTAAT
CACAAACTTC
Found at i:32980328 original size:15 final size:17
Alignment explanation
Indices: 32980303--32980336 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
32980293 TTAATTTTTA
32980303 AAAACTAAAATC-ATAT
1 AAAACTAAAATCTATAT
32980319 AAAA-TAAAATCTATAT
1 AAAACTAAAATCTATAT
32980335 AA
1 AA
32980337 CAAAATAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAACTAAAATCTATAT
Found at i:32982087 original size:12 final size:12
Alignment explanation
Indices: 32982073--32982183 Score: 132
Period size: 12 Copynumber: 9.2 Consensus size: 12
32982063 GTAAGTCATG
* *
32982073 TATATACATATG
1 TATATATATATA
*
32982085 TATATATATATG
1 TATATATATATA
*
32982097 TATATATGTATA
1 TATATATATATA
*
32982109 TATATACATATA
1 TATATATATATA
32982121 TATATATATATA
1 TATATATATATA
*
32982133 CATATATATATA
1 TATATATATATA
* *
32982145 CATATATACATA
1 TATATATATATA
*
32982157 TATATATACATA
1 TATATATATATA
*
32982169 TGTATATATATA
1 TATATATATATA
32982181 TAT
1 TAT
32982184 GTATGTCTTC
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 87 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (12 bp):
TATATATATATA
Found at i:32982100 original size:8 final size:8
Alignment explanation
Indices: 32982073--32982183 Score: 132
Period size: 8 Copynumber: 13.9 Consensus size: 8
32982063 GTAAGTCATG
*
32982073 TATATACA
1 TATATATA
*
32982081 TATGTATA
1 TATATATA
*
32982089 TATATATG
1 TATATATA
*
32982097 TATATATG
1 TATATATA
32982105 TATATATA
1 TATATATA
*
32982113 TACATATA
1 TATATATA
32982121 TATATATA
1 TATATATA
*
32982129 TATACATA
1 TATATATA
32982137 TATATATA
1 TATATATA
*
32982145 CATATATA
1 TATATATA
*
32982153 CATATATA
1 TATATATA
*
32982161 TATACATA
1 TATATATA
*
32982169 TGTATATA
1 TATATATA
32982177 TATATAT
1 TATATAT
32982184 GTATGTCTTC
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 88 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (8 bp):
TATATATA
Found at i:32982105 original size:20 final size:20
Alignment explanation
Indices: 32982073--32982183 Score: 132
Period size: 20 Copynumber: 5.5 Consensus size: 20
32982063 GTAAGTCATG
* *
32982073 TATATACATATGTATATATA
1 TATATATATATATATATATA
* *
32982093 TATGTATATATGTATATATA
1 TATATATATATATATATATA
*
32982113 TACATATATATATATATATA
1 TATATATATATATATATATA
* *
32982133 CATATATATATACATATATA
1 TATATATATATATATATATA
* * *
32982153 CATATATATATACATATGTA
1 TATATATATATATATATATA
32982173 TATATATATAT
1 TATATATATAT
32982184 GTATGTCTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (20 bp):
TATATATATATATATATATA
Found at i:32987093 original size:19 final size:20
Alignment explanation
Indices: 32987069--32987113 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
32987059 CTTCTAAACC
32987069 TCAAATCATACTCCAATAA-
1 TCAAATCATACTCCAATAAG
* *
32987088 TCAAATCATGCTCTAATAAG
1 TCAAATCATACTCCAATAAG
32987108 TCAAAT
1 TCAAAT
32987114 GGGGCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.29
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:32989884 original size:2 final size:2
Alignment explanation
Indices: 32989879--32989911 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32989869 TATATATATA
32989879 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
32989912 CTTCATCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:32993237 original size:20 final size:20
Alignment explanation
Indices: 32993208--32993254 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
32993198 ATGTTTCGTA
* * *
32993208 ATATAAAATTTTATGAATAT
1 ATATATAATTGTATAAATAT
32993228 ATATATAATTGTATAAATAT
1 ATATATAATTGTATAAATAT
32993248 ATATATA
1 ATATATA
32993255 CTTATATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
ATATATAATTGTATAAATAT
Found at i:32993465 original size:212 final size:211
Alignment explanation
Indices: 32993243--32993626 Score: 597
Period size: 212 Copynumber: 1.8 Consensus size: 211
32993233 TAATTGTATA
* **
32993243 AATATATATATACTTATATTTAATTTATATATAAGTAATACTATAACTTATAATAAATTTTATTT
1 AATATATATATACATATATTTAATTTATATATAACCAATACTATAACTTATAATAAATTTTATTT
** * * * *
32993308 ATATAATTACACTTAATAACTTTATTAGTTATCAGTTTAGTTTTTATAACCTATTGTTTATGATT
66 ATATAATTACACTTAATAACTTTATTAGTTATCACCTTAGATTTTATAACATATTATTTATAATT
* * *
32993373 AGTTATTATTTATATAAATTTTGATACAAAATATTATAACATATAAATTGTATCATTAATTTTCT
131 AATTATTATTTATATAAACTTTGATACAAAACATTATAACATATAAATTGTATCATTAATTTTCT
32993438 CTATATATAATAAAGT
196 CTATATATAATAAAGT
* * *
32993454 AATATTATATATACATATATTTAATTTATATATAACCATTACTATTACTTATAATAGATTTTATT
1 AATA-TATATATACATATATTTAATTTATATATAACCAATACTATAACTTATAATAAATTTTATT
* *
32993519 TATATAATTATATTTAATAACTTTATTAGTTATCACCTTAGATTTTATAACATATTATTTATAAT
65 TATATAATTACACTTAATAACTTTATTAGTTATCACCTTAGATTTTATAACATATTATTTATAAT
*
32993584 TAATTATTATTTATATAAACTTTGATATAAAACATTATAACAT
130 TAATTATTATTTATATAAACTTTGATACAAAACATTATAACAT
32993627 TATAGTTTTA
Statistics
Matches: 154, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
211 4 0.03
212 150 0.97
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (211 bp):
AATATATATATACATATATTTAATTTATATATAACCAATACTATAACTTATAATAAATTTTATTT
ATATAATTACACTTAATAACTTTATTAGTTATCACCTTAGATTTTATAACATATTATTTATAATT
AATTATTATTTATATAAACTTTGATACAAAACATTATAACATATAAATTGTATCATTAATTTTCT
CTATATATAATAAAGT
Found at i:32993940 original size:2 final size:2
Alignment explanation
Indices: 32993933--32993961 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32993923 TTTTGTCCAC
32993933 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32993962 TTATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33001139 original size:21 final size:21
Alignment explanation
Indices: 33001109--33001148 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33001099 ATACCATATT
* *
33001109 TCAAATTAATCATTTAATTGG
1 TCAAAATAATCATTAAATTGG
*
33001130 TCAAAATAATTATTAAATT
1 TCAAAATAATCATTAAATT
33001149 TTCATTGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TCAAAATAATCATTAAATTGG
Found at i:33014052 original size:43 final size:43
Alignment explanation
Indices: 33013990--33014105 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
33013980 ATTGACTCAG
* * * **
33013990 CTATGTGCGAGTAAGGAGTGTGCATAAGCTGAG-GATGACCCGG
1 CTATGTGCAAGTAGGGAGTGCGCATAAGCTG-GTGATGACCCAA
* * *
33014033 TTATGTGCAAGTAGGGAGTGCGCATAATCCGGTGATGACCCAA
1 CTATGTGCAAGTAGGGAGTGCGCATAAGCTGGTGATGACCCAA
* *
33014076 CCATGTGCAAGTAGGGAGTGCGCATGAGCT
1 CTATGTGCAAGTAGGGAGTGCGCATAAGCT
33014106 TGTGGTGATG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.26, C:0.18, G:0.34, T:0.22
Consensus pattern (43 bp):
CTATGTGCAAGTAGGGAGTGCGCATAAGCTGGTGATGACCCAA
Found at i:33023149 original size:20 final size:21
Alignment explanation
Indices: 33023113--33023152 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
33023103 AAAAACTAAT
*
33023113 AAATAACAATCAAATTAAAAG
1 AAATAACAATAAAATTAAAAG
33023134 AAATAAC-ATAAAATTAAAA
1 AAATAACAATAAAATTAAAA
33023153 TAACTTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (21 bp):
AAATAACAATAAAATTAAAAG
Found at i:33026744 original size:25 final size:25
Alignment explanation
Indices: 33026710--33026757 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33026700 ATATGGAAGA
* *
33026710 AGATACACTATTAAGGGATTTACTT
1 AGATACACTATGAAGGGAATTACTT
*
33026735 AGATATACTATGAAGGGAATTAC
1 AGATACACTATGAAGGGAATTAC
33026758 CTTAACTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (25 bp):
AGATACACTATGAAGGGAATTACTT
Found at i:33030686 original size:47 final size:48
Alignment explanation
Indices: 33030633--33030740 Score: 173
Period size: 47 Copynumber: 2.3 Consensus size: 48
33030623 TTTTGTATGA
33030633 TTTAGGTAAAATTTATAAAATGCATGATGTAATTA-TCTTACTTATTT
1 TTTAGGTAAAATTTATAAAATGCATGATGTAATTATTCTTACTTATTT
* *
33030680 TTTAGGTAAAATTTATGAAATGCATGATGTAATTATTTTTACTTATTT
1 TTTAGGTAAAATTTATAAAATGCATGATGTAATTATTCTTACTTATTT
* *
33030728 ATTAGGTCAAATT
1 TTTAGGTAAAATT
33030741 ATATGTAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
47 34 0.61
48 22 0.39
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (48 bp):
TTTAGGTAAAATTTATAAAATGCATGATGTAATTATTCTTACTTATTT
Found at i:33036111 original size:28 final size:28
Alignment explanation
Indices: 33036071--33036126 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
33036061 TCATTATACA
33036071 TCTCACATACATGGTCTATAACTCATTG
1 TCTCACATACATGGTCTATAACTCATTG
*
33036099 TCTCACATACATGTTCTATAACTCATTG
1 TCTCACATACATGGTCTATAACTCATTG
33036127 CTTGGGCAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (28 bp):
TCTCACATACATGGTCTATAACTCATTG
Found at i:33039199 original size:17 final size:17
Alignment explanation
Indices: 33039166--33039199 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33039156 ATTAATATTT
*
33039166 TAATATTTTAATCATAA
1 TAATATTTAAATCATAA
*
33039183 TAATATTTAAATTATAA
1 TAATATTTAAATCATAA
33039200 ATAAAATATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATTTAAATCATAA
Found at i:33039228 original size:51 final size:54
Alignment explanation
Indices: 33039128--33039228 Score: 145
Period size: 51 Copynumber: 1.9 Consensus size: 54
33039118 GTAACAAAAT
* *
33039128 TAATATTTTAAATTAAAAATAAAAAATTATTAATATTTTAATATTTTAATCATAA
1 TAATATTTTAAATTAAAAAT-AAAAATTATTAATATTTTAAAATATTAATCATAA
*
33039183 TAATA-TTTAAATTATAAAT-AAAA-TATTAATATTTTAAAATATTAAT
1 TAATATTTTAAATTAAAAATAAAAATTATTAATATTTTAAAATATTAAT
33039229 GTTTAAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 21 0.49
52 4 0.09
54 13 0.30
55 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (54 bp):
TAATATTTTAAATTAAAAATAAAAATTATTAATATTTTAAAATATTAATCATAA
Found at i:33039245 original size:16 final size:15
Alignment explanation
Indices: 33039201--33039245 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
33039191 AAATTATAAA
*
33039201 TAAAATATTAATATTT
1 TAAAATATTAAT-GTT
33039217 TAAAATATTAATGTT
1 TAAAATATTAATGTT
*
33039232 TAAATTATTCAATG
1 TAAAATATT-AATG
33039246 AAAAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 10 0.38
16 16 0.62
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (15 bp):
TAAAATATTAATGTT
Found at i:33039539 original size:22 final size:21
Alignment explanation
Indices: 33039501--33039541 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33039491 ATATATTATA
**
33039501 AAAAATTAATATTTTAATTTT
1 AAAAATTAATAAATTAATTTT
33039522 AAAAATTAATTAAATTAATT
1 AAAAATTAA-TAAATTAATT
33039542 AATAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAAATTAATAAATTAATTTT
Found at i:33040688 original size:15 final size:15
Alignment explanation
Indices: 33040648--33040690 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
33040638 GACAGGTCAA
*
33040648 AAATATTATTTAATC
1 AAATATTAATTAATC
*
33040663 AAACTTATTAATTCATC
1 AAA--TATTAATTAATC
33040680 AAATATTAATT
1 AAATATTAATT
33040691 TATAGAGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 11 0.46
17 13 0.54
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATATTAATTAATC
Found at i:33046726 original size:65 final size:61
Alignment explanation
Indices: 33046647--33046831 Score: 165
Period size: 52 Copynumber: 3.0 Consensus size: 61
33046637 AGAGAAAAAA
*
33046647 AATTGTTT-AGTTGATTCACGAAAAAAGATAATAAGACAAAGGGTTTTTCTAATTTGATGATTGA
1 AATTGTTTGA-TTGATTCAC-AAAAAAGA-AATAAGA-AAAGGGTTTTT-TAATTTGATGAATGA
33046711 T
61 T
33046712 AATTGTTTGATTGATTCAC--AAAA-AAA-AAG---A--GTTTTTTAATTTGATGAATGAT
1 AATTGTTTGATTGATTCACAAAAAAGAAATAAGAAAAGGGTTTTTTAATTTGATGAATGAT
* * * *
33046764 AATTGTTTGATTCATTTACAAAAGAAAGAGAATAAGAGAAAGGGTTTTTTTAATTTGATTAATAA
1 AATTGTTTGATTGATTCAC-AAA-AAAGA-AATAAGA-AAAGGG-TTTTTTAATTTGATGAATGA
33046829 T
61 T
33046830 AA
1 AA
33046832 GCCTCCAAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 29
0.75 0.04 0.22
Matches are distributed among these distances:
52 32 0.32
53 6 0.06
55 2 0.02
56 3 0.03
57 1 0.01
58 2 0.02
59 6 0.06
60 2 0.02
61 1 0.01
62 4 0.04
63 1 0.01
65 18 0.18
66 22 0.22
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.38
Consensus pattern (61 bp):
AATTGTTTGATTGATTCACAAAAAAGAAATAAGAAAAGGGTTTTTTAATTTGATGAATGAT
Found at i:33046953 original size:95 final size:93
Alignment explanation
Indices: 33046818--33047005 Score: 245
Period size: 95 Copynumber: 2.0 Consensus size: 93
33046808 TTTTTTTAAT
* * * *
33046818 TTGATTAATAATAAGCCTCCAAAATATTTATAAAAGAAAAAAAAGGAAAAAGGAAATAGTAAAA-
1 TTGATGAATAATAAGCCTCAAAAAAATTTATAAAAG-AAAAAAAGCAAAAA--AAATAGTAAAAC
33046882 A-AAAAAGAAAAAAGTCTAGCCAGGAAAAAAA
63 AGAAAAA-AAAAAAGTCTAGCCAGGAAAAAAA
* * *
33046913 TTGATGAATGATAAGCCTCAAAAAAATTTATAAAAGAAAAAAAGCAAAAAAAGTAGTAAAACAGG
1 TTGATGAATAATAAGCCTCAAAAAAATTTATAAAAGAAAAAAAGCAAAAAAAATAGTAAAACAGA
* *
33046978 TAAAAAAAAAGTCTAGCCAGTAAAAAAA
66 AAAAAAAAAAGTCTAGCCAGGAAAAAAA
33047006 AAAAAGAAGG
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
92 10 0.12
93 24 0.29
94 16 0.20
95 32 0.39
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.17
Consensus pattern (93 bp):
TTGATGAATAATAAGCCTCAAAAAAATTTATAAAAGAAAAAAAGCAAAAAAAATAGTAAAACAGA
AAAAAAAAAAGTCTAGCCAGGAAAAAAA
Found at i:33051686 original size:19 final size:19
Alignment explanation
Indices: 33051662--33051699 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
33051652 ACTTCTAAAC
33051662 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
33051681 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
33051700 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:33056939 original size:18 final size:18
Alignment explanation
Indices: 33056916--33056979 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 18
33056906 GGTGTTTATT
33056916 GAAGAAGAACTTTTAATG
1 GAAGAAGAACTTTTAATG
33056934 GAAGAAGAACTTTTTAATG
1 GAAGAAGAAC-TTTTAATG
*
33056953 GAAGAAGGA-TTTTCAATG
1 GAAGAAGAACTTTT-AATG
33056971 GAAGTAAGA
1 GAAG-AAGA
33056980 GAAAAATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
17 4 0.10
18 18 0.44
19 19 0.46
ACGTcount: A:0.44, C:0.05, G:0.25, T:0.27
Consensus pattern (18 bp):
GAAGAAGAACTTTTAATG
Found at i:33056950 original size:19 final size:19
Alignment explanation
Indices: 33056916--33056979 Score: 87
Period size: 18 Copynumber: 3.4 Consensus size: 19
33056906 GGTGTTTATT
33056916 GAAGAAGAAC-TTTTAATG
1 GAAGAAGAACTTTTTAATG
33056934 GAAGAAGAACTTTTTAATG
1 GAAGAAGAACTTTTTAATG
* *
33056953 GAAGAAGGA-TTTTCAATG
1 GAAGAAGAACTTTTTAATG
33056971 GAAGTAAGA
1 GAAG-AAGA
33056980 GAAAAATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
18 22 0.54
19 19 0.46
ACGTcount: A:0.44, C:0.05, G:0.25, T:0.27
Consensus pattern (19 bp):
GAAGAAGAACTTTTTAATG
Found at i:33059230 original size:26 final size:24
Alignment explanation
Indices: 33059170--33059230 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
33059160 GCTATAAATA
*
33059170 TCTCTTTCTTCCAGCAGCTTCTTC
1 TCTCTTTCTTCTAGCAGCTTCTTC
* *
33059194 TCCCATT-TTCTAGCAGCTTCTTC
1 TCTCTTTCTTCTAGCAGCTTCTTC
33059217 TTCTTCTTTCTTCT
1 -TC-TCTTTCTTCT
33059231 CTTTCACGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 15 0.52
24 7 0.24
25 3 0.10
26 4 0.14
ACGTcount: A:0.08, C:0.34, G:0.07, T:0.51
Consensus pattern (24 bp):
TCTCTTTCTTCTAGCAGCTTCTTC
Found at i:33060070 original size:42 final size:42
Alignment explanation
Indices: 33060024--33060155 Score: 194
Period size: 42 Copynumber: 3.1 Consensus size: 42
33060014 GTAATGATAT
* *
33060024 TGACCCGACTATGTACGAGTAGGAGTGTGCATAAGCCGATGT
1 TGACCCGACTATGTGCGAGTAGGAGTGTGCATAAGCCGATGC
* *
33060066 TGACCCCACTATGTGCAAGT-GAGAGTGTGCATAAGCCGATGC
1 TGACCCGACTATGTGCGAGTAG-GAGTGTGCATAAGCCGATGC
* *
33060108 TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
1 TGACCCGACTATGTGCGAGTAGGAGTGTGCATAAGCCGATGC
33060150 TGACCC
1 TGACCC
33060156 AGCCATGTGC
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.01
42 78 0.98
43 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (42 bp):
TGACCCGACTATGTGCGAGTAGGAGTGTGCATAAGCCGATGC
Found at i:33060164 original size:42 final size:42
Alignment explanation
Indices: 33060024--33060177 Score: 179
Period size: 42 Copynumber: 3.7 Consensus size: 42
33060014 GTAATGATAT
* * *
33060024 TGACCC-GACTATGTACGAGTAGGAGTGTGCATAAGCCGATGT
1 TGACCCAG-CTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
* *
33060066 TGACCCCA-CTATGTGCAAGT-GAGAGTGTGCATAAGCCGATGC
1 TGA-CCCAGCTATGTGCGAGTAG-GAGTGCGCATAAGCCGATGC
*
33060108 TGACCCGGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
* * *
33060150 TGACCCAGCCATGTGCTAGTGGGAGTGC
1 TGACCCAGCTATGTGCGAGTAGGAGTGC
33060178 ATATGAGCTG
Statistics
Matches: 97, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
41 4 0.04
42 89 0.92
43 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.21
Consensus pattern (42 bp):
TGACCCAGCTATGTGCGAGTAGGAGTGCGCATAAGCCGATGC
Found at i:33061231 original size:16 final size:17
Alignment explanation
Indices: 33061210--33061243 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33061200 TGAAAAATAT
*
33061210 AATGAAA-AATGAAAAA
1 AATGAAAGAAGGAAAAA
33061226 AATGAAAGAAGGAAAAA
1 AATGAAAGAAGGAAAAA
33061243 A
1 A
33061244 GGAGAGAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.09
Consensus pattern (17 bp):
AATGAAAGAAGGAAAAA
Found at i:33061510 original size:58 final size:59
Alignment explanation
Indices: 33061441--33061593 Score: 260
Period size: 58 Copynumber: 2.6 Consensus size: 59
33061431 CAAGGAGTAG
*
33061441 AAAAATAGAGAAGGA-GGGA-GAGTCGTTCTGCTGCCGGCAAGGAGAGCTGGGCAGAAGA
1 AAAAATAGAGAAAGAGGGGAGGAGT-GTTCTGCTGCCGGCAAGGAGAGCTGGGCAGAAGA
33061499 AAAAATAGAGAAAGAGGGGAGGAGTG-TCTGCTGCCGGCAAGGAGAGCTGGGCAGAAGA
1 AAAAATAGAGAAAGAGGGGAGGAGTGTTCTGCTGCCGGCAAGGAGAGCTGGGCAGAAGA
33061557 AAAAATAGAGAAAGAGGGGAGGAGTGTT-TGCTGCCGG
1 AAAAATAGAGAAAGAGGGGAGGAGTGTTCTGCTGCCGG
33061594 TAGGAGGAGA
Statistics
Matches: 91, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
58 81 0.89
59 6 0.07
60 4 0.04
ACGTcount: A:0.35, C:0.12, G:0.41, T:0.12
Consensus pattern (59 bp):
AAAAATAGAGAAAGAGGGGAGGAGTGTTCTGCTGCCGGCAAGGAGAGCTGGGCAGAAGA
Found at i:33061659 original size:34 final size:35
Alignment explanation
Indices: 33061616--33061837 Score: 185
Period size: 34 Copynumber: 6.4 Consensus size: 35
33061606 AATCTGGGCT
33061616 GGTTTGCCGCCGGTAG-GAGGAGCAACAGCTTGGA
1 GGTTTGCCGCCGGTAGAGAGGAGCAACAGCTTGGA
*
33061650 GGTTTGCCGCCGTTTAGAGAGGAGCAACAGCTTGGA
1 GGTTTGCCGCCG-GTAGAGAGGAGCAACAGCTTGGA
* * *
33061686 GGTTGGCCGCCGGTAG-GAAGA-CTGAA-ATC-TGGA
1 GGTTTGCCGCCGGTAGAGAGGAGC--AACAGCTTGGA
* * *
33061719 GTGTTTGCTGCCGGTAG-GAAGAGTGAA-AGCTTGGA
1 G-GTTTGCCGCCGGTAGAGAGGAG-CAACAGCTTGGA
* *
33061754 GGTTTGCTGCCGG-AGAGAGGAGTAACAGCTTGGGA
1 GGTTTGCCGCCGGTAGAGAGGAGCAACAGCTT-GGA
* **
33061789 GGGTTTGCCGCCGGT-GAGAGGAGTAGTAGC-TGGA
1 -GGTTTGCCGCCGGTAGAGAGGAGCAACAGCTTGGA
*
33061823 GTGTTAGCCGCCGGT
1 G-GTTTGCCGCCGGT
33061838 GGGTAATGAT
Statistics
Matches: 159, Mismatches: 15, Indels: 28
0.79 0.07 0.14
Matches are distributed among these distances:
33 11 0.07
34 77 0.48
35 17 0.11
36 54 0.34
ACGTcount: A:0.21, C:0.17, G:0.41, T:0.21
Consensus pattern (35 bp):
GGTTTGCCGCCGGTAGAGAGGAGCAACAGCTTGGA
Found at i:33061700 original size:70 final size:68
Alignment explanation
Indices: 33061616--33061803 Score: 179
Period size: 70 Copynumber: 2.7 Consensus size: 68
33061606 AATCTGGGCT
* *
33061616 GGTTTGCCGCCGGTAGGAGGAGCAACAGCTTGGAGGTTTGCCGCCGTTTAGAGAGGAG-CAACAG
1 GGTTTGCCGCCGGTAGGAGGAGCAACAGCTTGGAGGTTTGCCGCCG-GTAG-GAAGAGTCAA-AG
33061680 CTTGGA
63 CTTGGA
* * * * *
33061686 GGTTGGCCGCCGGTAGGAAGA-CTGAA-ATC-TGGAGTGTTTGCTGCCGGTAGGAAGAGTGAAAG
1 GGTTTGCCGCCGGTAGGAGGAGC--AACAGCTTGGAG-GTTTGCCGCCGGTAGGAAGAGTCAAAG
33061748 CTTGGA
63 CTTGGA
* *
33061754 GGTTTGCTGCCGG-AGAGAGGAGTAACAGCTTGGGAGGGTTTGCCGCCGGT
1 GGTTTGCCGCCGGTAG-GAGGAGCAACAGCTT-GGA-GGTTTGCCGCCGGT
33061804 GAGAGGAGTA
Statistics
Matches: 95, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
67 4 0.04
68 30 0.32
69 12 0.13
70 46 0.48
71 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.40, T:0.21
Consensus pattern (68 bp):
GGTTTGCCGCCGGTAGGAGGAGCAACAGCTTGGAGGTTTGCCGCCGGTAGGAAGAGTCAAAGCTT
GGA
Found at i:33061799 original size:104 final size:105
Alignment explanation
Indices: 33061577--33061803 Score: 275
Period size: 104 Copynumber: 2.2 Consensus size: 105
33061567 AAAGAGGGGA
* * * * *
33061577 GGAGTGTTTGCTGCCGGTAGGAGGAGAGAAATCTGGGCTGGTTTGCCGCCGGTAGGAGGAGCAAC
1 GGAGGGTTTGCCGCCGGTAGGAAGACAGAAATCTGGGCTGGTTTGCCGCCGGTAGGAAGAGCAAC
*
33061642 AGCTTGGAGGTTTGCCGCCGTTTAGAGAGGAGCAACAGCTT
66 AGCTTGGAGGTTTGCCGCCG-TGAGAGAGGAGCAACAGCTT
* * * *
33061683 GGA-GGTTGGCCGCCGGTAGGAAGACTGAAATCTGGAG-T-GTTTGCTGCCGGTAGGAAGAGTGA
1 GGAGGGTTTGCCGCCGGTAGGAAGACAGAAATCTGG-GCTGGTTTGCCGCCGGTAGGAAGAG-CA
* *
33061745 A-AGCTTGGAGGTTTGCTGCCG-GAGAGAGGAGTAACAGCTT
64 ACAGCTTGGAGGTTTGCCGCCGTGAGAGAGGAGCAACAGCTT
33061785 GGGAGGGTTTGCCGCCGGT
1 -GGAGGGTTTGCCGCCGGT
33061804 GAGAGGAGTA
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
102 17 0.16
103 3 0.03
104 51 0.49
105 29 0.28
106 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.41, T:0.22
Consensus pattern (105 bp):
GGAGGGTTTGCCGCCGGTAGGAAGACAGAAATCTGGGCTGGTTTGCCGCCGGTAGGAAGAGCAAC
AGCTTGGAGGTTTGCCGCCGTGAGAGAGGAGCAACAGCTT
Found at i:33061822 original size:104 final size:103
Alignment explanation
Indices: 33061617--33061837 Score: 252
Period size: 104 Copynumber: 2.1 Consensus size: 103
33061607 ATCTGGGCTG
* *
33061617 GTTTGCCGCCGGTAGGAGGAGCAACAGCTTGGAGGTTTGCCGCCGTTTAGAGAGGAGCAACAGCT
1 GTTTGCCGCCGGTAGGAAGAGCAACAGCTTGGAGGTTTGCCGCCG-TGAGAGAGGAGCAACAGCT
*
33061682 TGGAGGTTGGCCGCCGGTAGGAAGACTGAAATCTGGAGT
65 TGGAGGTTGGCCGCCGGTAGGAAGACTGAAAGCTGGAGT
* * * *
33061721 GTTTGCTGCCGGTAGGAAGAGTGAA-AGCTTGGAGGTTTGCTGCCG-GAGAGAGGAGTAACAGCT
1 GTTTGCCGCCGGTAGGAAGAG-CAACAGCTTGGAGGTTTGCCGCCGTGAGAGAGGAGCAACAGCT
* * * *
33061784 TGGGAGGGTTTGCCGCCGGT-GAGAGGAGT-AGTAGCTGGAGT
65 T-GGA-GGTTGGCCGCCGGTAG-GAAGACTGA-AAGCTGGAGT
*
33061825 GTTAGCCGCCGGT
1 GTTTGCCGCCGGT
33061838 GGGTAATGAT
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
102 17 0.17
103 5 0.05
104 75 0.76
105 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.41, T:0.21
Consensus pattern (103 bp):
GTTTGCCGCCGGTAGGAAGAGCAACAGCTTGGAGGTTTGCCGCCGTGAGAGAGGAGCAACAGCTT
GGAGGTTGGCCGCCGGTAGGAAGACTGAAAGCTGGAGT
Found at i:33070426 original size:21 final size:21
Alignment explanation
Indices: 33070400--33070453 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
33070390 ATTCATGTAA
*
33070400 TTCATGACAAAGATTG-AGACC
1 TTCATGACAAAGACTGAAG-CC
*
33070421 TTCATGA-AAAAACTGAAGCC
1 TTCATGACAAAGACTGAAGCC
33070441 TTCATGACAAAGA
1 TTCATGACAAAGA
33070454 AGATGCCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (21 bp):
TTCATGACAAAGACTGAAGCC
Found at i:33070461 original size:20 final size:19
Alignment explanation
Indices: 33070400--33070465 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 19
33070390 ATTCATGTAA
*
33070400 TTCATGACAAAGATTGAGACC
1 TTCATGACAAAGA-AGAG-CC
33070421 TTCATGA-AAA-AACTGAAGCC
1 TTCATGACAAAGAA--G-AGCC
33070441 TTCATGACAAAGAAGATGCC
1 TTCATGACAAAGAAGA-GCC
33070461 TTCAT
1 TTCAT
33070466 TCAAAGTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
19 2 0.05
20 22 0.58
21 12 0.32
22 2 0.05
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (19 bp):
TTCATGACAAAGAAGAGCC
Found at i:33072731 original size:22 final size:23
Alignment explanation
Indices: 33072678--33072732 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
33072668 CTCTATGATG
*
33072678 TATAGTTATTTAGACTTAATTTT
1 TATAGTAATTTAGACTTAATTTT
* *
33072701 GATTA-TAATTTA-ACTTAGTTTT
1 TA-TAGTAATTTAGACTTAATTTT
33072723 TATAGTAATT
1 TATAGTAATT
33072733 CATATAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 2 0.08
22 15 0.58
23 7 0.27
24 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.55
Consensus pattern (23 bp):
TATAGTAATTTAGACTTAATTTT
Found at i:33075370 original size:47 final size:47
Alignment explanation
Indices: 33075260--33075393 Score: 125
Period size: 47 Copynumber: 2.8 Consensus size: 47
33075250 TTGTTCTAGA
*
33075260 ATTTTTTTAATAATTA-AAAATTATTTTTAGTTTTATAAAAAAAGTTTTGG
1 ATTTTTTTAA-AATTATAAAA-TATTTTTAGTTTTAT--AAAAACTTTTGG
* * *
33075310 AATTTCTAAAAATTATAAAATATTTTTATGCTTTT-T-AAAACTTTTGG
1 ATTTTTTTAAAATTATAAAATATTTTTA-G-TTTTATAAAAACTTTTGG
*
33075357 ATTTTTTTAAAATT-TAAAAATATTTTTAATTTT-TAAA
1 ATTTTTTTAAAATTAT-AAAATATTTTTAGTTTTATAAA
33075394 TTTTTTTGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
45 5 0.07
46 3 0.04
47 33 0.46
49 13 0.18
50 13 0.18
51 4 0.06
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (47 bp):
ATTTTTTTAAAATTATAAAATATTTTTAGTTTTATAAAAACTTTTGG
Found at i:33076004 original size:2 final size:2
Alignment explanation
Indices: 33075997--33076033 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
33075987 TAACAAAGTC
33075997 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33076034 ATTTGACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33081378 original size:28 final size:29
Alignment explanation
Indices: 33081345--33081402 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
33081335 CTATTTAAAA
* * *
33081345 TATATTTAAATAATTTTTTAT-TTTTTAT
1 TATATTCAAATAAATTCTTATATTTTTAT
*
33081373 TATATTCAATTAAATTCTTATATTTTTAT
1 TATATTCAAATAAATTCTTATATTTTTAT
33081402 T
1 T
33081403 CTAAGTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TATATTCAAATAAATTCTTATATTTTTAT
Found at i:33115972 original size:19 final size:19
Alignment explanation
Indices: 33115945--33115981 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
33115935 CTATTTAACT
33115945 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
33115964 TATTGGAGTATGATTTGA
1 TATTAGAGTATGATTTGA
33115982 AGTTTAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:33119193 original size:17 final size:16
Alignment explanation
Indices: 33119173--33119209 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
33119163 AAATGAAAAA
33119173 AATAAACAAATATAAAT
1 AATAAAC-AATATAAAT
33119190 AAT-AACAATATAAAT
1 AATAAACAATATAAAT
33119205 -ATAAA
1 AATAAA
33119210 GAAAAAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.11
15 11 0.58
16 3 0.16
17 3 0.16
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAAACAATATAAAT
Done.