Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 172 of 318
Found at i:53433885 original size:2 final size:2
Alignment explanation
Indices: 53433878--53433923 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
53433868 TTAAAATACC
*
53433878 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53433920 AT AT
1 AT AT
53433924 TCATAAGTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53439550 original size:40 final size:40
Alignment explanation
Indices: 53439484--53439650 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
53439474 AAATTGAATG
* * *
53439484 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
53439523 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
53439563 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
53439603 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
53439643 ATATCCGG
1 ATATCCGG
53439651 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:53447548 original size:40 final size:40
Alignment explanation
Indices: 53447489--53447630 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
53447479 AAATTGAATG
* * *
53447489 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
53447529 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
53447569 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
53447609 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
53447631 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:53447631 original size:40 final size:39
Alignment explanation
Indices: 53447528--53447656 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
53447518 TGCTGGAAAT
* * *
53447528 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
53447568 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
53447608 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
53447648 TATATCCGG
1 TATATCCGG
53447657 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:53452494 original size:40 final size:40
Alignment explanation
Indices: 53452413--53452633 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
53452403 AAACCAAGTA
** * *
53452413 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
53452452 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
53452492 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
53452532 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
53452572 CCTTCGGGACTTGGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
53452612 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
53452634 CAATCCAAAT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 25 0.15
40 145 0.85
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:53453232 original size:2 final size:2
Alignment explanation
Indices: 53453225--53453258 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
53453215 TTAAAATACC
53453225 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
53453259 TCATAAGTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53461018 original size:20 final size:20
Alignment explanation
Indices: 53460993--53461042 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
53460983 CTCCTTACCG
* *
53460993 ACCACCAAACGCACTACAAA
1 ACCACCAAACACACCACAAA
**
53461013 ACCACCATTCACACCACAAA
1 ACCACCAAACACACCACAAA
53461033 ACCACCAAAC
1 ACCACCAAAC
53461043 TCGGGGTATC
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:0.48, C:0.44, G:0.02, T:0.06
Consensus pattern (20 bp):
ACCACCAAACACACCACAAA
Found at i:53462841 original size:76 final size:74
Alignment explanation
Indices: 53462660--53462907 Score: 263
Period size: 76 Copynumber: 3.4 Consensus size: 74
53462650 ATAAATATAC
* * * * * ** * *
53462660 ATATTATTGATTTAAAATATAGTATAATACAATATAAACAATTTTTTCA--TTTCTCGTAGATTG
1 ATATTATTGATATAAAATACAATAGAATACAATACAAACAATTTTTAAATTTTTTTTGTAGATTG
53462723 TAAATAAGT
66 TAAATAAGT
* * * **
53462732 ATATTATT--TAAAAAGCATACGATAGAATACAATACAAAC-TTTTATTCCATTTTTTTTGTAGA
1 ATATTATTGATATAAA--ATACAATAGAATACAATACAAACAATTT-TTAAATTTTTTTTGTAGA
*
53462794 TTGAAAATAAGTAT
63 TTGTAAATAAG--T
*
53462808 ATATTATTGATATAAAATACAATAGAATGCAATACAAACAATTTTTAAATTTTTTTTGTAGATTG
1 ATATTATTGATATAAAATACAATAGAATACAATACAAACAATTTTTAAATTTTTTTTGTAGATTG
53462873 TAAATAAGT
66 TAAATAAGT
*
53462882 ATATTATTGATGTAAAATACAATAGA
1 ATATTATTGATATAAAATACAATAGA
53462908 GAATATTTTT
Statistics
Matches: 146, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
70 4 0.03
71 3 0.02
72 30 0.21
74 45 0.31
76 56 0.38
77 3 0.02
78 5 0.03
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (74 bp):
ATATTATTGATATAAAATACAATAGAATACAATACAAACAATTTTTAAATTTTTTTTGTAGATTG
TAAATAAGT
Found at i:53465834 original size:21 final size:20
Alignment explanation
Indices: 53465805--53465844 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
53465795 CTTTGAAACA
*
53465805 GGGCACACGCCTGTGTGGAT
1 GGGCACACGCCCGTGTGGAT
53465825 GGGCAACACGCCCGTGTGGA
1 GGGC-ACACGCCCGTGTGGA
53465845 ACTTGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.28, G:0.40, T:0.15
Consensus pattern (20 bp):
GGGCACACGCCCGTGTGGAT
Found at i:53474332 original size:46 final size:45
Alignment explanation
Indices: 53474242--53474405 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 45
53474232 GTGCTGAAGC
*
53474242 CATGTCCCAGACATGGTCTTACACTAAC--ACATCTCGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACT-GCTTACATCTCG-AGCCGATG
*
53474287 CATGTCCCAGACAT-GTTTTACACTGTCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTG-CTTACATCTCGA-GCCGATG
* * * **
53474333 CATGTCCCAAACAT-GTCTTGCACTAGCTCT-CATCTCAATGTTGATG
1 CATGTCCCAGACATGGTCTTACACT-GCT-TACATCTCGA-GCCGATG
53474379 CCATGTCCCAGACATGGTCTTACACTG
1 -CATGTCCCAGACATGGTCTTACACTG
53474406 GCTCTCATAA
Statistics
Matches: 100, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 10 0.10
45 15 0.15
46 50 0.50
47 16 0.16
48 9 0.09
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGCTTACATCTCGAGCCGATG
Found at i:53474427 original size:48 final size:45
Alignment explanation
Indices: 53474189--53474441 Score: 149
Period size: 48 Copynumber: 5.4 Consensus size: 45
53474179 GTATAATGCT
* *
53474189 GATGCCATGTCCCAAACATGGTCTTACACTAACAACTC-TATACGTGCT
1 GATG-CATGTCCCAAACATGGTCTTACACTAAC-TCTCATATA-G-GCC
* * * *
53474237 GAAGCCATGTCCCAGACATGGTCTTACACTAACACATC-TCGTA-GCC
1 GATG-CATGTCCCAAACATGGTCTTACACTAACTC-TCAT-ATAGGCC
* * ** *
53474283 GATGCATGTCCCAGACAT-GTTTTACACTGTCT-TACATCTCGAGGCC
1 GATGCATGTCCCAAACATGGTCTTACACTAACTCT-CATAT--AGGCC
* * * * **
53474329 GATGCATGTCCCAAACAT-GTCTTGCACTAGCTCTCATCTCAATGTT
1 GATGCATGTCCCAAACATGGTCTTACACTAACTCTCATAT--AGGCC
* **
53474375 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCC
1 GATG-CATGTCCCAAACATGGTCTTACACTAACTCTCAT-ATA-GGCC
53474423 GATGCATGTCCCAAACATG
1 GATGCATGTCCCAAACATG
53474442 CCTTATACTA
Statistics
Matches: 166, Mismatches: 27, Indels: 25
0.76 0.12 0.11
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 11 0.07
45 15 0.09
46 47 0.28
47 31 0.19
48 56 0.34
49 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAAACATGGTCTTACACTAACTCTCATATAGGCC
Found at i:53478990 original size:2 final size:2
Alignment explanation
Indices: 53478983--53479015 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
53478973 TGGAGTAGTG
53478983 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 A
53479016 CTAGCAATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53482418 original size:57 final size:57
Alignment explanation
Indices: 53482318--53482427 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
53482308 TTAAAAAAAC
* * *
53482318 GCCGCTAAAGACCATGACCTTTAGCGGCCCTTTTCCAGCAAACGCCGCTAAAGGAAT
1 GCCGCTAAAGACCATGACCTTTAGCAGCCCTTTTCCAGAAAACGCCACTAAAGGAAT
* * *
53482375 GCCGCTAAAGACCATGACTTTTAGCAGCGCTTTTACTA-AAAACGCCACTAAAG
1 GCCGCTAAAGACCATGACCTTTAGCAGCCCTTTT-CCAGAAAACGCCACTAAAG
53482428 CCATGACTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 44 0.96
58 2 0.04
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (57 bp):
GCCGCTAAAGACCATGACCTTTAGCAGCCCTTTTCCAGAAAACGCCACTAAAGGAAT
Found at i:53482482 original size:42 final size:42
Alignment explanation
Indices: 53482379--53482507 Score: 145
Period size: 42 Copynumber: 3.1 Consensus size: 42
53482369 AGGAATGCCG
* *
53482379 CTAAAGACCATGACTTTTAGCAGCGCTTTTACTAAAAACGCCA
1 CTAAAGACCATGACTTTTAGCGGCGCTTTT-CTAAAAACACCA
*
53482422 CTAAAG-CCATGACTTTTAGCGGCGCTTTTCTTGAAAACACCA
1 CTAAAGACCATGACTTTTAGCGGCGCTTTTC-TAAAAACACCA
* * * ** *
53482464 CTAAAGACTATGAC-TTTAGCGACACTTTTCCCAAAACGCCA
1 CTAAAGACCATGACTTTTAGCGGCGCTTTTCTAAAAACACCA
53482505 CTA
1 CTA
53482508 TATAACAAAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 12 0.16
42 51 0.68
43 12 0.16
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (42 bp):
CTAAAGACCATGACTTTTAGCGGCGCTTTTCTAAAAACACCA
Found at i:53487599 original size:18 final size:19
Alignment explanation
Indices: 53487562--53487600 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
53487552 AAATCATATT
53487562 TATTATTTTCATATAAAAA
1 TATTATTTTCATATAAAAA
*
53487581 TATTATTTTGATA-AAAAA
1 TATTATTTTCATATAAAAA
53487599 TA
1 TA
53487601 AAAAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTTCATATAAAAA
Found at i:53488216 original size:24 final size:24
Alignment explanation
Indices: 53488184--53488229 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
53488174 AAATAACAAT
*
53488184 TAATTTTTATATAAACTTTTAAAC
1 TAATGTTTATATAAACTTTTAAAC
53488208 TAATGTTTATATAAACTTTTAA
1 TAATGTTTATATAAACTTTTAA
53488230 CAAATATACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATGTTTATATAAACTTTTAAAC
Found at i:53488761 original size:17 final size:18
Alignment explanation
Indices: 53488736--53488769 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
53488726 GGGTTATAGT
*
53488736 TTAGTGTTTA-GGGTTTG
1 TTAGGGTTTATGGGTTTG
53488753 TTAGGGTTTATGGGTTT
1 TTAGGGTTTATGGGTTT
53488770 ACTATTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (18 bp):
TTAGGGTTTATGGGTTTG
Found at i:53488887 original size:42 final size:42
Alignment explanation
Indices: 53488840--53488965 Score: 177
Period size: 42 Copynumber: 3.0 Consensus size: 42
53488830 GTTATATGAC
*
53488840 TTTTAGTGGCGTTTTACCAAAAGAGCCGCTAATGCTCTGTTT
1 TTTTAGCGGCGTTTTACCAAAAGAGCCGCTAATGCTCTGTTT
* *
53488882 TTTTAGCGGCATTTTACCAAAAGCA-CCGCTAATG-TCTG-GT
1 TTTTAGCGGCGTTTTACCAAAAG-AGCCGCTAATGCTCTGTTT
* *
53488922 TTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGTTT
1 TTTTAGCGGCGTTTTACCAAAAGAGCCGCTAATGCTCTGTTT
53488964 TT
1 TT
53488966 AGTAGCGTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
40 31 0.42
41 8 0.11
42 33 0.45
43 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (42 bp):
TTTTAGCGGCGTTTTACCAAAAGAGCCGCTAATGCTCTGTTT
Found at i:53488937 original size:40 final size:41
Alignment explanation
Indices: 53488840--53488976 Score: 172
Period size: 40 Copynumber: 3.4 Consensus size: 41
53488830 GTTATATGAC
* *
53488840 TTTTAGTGGCGTTTTACCAAAAG-AGCCGCTAATGCTCTGTTT
1 TTTTAGCGGCGTTTTACCAAAAGCA-CCGCTAATGCTCTG-GT
*
53488882 TTTTAGCGGCATTTTACCAAAAGCACCGCTAATG-TCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGT
* *
53488922 TTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGT
**
53488962 TTTTAGTAGCGTTTT
1 TTTTAGCGGCGTTTT
53488977 TGGTAAAACA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 47 0.55
41 7 0.08
42 30 0.35
43 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCACCGCTAATGCTCTGGT
Found at i:53496228 original size:40 final size:40
Alignment explanation
Indices: 53496184--53496593 Score: 703
Period size: 40 Copynumber: 10.2 Consensus size: 40
53496174 GTAACAACTA
*
53496184 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCT
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
*
53496224 GCACGAATGCCTTCGGGACTTAGCCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
* *
53496264 GCACGAATGCCTTCGGGGCTTAACCCAGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
* *
53496304 GCACGAATGCATTCGGGGCTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
*
53496344 GCACGAATGCCTTCGGGACTTAACTCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
*
53496384 GAACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
* * *
53496424 GCAAGAATGCCTTCGGGGCTGAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
53496464 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
* *
53496504 ACACGAATGCCTTCGGGACTTAACTCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
53496544 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
53496584 GCACGAATGC
1 GCACGAATGC
53496594 TATGCACATA
Statistics
Matches: 347, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 347 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
Found at i:53502580 original size:40 final size:40
Alignment explanation
Indices: 53502536--53502645 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
53502526 TTCACAATTT
* *
53502536 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
53502576 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
53502616 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
53502646 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:53507881 original size:46 final size:46
Alignment explanation
Indices: 53507831--53508006 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53507821 TGGTTGAGCA
53507831 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53507877 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53507922 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53507970 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53508007 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53507987 original size:93 final size:93
Alignment explanation
Indices: 53507828--53507999 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53507818 GGATGGTTGA
* *
53507828 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53507893 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
53507921 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53507986 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53508000 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53512658 original size:40 final size:40
Alignment explanation
Indices: 53512614--53512723 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
53512604 TTCACAATTT
* *
53512614 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
53512654 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
53512694 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
53512724 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:53517895 original size:40 final size:40
Alignment explanation
Indices: 53517846--53518296 Score: 721
Period size: 40 Copynumber: 11.4 Consensus size: 40
53517836 CGGATGTAAC
* * *
53517846 AACCAGCACGAATGCCTTCAGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
* *
53517886 AACCTGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
*
53517926 AACCCGCACGAATGCCTT-TGGGCTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
* *
53517965 AACCTGTACGAATGCCTTC-GGGCTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
53518004 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
53518044 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
* * *
53518084 AACCAGCACGAATGCCTTCGGGACTTAACCTGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
* *
53518124 AACCCGAACGAATGCCTTC-GGGCTTAACCCAGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
53518163 AACCCGCACGAATGCCTTC-GGGCTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
* *
53518202 AACCCACACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
*
53518242 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
*
53518282 AACCCACACGAATGC
1 AACCCGCACGAATGC
53518297 TATGCACATA
Statistics
Matches: 385, Mismatches: 23, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
39 144 0.37
40 241 0.63
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAAT
Found at i:53518186 original size:158 final size:159
Alignment explanation
Indices: 53517846--53518296 Score: 764
Period size: 158 Copynumber: 2.8 Consensus size: 159
53517836 CGGATGTAAC
* * *
53517846 AACCAGCACGAATGCCTTCAGGACTTAACCCGGTTATAATAACCTGCACGAATGCCTTCGGGACT
1 AACCCGCACGAATGCCTTCAGGGCTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACT
* * *
53517911 TAACCCGGTTATAATAACCCGCACGAATGCCTTTGGG-CTTAACCCGGTTATAATAACCTGTACG
66 TAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGAACG
*
53517975 AATGCCTTCGGGCTTAACCCGGTTATAAT
131 AATGCCTTCGGGCTTAACCCAGTTATAAT
* *
53518004 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGGCT
1 AACCCGCACGAATGCCTTCAGGGCTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACT
* *
53518069 TAACCCGGTTATAATAACCAGCACGAATGCCTTCGGGACTTAACCTGGTTATAATAACCCGAACG
66 TAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGAACG
53518134 AATGCCTTCGGGCTTAACCCAGTTATAAT
131 AATGCCTTCGGGCTTAACCCAGTTATAAT
*
53518163 AACCCGCACGAATGCCTTC-GGGCTTAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACT
1 AACCCGCACGAATGCCTTCAGGGCTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACT
53518227 TAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC-ACAC
66 TAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGA-AC
53518291 GAATGC
130 GAATGC
53518297 TATGCACATA
Statistics
Matches: 276, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
157 1 0.00
158 204 0.74
159 71 0.26
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (159 bp):
AACCCGCACGAATGCCTTCAGGGCTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACT
TAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCGAACG
AATGCCTTCGGGCTTAACCCAGTTATAAT
Found at i:53518189 original size:198 final size:198
Alignment explanation
Indices: 53517846--53518296 Score: 778
Period size: 198 Copynumber: 2.3 Consensus size: 198
53517836 CGGATGTAAC
* * *
53517846 AACCAGCACGAATGCCTTCAGGACTTAACCCGGTTATAATAACCTGCACGAATGCCTTCGGGACT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGCACGAATGCCTTCGGGACT
* * * * *
53517911 TAACCCGGTTATAATAACCCGCACGAATGCCTTTGGGCTTAACCCGGTTATAATAACCTGTACGA
66 TAACCCGGTTATAATAACCCGAACGAATGCCTTCGGGCTTAACCCAGTTATAATAACCCGCACGA
* *
53517976 ATGCCTTCGGGCTTAACCCGGTTATAATAACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTAT
131 ATGCCTTCGGGCTTAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACTTAACCCGGTTAT
53518041 AAT
196 AAT
*
53518044 AACCCGCACGAATGCCTTCGGGGCTTAACCCGGTTATAATAACCAGCACGAATGCCTTCGGGACT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGCACGAATGCCTTCGGGACT
*
53518109 TAACCTGGTTATAATAACCCGAACGAATGCCTTCGGGCTTAACCCAGTTATAATAACCCGCACGA
66 TAACCCGGTTATAATAACCCGAACGAATGCCTTCGGGCTTAACCCAGTTATAATAACCCGCACGA
53518174 ATGCCTTCGGGCTTAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACTTAACCCGGTTAT
131 ATGCCTTCGGGCTTAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACTTAACCCGGTTAT
53518239 AAT
196 AAT
53518242 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCCA-CACGAATGC
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAA-CCAGCACGAATGC
53518297 TATGCACATA
Statistics
Matches: 239, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
198 236 0.99
199 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (198 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCAGCACGAATGCCTTCGGGACT
TAACCCGGTTATAATAACCCGAACGAATGCCTTCGGGCTTAACCCAGTTATAATAACCCGCACGA
ATGCCTTCGGGCTTAACCCGGTTATAATAACCCACACGAATGCCTTCGGGACTTAACCCGGTTAT
AAT
Found at i:53526272 original size:40 final size:40
Alignment explanation
Indices: 53526212--53526581 Score: 641
Period size: 40 Copynumber: 9.2 Consensus size: 40
53526202 GTAACAACTA
*
53526212 GCACGAATGCCATCGGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
* *
53526252 GCACAAATGCCTTCAGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
*
53526292 GCACGAATGCCTTCGGGGCTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
*
53526332 GCACGAATGCCTTCGGGACTTAACCTGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
* *
53526372 GAACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCT
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
* *
53526412 GCACGAATGCCTTCGGGGCTTAACCTGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
* *
53526452 GCACGAATGCCTTAGGGACTTAACCCGGTTATATTAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
53526492 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
53526532 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
53526572 GCACGAATGC
1 GCACGAATGC
53526582 TATGCACATA
Statistics
Matches: 309, Mismatches: 21, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 309 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
Found at i:53530155 original size:20 final size:20
Alignment explanation
Indices: 53530126--53530170 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
53530116 AGCACATGTA
* *
53530126 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
53530146 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
53530166 TTCAT
1 TTCAT
53530171 TTTAGCCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:53531261 original size:26 final size:23
Alignment explanation
Indices: 53531232--53531279 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
53531222 ATGATATATA
53531232 AAATTAAGATAAAAAGAATTTGAGAG
1 AAATTAA-ATAAAAA-AA-TTGAGAG
*
53531258 AAATTGAATAAAAAAATTGAGA
1 AAATTAAATAAAAAAATTGAGA
53531280 ATAAAATAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 6 0.29
24 2 0.10
25 7 0.33
26 6 0.29
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (23 bp):
AAATTAAATAAAAAAATTGAGAG
Found at i:53536713 original size:7 final size:7
Alignment explanation
Indices: 53536694--53536742 Score: 62
Period size: 7 Copynumber: 6.9 Consensus size: 7
53536684 TTAAGATCAT
53536694 GGGTTTAA
1 GGGTTT-A
53536702 GGGTTTA
1 GGGTTTA
53536709 GGGTTTA
1 GGGTTTA
*
53536716 AGGTTTA
1 GGGTTTA
* *
53536723 GGGTATC
1 GGGTTTA
53536730 GGGTTTA
1 GGGTTTA
53536737 GGGTTT
1 GGGTTT
53536743 TAGTATTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:53537461 original size:165 final size:164
Alignment explanation
Indices: 53537177--53537501 Score: 535
Period size: 165 Copynumber: 2.0 Consensus size: 164
53537167 TGGCTTAATG
53537177 TTAAAGGTATATATGTTTGTTTCATAAACAGTATAACATGTTTAAATGATATAAGGTTAGCATTT
1 TTAAAGGTATATATGTTTGTTTCATAAACAGTATAACATGTTTAAATGATATAAGGTTAGCATTT
* * *
53537242 GACAACTAGTATGAATTAGTCAATTCTATTGCAATGTTGAATGGATTGATTTGCTAATTACTATA
66 GACAACTAGTATGAATTAGTCAATTCTATTACAATGTTGAAAGGATTGATTTGCTAATTACCATA
* *
53537307 TGAATACTCTGATATGTAAATGATAATGGATTAA
131 TAAATACTCTAATATGTAAATGATAATGGATTAA
** **
53537341 TTAAAGGTATATATGTTTGTTTCATAAATGGTATAGGATGTTTAAATGATATAAGGTTAGGCATT
1 TTAAAGGTATATATGTTTGTTTCATAAACAGTATAACATGTTTAAATGATATAAGGTTA-GCATT
*
53537406 TGACAACTAGTATGAATTAGTCAATTTTATTACAATGTTGAAAAGG-TTGATTTGCTAATTACCA
65 TGACAACTAGTATGAATTAGTCAATTCTATTACAATGTTG-AAAGGATTGATTTGCTAATTACCA
53537470 TATAAATACTCTAATATGTAAATGATAATGGA
129 TATAAATACTCTAATATGTAAATGATAATGGA
53537502 ATTTCTTGGG
Statistics
Matches: 149, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
164 55 0.37
165 90 0.60
166 4 0.03
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (164 bp):
TTAAAGGTATATATGTTTGTTTCATAAACAGTATAACATGTTTAAATGATATAAGGTTAGCATTT
GACAACTAGTATGAATTAGTCAATTCTATTACAATGTTGAAAGGATTGATTTGCTAATTACCATA
TAAATACTCTAATATGTAAATGATAATGGATTAA
Found at i:53538393 original size:49 final size:50
Alignment explanation
Indices: 53538306--53538406 Score: 195
Period size: 49 Copynumber: 2.0 Consensus size: 50
53538296 GTGCCAAATA
53538306 GATAGAGAACTGAAATTGGGGGTCTTTAAAGGGCAATTAGACCCTTTAGG
1 GATAGAGAACTGAAATTGGGGGTCTTTAAAGGGCAATTAGACCCTTTAGG
53538356 GATAGAGAACTGAAATT-GGGGTCTTTAAAGGGCAATTAGACCCTTTAGG
1 GATAGAGAACTGAAATTGGGGGTCTTTAAAGGGCAATTAGACCCTTTAGG
53538405 GA
1 GA
53538407 GGCATGGCCA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 34 0.67
50 17 0.33
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.26
Consensus pattern (50 bp):
GATAGAGAACTGAAATTGGGGGTCTTTAAAGGGCAATTAGACCCTTTAGG
Found at i:53539058 original size:46 final size:46
Alignment explanation
Indices: 53538925--53539095 Score: 133
Period size: 44 Copynumber: 3.7 Consensus size: 46
53538915 ACATTATGAG
* * *
53538925 AGCCAGTGTAAGACCATGTTTGGGACATGCCATCAGTATTGAGACG-A
1 AGCCAGTGTAAGACCATGTTTAGGACATG-CATCGGTA-CGAGACGTA
* *
53538972 GTGCTAGTGTAAGA-C--GTTTAGGACATGCATCGGCCT-CGAGACGTA
1 -AGCCAGTGTAAGACCATGTTTAGGACATGCATCGG--TACGAGACGTA
* * *
53539017 AGCCAGTGTAAGA-CATGTTTGGGACATGCATTGGTTACGAGATGT-
1 AGCCAGTGTAAGACCATGTTTAGGACATGCATCGG-TACGAGACGTA
* *
53539062 -GGCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 AGCCAGTGTAAGACCATGTTTAGGACAT-GCATCG
53539096 ACACAGATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
44 34 0.34
45 25 0.25
46 29 0.29
47 1 0.01
48 11 0.11
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
AGCCAGTGTAAGACCATGTTTAGGACATGCATCGGTACGAGACGTA
Found at i:53539094 original size:92 final size:94
Alignment explanation
Indices: 53538880--53539095 Score: 234
Period size: 92 Copynumber: 2.3 Consensus size: 94
53538870 ACTTGTGTGA
* * *
53538880 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTT
*
53538945 TGGGACATGCCATCAGTATTGAGACGAGT
66 TGGGACATGCCATCAGTATCGAGACGAGT
* *
53538974 GCTAGTGTAAGAC--GTTTAGGACATGCATCGGCCTCGA-GACGTA-AGCCAGTGTAAGA-CATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGACG-AGAGCCAGTGTAAGACCATG
** * *
53539034 TTTGGGACATG-CATTGGT-TACGAGATGTG-
64 TTTGGGACATGCCATCAGTAT-CGAGACGAGT
53539063 GC-AGTGTAAGACCATGTCTAGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCG
53539096 ACACAGATAT
Statistics
Matches: 104, Mismatches: 11, Indels: 16
0.79 0.08 0.12
Matches are distributed among these distances:
88 9 0.09
89 4 0.04
90 11 0.11
91 25 0.24
92 40 0.38
93 2 0.02
94 13 0.12
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGACGAGAGCCAGTGTAAGACCATGTT
TGGGACATGCCATCAGTATCGAGACGAGT
Found at i:53544173 original size:17 final size:17
Alignment explanation
Indices: 53544151--53544185 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
53544141 GAGATCGGAT
53544151 CACTATGGATTTTGTGA
1 CACTATGGATTTTGTGA
53544168 CACTATGGATTTTGTGA
1 CACTATGGATTTTGTGA
53544185 C
1 C
53544186 GGGTTTATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (17 bp):
CACTATGGATTTTGTGA
Found at i:53546146 original size:46 final size:46
Alignment explanation
Indices: 53546044--53546210 Score: 173
Period size: 46 Copynumber: 3.6 Consensus size: 46
53546034 ACTTTATGAG
* *
53546044 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACG-A
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATC-GTCTCGAGACGTA
* *
53546091 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCGTCCTCGAGACGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGCATCGT-CTCGAGACGTA
* * * *
53546138 AGCCAGTGTAAGA-CATGTATGGTACATGCATCGGCTACGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGTCT-CGAGACGTA
*
53546183 -GTCAGTGTAAGACCATGTCTGGGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATG
53546211 GCATTGGTAC
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
44 11 0.11
45 17 0.17
46 48 0.47
47 15 0.15
48 11 0.11
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGTCTCGAGACGTA
Found at i:53549417 original size:30 final size:30
Alignment explanation
Indices: 53549383--53549443 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
53549373 CATTTAATAC
*
53549383 AAACTTTTGCAAAATTACATTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
*
53549413 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
53549443 A
1 A
53549444 GGCTCGGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:53556016 original size:44 final size:42
Alignment explanation
Indices: 53555927--53556045 Score: 132
Period size: 44 Copynumber: 2.8 Consensus size: 42
53555917 GCGAATTGGA
* *
53555927 ATAGCTTCGGTT-ATATGAGGCACTAAGTGTGTGATACCGAG
1 ATAGCTTCGGTTAATATGATGCACTAAGTGTGTGAGACCGAG
* **
53555968 ATAGCTTCGGTTTAATATGATAGCACTAAGTGTGTGAGACTGTT
1 ATAGCTTCGG-TTAATATGAT-GCACTAAGTGTGTGAGACCGAG
* *
53556012 ATAGCTTAGGCTAATCACTGATGCACTAAGTGTG
1 ATAGCTTCGGTTAAT-A-TGATGCACTAAGTGTG
53556046 CGAATTTCTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 10 0.15
42 2 0.03
43 10 0.15
44 40 0.61
45 4 0.06
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
ATAGCTTCGGTTAATATGATGCACTAAGTGTGTGAGACCGAG
Found at i:53559020 original size:37 final size:37
Alignment explanation
Indices: 53558970--53559050 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
53558960 GGAAATATAT
* *
53558970 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTCTG
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
*
53559007 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTTTA
1 TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
53559044 TCCGGGT
1 TCCGGGT
53559051 TAAAACCCCG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACCACGTGTGGAGATTCTA
Found at i:53575304 original size:17 final size:18
Alignment explanation
Indices: 53575284--53575317 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
53575274 GCTTATTGCC
53575284 TATTTTTTTA-TATTATA
1 TATTTTTTTATTATTATA
53575301 TATTTTTTTATTATTAT
1 TATTTTTTTATTATTAT
53575318 TACCCGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTTTTTATTATTATA
Found at i:53575361 original size:20 final size:21
Alignment explanation
Indices: 53575336--53575374 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53575326 TGGGCCCGTA
*
53575336 AGCCTATTG-GGCCCAATTTT
1 AGCCTATCGAGGCCCAATTTT
53575356 AGCCTATCGAGGCCCAATT
1 AGCCTATCGAGGCCCAATT
53575375 ACCGAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
AGCCTATCGAGGCCCAATTTT
Found at i:53580257 original size:46 final size:44
Alignment explanation
Indices: 53580204--53580375 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 44
53580194 GGGCATCTGA
53580204 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
* * *
53580249 TACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 -ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G--TCCG
* *
53580296 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAATGCCCG
1 -ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATGTCCG
53580342 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 A-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
53580376 CGGGTTACAT
Statistics
Matches: 107, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 58 0.54
47 28 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (44 bp):
ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATGTCCG
Found at i:53580354 original size:93 final size:93
Alignment explanation
Indices: 53580195--53580366 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
53580185 AGGATATTTG
* * *
53580195 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGTACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGTACTCGTTGAG
53580260 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
53580288 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAATGCCCG-AGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGTA-CTCGTTGA
53580352 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
53580367 ACTTATGGAC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATGCCCGTACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53594246 original size:93 final size:92
Alignment explanation
Indices: 53594088--53594259 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 92
53594078 CTCCCATAAG
* * *
53594088 CGAACTCGGACTCACTCAATGAGCTCAGGCGTTCACATCTATAAGTGAACTCAGACTCAACTCAA
1 CGAACTCGGACTCACTCAATGAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
53594153 CGAGCTCGGATGCCTAGTTACATCTCA
66 CGAGCTCGGATGCCTAGTTACATCTCA
* *
53594180 CGAACTCGGACTCAACTCAATGAGTTC-GAACATTCGCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCGGACTC-ACTCAATGAGCTCAG-ACATTCACATCCATAAGTGAACTCAGACTCAACTC
*
53594244 AACGAGTTCGGATGCC
64 AACGAGCTCGGATGCC
53594260 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
92 14 0.19
93 58 0.81
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (92 bp):
CGAACTCGGACTCACTCAATGAGCTCAGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCA
Found at i:53602977 original size:29 final size:29
Alignment explanation
Indices: 53602943--53603016 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
53602933 TAATCAACCA
*
53602943 CGCACACTTAGTGCCATGTACTTTAAACT-
1 CGCACACTTAGTGCCATGCA-TTTAAACTC
* *
53602972 CGCACACTTAGTGCCATGCATTTCAAGTC
1 CGCACACTTAGTGCCATGCATTTAAACTC
53603001 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
53603017 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.15
29 35 0.85
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTAAACTC
Found at i:53603487 original size:2 final size:2
Alignment explanation
Indices: 53603482--53603517 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
53603472 TCACACATGC
53603482 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
53603518 GTCCGAATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53604173 original size:17 final size:18
Alignment explanation
Indices: 53604136--53604173 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
53604126 CACTTTTTTT
53604136 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
53604155 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
53604172 TT
1 TT
53604174 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:53606220 original size:13 final size:13
Alignment explanation
Indices: 53606202--53606230 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
53606192 GGTTATTTAT
53606202 TAAACTAATTAAC
1 TAAACTAATTAAC
53606215 TAAACTAATTAAC
1 TAAACTAATTAAC
53606228 TAA
1 TAA
53606231 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:53615456 original size:40 final size:40
Alignment explanation
Indices: 53615407--53615614 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
53615397 TCTTCGGAAT
* *
53615407 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* **** *
53615446 TTAACCCGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCA-CTAGCACAAATGCCTTCGGGTC
* * * * *
53615486 TTAGCCTGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
* * *
53615526 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
** * *
53615566 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
53615606 TTAGCCCGG
1 TTAGCCCGG
53615615 GTATCATTCA
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 5 0.04
40 134 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACCACTAGCACAAATGCCTTCGGGTC
Found at i:53624009 original size:39 final size:39
Alignment explanation
Indices: 53623839--53623997 Score: 237
Period size: 39 Copynumber: 4.1 Consensus size: 39
53623829 TGCATGATAT
*
53623839 TGGGAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGGAATATATCCGGACATGAAGTCCGCAGGCTATATGC
*
53623878 TGGGAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGGAATATATCCGGACATGAAGTCCGCAGGCTATATGC
* * *
53623917 TGGGAATATATCCGGACTTGAAGTCCGCAGGTTATGTGC
1 TGGGAATATATCCGGACATGAAGTCCGCAGGCTATATGC
* * * *
53623956 TGGAAATATATCCGGACTTGAAGTCTGCAGGCTACATGC
1 TGGGAATATATCCGGACATGAAGTCCGCAGGCTATATGC
53623995 TGG
1 TGG
53623998 AATGGAATCC
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (39 bp):
TGGGAATATATCCGGACATGAAGTCCGCAGGCTATATGC
Found at i:53628459 original size:24 final size:24
Alignment explanation
Indices: 53628427--53628513 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
53628417 AATCTCAAAT
53628427 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
53628451 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
53628475 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
53628499 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
53628514 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:53628479 original size:48 final size:48
Alignment explanation
Indices: 53628427--53628535 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
53628417 AATCTCAAAT
** *
53628427 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
53628475 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
53628523 GCACTATGTGTGC
1 GCACTATGTGTGC
53628536 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:53628526 original size:24 final size:24
Alignment explanation
Indices: 53628427--53628535 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
53628417 AATCTCAAAT
*
53628427 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
53628451 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
53628475 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
53628499 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
53628523 GCACTATGTGTGC
1 GCACTATGTGTGC
53628536 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:53636615 original size:66 final size:68
Alignment explanation
Indices: 53636537--53636723 Score: 263
Period size: 71 Copynumber: 2.7 Consensus size: 68
53636527 TAGTACCACT
*
53636537 CATGCGACCCAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
1 CATGCGACCCAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
53636599 CACG
65 CACG
*
53636603 CATGCGACCCAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCCAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGA
53636668 ATCACG
63 ATCACG
*
53636674 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCCAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
53636724 GATACATCTC
Statistics
Matches: 112, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
66 13 0.12
67 6 0.05
68 1 0.01
69 1 0.01
71 91 0.81
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (68 bp):
CATGCGACCCAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATC
ACG
Found at i:53636648 original size:71 final size:71
Alignment explanation
Indices: 53636560--53636723 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
53636550 CGATTTGTCT
53636560 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
53636625 CTTTCA
66 CTTTCA
* *
53636631 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
53636696 CTTTCA
66 CTTTCA
53636702 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
53636724 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:53636761 original size:71 final size:70
Alignment explanation
Indices: 53636560--53636757 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
53636550 CGATTTGTCT
* * * * *
53636560 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
53636625 CTTTCA
65 CTTTCA
* * * *
53636631 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
53636696 CTTTCA
65 CTTTCA
* *
53636702 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
53636758 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:53639030 original size:24 final size:24
Alignment explanation
Indices: 53638998--53639084 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
53638988 AATCTCAAAT
53638998 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
53639022 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
53639046 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
53639070 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
53639085 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:53639100 original size:48 final size:48
Alignment explanation
Indices: 53638998--53639106 Score: 166
Period size: 48 Copynumber: 2.3 Consensus size: 48
53638988 AATCTCAAAT
** *
53638998 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
53639046 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ACATAATATA
*
53639094 GTACTATGTGTGC
1 GCACTATGTGTGC
53639107 AACGTTTGGT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
48 51 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGACATAATATA
Found at i:53646244 original size:39 final size:39
Alignment explanation
Indices: 53646187--53646288 Score: 107
Period size: 40 Copynumber: 2.6 Consensus size: 39
53646177 ACCCAATTAT
* *
53646187 CTTCGGGATTTAGCCGGATATAACCACTCGCACA-AGGC
1 CTTCGGGACTTAGCCGGATATAACCACTAGCACAGAGGC
** *** *
53646225 CTTCGGTTCTTAGTCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAG-CCGGATATAACCACTAGCACAGAGGC
53646265 CTTCGGGACTTAGCCCGGATATAA
1 CTTCGGGACTTAG-CCGGATATAA
53646289 TAACTTGCAC
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
38 10 0.20
39 17 0.35
40 22 0.45
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (39 bp):
CTTCGGGACTTAGCCGGATATAACCACTAGCACAGAGGC
Found at i:53646277 original size:40 final size:40
Alignment explanation
Indices: 53646212--53646476 Score: 293
Period size: 40 Copynumber: 6.7 Consensus size: 40
53646202 GGATATAACC
* ** * * *
53646212 ACTCGCAC-AAGGCCTTCGGTTCTTAGTCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * *
53646251 ACTAGCACAGATGCCTTCGGGACTTAGCCCGG-ATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * *
53646291 ACTTGCACAAATGACTTCGGGGCTTAGCCCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
53646331 ACTCGCACAAAAGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
53646371 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * *
53646411 ACTCGCATAAATGCCTTCGGGACTTAGCCCAGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
53646451 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
53646477 ACCCCGTTAG
Statistics
Matches: 194, Mismatches: 30, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
39 7 0.04
40 185 0.95
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:53650384 original size:45 final size:43
Alignment explanation
Indices: 53650345--53650500 Score: 140
Period size: 45 Copynumber: 3.6 Consensus size: 43
53650335 TATGTGTTCT
*
53650345 CGTGTAAGACCATGTCTGGGACGTTGGCATCAATATATGTGGTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATC-ATATATGT-GATA
* * * * * *
53650390 CGTGTATGACCATGTCTGGGACATCGGCAT--TGTATTTGATT
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCATATATGTGATA
* * *
53650431 CGTGTAAGACCTTGTCTGGGATAG-TGGCATCA-ATATGAGATAA
1 CGTGTAAGACCATGTCTGGGA-CGTTGGCATCATATATGTGAT-A
* *
53650474 CATGTAAGACCACGTCTGGGACGTTGG
1 CGTGTAAGACCATGTCTGGGACGTTGG
53650501 AATTGTTCGA
Statistics
Matches: 86, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
41 26 0.30
42 12 0.14
43 21 0.24
45 27 0.31
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCATATATGTGATA
Found at i:53657299 original size:27 final size:27
Alignment explanation
Indices: 53657268--53657439 Score: 152
Period size: 27 Copynumber: 6.4 Consensus size: 27
53657258 GATATTACAT
*
53657268 GCTTTCCATTCTGAATATGCTACAAAG
1 GCTTTCCATTCTGAATATGCCACAAAG
* * *
53657295 GCTTTCCATT-TAAAATATGCTACAAAT
1 GCTTTCCATTCT-GAATATGCCACAAAG
* ** *
53657322 TCTTTCCATT-TAGAATACACCATAAAG
1 GCTTTCCATTCT-GAATATGCCACAAAG
*
53657349 GCTTTCCA-TCCGAATATGCCACAAAAG
1 GCTTTCCATTCTGAATATGCCAC-AAAG
** **
53657376 ATTTTCCATTCAAAATATGCCACAAAG
1 GCTTTCCATTCTGAATATGCCACAAAG
* * *
53657403 GCTTTCCATTCAGAATACGCCACAAAA
1 GCTTTCCATTCTGAATATGCCACAAAG
53657430 GCTTTCCATT
1 GCTTTCCATT
53657440 ACTGCCGTTT
Statistics
Matches: 118, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
26 10 0.08
27 96 0.81
28 12 0.10
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (27 bp):
GCTTTCCATTCTGAATATGCCACAAAG
Found at i:53657408 original size:81 final size:80
Alignment explanation
Indices: 53657268--53657438 Score: 216
Period size: 81 Copynumber: 2.1 Consensus size: 80
53657258 GATATTACAT
* * * * * ** *
53657268 GCTTTCCATTCTGAATATGCTACAAAGGCTTTCCATTTAAAATATGCTACAAATTCTTTCCATTT
1 GCTTTCCA-TCCGAATATGCCACAAAGACTTTCCATTCAAAATATGCCACAAAGGCTTTCCATTC
* *
53657333 AGAATACACCATAAAG
65 AGAATACACCACAAAA
*
53657349 GCTTTCCATCCGAATATGCCACAAAAGATTTTCCATTCAAAATATGCCACAAAGGCTTTCCATTC
1 GCTTTCCATCCGAATATGCCAC-AAAGACTTTCCATTCAAAATATGCCACAAAGGCTTTCCATTC
*
53657414 AGAATACGCCACAAAA
65 AGAATACACCACAAAA
53657430 GCTTTCCAT
1 GCTTTCCAT
53657439 TACTGCCGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 12 0.16
81 65 0.84
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.30
Consensus pattern (80 bp):
GCTTTCCATCCGAATATGCCACAAAGACTTTCCATTCAAAATATGCCACAAAGGCTTTCCATTCA
GAATACACCACAAAA
Found at i:53665088 original size:6 final size:6
Alignment explanation
Indices: 53665079--53665105 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
53665069 CACCGTAAGG
53665079 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
53665106 GCGGAACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:53666086 original size:22 final size:21
Alignment explanation
Indices: 53666061--53666101 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
53666051 TCCCCTGTTC
*
53666061 TTCTCTGTTTCGTTTGCTTTGT
1 TTCTCTGTTTCATTT-CTTTGT
*
53666083 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
53666102 TCTTTTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.02, C:0.20, G:0.10, T:0.68
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:53666119 original size:16 final size:17
Alignment explanation
Indices: 53666082--53666122 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
53666072 GTTTGCTTTG
*
53666082 TTTCTCTTTTTCATTTCT
1 TTTCT-TTTTTCATTTCA
53666100 TTTCTTTTTTCATTT-A
1 TTTCTTTTTTCATTTCA
53666116 TTTCTTT
1 TTTCTTT
53666123 GTTTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.32
17 10 0.45
18 5 0.23
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTTTTTCATTTCA
Found at i:53669522 original size:39 final size:39
Alignment explanation
Indices: 53669473--53669749 Score: 437
Period size: 39 Copynumber: 7.0 Consensus size: 39
53669463 TTATATTACT
*
53669473 AGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
53669512 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
53669551 AGCACAAAGCCTGCGGGACTTTAGCCAGTCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTT----AG-CCCGGATACATTTCC
* *
53669595 AGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTTCT
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
*
53669634 AGCACGAAGCCTGCGGGACTTTAGCCCGGATAGATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* *
53669673 AGCACGAAGCCTGCGGGACTTTAGCCTGGATAGATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
53669712 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
53669750 TAGTGTCTTG
Statistics
Matches: 220, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
39 181 0.82
40 2 0.01
43 2 0.01
44 35 0.16
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:53676636 original size:46 final size:45
Alignment explanation
Indices: 53676583--53676758 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
53676573 TGTTTGGGCA
53676583 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *** * *
53676629 TCTGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
53676676 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
53676722 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53676759 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:53676738 original size:93 final size:93
Alignment explanation
Indices: 53676579--53676750 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
53676569 AGGATGTTTG
* * *
53676579 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
53676644 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
53676672 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
53676737 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
53676751 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:53679135 original size:22 final size:21
Alignment explanation
Indices: 53679110--53679150 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
53679100 TCCCCTGTTC
*
53679110 TTCTCTGTTTCGTTTGCTTTGT
1 TTCTCTGTTTCATTT-CTTTGT
*
53679132 TTCTCTTTTTCATTTCTTT
1 TTCTCTGTTTCATTTCTTT
53679151 TTTTTTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.02, C:0.20, G:0.10, T:0.68
Consensus pattern (21 bp):
TTCTCTGTTTCATTTCTTTGT
Found at i:53681467 original size:2 final size:2
Alignment explanation
Indices: 53681460--53681497 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
53681450 TATAATAACT
53681460 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
53681498 GGATACAAAT
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):
TA
Found at i:53685609 original size:7 final size:7
Alignment explanation
Indices: 53685588--53685649 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
53685578 TGAACGATGG
*
53685588 ACCTTCA
1 ACCTTAA
*
53685595 ACCCTAA
1 ACCTTAA
53685602 ACCTTAA
1 ACCTTAA
*
53685609 ACCTTGA
1 ACCTTAA
*
53685616 ACCATAA
1 ACCTTAA
*
53685623 ACCTTGA
1 ACCTTAA
**
53685630 ACCTTGG
1 ACCTTAA
*
53685637 ACCTTAG
1 ACCTTAA
53685644 ACCTTA
1 ACCTTA
53685650 GACCCCGAAC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.26
Consensus pattern (7 bp):
ACCTTAA
Found at i:53685618 original size:21 final size:21
Alignment explanation
Indices: 53685588--53685649 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
53685578 TGAACGATGG
* *
53685588 ACCTTCAACCCTAAACCTTAA
1 ACCTTGAACCATAAACCTTAA
*
53685609 ACCTTGAACCATAAACCTTGA
1 ACCTTGAACCATAAACCTTAA
* * *
53685630 ACCTTGGACCTTAGACCTTA
1 ACCTTGAACCATAAACCTTA
53685650 GACCCCGAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.34, C:0.32, G:0.08, T:0.26
Consensus pattern (21 bp):
ACCTTGAACCATAAACCTTAA
Found at i:53686477 original size:23 final size:24
Alignment explanation
Indices: 53686451--53686495 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
53686441 TATAATGTTA
53686451 ACAAAGGAA-TTTTTATTTAAATT
1 ACAAAGGAATTTTTTATTTAAATT
53686474 ACAAAGGAATTTTTTATTTAAA
1 ACAAAGGAATTTTTTATTTAAA
53686496 ATCAGGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.42
Consensus pattern (24 bp):
ACAAAGGAATTTTTTATTTAAATT
Found at i:53689911 original size:25 final size:25
Alignment explanation
Indices: 53689877--53689927 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
53689867 CCTGTTAAGG
53689877 GGTTGAAAACAAAATATTTGATTGT
1 GGTTGAAAACAAAATATTTGATTGT
53689902 GGTTGAAAACAAAATATTTGATTGT
1 GGTTGAAAACAAAATATTTGATTGT
53689927 G
1 G
53689928 CAATATCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (25 bp):
GGTTGAAAACAAAATATTTGATTGT
Found at i:53690457 original size:18 final size:18
Alignment explanation
Indices: 53690434--53690470 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
53690424 TCATATAGAC
53690434 ATTCATTAAAGAACTATT
1 ATTCATTAAAGAACTATT
*
53690452 ATTCATTAAAGAATTATT
1 ATTCATTAAAGAACTATT
53690470 A
1 A
53690471 AAGAACTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (18 bp):
ATTCATTAAAGAACTATT
Found at i:53692130 original size:13 final size:13
Alignment explanation
Indices: 53692112--53692136 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53692102 AGATCAAAAT
53692112 ATTTTTCCCTCAA
1 ATTTTTCCCTCAA
53692125 ATTTTTCCCTCA
1 ATTTTTCCCTCA
53692137 CTCATGACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTTCCCTCAA
Found at i:53693208 original size:3 final size:3
Alignment explanation
Indices: 53693200--53693226 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
53693190 ATGTGCATGT
53693200 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
53693227 ATTGAGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:53700413 original size:6 final size:6
Alignment explanation
Indices: 53700402--53700451 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
53700392 AAAGCGTTGT
53700402 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
1 CATACA CATACA CATACA CATACA CATACA CATACA CATACA CATACA
53700450 CA
1 CA
53700452 CATATATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (6 bp):
CATACA
Found at i:53707220 original size:47 final size:45
Alignment explanation
Indices: 53707109--53707376 Score: 220
Period size: 47 Copynumber: 5.7 Consensus size: 45
53707099 ATAAATTGCG
* * * *
53707109 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGTGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-TGT-TG-ATGCC
53707159 GATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTTGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC--TCTCTGTTGATGCC
* * ** *
53707206 GATGCATGTCCCAGACATGTCTTACTCTGGCACTCATAAT-ATGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTC-TGTTGAT-GCC
* * * *
53707252 GAAGCAAGTCCCAGACATGTCTTACACTAGCCCT-TGTCTGGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCTGT-T-GATGCC
*
53707298 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAG-TGCA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-T-GTTG-ATGCC
* *
53707346 GAAGCATGTCCCATACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
53707377 GCACAAATCA
Statistics
Matches: 180, Mismatches: 25, Indels: 30
0.77 0.11 0.13
Matches are distributed among these distances:
44 1 0.01
45 6 0.03
46 50 0.28
47 61 0.34
48 34 0.19
49 18 0.10
50 9 0.05
51 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCTGTTGATGCC
Found at i:53707276 original size:93 final size:94
Alignment explanation
Indices: 53707109--53707376 Score: 348
Period size: 94 Copynumber: 2.8 Consensus size: 94
53707099 ATAAATTGCG
*
53707109 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATATGTGTGCTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATA-ATGTG-GCTGAAGCATGTCCCAGA
*
53707174 CATGTCTTACACTGG--CTATCTCTGTTGATGCC
64 CATGTCTTACACTGGCCCT-TGTCTG--GATGCC
* * *
53707206 GATG-CATGTCCCAGACAT-GTCTTACT-CTGGCACTCATAATATGGCTGAAGCAAGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTA-TACTGGCTCTCATAATGTGGCTGAAGCATGTCCCAGAC
*
53707268 ATGTCTTACACTAGCCCTTGTCTGGATGCC
65 ATGTCTTACACTGGCCCTTGTCTGGATGCC
* ** * *
53707298 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAGTGCAGCCGAAGCATGTCCCATACA
1 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAATGTGGCTGAAGCATGTCCCAGACA
53707363 TGTCTTACACTGGC
66 TGTCTTACACTGGC
53707377 GCACAAATCA
Statistics
Matches: 150, Mismatches: 15, Indels: 15
0.83 0.08 0.08
Matches are distributed among these distances:
92 10 0.07
93 45 0.30
94 57 0.38
95 19 0.13
96 15 0.10
97 4 0.03
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAATGTGGCTGAAGCATGTCCCAGACA
TGTCTTACACTGGCCCTTGTCTGGATGCC
Found at i:53709947 original size:80 final size:80
Alignment explanation
Indices: 53709813--53710001 Score: 245
Period size: 80 Copynumber: 2.4 Consensus size: 80
53709803 CATTGGAATG
* * ** *
53709813 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATTATATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
* *
53709877 ATTCGTGCGAGTTGTT
66 ATT-GTGCGAGTCGCT
* * *
53709893 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
53709958 ATTGTGCGAGTCGCT
66 ATTGTGCGAGTCGCT
* **
53709973 ATAACCGGGCTTCGTCCCGAAGGCATTTG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTG
53710002 AGCGAGTCGT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 91 0.97
81 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTCGCT
Found at i:53709981 original size:40 final size:40
Alignment explanation
Indices: 53709813--53710020 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
53709803 CATTGGAATG
* * **
53709813 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCGTT
*
53709853 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCGTT
* * ****
53709893 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCGTT
* * *
53709933 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCGTT
* ** * * *
53709973 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCGTT
53710013 ATATCCGG
1 ATATCCGG
53710021 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 135 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCGTT
Found at i:53712577 original size:16 final size:16
Alignment explanation
Indices: 53712558--53712614 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 16
53712548 GGCCTACATG
53712558 GTTTTGAAGAGATAGT
1 GTTTTGAAGAGATAGT
*
53712574 GTTTTTAA-AGCAGTGATGT
1 GTTTTGAAGAG-A-T-A-GT
53712593 GGTTTTGAAGAGATAGT
1 -GTTTTGAAGAGATAGT
53712610 GTTTT
1 GTTTT
53712615 TAACTTCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 13 0.39
17 3 0.09
18 2 0.06
19 3 0.09
20 8 0.24
21 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.42
Consensus pattern (16 bp):
GTTTTGAAGAGATAGT
Found at i:53712579 original size:17 final size:17
Alignment explanation
Indices: 53712559--53712615 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
53712549 GCCTACATGG
53712559 TTTTGAAGAGATAGTGT
1 TTTTGAAGAGATAGTGT
* *
53712576 TTTTAAAGCAG-TGATGTGG
1 TTTTGAAG-AGAT-A-GTGT
53712595 TTTTGAAGAGATAGTGT
1 TTTTGAAGAGATAGTGT
53712612 TTTT
1 TTTT
53712616 AACTTCAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 15 0.47
18 6 0.19
19 11 0.34
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (17 bp):
TTTTGAAGAGATAGTGT
Found at i:53714882 original size:47 final size:44
Alignment explanation
Indices: 53714772--53714882 Score: 107
Period size: 48 Copynumber: 2.4 Consensus size: 44
53714762 TCATTTGTGT
* * *
53714772 GCTATTGTAAGACATGCCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTACGAGA
* *
53714818 GCCAGTGTATGATCATGTCTGGGACATGGCATCGG-CATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATT---ACGAGA
53714866 GCTAGTGTAAGACATGT
1 GCTAGTGTAAGACATGT
53714883 AACACCCCGA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
45 4 0.08
46 9 0.17
47 18 0.34
48 22 0.42
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTACGAGA
Found at i:53716363 original size:30 final size:29
Alignment explanation
Indices: 53716269--53716370 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
53716259 TATAGTGAAT
* * *
53716269 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
53716298 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
53716326 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
53716356 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
53716371 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:53724238 original size:30 final size:29
Alignment explanation
Indices: 53724144--53724245 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
53724134 TATAGTGAAT
* * *
53724144 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
53724173 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
53724201 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
53724231 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
53724246 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:53725994 original size:50 final size:46
Alignment explanation
Indices: 53725831--53725990 Score: 175
Period size: 46 Copynumber: 3.4 Consensus size: 46
53725821 GGGATGTCAC
* *
53725831 AAGACATGTTTGGGACATGCATTGGC-CTCGAGATGTAAGCCAGTGT
1 AAGACATGTTTGGGACATGCATTGGCACT-GAAATGTAAGTCAGTGT
* *
53725877 AAGACATGTTCGGGACATGCATTGGCTAC-AAAATGT--GTCAGTGT
1 AAGACATGTTTGGGACATGCATTGGC-ACTGAAATGTAAGTCAGTGT
*
53725921 AAGACCATGTTTGGGACATGGCATTGGCACTGATATGTGAGAGTCAGTGT
1 AAGA-CATGTTTGGGACAT-GCATTGGCACTGAAATGT-A-AGTCAGTGT
*
53725971 AAGACCATGTCTGGGACATG
1 AAGA-CATGTTTGGGACATG
53725991 GCATCGACTT
Statistics
Matches: 97, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 43 0.44
48 1 0.01
49 1 0.01
50 26 0.27
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (46 bp):
AAGACATGTTTGGGACATGCATTGGCACTGAAATGTAAGTCAGTGT
Found at i:53728701 original size:39 final size:39
Alignment explanation
Indices: 53728617--53728769 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
53728607 TATGGTAACC
** * *
53728617 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
53728657 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
53728696 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
53728735 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
53728770 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:53728742 original size:78 final size:79
Alignment explanation
Indices: 53728586--53728768 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
53728576 TCGTTCAAAC
* * **
53728586 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
53728651 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
53728666 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
53728730 CAATTTGCACAATT
66 CAATTTGCACAATT
53728744 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
53728769 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:53730664 original size:49 final size:49
Alignment explanation
Indices: 53730592--53730946 Score: 278
Period size: 49 Copynumber: 7.5 Consensus size: 49
53730582 GAATACTGAC
* *
53730592 GCCATGTCCCAGAAATGGTCTTACACTGACTATTGTCATCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATTATCATCGAGGCCGAT
53730641 GCCATGTCCCAGACATGGTCTTACACTGACTATTATCATCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATTATCATCGAGGCCGAT
* * * * * *
53730690 GCCATGTCCTAGGCATGGTCTTACACT-AGCTCTCGCAT-GTCCG-TGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTAT--TATCAT-CGAGGCCGAT
* * * *
53730740 GCCATGTCCCAGACATGGTCTTACATTGAC-A-CATC-TC-ATAGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATTATCATCGA-GGCCGAT
* * * *
53730786 G-TATATCCCAGACAT-GTCTTACACTGACTTACT-TCA-CGAGGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGAC-TATTATCATCGAGGCCGAT
* * * * * *
53730832 G-CATGTCCTAGACAT-GTCTTACACT-AGCTCTCATC-TCAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTATTATCATCGAGGCCGAT
* * * * *
53730878 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATTATCATCGAGGCCGAT
53730926 G-CATGTCCCAGACAT-GTCTTA
1 GCCATGTCCCAGACATGGTCTTA
53730947 TACTAGCTCA
Statistics
Matches: 250, Mismatches: 36, Indels: 43
0.76 0.11 0.13
Matches are distributed among these distances:
44 12 0.05
45 15 0.06
46 58 0.23
47 28 0.11
48 24 0.10
49 76 0.30
50 32 0.13
51 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATTATCATCGAGGCCGAT
Found at i:53730899 original size:94 final size:97
Alignment explanation
Indices: 53730592--53730955 Score: 305
Period size: 94 Copynumber: 3.8 Consensus size: 97
53730582 GAATACTGAC
* *
53730592 GCCATGTCCCAGAAATGGTCTTACACTGA--CTATTGTCATCGAGGCCGATGCCATGTCCCAGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTACTGTCA-CGAGGCCGATGCCATGTCCCAGAC
* * *
53730655 ATGGTCTTACACT-GACTATTATCATCGAGGCCGAT
65 ATGGTCTTACACTAG-CTCTCATC-TC-ATGCCGAT
* * * *
53730690 GCCATGTCCTAGGCATGGTCTTACACT-AGCTCTCGCATGTC-CG-TGCCGATGCCATGTCCCAG
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTCT-AC-TGTCACGAGGCCGATGCCATGTCCCAG
* * * *
53730752 ACATGGTCTTACA-TTG-ACACATCTCATAGCTGAT
63 ACATGGTCTTACACTAGCTCTCATCTCAT-GCCGAT
* * * *
53730786 G-TATATCCCAGACAT-GTCTTACACTGACT-TACT-TCACGAGGCTGATG-CATGTCCTAGACA
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTACTGTCACGAGGCCGATGCCATGTCCCAGACA
*
53730846 T-GTCTTACACTAGCTCTCATCTCAATGCCAAT
66 TGGTCTTACACTAGCTCTCATCTC-ATGCCGAT
* * * * *
53730878 GCCATGTCCCAGACATGGTCTTACACTGGCTCT-C-ATAATGTGGCCGATG-CATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTACTGTCACGAGGCCGATGCCATGTCCCAGACA
*
53730940 T-GTCTTATACTAGCTC
66 TGGTCTTACACTAGCTC
53730956 ACAATAACCC
Statistics
Matches: 215, Mismatches: 34, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
90 10 0.05
91 18 0.08
92 19 0.09
93 15 0.07
94 63 0.29
95 13 0.06
96 8 0.04
97 4 0.02
98 25 0.12
99 32 0.15
100 4 0.02
102 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (97 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCTACTGTCACGAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCATCTCATGCCGAT
Found at i:53730901 original size:138 final size:143
Alignment explanation
Indices: 53730647--53730902 Score: 389
Period size: 138 Copynumber: 1.8 Consensus size: 143
53730637 CGATGCCATG
* *
53730647 TCCCAGACATGGTCTTACACTGACTATTATCATCGAGGCCGATGCCATGTCCTAGGCATGGTCTT
1 TCCCAGACATGGTCTTACACTGACTACTATCATCGAGGCCGATGCCATGTCCTAGACATGGTCTT
* ** *
53730712 ACACTAGCTCTCGCATGTCCGTGCCGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTC
66 ACACTAGCTCTC-CATCTCAATGCCAATGCCATGTCCCAGACATGGTCTTACATTGACACATCTC
53730777 ATAGCTGATGTATA
130 ATAGCTGATGTATA
*
53730791 TCCCAGACAT-GTCTTACACTGACTTACT-TCA-CGAGGCTGATG-CATGTCCTAGACAT-GTCT
1 TCCCAGACATGGTCTTACACTGAC-TACTATCATCGAGGCCGATGCCATGTCCTAGACATGGTCT
53730851 TACACTAGCTCT-CATCTCAATGCCAATGCCATGTCCCAGACATGGTCTTACA
65 TACACTAGCTCTCCATCTCAATGCCAATGCCATGTCCCAGACATGGTCTTACA
53730903 CTGGCTCTCA
Statistics
Matches: 104, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
138 36 0.35
140 16 0.15
141 13 0.12
142 10 0.10
143 16 0.15
144 13 0.12
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (143 bp):
TCCCAGACATGGTCTTACACTGACTACTATCATCGAGGCCGATGCCATGTCCTAGACATGGTCTT
ACACTAGCTCTCCATCTCAATGCCAATGCCATGTCCCAGACATGGTCTTACATTGACACATCTCA
TAGCTGATGTATA
Found at i:53733535 original size:31 final size:31
Alignment explanation
Indices: 53733497--53733563 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
53733487 GCATAGGATA
*
53733497 TAACCTTGCCTTCTTACATGAGCTCACATCC
1 TAACCTTGCCTTCTTACATGAGCACACATCC
*
53733528 TAACCTTGCCTTCTTGCATGAGCACACATCC
1 TAACCTTGCCTTCTTACATGAGCACACATCC
53733559 TAACC
1 TAACC
53733564 CGTTCAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.24, C:0.36, G:0.10, T:0.30
Consensus pattern (31 bp):
TAACCTTGCCTTCTTACATGAGCACACATCC
Found at i:53741832 original size:17 final size:16
Alignment explanation
Indices: 53741801--53741834 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
53741791 TTCATCCACC
*
53741801 GAAAATAAAAACAAAA
1 GAAAAGAAAAACAAAA
53741817 GAAAAGAAACAACAAAA
1 GAAAAGAAA-AACAAAA
53741834 G
1 G
53741835 CTTGGTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.09, G:0.12, T:0.03
Consensus pattern (16 bp):
GAAAAGAAAAACAAAA
Found at i:53748382 original size:25 final size:24
Alignment explanation
Indices: 53748328--53748385 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
53748318 TCATTGCTGG
53748328 AATTTTTGCAAGCGCATCAACTGA
1 AATTTTTGCAAGCGCATCAACTGA
53748352 AATTTTTGCAAGCGCATCAACTGA
1 AATTTTTGCAAGCGCATCAACTGA
53748376 AATTTTTGCA
1 AATTTTTGCA
53748386 GCAAGATTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (24 bp):
AATTTTTGCAAGCGCATCAACTGA
Found at i:53748495 original size:40 final size:40
Alignment explanation
Indices: 53748451--53748631 Score: 238
Period size: 40 Copynumber: 4.5 Consensus size: 40
53748441 CAAGCACAAT
* *** * *
53748451 TGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACCAA
1 TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAA
*
53748491 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAA
53748531 TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAA
* * **
53748571 TGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTAA-CAACTCGCACGAA
*
53748611 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGTCTTAGCCCGG
53748632 GTTTCATTCA
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
40 126 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAA
Found at i:53748573 original size:80 final size:78
Alignment explanation
Indices: 53748428--53748631 Score: 264
Period size: 80 Copynumber: 2.5 Consensus size: 78
53748418 CGGAATCTAA
* * *** *
53748428 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACCAATG
1 CCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACCAATG
53748493 CCTTCGGGTCTTAGC
64 CCTTCGGGTCTTAGC
* *
53748508 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAATG
1 CCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACCAATG
53748573 CCTTCGGGTCTTAGC
64 CCTTCGGGTCTTAGC
* *
53748588 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CCGGATATAA-CACTAGCA-CAATGCCTTCGGGTCTTAGCCCGG
53748632 GTTTCATTCA
Statistics
Matches: 109, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
79 1 0.01
80 105 0.96
81 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (78 bp):
CCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACCAATGCC
TTCGGGTCTTAGC
Found at i:53751409 original size:80 final size:80
Alignment explanation
Indices: 53751325--53751473 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
53751315 TATGGTAACC
* * * *
53751325 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
53751389 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
53751405 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
53751470 CCGG
66 CCGG
53751474 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:53751415 original size:40 final size:38
Alignment explanation
Indices: 53751366--53751473 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
53751356 ATCACGATTT
*
53751366 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
53751406 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
53751446 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
53751474 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:53764149 original size:46 final size:47
Alignment explanation
Indices: 53764047--53764314 Score: 246
Period size: 46 Copynumber: 5.7 Consensus size: 47
53764037 ACATTATGAG
* * * *
53764047 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGATGTA
*
53764095 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAGATGTA
* * * *
53764141 AGCCAGTGTAAGA-CATGTCTCGGACAT-GCATCGGCTACAAAATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCT-CGAGATGTA
* * * *
53764186 -GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTC-GAGATGT-A
* * * *
53764234 GAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATG--
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGA--GATGTA
*
53764282 AGCCAGTGTAAGACCATGTCTGGGACTTGGCAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCAT
53764315 TGACATTATA
Statistics
Matches: 187, Mismatches: 23, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
44 11 0.06
45 17 0.09
46 64 0.34
47 44 0.24
48 12 0.06
49 2 0.01
50 34 0.18
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAGATGTA
Found at i:53772380 original size:29 final size:28
Alignment explanation
Indices: 53772348--53772450 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
53772338 GTGACGAGAT
* *
53772348 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
53772377 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
53772406 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
53772435 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53772451 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:53774778 original size:21 final size:20
Alignment explanation
Indices: 53774753--53774794 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
53774743 TGTATGAGAT
*
53774753 TTAATGATTGATGATAGATTA
1 TTAATGATTAATGATAG-TTA
*
53774774 TTAATGTTTAATGATAGTTA
1 TTAATGATTAATGATAGTTA
53774794 T
1 T
53774795 ACAAGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.48
Consensus pattern (20 bp):
TTAATGATTAATGATAGTTA
Found at i:53779689 original size:39 final size:39
Alignment explanation
Indices: 53779538--53779731 Score: 235
Period size: 40 Copynumber: 4.9 Consensus size: 39
53779528 TGTTCAAACA
* * * * * * *
53779538 CCTTCGGGACATAGCCCGGTTATGATAACCCACACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
53779578 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* * * *
53779618 CCTTCGGAGTTTATCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGG-GCTTAGCCCGGATATCACAACTCGCACAATTG
*
53779658 CCTTCGGGCTTAGCCCGGATATCACAACTCGCATAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
53779697 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
53779732 TTCATACACA
Statistics
Matches: 134, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 60 0.45
40 73 0.54
41 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:53780984 original size:71 final size:71
Alignment explanation
Indices: 53780896--53781059 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
53780886 GAGATGTATC
53780896 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53780961 AGGACA
66 AGGACA
*
53780967 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
53781032 CGGACA
66 AGGACA
53781038 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
53781060 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:53788058 original size:71 final size:71
Alignment explanation
Indices: 53787970--53788133 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
53787960 GAGATGTATC
53787970 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53788035 AGGACA
66 AGGACA
*
53788041 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
53788106 CGGACA
66 AGGACA
53788112 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
53788134 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:53790000 original size:40 final size:39
Alignment explanation
Indices: 53789835--53790018 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
53789825 AAATTGAATG
* * *
53789835 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
53789875 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
53789915 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
53789955 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
53789994 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
53790019 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:53790043 original size:80 final size:81
Alignment explanation
Indices: 53789875--53790063 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
53789865 GCTGGAAATT
* * * *
53789875 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
53789940 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
53789956 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
53790019 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
53790035 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
53790064 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:53795158 original size:43 final size:43
Alignment explanation
Indices: 53795111--53795247 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 43
53795101 TCCTAGACGT
* *
53795111 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAC
* * * * * *
53795154 GGTCTTACACGAAATCAAATA-CAATGCTGA-TGTCCTAAACAT
1 GGTCTTACATGTAATCAAATATCGATGC-CACTGTCCCAAACAC
* *
53795196 GGTCCTACATGTAATCTGAA-ATCGATGCCAAC-GTCCCAAACAC
1 GGTCTTACATGTAATC-AAATATCGATGCC-ACTGTCCCAAACAC
53795239 GGTCTTACA
1 GGTCTTACA
53795248 CAAAATCACA
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
42 28 0.38
43 45 0.62
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAC
Found at i:53795232 original size:85 final size:85
Alignment explanation
Indices: 53795100--53795255 Score: 217
Period size: 85 Copynumber: 1.8 Consensus size: 85
53795090 CAATGCCAAC
* * * * * *
53795100 GTCCTAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACG
1 GTCCTAAACATGGTCCTACATGTAATCAAATATCGATGCCACTGTCCCAAACACGGTCTTACACA
53795165 AAATCAAATACAATGCTGAT
66 AAATCAAATACAATGCTGAT
*
53795185 GTCCTAAACATGGTCCTACATGTAATCTGAA-ATCGATGCCAAC-GTCCCAAACACGGTCTTACA
1 GTCCTAAACATGGTCCTACATGTAATC-AAATATCGATGCC-ACTGTCCCAAACACGGTCTTACA
53795248 CAAAATCA
64 CAAAATCA
53795256 CATATCAGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 58 0.94
86 4 0.06
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (85 bp):
GTCCTAAACATGGTCCTACATGTAATCAAATATCGATGCCACTGTCCCAAACACGGTCTTACACA
AAATCAAATACAATGCTGAT
Found at i:53798432 original size:21 final size:21
Alignment explanation
Indices: 53798406--53798445 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53798396 ATCATGAACA
53798406 AAGTATCGATATCTTTATAAT
1 AAGTATCGATATCTTTATAAT
* *
53798427 AAGTATTGATATTTTTATA
1 AAGTATCGATATCTTTATA
53798446 TCCGGTATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (21 bp):
AAGTATCGATATCTTTATAAT
Found at i:53804096 original size:2 final size:2
Alignment explanation
Indices: 53804089--53804113 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
53804079 ATGATTTGTG
53804089 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 A
53804114 AGTTAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:53811767 original size:40 final size:40
Alignment explanation
Indices: 53811640--53811769 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
53811630 ATGCTGGAAA
* * *
53811640 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
53811680 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
53811720 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
53811760 TTATATCCGG
1 TTATATCCGG
53811770 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:53819746 original size:40 final size:40
Alignment explanation
Indices: 53819619--53819748 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
53819609 ATGCTGGAAA
* * *
53819619 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
53819659 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
53819699 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
53819739 TTATATCCGG
1 TTATATCCGG
53819749 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:53830226 original size:25 final size:23
Alignment explanation
Indices: 53830193--53830240 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
53830183 AGTTCGTATG
53830193 TTAATATGCATTAATATAATTGTGTT
1 TTAATATGC-TT--TATAATTGTGTT
53830219 TTAA-ATGCTTTATAATTGTGTT
1 TTAATATGCTTTATAATTGTGTT
53830241 ATTGATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 12 0.55
24 2 0.09
25 4 0.18
26 4 0.18
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.52
Consensus pattern (23 bp):
TTAATATGCTTTATAATTGTGTT
Found at i:53834863 original size:8 final size:8
Alignment explanation
Indices: 53834847--53834879 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
53834837 TAAACCATAG
*
53834847 TTTTATTC
1 TTTTCTTC
53834855 TTTTCTTC
1 TTTTCTTC
53834863 TTTTCTTC
1 TTTTCTTC
53834871 -TTTCTTC
1 TTTTCTTC
53834878 TT
1 TT
53834880 CTGTAAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTCTTC
Found at i:53836004 original size:18 final size:19
Alignment explanation
Indices: 53835964--53836004 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
53835954 TATGATTTGA
53835964 TATGATATGCACATGATATG
1 TATGATATGCACATGA-ATG
*
53835984 TATGATTTGCACATG-ATG
1 TATGATATGCACATGAATG
53836002 TAT
1 TAT
53836005 TCATTTATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (19 bp):
TATGATATGCACATGAATG
Found at i:53836074 original size:25 final size:25
Alignment explanation
Indices: 53836046--53836115 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
53836036 GAGGAAGTGT
* *
53836046 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
53836071 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
53836096 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53836116 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Done.