Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 111 of 175
Found at i:35083927 original size:22 final size:21
Alignment explanation
Indices: 35083880--35083927 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
35083870 AATAACATAG
*
35083880 TTTTAATAAATGCAGAAAAATC
1 TTTTAATAAATGAAGAAAAA-C
35083902 TTTTAATAAATGGAAAGAAAAA-
1 TTTTAATAAAT-G-AAGAAAAAC
35083924 TTTT
1 TTTT
35083928 GAACTGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 15 0.65
23 1 0.04
24 7 0.30
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.35
Consensus pattern (21 bp):
TTTTAATAAATGAAGAAAAAC
Found at i:35088468 original size:114 final size:113
Alignment explanation
Indices: 35088269--35088509 Score: 293
Period size: 114 Copynumber: 2.1 Consensus size: 113
35088259 AAAATAAGCA
* * * * *
35088269 TTAGCGGCGTTTTCCAGAAAGCGCCGCAAAATACCTAAGCCCAACGGCGCCGTTTTCGGAGCTTT
1 TTAGCGGCGTTTTTCAGAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTCTTCGGAGCTTT
* * * *
35088334 CGGGGATTTTGCGGTGTTTTTAAGAAAGCGCCGCTAATGTTCAGGGCT
66 CGGGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * * *
35088382 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAATCTAAGCCTAACGACGCTGTCTTCTGAGCTT
1 TTAGCGGCGTTTTTCAGAAAGCGCCAC-AAAAAACCTAAGCCCAACGACGCCGTCTTCGGAGCTT
* * * * *
35088447 TTGGGGATTTAGTAGCGTTTTTAGGTAAGCGCCGCTAATGCTCAGGTCT
65 TCGGGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
*
35088496 TTAGCGGTGTTTTT
1 TTAGCGGCGTTTTT
35088510 AGCGGCGGTT
Statistics
Matches: 107, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
113 24 0.22
114 83 0.78
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (113 bp):
TTAGCGGCGTTTTTCAGAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTCTTCGGAGCTTT
CGGGGATTTAGCAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:35088756 original size:319 final size:319
Alignment explanation
Indices: 35088177--35088828 Score: 1277
Period size: 319 Copynumber: 2.0 Consensus size: 319
35088167 AAATAGGCTC
*
35088177 TTAGCGGCGTTTTTAGCGGCGGTTGGATAACAAACGCCGCTAAAGATCGATCATTAGTGGCGACT
1 TTAGCGGCGTTTTTAGCGGCGGTTGGATAACAAACGCCGCTAAAGATCGATCATTAGCGGCGACT
35088242 CATGGAAAACACCACTAAAAATAAGCATTAGCGGCGTTTTCCAGAAAGCGCCGCAAAATACCTAA
66 CATGGAAAACACCACTAAAAATAAGCATTAGCGGCGTTTTCCAGAAAGCGCCGCAAAATACCTAA
35088307 GCCCAACGGCGCCGTTTTCGGAGCTTTCGGGGATTTTGCGGTGTTTTTAAGAAAGCGCCGCTAAT
131 GCCCAACGGCGCCGTTTTCGGAGCTTTCGGGGATTTTGCGGTGTTTTTAAGAAAGCGCCGCTAAT
35088372 GTTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAATCTAAGCCTAACGACGCTGTC
196 GTTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAATCTAAGCCTAACGACGCTGTC
35088437 TTCTGAGCTTTTGGGGATTTAGTAGCGTTTTTAGGTAAGCGCCGCTAATGCTCAGGTCT
261 TTCTGAGCTTTTGGGGATTTAGTAGCGTTTTTAGGTAAGCGCCGCTAATGCTCAGGTCT
*
35088496 TTAGCGGTGTTTTTAGCGGCGGTTGGATAACAAACGCCGCTAAAGATCGATCATTAGCGGCGACT
1 TTAGCGGCGTTTTTAGCGGCGGTTGGATAACAAACGCCGCTAAAGATCGATCATTAGCGGCGACT
*
35088561 CATGGAAAACGCCACTAAAAATAAGCATTAGCGGCGTTTTCCAGAAAGCGCCGCAAAATACCTAA
66 CATGGAAAACACCACTAAAAATAAGCATTAGCGGCGTTTTCCAGAAAGCGCCGCAAAATACCTAA
35088626 GCCCAACGGCGCCGTTTTCGGAGCTTTCGGGGATTTTGCGGTGTTTTTAAGAAAGCGCCGCTAAT
131 GCCCAACGGCGCCGTTTTCGGAGCTTTCGGGGATTTTGCGGTGTTTTTAAGAAAGCGCCGCTAAT
35088691 GTTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAATCTAAGCCTAACGACGCTGTC
196 GTTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAATCTAAGCCTAACGACGCTGTC
35088756 TTCTGAGCTTTTGGGGATTTAGTAGCGTTTTTAGGTAAGCGCCGCTAATGCTCAGGTCT
261 TTCTGAGCTTTTGGGGATTTAGTAGCGTTTTTAGGTAAGCGCCGCTAATGCTCAGGTCT
35088815 TTAGCGGCGTTTTT
1 TTAGCGGCGTTTTT
35088829 GGGAAAGCGC
Statistics
Matches: 329, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
319 329 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (319 bp):
TTAGCGGCGTTTTTAGCGGCGGTTGGATAACAAACGCCGCTAAAGATCGATCATTAGCGGCGACT
CATGGAAAACACCACTAAAAATAAGCATTAGCGGCGTTTTCCAGAAAGCGCCGCAAAATACCTAA
GCCCAACGGCGCCGTTTTCGGAGCTTTCGGGGATTTTGCGGTGTTTTTAAGAAAGCGCCGCTAAT
GTTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAATCTAAGCCTAACGACGCTGTC
TTCTGAGCTTTTGGGGATTTAGTAGCGTTTTTAGGTAAGCGCCGCTAATGCTCAGGTCT
Found at i:35088787 original size:114 final size:114
Alignment explanation
Indices: 35088588--35088931 Score: 483
Period size: 114 Copynumber: 3.0 Consensus size: 114
35088578 AAAATAAGCA
** * * *
35088588 TTAGCGGCGTTTTCCAGAAAGCGCCGC-AAAATACCTAAGCCCAACGGCGCCGTTTTCGGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * * *
35088652 TCGGGGATTTTGCGGTGTTTTTAAGAAAGCGCCGCTAATGTTCAGGGCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * * *
35088701 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAATCTAAGCCTAACGACGCTGTCTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
35088766 TTGGGGATTTAGTAGCGTTTTTAGGTAAGCGCCGCTAATGCTCAGGTCT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
*
35088815 TTAGCGGCGTTTTTGGGAAAGCGCCACAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
35088880 TCGGGGATTTAGTGGCATTTTTAAGTAAGCGCCGCTAATGCTCAGGGAT
66 TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
35088929 TTA
1 TTA
35088932 AAATAATTTA
Statistics
Matches: 199, Mismatches: 31, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
113 24 0.12
114 175 0.88
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:35089417 original size:14 final size:14
Alignment explanation
Indices: 35089398--35089474 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
35089388 TTAATGTGAT
* *
35089398 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
35089412 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
35089426 TTAGGGGTTA--GG
1 TTAAGGGTTAGGGG
* **
35089438 TTAGGGGTTAGATG
1 TTAAGGGTTAGGGG
* *
35089452 TTAAGAGTTAGGGA
1 TTAAGGGTTAGGGG
*
35089466 TTTAGGGTT
1 TTAAGGGTT
35089475 TATAAATTCG
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
12 12 0.24
14 38 0.76
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:35089441 original size:12 final size:12
Alignment explanation
Indices: 35089410--35089448 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
35089400 AAGGTTTATG
*
35089410 GGTTAAGGGTTA
1 GGTTAGGGGTTA
35089422 GGGGTTAGGGGTTA
1 --GGTTAGGGGTTA
35089436 GGTTAGGGGTTA
1 GGTTAGGGGTTA
35089448 G
1 G
35089449 ATGTTAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.31
Consensus pattern (12 bp):
GGTTAGGGGTTA
Found at i:35089448 original size:7 final size:7
Alignment explanation
Indices: 35089409--35089448 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
35089399 TAAGGTTTAT
*
35089409 GGGTTAA
1 GGGTTAG
35089416 GGGTTAG
1 GGGTTAG
35089423 GGGTTAG
1 GGGTTAG
35089430 GGGTTA-
1 GGGTTAG
35089436 -GGTTAG
1 GGGTTAG
35089442 GGGTTAG
1 GGGTTAG
35089449 ATGTTAAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.17
7 25 0.83
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.30
Consensus pattern (7 bp):
GGGTTAG
Found at i:35089454 original size:19 final size:20
Alignment explanation
Indices: 35089410--35089464 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 20
35089400 AAGGTTTATG
*
35089410 GGTTAAGGGTTAGGGGTTAGG
1 GGTTAA-GGTTAGGGGTTAGA
35089431 GGTT-AGGTTAGGGGTTAGA
1 GGTTAAGGTTAGGGGTTAGA
*
35089450 TGTTAAGAGTTAGGG
1 GGTTAAG-GTTAGGG
35089465 ATTTAGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 16 0.53
20 3 0.10
21 11 0.37
ACGTcount: A:0.22, C:0.00, G:0.47, T:0.31
Consensus pattern (20 bp):
GGTTAAGGTTAGGGGTTAGA
Found at i:35089454 original size:26 final size:26
Alignment explanation
Indices: 35089410--35089463 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
35089400 AAGGTTTATG
* * *
35089410 GGTTAAGGGTTAGGGGTTAGGGGTTA
1 GGTTAAGGGTTAGAGGTTAAGAGTTA
* *
35089436 GGTTAGGGGTTAGATGTTAAGAGTTA
1 GGTTAAGGGTTAGAGGTTAAGAGTTA
35089462 GG
1 GG
35089464 GATTTAGGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.46, T:0.31
Consensus pattern (26 bp):
GGTTAAGGGTTAGAGGTTAAGAGTTA
Found at i:35089567 original size:14 final size:14
Alignment explanation
Indices: 35089542--35089581 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
35089532 ATATATTAAA
*
35089542 TAAGGTTTAGGGGT
1 TAAGGGTTAGGGGT
*
35089556 TAGGGGTTAGGGGT
1 TAAGGGTTAGGGGT
35089570 TAAGGGTTAGGG
1 TAAGGGTTAGGG
35089582 ATTCAGGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.50, T:0.30
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:35089575 original size:8 final size:7
Alignment explanation
Indices: 35089548--35089581 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
35089538 TAAATAAGGT
35089548 TTAGGGG
1 TTAGGGG
35089555 TTAGGGG
1 TTAGGGG
35089562 TTAGGGG
1 TTAGGGG
*
35089569 TTAAGGG
1 TTAGGGG
35089576 TTAGGG
1 TTAGGG
35089582 ATTCAGGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.53, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:35089695 original size:83 final size:84
Alignment explanation
Indices: 35089593--35089818 Score: 305
Period size: 83 Copynumber: 2.7 Consensus size: 84
35089583 TTCAGGATTG
* *
35089593 GGTTATGG-TTTAGGGTTTAGATTAATTACTATTTTTTAATTTATATATTAAATAAAGTTTA-G-
1 GGTTA-GGATTTAGGGTTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAAAGTTTAGGT
35089655 GGGTTAGGGATTTGGGGTCA
65 GGGTTAGGGATTTGGGGTCA
* *
35089675 GGTTTAGGATTTAGGGTTTAGATTAATTAGTGCTTTTTAATTTACATATTAAATAAAGTTTAGGG
1 GG-TTAGGATTTAGGGTTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAAAGTTTA--G
35089740 GTTAGGGTTAGGGATTTGGGGTCA
63 G-T-GGGTTAGGGATTTGGGGTCA
* * * *
35089764 GGTTAGGGTTTAAGATTTGGATTAATTAGTACTTTTTAATTTATATATTAAATAA
1 GGTTAGGATTTAGGGTTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAA
35089819 GTTCTTTATA
Statistics
Matches: 126, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
82 4 0.03
83 52 0.41
86 1 0.01
88 47 0.37
89 22 0.17
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.44
Consensus pattern (84 bp):
GGTTAGGATTTAGGGTTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAAAGTTTAGGTG
GGTTAGGGATTTGGGGTCA
Found at i:35089805 original size:88 final size:89
Alignment explanation
Indices: 35089655--35089818 Score: 267
Period size: 88 Copynumber: 1.9 Consensus size: 89
35089645 TAAAGTTTAG
* * *
35089655 GGGTTAGGGATTTGGGGTCAGGTTTAGGATTTAGGGTTTAGATTAATTAGTGCTTTTTAATTTAC
1 GGGTTAGGGATTTGGGGTCAGGTTTAGGATTTAAGATTTAGATTAATTAGTACTTTTTAATTTAC
35089720 ATATTAAATAAAGTTTAGGGGTTA
66 ATATTAAATAAAGTTTAGGGGTTA
* * *
35089744 GGGTTAGGGATTTGGGGTCAGG-TTAGGGTTTAAGATTTGGATTAATTAGTACTTTTTAATTTAT
1 GGGTTAGGGATTTGGGGTCAGGTTTAGGATTTAAGATTTAGATTAATTAGTACTTTTTAATTTAC
35089808 ATATTAAATAA
66 ATATTAAATAA
35089819 GTTCTTTATA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 47 0.68
89 22 0.32
ACGTcount: A:0.28, C:0.03, G:0.27, T:0.42
Consensus pattern (89 bp):
GGGTTAGGGATTTGGGGTCAGGTTTAGGATTTAAGATTTAGATTAATTAGTACTTTTTAATTTAC
ATATTAAATAAAGTTTAGGGGTTA
Found at i:35089920 original size:21 final size:21
Alignment explanation
Indices: 35089867--35089920 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
35089857 TAAAGATTAC
35089867 TAATTTAAAA-TTGATATGCAA
1 TAATTTAAAATTTGATAT-CAA
*
35089888 T-ATATAATAATTTGAATAT-AA
1 TAATTTAA-AATTTG-ATATCAA
35089909 TAATTTAAAATT
1 TAATTTAAAATT
35089921 GTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 5 0.19
21 10 0.37
22 8 0.30
23 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTTAAAATTTGATATCAA
Found at i:35089938 original size:10 final size:9
Alignment explanation
Indices: 35089915--35089955 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
35089905 ATAATAATTT
35089915 AAAATTGTA
1 AAAATTGTA
35089924 AAAATTGTAA
1 AAAATTGT-A
35089934 AAAATTGTA
1 AAAATTGTA
*
35089943 AAAATTATA
1 AAAATTGTA
35089952 AAAA
1 AAAA
35089956 ATAAAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 21 0.70
10 9 0.30
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (9 bp):
AAAATTGTA
Found at i:35089939 original size:19 final size:19
Alignment explanation
Indices: 35089915--35089957 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
35089905 ATAATAATTT
*
35089915 AAAATTGTAAAAATTGTAA
1 AAAATTGTAAAAATTATAA
35089934 AAAATTGTAAAAATTATAA
1 AAAATTGTAAAAATTATAA
35089953 AAAAT
1 AAAAT
35089958 AAAAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAATTGTAAAAATTATAA
Found at i:35089987 original size:19 final size:20
Alignment explanation
Indices: 35089943--35089982 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
35089933 AAAAATTGTA
35089943 AAAATTATAAAAAATAAAAAT
1 AAAATTA-AAAAAATAAAAAT
*
35089964 AAAATTAAAAAATTAAAAA
1 AAAATTAAAAAAATAAAAA
35089983 GAAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAATTAAAAAAATAAAAAT
Found at i:35089992 original size:19 final size:19
Alignment explanation
Indices: 35089951--35089992 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
35089941 TAAAAATTAT
35089951 AAAAAATAAAAATAAAATTA
1 AAAAAATAAAAATAAAA-TA
* *
35089971 AAAAATTAAAAA-GAAATA
1 AAAAAATAAAAATAAAATA
35089989 AAAA
1 AAAA
35089993 CACTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAAAATAAAAATAAAATA
Found at i:35090484 original size:199 final size:199
Alignment explanation
Indices: 35090144--35090895 Score: 1193
Period size: 199 Copynumber: 3.8 Consensus size: 199
35090134 CGTTTTTGTT
* *
35090144 AAAAACGCCACAAAATATTCTTAATAATGAAGACAAAAC-AGTGCAGTTTTTGGCTGCGAATTTA
1 AAAAACGCCACAAAAAATTCTTAATAATGAAGACAAAACGA-TGCAATTTTTGGCTGCGAATTTA
*
35090208 ATGGGTTTTGCGGCGCTAAGGTAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAA
65 ATGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAA
* * *
35090273 ACGCCGCAAAGTTCTGTTCTCAGTTTTCATAAAATGGTGTCATTTTGCCTGGGCATTAGTGGCGC
130 ACGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAATGGTGTCGTTTTGGCTGGGCATTAGTGGCGC
35090338 TACTA
195 TACTA
* * *
35090343 AAAAACGCCGCAAAAAATTCTTAATAATGAAGACAAAACGGTGCAATTTTTGGCTGTGAATTTAA
1 AAAAACGCCACAAAAAATTCTTAATAATGAAGACAAAACGATGCAATTTTTGGCTGCGAATTTAA
* *
35090408 TGGGTTTTACGGCTCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
66 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
*
35090473 CGCCGCAAAGTTTTGTTCTCAGTTTTCGTAAAATGGTGTCGTTTTGGCTGGGCATTAGTGGCGCT
131 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAATGGTGTCGTTTTGGCTGGGCATTAGTGGCGCT
35090538 ACTA
196 ACTA
* * *
35090542 AAAAACGCCACAAAAAATTCTTAATAATGAAGACAAAACGATGCAGTTTTTGGCTGTGACTTTAA
1 AAAAACGCCACAAAAAATTCTTAATAATGAAGACAAAACGATGCAATTTTTGGCTGCGAATTTAA
*
35090607 TGGGTTTTGCGGCGCTAAGGGAAAAATGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
66 TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
* **
35090672 CGCCGCAAAGTTTTGTTCTCAGTTTTCGTAAAACAGTGTCGTTTTGGCTGGGCATTAGTGGCGCT
131 CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAATGGTGTCGTTTTGGCTGGGCATTAGTGGCGCT
35090737 ACTA
196 ACTA
* ** * *
35090741 AAAAACACCGA-AAAATGTTCTTAATAATAAAGACAAAACGATGCAATTTTTGGCTACGAATTTA
1 AAAAACGCC-ACAAAAAATTCTTAATAATGAAGACAAAACGATGCAATTTTTGGCTGCGAATTTA
* * ** *
35090805 ATGGGTTTTGCGGCACTAAGGTAAAAACGCCGCTAAATATGGTCATTAGCGGCGCTAAGGAACAA
65 ATGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAA
* *
35090870 ACACCACAAAGTTCTGTTCTCAGTTT
130 ACGCCGCAAAGTTCTGTTCTCAGTTT
35090896 ATATATCTAT
Statistics
Matches: 513, Mismatches: 38, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
199 512 1.00
200 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (199 bp):
AAAAACGCCACAAAAAATTCTTAATAATGAAGACAAAACGATGCAATTTTTGGCTGCGAATTTAA
TGGGTTTTGCGGCGCTAAGGGAAAAACGCCGCTAAAGGTGGTCATTAGCGGCGCTAAGGAAAAAA
CGCCGCAAAGTTCTGTTCTCAGTTTTCGTAAAATGGTGTCGTTTTGGCTGGGCATTAGTGGCGCT
ACTA
Found at i:35091029 original size:2 final size:2
Alignment explanation
Indices: 35091024--35091050 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35091014 TTCTTCTCCA
35091024 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
35091051 TTTTACTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:35093500 original size:21 final size:21
Alignment explanation
Indices: 35093457--35093503 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
35093447 TTAAATTTGA
* *
35093457 AATTTTACAATTTAATCATCT
1 AATTTTACAATATAATCAACT
* *
35093478 AATTTTACAATATCATTAACT
1 AATTTTACAATATAATCAACT
35093499 AATTT
1 AATTT
35093504 AAATAGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTTACAATATAATCAACT
Found at i:35093824 original size:28 final size:28
Alignment explanation
Indices: 35093764--35093818 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
35093754 TTGTCATTCT
* ***
35093764 GCTATAATTCATGCCTTGTCTTTTAATC
1 GCTATAATTCATGCCATGTCTGCAAATC
35093792 GCTATAATTCATGCCATGTCTGCAAAT
1 GCTATAATTCATGCCATGTCTGCAAAT
35093819 GACTATGGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (28 bp):
GCTATAATTCATGCCATGTCTGCAAATC
Found at i:35094167 original size:46 final size:46
Alignment explanation
Indices: 35094116--35094289 Score: 136
Period size: 46 Copynumber: 3.6 Consensus size: 46
35094106 AAAAAATGTC
* * *
35094116 CAACTTAATAACTTATATAATTCACATAATAACTTAAATAACTTAA
1 CAACTTAACAACTCACATAATTCACATAATAACTTAAATAACTTAA
* *
35094162 CAACTTAACAACTCACATAATTTACATAAT-ACATATATATATGTCATAC-CATA
1 CAACTTAACAACTCACATAATTCACATAATAAC-T-TA-A-A--T-A-ACTTA-A
* * * * *
35094215 TAACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAA
1 CAACTTAACAACTCACATAATTCACATAATAACTTAAATAACTTAA
* * *
35094261 TAATTTAACAACTCACATAATTTACATAA
1 CAACTTAACAACTCACATAATTCACATAA
35094290 CTTAATAATT
Statistics
Matches: 100, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
45 2 0.02
46 54 0.54
47 4 0.04
48 2 0.02
49 1 0.01
50 1 0.01
51 1 0.01
52 4 0.04
53 29 0.29
54 2 0.02
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (46 bp):
CAACTTAACAACTCACATAATTCACATAATAACTTAAATAACTTAA
Found at i:35094234 original size:17 final size:17
Alignment explanation
Indices: 35094214--35094297 Score: 55
Period size: 17 Copynumber: 4.7 Consensus size: 17
35094204 GTCATACCAT
*
35094214 ATAACTTAATAACTTAT
1 ATAACTTAATAACTTAC
35094231 ATAA-TTCACATAATAACTTAC
1 ATAACTT-A-AT---AACTTAC
*
35094252 ATAACTTAATAATTTA-
1 ATAACTTAATAACTTAC
* * *
35094268 ACAACTCACATAATTTAC
1 ATAACTTA-ATAACTTAC
35094286 ATAACTTAATAA
1 ATAACTTAATAA
35094298 TTTTAAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
16 8 0.15
17 22 0.42
18 8 0.15
20 2 0.04
21 11 0.21
22 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAACTTAATAACTTAC
Found at i:35094255 original size:9 final size:8
Alignment explanation
Indices: 35094241--35094297 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 8
35094231 ATAATTCACA
35094241 TAATAACT
1 TAATAACT
35094249 TACATAACT
1 TA-ATAACT
*
35094258 TAATAATT
1 TAATAACT
*
35094266 TAACAACT
1 TAATAACT
* *
35094274 CACATAATT
1 TA-ATAACT
35094283 TACATAACT
1 TA-ATAACT
35094292 TAATAA
1 TAATAA
35094298 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 18 0.46
9 21 0.54
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (8 bp):
TAATAACT
Found at i:35094273 original size:25 final size:26
Alignment explanation
Indices: 35094245--35094294 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
35094235 TTCACATAAT
* *
35094245 AACTTACATAACTTA-ATAATTTAAC
1 AACTCACATAACTTACATAACTTAAC
*
35094270 AACTCACATAATTTACATAACTTAA
1 AACTCACATAACTTACATAACTTAA
35094295 TAATTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (26 bp):
AACTCACATAACTTACATAACTTAAC
Found at i:35094291 original size:34 final size:36
Alignment explanation
Indices: 35094214--35094300 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 36
35094204 GTCATACCAT
* * *
35094214 ATAACTTAATAACTTATATAATTCACATAATAACTTAC
1 ATAACTTAATAATTTATACAACTCACATAAT-A-TTAC
35094252 ATAACTTAATAATTTA-ACAACTCACATAAT-TTAC
1 ATAACTTAATAATTTATACAACTCACATAATATTAC
35094286 ATAACTTAATAATTT
1 ATAACTTAATAATTT
35094301 TAAAATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
34 19 0.41
37 12 0.26
38 15 0.33
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (36 bp):
ATAACTTAATAATTTATACAACTCACATAATATTAC
Found at i:35094298 original size:17 final size:17
Alignment explanation
Indices: 35094241--35094300 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
35094231 ATAATTCACA
*
35094241 TAATAACTTACATAACT
1 TAATAATTTACATAACT
*
35094258 TAATAATTTA-ACAACT
1 TAATAATTTACATAACT
*
35094274 CACATAATTTACATAACT
1 TA-ATAATTTACATAACT
35094292 TAATAATTT
1 TAATAATTT
35094301 TAAAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 6 0.17
17 24 0.67
18 6 0.17
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATTTACATAACT
Found at i:35094407 original size:17 final size:17
Alignment explanation
Indices: 35094385--35094455 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
35094375 TAACTCACAC
35094385 AATAACTTACATAACTT
1 AATAACTTACATAACTT
* *
35094402 AATAACTTATATATA-TG
1 AATAACTTACATA-ACTT
* *
35094419 CATAACTTA-ATAACTC
1 AATAACTTACATAACTT
* *
35094435 ATATTATTTACATAACTT
1 A-ATAACTTACATAACTT
35094453 AAT
1 AAT
35094456 CATTGTAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.10
17 29 0.69
18 8 0.19
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.39
Consensus pattern (17 bp):
AATAACTTACATAACTT
Found at i:35094428 original size:25 final size:26
Alignment explanation
Indices: 35094392--35094455 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
35094382 CACAATAACT
*
35094392 TACATAACTTAATAACTTATA-TATA
1 TACATAACTTAATAACTCATATTATA
* *
35094417 TGCATAACTTAATAACTCATATTATT
1 TACATAACTTAATAACTCATATTATA
35094443 TACATAACTTAAT
1 TACATAACTTAAT
35094456 CATTGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (26 bp):
TACATAACTTAATAACTCATATTATA
Found at i:35095007 original size:43 final size:43
Alignment explanation
Indices: 35094960--35095052 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
35094950 CACCAAACAA
* * *
35094960 TAGCGGCGTTTGT-GGGAGAAGCGTCGCTAAAGAACATGGCCTT
1 TAGCGGCGTTT-TCGGGAAAAGCGCCGCTAAAGAACATGACCTT
35095003 TAGCGGCGTTTTCGGGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTTCGGGAAAAGCGCCGCTAAAGAACATGACCTT
35095046 TAGCGGC
1 TAGCGGC
35095053 ATTAACATCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 1 0.02
43 45 0.98
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22
Consensus pattern (43 bp):
TAGCGGCGTTTTCGGGAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:35098117 original size:63 final size:63
Alignment explanation
Indices: 35098042--35098212 Score: 184
Period size: 63 Copynumber: 2.7 Consensus size: 63
35098032 GTGTTGATGT
* *
35098042 AGGGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAACT-G-GTGCTGAATGTGTTAATGC
1 AGGGAATGATTGTGCATGTTGTGATGCTTGTGTAAAATAAACTAGAGT-CTGAA-GTGTTAATAC
* * * * * * * *
35098105 ATGGAATGATTGTACATGTTGTGTTGCTTATGTAAAATAAGCTAGAGTTTTAAGTGTTGATAC
1 AGGGAATGATTGTGCATGTTGTGATGCTTGTGTAAAATAAACTAGAGTCTGAAGTGTTAATAC
** * *
35098168 AGGGAATGATTGTGTGTGATGTGATGCTTGTGTTAAATAAACTAG
1 AGGGAATGATTGTGCATGTTGTGATGCTTGTGTAAAATAAACTAG
35098213 GTTAGAACCA
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
63 82 0.93
64 4 0.05
65 2 0.02
ACGTcount: A:0.28, C:0.06, G:0.29, T:0.37
Consensus pattern (63 bp):
AGGGAATGATTGTGCATGTTGTGATGCTTGTGTAAAATAAACTAGAGTCTGAAGTGTTAATAC
Found at i:35099051 original size:24 final size:24
Alignment explanation
Indices: 35099019--35099077 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
35099009 GTTGAAATCG
35099019 TAGCCACAGTTCCAAACACTACTT
1 TAGCCACAGTTCCAAACACTACTT
35099043 TAGCCACAGTTCCAAACACTACTT
1 TAGCCACAGTTCCAAACACTACTT
35099067 TAGCCACAGTT
1 TAGCCACAGTT
35099078 TCTATTTTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.25
Consensus pattern (24 bp):
TAGCCACAGTTCCAAACACTACTT
Found at i:35102865 original size:9 final size:9
Alignment explanation
Indices: 35102847--35102887 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
35102837 ATTTTTTGGA
35102847 TTTTA-AAT
1 TTTTATAAT
*
35102855 TTTTATTAT
1 TTTTATAAT
35102864 TTTTATAAT
1 TTTTATAAT
35102873 TTTTA-AAT
1 TTTTATAAT
35102881 TATTTAT
1 T-TTTAT
35102888 TGGAATGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 9 0.32
9 19 0.68
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:35104419 original size:2 final size:2
Alignment explanation
Indices: 35104412--35104436 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35104402 ACCAAAAAGA
35104412 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
35104437 AGAGAAGCTA
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:35109216 original size:30 final size:29
Alignment explanation
Indices: 35109154--35109244 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 29
35109144 ATTTCACACA
* *
35109154 AAATTTCTTCAAAATTTATCAAAAAACTCTC
1 AAATTTCTTCTAAATTTCTC--AAAACTCTC
*
35109185 AAATTTCTCTCTAAATTTCTCAAAGCTCTC
1 AAATTTCT-TCTAAATTTCTCAAAACTCTC
* *
35109215 AAAATTCTTTTTAAATTTCTCAAAACTCTC
1 AAATTTC-TTCTAAATTTCTCAAAACTCTC
35109245 TTTAATTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
30 33 0.63
31 9 0.17
32 10 0.19
ACGTcount: A:0.37, C:0.22, G:0.01, T:0.40
Consensus pattern (29 bp):
AAATTTCTTCTAAATTTCTCAAAACTCTC
Found at i:35109750 original size:15 final size:15
Alignment explanation
Indices: 35109730--35109765 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
35109720 GCCAGTAGAT
35109730 GGGTCCACACTCACC
1 GGGTCCACACTCACC
35109745 GGGTCCACACTCACC
1 GGGTCCACACTCACC
35109760 GGGTCC
1 GGGTCC
35109766 GTTCAATCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.44, G:0.25, T:0.14
Consensus pattern (15 bp):
GGGTCCACACTCACC
Found at i:35111330 original size:21 final size:21
Alignment explanation
Indices: 35111306--35111345 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35111296 CAACCTGTGC
35111306 AACCACAACCCCCGTTGGAGT
1 AACCACAACCCCCGTTGGAGT
*
35111327 AACCACAACCTCCGTTGGA
1 AACCACAACCCCCGTTGGA
35111346 AGCTGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.38, G:0.17, T:0.15
Consensus pattern (21 bp):
AACCACAACCCCCGTTGGAGT
Found at i:35114891 original size:125 final size:126
Alignment explanation
Indices: 35114591--35115104 Score: 755
Period size: 126 Copynumber: 4.1 Consensus size: 126
35114581 GGCCAAACAT
* *
35114591 GAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
35114656 CTACTTGAAGCATTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTA-TTTTTTT-AG
* *
35114719 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TCAATTTTGCTAATAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
* * *
35114783 CCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAT-GTCTTCTCAAAATTGTTTTTTTAG
65 CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTTAG
* *
35114844 GAACTACTGTAGAAAAAGAGTGTCCACATGGGAGCTTTTTTCA-TCAATTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
** * * *
35114908 CCTGCTTGAAGTGTTTTTGACACTATTTGTTCAGAATCGTCTTCTTAAAATTATATTTTTAA
65 CCTGCTTGAAGCATTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTTAG
* * ** *
35114970 GAACTACTGTAGAAAAAGAGTGTTCACGTAAGAGCTTTTTTCAGTAATTTTACTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * *
35115035 CTGCTTGAAGCATTTTTTACACTATTTGTTTAGAATCGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTTAG
35115096 GAACTACTG
1 GAACTACTG
35115105 CAATAAAAAA
Statistics
Matches: 352, Mismatches: 31, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
125 97 0.28
126 147 0.42
127 16 0.05
128 92 0.26
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTTTAG
Found at i:35115227 original size:34 final size:33
Alignment explanation
Indices: 35115179--35115277 Score: 135
Period size: 34 Copynumber: 2.9 Consensus size: 33
35115169 ATTATTTTTA
*
35115179 AAAAAACTAAACCCAAATTTAATTAATTTTCTCT
1 AAAACACTAAACCCAAATTTAATTAATTTT-TCT
*
35115213 AAAACACTAAACCCAAATTTAATTAATTTATTTT
1 AAAACACTAAACCCAAATTTAATTAATTT-TTCT
* * *
35115247 AAACCCCTAAACCCTAATTTAATTAATTTTT
1 AAAACACTAAACCCAAATTTAATTAATTTTT
35115278 GAAAAAGAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
33 2 0.03
34 56 0.95
35 1 0.02
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.37
Consensus pattern (33 bp):
AAAACACTAAACCCAAATTTAATTAATTTTTCT
Found at i:35115353 original size:21 final size:21
Alignment explanation
Indices: 35115328--35115394 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
35115318 TAAAACCTAG
35115328 AACCCTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
** *** **
35115349 AACCCTAAACCATACAAACCT
1 AACCCTAAATTATTTTAACAA
*
35115370 AACCCTAAATTATTTTAACGA
1 AACCCTAAATTATTTTAACAA
35115391 AACC
1 AACC
35115395 TTAACCCTAA
Statistics
Matches: 32, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.25
Consensus pattern (21 bp):
AACCCTAAATTATTTTAACAA
Found at i:35115413 original size:42 final size:42
Alignment explanation
Indices: 35115319--35115409 Score: 121
Period size: 42 Copynumber: 2.1 Consensus size: 42
35115309 AAAAATTCCT
35115319 AAAACCTAGAACCCTAAATTATTTTAACAAAACCCTAAACCATA
1 AAAACCT--AACCCTAAATTATTTTAACAAAACCCTAAACCATA
* * * *
35115363 CAAACCTAACCCTAAATTATTTTAACGAAA-CCTTAACCCTA
1 AAAACCTAACCCTAAATTATTTTAACAAAACCCTAAACCATA
35115404 AAAACC
1 AAAACC
35115410 CTAAACCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 14 0.33
42 22 0.52
44 6 0.14
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.23
Consensus pattern (42 bp):
AAAACCTAACCCTAAATTATTTTAACAAAACCCTAAACCATA
Found at i:35123801 original size:39 final size:40
Alignment explanation
Indices: 35123700--35123923 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
35123690 TTGAATGATG
* *
35123700 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
35123739 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
35123780 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35123819 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35123858 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35123897 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35123924 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
39 75 0.45
40 78 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35123887 original size:79 final size:80
Alignment explanation
Indices: 35123700--35123923 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
35123690 TTGAATGATG
* * * *
35123700 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCAT
*
35123763 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
35123780 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
35123842 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
35123858 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
35123923 G
66 G
35123924 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 36 0.28
79 56 0.44
80 35 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:35123954 original size:79 final size:79
Alignment explanation
Indices: 35123753--35123956 Score: 227
Period size: 79 Copynumber: 2.6 Consensus size: 79
35123743 GGACTAAGAT
** * * * *
35123753 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
35123817 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
35123831 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
35123895 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
35123911 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
35123957 TACGTGATTT
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
78 34 0.31
79 50 0.46
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:35131821 original size:39 final size:40
Alignment explanation
Indices: 35131720--35131943 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
35131710 TTGAATGATG
* *
35131720 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
35131759 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
35131800 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGACACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35131839 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35131878 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35131917 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35131944 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 73 0.45
40 78 0.48
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35131907 original size:79 final size:80
Alignment explanation
Indices: 35131720--35131943 Score: 285
Period size: 79 Copynumber: 2.8 Consensus size: 80
35131710 TTGAATGATG
* * * * *
35131720 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTATATCCGGGCTAAGACCCGAAGGCATT
*
35131784 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
*
35131800 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGACACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
35131862 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * * *
35131878 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATATCCGGGCTAAGACCCGAAGGCATTT
35131943 G
66 G
35131944 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 57 0.45
80 33 0.26
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:35131974 original size:79 final size:79
Alignment explanation
Indices: 35131773--35131976 Score: 218
Period size: 79 Copynumber: 2.6 Consensus size: 79
35131763 GGACTAAGAT
** * * * *
35131773 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGACACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGACACTA
*
35131837 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * **
35131851 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGACACTA
*
35131915 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
35131931 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
35131977 TACGTGATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 34 0.31
79 49 0.45
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGACACTA
ATACCGGGCTAAGC
Found at i:35133621 original size:37 final size:37
Alignment explanation
Indices: 35133571--35133646 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
35133561 TAATTGGGTG
35133571 AATTTTGTTGATATTACGATAATAGGCATGATTTAAT
1 AATTTTGTTGATATTACGATAATAGGCATGATTTAAT
35133608 AATTTTGTTGATATTACGATAATAGGCATGATTTAAT
1 AATTTTGTTGATATTACGATAATAGGCATGATTTAAT
35133645 AA
1 AA
35133647 AGTATGCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (37 bp):
AATTTTGTTGATATTACGATAATAGGCATGATTTAAT
Found at i:35133639 original size:20 final size:20
Alignment explanation
Indices: 35133579--35133639 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
35133569 TGAATTTTGT
35133579 TGATATTACGATAATAGGCA
1 TGATATTACGATAATAGGCA
** *
35133599 TGAT-TTA--ATAATTTTG-T
1 TGATATTACGATAA-TAGGCA
35133616 TGATATTACGATAATAGGCA
1 TGATATTACGATAATAGGCA
35133636 TGAT
1 TGAT
35133640 TTAATAAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
17 8 0.27
18 5 0.17
19 5 0.17
20 12 0.40
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (20 bp):
TGATATTACGATAATAGGCA
Found at i:35156534 original size:20 final size:21
Alignment explanation
Indices: 35156509--35156548 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35156499 TTACTGATAC
35156509 CTCTA-CCAAAGTATCAATAT
1 CTCTACCCAAAGTATCAATAT
*
35156529 CTCTACCCCAAGTATCAATA
1 CTCTACCCAAAGTATCAATA
35156549 CTCATGATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.28
Consensus pattern (21 bp):
CTCTACCCAAAGTATCAATAT
Found at i:35160202 original size:46 final size:46
Alignment explanation
Indices: 35160135--35160231 Score: 194
Period size: 46 Copynumber: 2.1 Consensus size: 46
35160125 CATAAATTGC
35160135 ACTTAGGATTGCATTAGGGATCATTTTGCATCTAGATAATTATTTT
1 ACTTAGGATTGCATTAGGGATCATTTTGCATCTAGATAATTATTTT
35160181 ACTTAGGATTGCATTAGGGATCATTTTGCATCTAGATAATTATTTT
1 ACTTAGGATTGCATTAGGGATCATTTTGCATCTAGATAATTATTTT
35160227 ACTTA
1 ACTTA
35160232 ACATCAACCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.43
Consensus pattern (46 bp):
ACTTAGGATTGCATTAGGGATCATTTTGCATCTAGATAATTATTTT
Found at i:35160602 original size:15 final size:15
Alignment explanation
Indices: 35160579--35160608 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35160569 TATGTTAAAA
35160579 TTATGATTAAATTAT
1 TTATGATTAAATTAT
*
35160594 TTATTATTAAATTAT
1 TTATGATTAAATTAT
35160609 ATTTAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TTATGATTAAATTAT
Found at i:35160614 original size:26 final size:26
Alignment explanation
Indices: 35160525--35160614 Score: 64
Period size: 26 Copynumber: 3.5 Consensus size: 26
35160515 AATATGAACA
*
35160525 AAATTATATATT--ATTATTT-GTATT
1 AAATTATAT-TTAAATTATTTATTATT
* * * *
35160549 AAATTGTATTTAATAATAATTATGT-TA
1 AAATTATATTTAA-ATTATTTAT-TATT
35160576 AAATTATGA-TTAAATTATTTATTATT
1 AAATTAT-ATTTAAATTATTTATTATT
35160602 AAATTATATTTAA
1 AAATTATATTTAA
35160615 TAATAATCCT
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
23 2 0.04
24 8 0.16
25 2 0.04
26 24 0.49
27 11 0.22
28 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (26 bp):
AAATTATATTTAAATTATTTATTATT
Found at i:35160627 original size:26 final size:24
Alignment explanation
Indices: 35160545--35160630 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 24
35160535 TTATTATTTG
*
35160545 TATTAAATTGTATTTAATAATAAT
1 TATTAAATTATATTTAATAATAAT
* * *
35160569 TATGTTAAAATTATGATTAAATTATTTAT
1 TA--TT-AAATTAT-ATTTAA-TAATAAT
35160598 TATTAAATTATATTTAATAATAAT
1 TATTAAATTATATTTAATAATAAT
35160622 CCTATTAAA
1 --TATTAAA
35160631 ATTTAATAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
24 7 0.15
25 5 0.10
26 16 0.33
27 8 0.17
28 5 0.10
29 7 0.15
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (24 bp):
TATTAAATTATATTTAATAATAAT
Found at i:35160778 original size:16 final size:16
Alignment explanation
Indices: 35160742--35160792 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
35160732 CAATAATACT
* *
35160742 ATTACAGCTCTATTCT
1 ATTACAGCTTTATTCC
*
35160758 GTTACAGCTTTATTCC
1 ATTACAGCTTTATTCC
*
35160774 ATTACAGATTTATTCC
1 ATTACAGCTTTATTCC
35160790 ATT
1 ATT
35160793 CCCCCAACCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (16 bp):
ATTACAGCTTTATTCC
Found at i:35173714 original size:24 final size:23
Alignment explanation
Indices: 35173687--35173733 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
35173677 CATTATAATC
*
35173687 AACTTTTCACCTATCATCTTCCTT
1 AACTCTTCACCTATCATC-TCCTT
*
35173711 AACTCTTCACCTTTCATCTCCTT
1 AACTCTTCACCTATCATCTCCTT
35173734 GTAACCCCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.45
Consensus pattern (23 bp):
AACTCTTCACCTATCATCTCCTT
Found at i:35175634 original size:114 final size:112
Alignment explanation
Indices: 35175465--35175756 Score: 333
Period size: 114 Copynumber: 2.6 Consensus size: 112
35175455 AAAATAAACA
* * * *
35175465 TTAGCGGCGATTTC-CAGAAAGCGCCGCTAAAAATCTAAGCCCAACGACGTCGTTTTCGGAG-TT
1 TTAGCGGCG-TTTCTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTT
*
35175528 TCGGGGATTTTAGCGGCGTTTTCAAG-AAAGCACCCCAAAAGATC-AAGGCT
65 TCAGGGA-TTTAGCGGCGTTTT-AAGTAAAGCACCCCAAAAG--CGAAGGCT
*
35175578 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAACAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAA-AAACCTAAGCCCAACGACGCCGTTTTCGGAGCTT
* * * * * * *
35175643 TTAGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATGCGAGGGCT
65 TCAGGGATTTAGCGGCGTTTTAAGTAAAGCACCCCAAAAGCGAAGGCT
* * **
35175691 TTAGCGGCGTTT-TGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTT
35175755 TC
65 TC
35175757 GTGGATATAG
Statistics
Matches: 156, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
112 51 0.33
113 45 0.29
114 53 0.34
115 7 0.04
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (112 bp):
TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCGGAGCTTT
CAGGGATTTAGCGGCGTTTTAAGTAAAGCACCCCAAAAGCGAAGGCT
Found at i:35175743 original size:112 final size:112
Alignment explanation
Indices: 35175465--35175793 Score: 355
Period size: 112 Copynumber: 2.9 Consensus size: 112
35175455 AAAATAAACA
* * * * *
35175465 TTAGCGGCGATTTC-CAGAAAGCGCCGC-TAAAAATCTAAGCCCAACGACGTCGTTTTCGGAG-T
1 TTAGCGGCG-TTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
** * * *
35175527 TTCGGGGATTTTAGCGGCGTTTTCAAGAAAGCACCCCAAAAGATCAAGGCT
65 TTTAGGGA-TTTAGCGGCGTTTT-TAGAAAGCGCCGCAAAAGA-CAAGGCT
*
35175578 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAACAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
35175643 TTAGGGATTTAGCGGCGTTTTTAGTAAAGCGCCGCTAATG-CGAGGGCT
66 TTAGGGATTTAGCGGCGTTTTTAG-AAAGCGCCGCAAAAGAC-AAGGCT
* * *
35175691 TTAGCGGCGTTT-TGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGC-T
1 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
35175754 TTCGTGGATATAGTGGCATTTTTAAGAAAGCGCCGCAAAA
66 TTAG-GGATTTAGCGGCGTTTTT-AGAAAGCGCCGCAAAA
35175794 AAACCTAAAC
Statistics
Matches: 185, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
111 4 0.02
112 78 0.42
113 42 0.23
114 54 0.29
115 7 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (112 bp):
TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TTAGGGATTTAGCGGCGTTTTTAGAAAGCGCCGCAAAAGACAAGGCT
Found at i:35175914 original size:72 final size:73
Alignment explanation
Indices: 35175692--35175929 Score: 273
Period size: 73 Copynumber: 3.3 Consensus size: 73
35175682 GCGAGGGCTT
* * * *
35175692 TAGCGGC-GTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTT
1 TAGCGGCATTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
35175756 CGTGGATA
66 CGTGGATA
* * * * *
35175764 TAGTGGCATTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGACGTCGTTTTCTGATCTTT
1 TAGCGGCATTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
* * *
35175829 TGGGGATT
66 CGTGGATA
* * ** *
35175837 TAGCGGCATTTTTGGGAAAGCGCCGC-TAAAAACCTAAACGAAACAATGTCGTTTTTTGAGCTTT
1 TAGCGGCATTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
*
35175901 CATGGATA
66 CGTGGATA
* **
35175909 CAGCGGTGTTTTTAGGAAAGC
1 TAGCGGCATTTTTAGGAAAGC
35175930 ATCGCTAATG
Statistics
Matches: 135, Mismatches: 30, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
72 58 0.43
73 77 0.57
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (73 bp):
TAGCGGCATTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
CGTGGATA
Found at i:35176072 original size:10 final size:10
Alignment explanation
Indices: 35176057--35176081 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35176047 GCTAATGCTC
35176057 AAATAGTTTA
1 AAATAGTTTA
35176067 AAATAGTTTA
1 AAATAGTTTA
35176077 AAATA
1 AAATA
35176082 TTTGTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAATAGTTTA
Found at i:35176091 original size:12 final size:12
Alignment explanation
Indices: 35176074--35176104 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35176064 TTAAAATAGT
35176074 TTAAAATATTTG
1 TTAAAATATTTG
35176086 TTAAAATATTTG
1 TTAAAATATTTG
35176098 TTAAAAT
1 TTAAAAT
35176105 GAAAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (12 bp):
TTAAAATATTTG
Found at i:35176300 original size:22 final size:21
Alignment explanation
Indices: 35176274--35176341 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
35176264 TAGTGTGTAA
35176274 GGGTTAGGAGCTTATGGTTTAG
1 GGGTTAGG-GCTTATGGTTTAG
* * *
35176296 GGGTTATGGGCTTAGGGTCTAT
1 GGGTTA-GGGCTTATGGTTTAG
*
35176318 GGGTTAATGGCTTATGGTTTAG
1 GGGTT-AGGGCTTATGGTTTAG
35176340 GG
1 GG
35176342 TTTAATAAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 34 0.92
23 3 0.08
ACGTcount: A:0.16, C:0.06, G:0.41, T:0.37
Consensus pattern (21 bp):
GGGTTAGGGCTTATGGTTTAG
Found at i:35176472 original size:14 final size:13
Alignment explanation
Indices: 35176454--35176511 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
35176444 AAGGGTTATT
35176454 GGTTTACGGTTTA
1 GGTTTACGGTTTA
35176467 GTGTTTACGGTTTA
1 G-GTTTACGGTTTA
* *
35176481 GGGTTTATGGTGTA
1 -GGTTTACGGTTTA
*
35176495 GGTTTATGGTTTTA
1 GGTTTACGG-TTTA
35176509 GGT
1 GGT
35176512 ATGCAGTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
13 10 0.26
14 28 0.72
15 1 0.03
ACGTcount: A:0.14, C:0.03, G:0.34, T:0.48
Consensus pattern (13 bp):
GGTTTACGGTTTA
Found at i:35176555 original size:14 final size:14
Alignment explanation
Indices: 35176516--35176584 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
35176506 TTAGGTATGC
*
35176516 AGTTTATGATTTAG
1 AGTTTATGGTTTAG
* *
35176530 TG-TTAAGAGTTTAG
1 AGTTTATG-GTTTAG
35176544 AGTTTATGGTTTAG
1 AGTTTATGGTTTAG
* * *
35176558 GGTGTAGGGTTTAG
1 AGTTTATGGTTTAG
* *
35176572 GGTTTATTGTTTA
1 AGTTTATGGTTTA
35176585 TTATTTAGAT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
13 4 0.10
14 34 0.81
15 4 0.10
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (14 bp):
AGTTTATGGTTTAG
Found at i:35176569 original size:28 final size:28
Alignment explanation
Indices: 35176516--35176584 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
35176506 TTAGGTATGC
* *
35176516 AGTTTATGATTTAGTGTTAAGAGTTTAG
1 AGTTTATGGTTTAGGGTTAAGAGTTTAG
*
35176544 AGTTTATGGTTTAGGGTGT-AGGGTTTAG
1 AGTTTATGGTTTAGGGT-TAAGAGTTTAG
* *
35176572 GGTTTATTGTTTA
1 AGTTTATGGTTTA
35176585 TTATTTAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (28 bp):
AGTTTATGGTTTAGGGTTAAGAGTTTAG
Found at i:35176679 original size:103 final size:102
Alignment explanation
Indices: 35176565--35176805 Score: 335
Period size: 103 Copynumber: 2.3 Consensus size: 102
35176555 TAGGGTGTAG
* *
35176565 GGTTTAGGGTTT-ATTGTT-TATTATTTAGATTTTAGAGTTCAGCTAGTAGCTTAGAGTTTAGGG
1 GGTTTAGGGTTTAATT-TTATATT-TTAAG-GTTTAGAGTTCAGCTAGTAGCTTAGAGTTTAGGG
35176628 ATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCT-TAT
63 ATTAATACGGGCATAGGGTATATGGGTTAA-AAGGCTATAT
* *
35176668 GGTTTAGGGTTTAAATTTTATATTTTAAGGTTTAGGGTTTAGCTAGTAGCTTAGAGTTTAGGGAT
1 GGTTTAGGGTTT-AATTTTATATTTTAAGGTTTAGAGTTCAGCTAGTAGCTTAGAGTTTAGGGAT
* *
35176733 TAATACGGGCATAGGGTATATGGGTTAATAGGGTATAT
65 TAATACGGGCATAGGGTATATGGGTTAAAAGGCTATAT
* *
35176771 GGATTAGGGTTTAAATTTTATATTTTAGGGTTTAG
1 GGTTTAGGGTTT-AATTTTATATTTTAAGGTTTAG
35176806 GATTATGGTA
Statistics
Matches: 126, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
102 4 0.03
103 109 0.87
104 6 0.05
105 7 0.06
ACGTcount: A:0.27, C:0.04, G:0.28, T:0.41
Consensus pattern (102 bp):
GGTTTAGGGTTTAATTTTATATTTTAAGGTTTAGAGTTCAGCTAGTAGCTTAGAGTTTAGGGATT
AATACGGGCATAGGGTATATGGGTTAAAAGGCTATAT
Found at i:35176806 original size:103 final size:103
Alignment explanation
Indices: 35176595--35176806 Score: 354
Period size: 103 Copynumber: 2.1 Consensus size: 103
35176585 TTATTTAGAT
*
35176595 TTTAGAGTTCAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGA
1 TTTAGGGTTCAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGA
*
35176660 AGGCTTATGGTTTAGGGTTTAAATTTTATATTTTAAGG
66 AGGCTTATGGATTAGGGTTTAAATTTTATATTTTAAGG
* *
35176698 TTTAGGGTTTAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAA-T
1 TTTAGGGTTCAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGA
* *
35176762 AGGGTATATGGATTAGGGTTTAAATTTTATATTTTAGGG
66 AGGCT-TATGGATTAGGGTTTAAATTTTATATTTTAAGG
35176801 TTTAGG
1 TTTAGG
35176807 ATTATGGTAA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 4 0.04
103 98 0.96
ACGTcount: A:0.27, C:0.05, G:0.29, T:0.39
Consensus pattern (103 bp):
TTTAGGGTTCAGCTAGTAGCTTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGA
AGGCTTATGGATTAGGGTTTAAATTTTATATTTTAAGG
Found at i:35176840 original size:103 final size:102
Alignment explanation
Indices: 35176627--35176830 Score: 234
Period size: 103 Copynumber: 2.0 Consensus size: 102
35176617 AGAGTTTAGG
*
35176627 GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCTTATGGTTTAGGGTTTAAATTTTATATT
1 GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCTTATGGATTAGGGTTTAAATTTTATATT
* * ** ** **
35176692 TTAAGGTTTAGGGTTTAGCTAGTAGCTTAGAGTTTAGG
66 TTAAGGTTTAGGATTTAGCTAG-AACACAGAGTAAAAA
* *
35176730 GATTAATACGGGCATAGGGTATATGGGTTAA-TAGGGTATATGGATTAGGGTTTAAATTTTATAT
1 GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCT-TATGGATTAGGGTTTAAATTTTATAT
* * *
35176794 TTTAGGGTTTAGGA-TTATGGTA-AACACAGGGTAAAAA
65 TTTAAGGTTTAGGATTTA-GCTAGAACACAGAGTAAAAA
35176831 TATGTTAATA
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
101 7 0.08
102 7 0.08
103 71 0.84
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.37
Consensus pattern (102 bp):
GATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCTTATGGATTAGGGTTTAAATTTTATATT
TTAAGGTTTAGGATTTAGCTAGAACACAGAGTAAAAA
Found at i:35181250 original size:9 final size:9
Alignment explanation
Indices: 35181205--35181473 Score: 191
Period size: 9 Copynumber: 28.4 Consensus size: 9
35181195 CTTATATATA
*
35181205 AACTTGCAT
1 AACTTACAT
35181214 AACTTACTCAGT
1 AACTTA--CA-T
*
35181226 AACGTA-AT
1 AACTTACAT
*
35181234 ATCTTACAT
1 AACTTACAT
35181243 AACTTACAT
1 AACTTACAT
*
35181252 AAATTACAT
1 AACTTACAT
* *
35181261 AAATTAAAT
1 AACTTACAT
35181270 AACTTACAT
1 AACTTACAT
35181279 AACTTACAT
1 AACTTACAT
* *
35181288 AAATTAAAT
1 AACTTACAT
*
35181297 AACTTAAAT
1 AACTTACAT
35181306 AACTTACAT
1 AACTTACAT
35181315 AACTTACAT
1 AACTTACAT
* *
35181324 AAATTAAAT
1 AACTTACAT
35181333 AACTTACAT
1 AACTTACAT
35181342 AACTTACAT
1 AACTTACAT
* * *
35181351 AAATTAAAA
1 AACTTACAT
35181360 AACTTACATATT
1 AACTTAC--A-T
35181372 AACTTACAT
1 AACTTACAT
* *
35181381 AAGTTATCTAC
1 AACTTA-C-AT
*
35181392 AAGCTTATATAT
1 AA-C-T-TACAT
*
35181404 AAACTTGCAT
1 -AACTTACAT
35181414 AACTTACAT
1 AACTTACAT
*
35181423 AA-TAACAT
1 AACTTACAT
35181431 AATATCTTACAT
1 -A-A-CTTACAT
35181443 AACTTACAT
1 AACTTACAT
*
35181452 AAATTACAT
1 AACTTACAT
* *
35181461 AAATTAAAT
1 AACTTACAT
35181470 AACT
1 AACT
35181474 GGCATTTTAA
Statistics
Matches: 207, Mismatches: 36, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
8 10 0.05
9 157 0.76
10 7 0.03
11 8 0.04
12 20 0.10
13 3 0.01
14 2 0.01
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:35184905 original size:21 final size:21
Alignment explanation
Indices: 35184879--35184970 Score: 130
Period size: 21 Copynumber: 4.4 Consensus size: 21
35184869 CTACAACTTA
*
35184879 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
35184900 AAGCAGCGGTTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
35184921 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
35184942 AAGCAAAGGCTACAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
35184963 AAGCAGAG
1 AAGCAGAG
35184971 CAGAGCAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.33, C:0.18, G:0.45, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:35186485 original size:24 final size:25
Alignment explanation
Indices: 35186458--35186513 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
35186448 AATATATTTA
*
35186458 AAAATTAAAAAATTGT-TATAAAA-T
1 AAAATTAAAAAATTATATA-AAAATT
* *
35186482 AAAACTATAAAATTATATAAAAATT
1 AAAATTAAAAAATTATATAAAAATT
35186507 AAAATTA
1 AAAATTA
35186514 TTGAAATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
AAAATTAAAAAATTATATAAAAATT
Found at i:35186587 original size:27 final size:27
Alignment explanation
Indices: 35186557--35186615 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
35186547 AAAAACATTT
*
35186557 TAAAAATATAAAAA-AACTAAAATTTAC
1 TAAAAAT-TAAAAAGAAATAAAATTTAC
* *
35186584 TAAAAATTAAAAAGAAATAAATTTTAT
1 TAAAAATTAAAAAGAAATAAAATTTAC
35186611 TAAAA
1 TAAAA
35186616 TTTTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (27 bp):
TAAAAATTAAAAAGAAATAAAATTTAC
Found at i:35186834 original size:12 final size:12
Alignment explanation
Indices: 35186817--35186841 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35186807 TAGTAATTTT
35186817 AATAATTTTTAA
1 AATAATTTTTAA
35186829 AATAATTTTTAA
1 AATAATTTTTAA
35186841 A
1 A
35186842 GATTTCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATAATTTTTAA
Found at i:35193247 original size:18 final size:18
Alignment explanation
Indices: 35193170--35193249 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
35193160 CTTTAAAATC
* *
35193170 TTTAGAATTAGAATTAAA
1 TTTAAAATTATAATTAAA
*
35193188 TTTAGAATATT-T-ATAAAA
1 TTTA-AA-ATTATAATTAAA
* *
35193206 TTT-GAATGTATAATATATA
1 TTTAAAAT-TATAAT-TAAA
35193225 TTTAAAATTATAATTAAA
1 TTTAAAATTATAATTAAA
35193243 TTTAAAA
1 TTTAAAA
35193250 ATTGAGTTCT
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
15 2 0.04
16 2 0.04
17 1 0.02
18 24 0.51
19 12 0.26
20 6 0.13
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TTTAAAATTATAATTAAA
Found at i:35209990 original size:27 final size:25
Alignment explanation
Indices: 35209936--35210022 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
35209926 TAGGTTAATT
* *
35209936 TTAAAATAAGTAATA-TGTAAAACAAC
1 TTAAAATAA--AATACTATAAAGCAAC
*
35209962 TTAAAATAAAATGACATATAAAGTAAC
1 TTAAAATAAAAT-AC-TATAAAGCAAC
* * *
35209989 TTAAAATAATATTCTATAAAGCAAG
1 TTAAAATAAAATACTATAAAGCAAC
35210014 TTAAAATAA
1 TTAAAATAA
35210023 TCATATACAA
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.06
25 19 0.37
26 10 0.20
27 19 0.37
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (25 bp):
TTAAAATAAAATACTATAAAGCAAC
Found at i:35210054 original size:20 final size:21
Alignment explanation
Indices: 35210014--35210054 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
35210004 ATAAAGCAAG
35210014 TTAAAATAATCATATACAAAT
1 TTAAAATAATCATATACAAAT
* *
35210035 TTAATATAAT-ATATATAAAT
1 TTAAAATAATCATATACAAAT
35210055 ATGGGAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAATAATCATATACAAAT
Found at i:35211568 original size:25 final size:25
Alignment explanation
Indices: 35211539--35211586 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
35211529 TATTAGCTCA
35211539 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
35211564 ATTTTTATTATTTCATTTAACAA
1 ATTTTTATTATTTCATTTAACAA
35211587 AATCCTATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:35213590 original size:26 final size:26
Alignment explanation
Indices: 35213560--35213641 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
35213550 GATAGGTCGC
35213560 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
* *
35213586 ATGTGTA-T-CGGATG-GTAATGG-TCAC-
1 ATGTGTAGTAC-TATGTG-CA-GGCT-ACT
35213611 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
35213637 ATGTG
1 ATGTG
35213642 AACTGAACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 2 0.05
25 17 0.40
26 22 0.51
27 2 0.05
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.34
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:35213635 original size:51 final size:51
Alignment explanation
Indices: 35213502--35213641 Score: 221
Period size: 50 Copynumber: 2.8 Consensus size: 51
35213492 AGTGAAAGTG
*
35213502 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAT
* * *
35213553 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGG-ATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAT
35213602 AATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
35213642 AACTGAACAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
49 4 0.05
50 41 0.50
51 37 0.45
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGAT
Found at i:35216425 original size:21 final size:21
Alignment explanation
Indices: 35216401--35216442 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
35216391 AAGTTAATTA
35216401 ACTC-GTAATTTTTCTATTTAT
1 ACTCTGTAATTTTTC-ATTTAT
* *
35216422 ACTCTTTTATTTTTCATTTAT
1 ACTCTGTAATTTTTCATTTAT
35216443 TTTATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.62
Consensus pattern (21 bp):
ACTCTGTAATTTTTCATTTAT
Found at i:35217732 original size:18 final size:16
Alignment explanation
Indices: 35217697--35217735 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
35217687 TAAATAAAAT
*
35217697 AATTAAAAATTTATAA
1 AATTAAAAATTAATAA
35217713 AATTAAAAATATAAATAA
1 AATTAAAAAT-T-AATAA
35217731 AATTA
1 AATTA
35217736 GATTAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 1 0.05
18 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAAAATTAATAA
Found at i:35222580 original size:15 final size:15
Alignment explanation
Indices: 35222560--35222595 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
35222550 AACTCGACAT
35222560 TTACTTGTCACTTTA
1 TTACTTGTCACTTTA
35222575 TTACTTGTCACTTTA
1 TTACTTGTCACTTTA
35222590 TTACTT
1 TTACTT
35222596 CTTGCGATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (15 bp):
TTACTTGTCACTTTA
Found at i:35229487 original size:25 final size:25
Alignment explanation
Indices: 35229427--35229487 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
35229417 CTCCTAAATT
*
35229427 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
35229452 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
35229477 TTAATTAAATT
1 TTAATTAAATT
35229488 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:35231277 original size:30 final size:30
Alignment explanation
Indices: 35231241--35231408 Score: 152
Period size: 30 Copynumber: 5.7 Consensus size: 30
35231231 ATTTTTTTTC
*
35231241 CATTTTGACCCCTAAACTTTTCTAAAATTG
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
*
35231271 CATTTTGACCACTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
* * * *
35231301 CA-TTTCAACACTAAAATTTT-T-AAATTA
1 CATTTTGACCCCTAAACTTTTCTAAAATTA
*
35231328 CATTTTGACCCCTAAAC-TTCCTTAAAATTA
1 CATTTTGACCCCTAAACTTTTC-TAAAATTA
* *
35231358 CATTTTAACCCCTAAA-ATTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCT-AAAATTA
* *
35231388 CACTTTTG-CCCCAAAAATTTT
1 CA-TTTTGACCCCTAAACTTTT
35231409 GCTACATTTA
Statistics
Matches: 113, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
27 10 0.09
28 10 0.09
29 19 0.17
30 67 0.59
31 7 0.06
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTA
Found at i:35231332 original size:57 final size:60
Alignment explanation
Indices: 35231259--35231395 Score: 174
Period size: 57 Copynumber: 2.3 Consensus size: 60
35231249 CCCCTAAACT
* *
35231259 TTTCT-AAAATTGCATTTTGACCACTAAACTTTCTCAAAATTACATTTCAA-CACTAAAA
1 TTTCTCAAAATTACATTTTGACCACTAAACTTCCTCAAAATTACATTTCAACCACTAAAA
* * * * *
35231317 TTT-T-TAAATTACATTTTGACCCCTAAACTTCCTTAAAATTACATTTTAACCCCTAAAA
1 TTTCTCAAAATTACATTTTGACCACTAAACTTCCTCAAAATTACATTTCAACCACTAAAA
35231375 TTTCTCAAAATTACACTTTTG
1 TTTCTCAAAATTACA-TTTTG
35231396 CCCCAAAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 40 0.60
58 13 0.19
59 1 0.01
60 8 0.12
61 5 0.07
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.39
Consensus pattern (60 bp):
TTTCTCAAAATTACATTTTGACCACTAAACTTCCTCAAAATTACATTTCAACCACTAAAA
Found at i:35231902 original size:7 final size:7
Alignment explanation
Indices: 35231890--35231983 Score: 50
Period size: 7 Copynumber: 13.3 Consensus size: 7
35231880 AACGAAGGAG
35231890 AAGAAAA
1 AAGAAAA
35231897 AAGAAAAA
1 AAG-AAAA
35231905 AAGAAAA
1 AAGAAAA
*
35231912 AA-AAAG
1 AAGAAAA
*
35231918 AAGAAAG
1 AAGAAAA
**
35231925 AAGAAGG
1 AAGAAAA
35231932 AAGAAGAA
1 AAGAA-AA
* ***
35231940 AGGGGGGA
1 A-AGAAAA
35231948 AAG-AAA
1 AAGAAAA
35231954 AAGAAAA
1 AAGAAAA
35231961 AAGAAAA
1 AAGAAAA
*
35231968 AA-AATA
1 AAGAAAA
35231974 AAGAATAA
1 AAGAA-AA
35231982 AA
1 AA
35231984 AAACAATTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
6 14 0.21
7 39 0.58
8 13 0.19
9 1 0.01
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:35231935 original size:10 final size:10
Alignment explanation
Indices: 35231888--35231939 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
35231878 TGAACGAAGG
*
35231888 AGAAGAAAAA
1 AGAAGAAAGA
35231898 AGAA-AAA-A
1 AGAAGAAAGA
* *
35231906 AGAAAAAAAA
1 AGAAGAAAGA
35231916 AGAAGAAAGA
1 AGAAGAAAGA
*
35231926 AGAAGGAAGA
1 AGAAGAAAGA
35231936 AGAA
1 AGAA
35231940 AGGGGGGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 5 0.14
9 6 0.16
10 26 0.70
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AGAAGAAAGA
Found at i:35231963 original size:13 final size:13
Alignment explanation
Indices: 35231890--35231978 Score: 58
Period size: 13 Copynumber: 6.9 Consensus size: 13
35231880 AACGAAGGAG
35231890 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
35231903 AA-AAGAAAA-AAA
1 AAGAA-AAAAGAAA
* *
35231915 AAGAAGAAAGAAG
1 AAGAAAAAAGAAA
* *
35231928 AAGGAAGAAGAAA
1 AAGAAAAAAGAAA
** ***
35231941 GGGGGGAAAGAAA
1 AAGAAAAAAGAAA
35231954 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
35231967 AA-AAATAAAGAA
1 AAGAAA-AAAGAA
35231979 TAAAAAAACA
Statistics
Matches: 56, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
12 13 0.23
13 43 0.77
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:35231983 original size:13 final size:12
Alignment explanation
Indices: 35231947--35231986 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 12
35231937 GAAAGGGGGG
35231947 AAAGAAAAAGAAA
1 AAAGAAAAA-AAA
35231960 AAAGAAAAAAAA
1 AAAGAAAAAAAA
35231972 TAAAGAATAAAAAA
1 -AAAGAA-AAAAAA
35231986 A
1 A
35231987 CAATTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.12
13 16 0.64
14 6 0.24
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (12 bp):
AAAGAAAAAAAA
Found at i:35232273 original size:11 final size:11
Alignment explanation
Indices: 35232257--35232320 Score: 65
Period size: 11 Copynumber: 5.5 Consensus size: 11
35232247 GGCCCAACCT
35232257 GAAAAAAAAAA
1 GAAAAAAAAAA
35232268 GAAAAAAGAAAA
1 GAAAAAA-AAAA
35232280 GAAAAAGAAAAAA
1 G-AAAA-AAAAAA
* *
35232293 GAGAAAAGAAA
1 GAAAAAAAAAA
*
35232304 GAGAAAAAAAAG
1 GA-AAAAAAAAA
35232316 GAAAA
1 GAAAA
35232321 GGCCCAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 17 0.39
12 16 0.36
13 9 0.20
14 2 0.05
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:35232284 original size:18 final size:18
Alignment explanation
Indices: 35232257--35232312 Score: 76
Period size: 18 Copynumber: 3.0 Consensus size: 18
35232247 GGCCCAACCT
*
35232257 GAAAAAAAAAAGAAAAAA
1 GAAAAGAAAAAGAAAAAA
35232275 GAAAAGAAAAAGAAAAAAGA
1 GAAAAGAAAAAG-AAAAA-A
*
35232295 GAAAAGAAAGAGAAAAAA
1 GAAAAGAAAAAGAAAAAA
35232313 AAGGAAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 12 0.35
19 10 0.29
20 12 0.35
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
GAAAAGAAAAAGAAAAAA
Found at i:35232292 original size:20 final size:20
Alignment explanation
Indices: 35232257--35232321 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
35232247 GGCCCAACCT
*
35232257 GAAAA-AAAAA-AGAAAAAA
1 GAAAAGAAAAAGAAAAAAAA
*
35232275 GAAAAGAAAAAGAAAAAAGA
1 GAAAAGAAAAAGAAAAAAAA
*
35232295 GAAAAGAAAGAGAAAAAAAA
1 GAAAAGAAAAAGAAAAAAAA
35232315 GGAAAAG
1 -GAAAAG
35232322 GCCCAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
18 5 0.12
19 5 0.12
20 24 0.60
21 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
GAAAAGAAAAAGAAAAAAAA
Found at i:35232446 original size:5 final size:5
Alignment explanation
Indices: 35232436--35232474 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
35232426 TTTTAAATAT
*
35232436 TTTTA TTTTA TATTTA TGTTTT TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA T-TTTA T-TTTA TTTTA TTTTA TTTTA TT
35232475 CATTAAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 21 0.70
6 9 0.30
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:35232811 original size:36 final size:35
Alignment explanation
Indices: 35232779--35232864 Score: 127
Period size: 36 Copynumber: 2.4 Consensus size: 35
35232769 AAAAAAACTA
35232779 ATCGTGTTTCAAAAATTTTCATGTTTCCAAAAAATT
1 ATCGTGTTTCAAAAATTTTCATGTTTCC-AAAAATT
** *
35232815 CCCGTGTTTCAAAAATTTTCATGTTTTCAAAAATT
1 ATCGTGTTTCAAAAATTTTCATGTTTCCAAAAATT
*
35232850 TTCGTGTTTCAAAAA
1 ATCGTGTTTCAAAAA
35232865 AAATCCTTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
35 20 0.44
36 25 0.56
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (35 bp):
ATCGTGTTTCAAAAATTTTCATGTTTCCAAAAATT
Found at i:35232856 original size:35 final size:35
Alignment explanation
Indices: 35232780--35232938 Score: 142
Period size: 35 Copynumber: 4.4 Consensus size: 35
35232770 AAAAAACTAA
* * *
35232780 TCGTGTTTCAAAAATTTTCATGTTTCCAAAAAATTC
1 TCGTGTTTCAAAAATCTTCATGTTTTC-AAAAATTT
* *
35232816 CCGTGTTTCAAAAATTTTCATGTTTTCAAAAATTT
1 TCGTGTTTCAAAAATCTTCATGTTTTCAAAAATTT
* * *
35232851 TCGTGTTTCAAAAAAAATCCTT-GTGTTTTTAAGAATTT
1 TCGTGTTTC---AAAAAT-CTTCATGTTTTCAAAAATTT
* * *
35232889 TCGTGTTTCTAAAATCCTCGTGTTTT-AAAAATTTT
1 TCGTGTTTCAAAAATCTTCATGTTTTCAAAAA-TTT
35232924 TCGTGTTCTCAAAAA
1 TCGTGTT-TCAAAAA
35232939 AATAATTATT
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
34 6 0.06
35 37 0.36
36 31 0.30
38 28 0.27
39 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (35 bp):
TCGTGTTTCAAAAATCTTCATGTTTTCAAAAATTT
Found at i:35232865 original size:18 final size:17
Alignment explanation
Indices: 35232780--35232938 Score: 122
Period size: 17 Copynumber: 8.8 Consensus size: 17
35232770 AAAAAACTAA
35232780 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
* *
35232797 TCATGTTTCCAAAAAATTC
1 TCGTGTTT-C-AAAAATTT
*
35232816 CCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
35232833 TCATGTTTTCAAAAATTT
1 TCGTG-TTTCAAAAATTT
*
35232851 TCGTGTTTCAAAAAAAATCCT
1 TCGTGTTTC---AAAAAT-TT
* *
35232872 T-GTGTTTTTAAGAATTT
1 TCGTG-TTTCAAAAATTT
* **
35232889 TCGTGTTTCTAAAATCC
1 TCGTGTTTCAAAAATTT
*
35232906 TCGTGTTTTAAAAATTTT
1 TCGTGTTTCAAAAA-TTT
35232924 TCGTGTTCTCAAAAA
1 TCGTGTT-TCAAAAA
35232939 AATAATTATT
Statistics
Matches: 109, Mismatches: 22, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
17 42 0.39
18 34 0.31
19 19 0.17
20 9 0.08
21 5 0.05
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:35233868 original size:5 final size:5
Alignment explanation
Indices: 35233858--35233902 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
35233848 TTATGCTTTA
*
35233858 TATAT TATAT TATAT TATAT TATAT TATAT TGTAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
35233903 AAGTAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:35234717 original size:21 final size:21
Alignment explanation
Indices: 35234675--35234728 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
35234665 AATAAAAATT
*
35234675 TTATTATTATTGTTAATATAA
1 TTATTATTATTATTAATATAA
* *
35234696 TTATTATTATTATTATTTTAA
1 TTATTATTATTATTAATATAA
* *
35234717 TGATTATAATTA
1 TTATTATTATTA
35234729 AAAGTGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
TTATTATTATTATTAATATAA
Found at i:35241289 original size:5 final size:5
Alignment explanation
Indices: 35241267--35241326 Score: 95
Period size: 5 Copynumber: 12.2 Consensus size: 5
35241257 TTTTTATGCT
* *
35241267 TTATA -TATA TTATT TTATA TTATA TTATA TTATA TTATA TTATA TTGTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
35241316 TTATA TTATA T
1 TTATA TTATA T
35241327 AAGTAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
4 4 0.08
5 46 0.92
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:35242131 original size:27 final size:27
Alignment explanation
Indices: 35242101--35242153 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
35242091 TAAAAATTTT
35242101 ATTATTATTATTGTTAAT-ATAATAATA
1 ATTATTATTATT-TTAATGATAATAATA
*
35242128 ATTATTATTATTTTAATGATTATAAT
1 ATTATTATTATTTTAATGATAATAAT
35242154 TAAAAGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (27 bp):
ATTATTATTATTTTAATGATAATAATA
Found at i:35244719 original size:4 final size:4
Alignment explanation
Indices: 35244706--35244736 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
35244696 GCATGACTGA
35244706 CATT CA-T CATT CATT CATT CATT CATT CATT
1 CATT CATT CATT CATT CATT CATT CATT CATT
35244737 ACATGTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (4 bp):
CATT
Found at i:35248302 original size:1 final size:1
Alignment explanation
Indices: 35248296--35248362 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
35248286 TATTATGCCT
* * * * * * * * *
35248296 AAAAAAACAAAAAAAAACAAAAACAAAAAAACAAAAAAACAAACAAAAAAGAAAAGAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
35248361 AA
1 AA
35248363 TCAAGATGAA
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:35248309 original size:8 final size:8
Alignment explanation
Indices: 35248296--35248356 Score: 72
Period size: 8 Copynumber: 7.6 Consensus size: 8
35248286 TATTATGCCT
35248296 AAAAAAAC
1 AAAAAAAC
35248304 AAAAAAA-
1 AAAAAAAC
35248311 AACAAAAAC
1 AA-AAAAAC
35248320 AAAAAAAC
1 AAAAAAAC
35248328 AAAAAAAC
1 AAAAAAAC
35248336 AAACAAAA-
1 AAA-AAAAC
* *
35248344 AAGAAAAG
1 AAAAAAAC
35248352 AAAAA
1 AAAAA
35248357 GAAAAATCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
7 6 0.13
8 35 0.74
9 6 0.13
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:35248319 original size:16 final size:15
Alignment explanation
Indices: 35248296--35248362 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 15
35248286 TATTATGCCT
35248296 AAAAAAACAAAAAAA
1 AAAAAAACAAAAAAA
35248311 AACAAAAACAAAAAAA
1 AA-AAAAACAAAAAAA
35248327 CAAAAAAACAAACAAAA
1 -AAAAAAACAAA-AAAA
* *
35248344 AAGAAAAGAAAAAGAA
1 AAAAAAACAAAAA-AA
35248360 AAA
1 AAA
35248363 TCAAGATGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
15 4 0.09
16 35 0.78
17 6 0.13
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAA
Found at i:35249477 original size:75 final size:76
Alignment explanation
Indices: 35249219--35250510 Score: 1298
Period size: 75 Copynumber: 16.8 Consensus size: 76
35249209 TTTCAAGAAA
* * * *
35249219 TATTTTTAAAATTCTGTTTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCG
1 TATTTTTAAATTTCTG--CTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
35249283 GGTCACGCTGAGG
64 GGTCACGCTGAGG
* * *
35249296 TATTTTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAATAC-AGATGTGAGTTGAGCCTC
1 TA--TTTTTAAATTTCTGC-TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
35249360 GGGTCACGCTGAGG
63 GGGTCACGCTGAGG
* * *
35249374 TATTTTTTTAATTTAATTTCTGTTTTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAG
1 TA--TTTTT-A---AATTTCTG-CTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
35249438 CCTCGGGTCACGCTGAGG
59 CCTCGGGTCACGCTGAGG
* * * *
35249456 TATTTTT-AATTTCTGTCTTTTT-TAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTTGG
1 TATTTTTAAATTTCTG-CTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
35249518 GTCACGCTGAGG
65 GTCACGCTGAGG
* * **** * *
35249530 TATTTGT-AATTTATGTCTTTTTTTTCAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
1 TATTTTTAAATTTCTG-CTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
35249593 GTCACGCTGAGG
65 GTCACGCTGAGG
* *
35249605 TATTTTTAAATTTCTGCTTTTTTCAAAAAATCAACTCATAGTAC-AGAGGTGAGTTGAGCCTCGG
1 TATTTTTAAATTTCTGC-TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
35249669 GTCACGCTGAGG
65 GTCACGCTGAGG
* ** * *
35249681 TATTTTT-AATTTATGTCTTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
1 TATTTTTAAATTTCTG-CTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
35249744 GTCACGCTGAGG
65 GTCACGCTGAGG
*
35249756 TATTTCTTTTAAATTTCTG-TTTTTCAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC
1 TA--T-TTTTAAATTTCTGCTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
** * *
35249820 GGACCATGCCGAGG
63 GGGTCACGCTGAGG
* *
35249834 TATTTCTTTTAAATTTCTG--TTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
1 TA--T-TTTTAAATTTCTGCTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
** * *
35249897 GGACCATGCCGAGG
63 GGGTCACGCTGAGG
*
35249911 TATTTCTTTTAAATTTCTG-TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATC
1 TA--T-TTTTAAATTTCTGCTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
*
35249974 GGGTCACGCCGAGG
63 GGGTCACGCTGAGG
* * * * * *
35249988 TATTTTTCAATTCCTG-TTTTTC-AAAAATCAACTCATACTGCAAGGGGTGAGTTGAGCCTCAGG
1 TATTTTTAAATTTCTGCTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
35250051 TCACATGCCGAGG
66 TCAC--GCTGAGG
*
35250064 TATTTCTTTTAAATTTC-G-TCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TA--T-TTTTAAATTTCTGCT-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * *
35250127 CGGATCGCATGCCGAGG
62 CGGGT--CACGCTGAGG
* * * *
35250144 TATTCTTTTCAATTTCTG-TTTTTCAAAAAATCAACTCATAATGAGAGAGGTGAGTTGAGCCT-T
1 TA-T-TTTTAAATTTCTGCTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* * *
35250207 GGACACATGCCGATG
64 GGTCAC--GCTGAGG
*
35250222 TATTTCTTTTAAATTTCTG-TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTC
1 TA--T-TTTTAAATTTCTGCTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
35250285 GGGTCGCACGCTGAGG
63 GGGT--CACGCTGAGG
* * *
35250301 TA-TTTTAAATTTTTG--TTTTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG
1 TATTTTTAAATTTCTGCTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
35250363 TCAC-ATCGATG
66 TCACGCT-GAGG
* * * * *
35250374 TATTTTTCATTTTTTAC-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 TATTTTTAAATTTCTGCTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
35250438 TCGCACGCTGAGG
66 T--CACGCTGAGG
* *
35250451 TA-TTTTAAATTTCTGC-TTTTC-AAAAATCAACTCATATTGCGAGAGGCGAGTTAAGCCTCG
1 TATTTTTAAATTTCTGCTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
35250511 AGTTAAGCCC
Statistics
Matches: 1080, Mismatches: 94, Indels: 84
0.86 0.07 0.07
Matches are distributed among these distances:
72 1 0.00
73 8 0.01
74 142 0.13
75 268 0.25
76 94 0.09
77 156 0.14
78 169 0.16
79 117 0.11
80 53 0.05
81 3 0.00
82 69 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (76 bp):
TATTTTTAAATTTCTGCTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
TCACGCTGAGG
Found at i:35249691 original size:151 final size:152
Alignment explanation
Indices: 35249247--35250510 Score: 1234
Period size: 151 Copynumber: 8.2 Consensus size: 152
35249237 TTTTTTCAAA
*
35249247 AAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTAAATTTC
1 AAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTCTTTTAAATTTC
* * *
35249312 TGCTTTTTTCAAAAAATCAACTCATAATAC-AGATGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
66 TG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
* *
35249376 TTTTTTTAATTTAATTTCTGTTTTTTTCAAA
129 --TTTTTAATTT-ATGTC--TTTTTTT--AC
35249407 AAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-T-TTTT-AATTTC
1 AAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTCTTTTAAATTTC
** * * *
35249469 TGTCTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTTGGGTCACGCTGAGGTAT
66 TGT-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTAT
* *
35249533 TTGTAATTTATGTCTTTTTTTTC
130 TTTTAATTTATGTCTTTTTTTAC
35249556 AAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-T-TTTTAAATTTC
1 AAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTCTTTTAAATTTC
* *
35249619 TGCTTTTTTCAAAAAATCAACTCATAGTAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
66 TG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
*
35249683 TTTTTAATTTATGTCTTTTTTTAA
129 TTTTTAATTTATGTCTTTTTTTAC
35249707 AAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTCTTTTAAATTT
1 AAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTCTTTTAAATTT
* ** * *
35249772 CTGTTTTTCAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTAT
65 CTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTAT
* * ** *
35249837 TTCTT--TTAAATTTCTGTTTTCCAA
130 TT-TTAATT-TATGTCT-TTTTTTAC
* * * ** * *
35249861 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGAGGTATTTCTTTTAAATT
1 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TTCTTTTAAATT
* *
35249926 TCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACGCCGAGGTA
64 TCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
** * *
35249990 TTTTTCAATTCCTG---TTTTTCAA
129 TTTTT-AATTTATGTCTTTTTTTAC
* * * * *
35250012 AAATCAACTCATACTGCAAGGGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTCTTTTAAA
1 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTA-TTCTTTTAAA
* * * *
35250077 TTTC-GTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATCGCATGCCG
62 TTTCTGT-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTG
* ** *
35250141 AGGTATTCTTTTCAATTTCTG--TTTTTCAAA
124 AGGTA-T-TTTT-AATTTATGTCTTTTTTTAC
* * * * *
35250171 AAATCAACTCATAATGAGAGAGGTGAGTTGAGCCT-TGGACACATGCCGATGTATTTCTTTTAAA
1 AAATCAACTCATAAT-ACAGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTA-TTCTTTTAAA
*
35250235 TTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGTCGCACGCTGA
62 TTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGA
* * ** *
35250299 GGTATTTTAAATTT-T-T-GTTTTCCAA
125 GGTATTTTTAATTTATGTCTTTTTTTAC
* * * * * * *
35250324 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCAC-ATCGATGTA-T-TTTTCATTT
1 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCACGCT-GAGGTATTCTTTTAAATT
* ** *
35250386 TTTACTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCGCACGCTGAGG
64 TCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGG
* * * *
35250451 TATTTTAAATTTCTG-C--TTTTCAA
127 TATTTTTAATTTATGTCTTTTTTTAC
* * * *
35250474 AAATCAACTCATATTGCGAGAGGCGAGTTAAGCCTCG
1 AAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCG
35250511 AGTTAAGCCC
Statistics
Matches: 981, Mismatches: 89, Indels: 78
0.85 0.08 0.07
Matches are distributed among these distances:
149 70 0.07
150 114 0.12
151 177 0.18
152 35 0.04
153 112 0.11
154 146 0.15
155 57 0.06
156 69 0.07
157 61 0.06
158 50 0.05
159 39 0.04
160 51 0.05
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (152 bp):
AAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTCTTTTAAATTTC
TGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATT
TTTAATTTATGTCTTTTTTTAC
Found at i:35250917 original size:15 final size:15
Alignment explanation
Indices: 35250882--35250925 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35250872 ACAAAAATAA
* *
35250882 AAGAGAAAGACAAAGG
1 AAGAAAAAGA-AAAAG
35250898 AAGAAAAAGAAAAAG
1 AAGAAAAAGAAAAAG
*
35250913 AAGAAAAGGAAAA
1 AAGAAAAAGAAAA
35250926 GGGGAGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAAAAG
Found at i:35251030 original size:10 final size:10
Alignment explanation
Indices: 35251012--35251041 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
35251002 TGAACGAAGG
*
35251012 AGAAGAAAAA
1 AGAAAAAAAA
35251022 AGAAAAAAAA
1 AGAAAAAAAA
35251032 AGAAAAAAAA
1 AGAAAAAAAA
35251042 GAAGAAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:35251053 original size:10 final size:10
Alignment explanation
Indices: 35251040--35251067 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
35251030 AAAGAAAAAA
35251040 AAGAAGAAGG
1 AAGAAGAAGG
35251050 AAGAAGAAGG
1 AAGAAGAAGG
35251060 AAGAAGAA
1 AAGAAGAA
35251068 AGGGGGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (10 bp):
AAGAAGAAGG
Found at i:35251186 original size:18 final size:18
Alignment explanation
Indices: 35251165--35251206 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
35251155 CTAGCAACCC
*
35251165 GACCCAAAACAGCCAGCA
1 GACCCAAAACACCCAGCA
*
35251183 GACCCACAACACCCAGCA
1 GACCCAAAACACCCAGCA
*
35251201 GGCCCA
1 GACCCA
35251207 GCAGATTAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.45, G:0.17, T:0.00
Consensus pattern (18 bp):
GACCCAAAACACCCAGCA
Found at i:35251398 original size:7 final size:7
Alignment explanation
Indices: 35251386--35251436 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
35251376 CCAACCTGAA
35251386 AAAAAAG
1 AAAAAAG
35251393 AAAAAAG
1 AAAAAAG
35251400 --AAAAG
1 AAAAAAG
35251405 -AAAAAG
1 AAAAAAG
35251411 AAAAAAG
1 AAAAAAG
*
35251418 AGAAAAG
1 AAAAAAG
*
35251425 -AAAGAG
1 AAAAAAG
35251431 AAAAAA
1 AAAAAA
35251437 AAAGGAAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
5 5 0.14
6 9 0.24
7 23 0.62
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:35251408 original size:11 final size:11
Alignment explanation
Indices: 35251384--35251446 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
35251374 GCCCAACCTG
35251384 AAAA-AAAAGAA
1 AAAAGAAAAG-A
35251395 AAAAGAAAAGA
1 AAAAGAAAAGA
35251406 AAAAG-AAA-A
1 AAAAGAAAAGA
*
35251415 AAGAGAAAAGA
1 AAAAGAAAAGA
*
35251426 AAGAGAAAA-A
1 AAAAGAAAAGA
35251436 AAAAGGAAAAG
1 AAAA-GAAAAG
35251447 GCCCAAAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
9 5 0.11
10 10 0.22
11 25 0.56
12 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:35251410 original size:18 final size:18
Alignment explanation
Indices: 35251387--35251445 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 18
35251377 CAACCTGAAA
35251387 AAAAAGAAAAAAGAAAAG
1 AAAAAGAAAAAAGAAAAG
35251405 AAAAAGAAAAAAGAGAAAAG
1 AAAAAG-AAAAA-AGAAAAG
* *
35251425 AAAGAGAAAAAA-AAAGG
1 AAAAAGAAAAAAGAAAAG
35251442 AAAA
1 AAAA
35251446 GGCCCAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.19
18 7 0.19
19 10 0.28
20 12 0.33
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAAGAAAAG
Found at i:35251415 original size:25 final size:25
Alignment explanation
Indices: 35251384--35251439 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
35251374 GCCCAACCTG
35251384 AAAAAAAAGAAAAAAGAAA-AGAAA
1 AAAAAAAAGAAAAAAGAAAGAGAAA
*
35251408 AAGAAAAAAGAGAAAAGAAAGAGAAA
1 AA-AAAAAAGAAAAAAGAAAGAGAAA
35251434 AAAAAA
1 AAAAAA
35251440 GGAAAAGGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 2 0.07
25 20 0.69
26 7 0.24
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (25 bp):
AAAAAAAAGAAAAAAGAAAGAGAAA
Found at i:35251416 original size:20 final size:20
Alignment explanation
Indices: 35251383--35251438 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
35251373 GGCCCAACCT
*
35251383 GAAAAAAAAGAAAAAAGAAAA
1 GAAAAAGAA-AAAAAAGAAAA
*
35251404 GAAAAAGAAAAAAGAGAAAA
1 GAAAAAGAAAAAAAAGAAAA
*
35251424 GAAAGAGAAAAAAAA
1 GAAAAAGAAAAAAAA
35251439 AGGAAAAGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 23 0.74
21 8 0.26
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
GAAAAAGAAAAAAAAGAAAA
Found at i:35251446 original size:18 final size:18
Alignment explanation
Indices: 35251388--35251446 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
35251378 AACCTGAAAA
*
35251388 AAAAGAAAAAAGAAAAGA
1 AAAAGAAAAAAGAAAAGG
*
35251406 AAAAGAAAAAAGAGAAAAG
1 AAAAGAAAAAAGA-AAAGG
35251425 -AAAGAGAAAAA-AAAAGG
1 AAAAGA-AAAAAGAAAAGG
35251442 AAAAG
1 AAAAG
35251447 GCCCAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 4 0.11
18 23 0.66
19 8 0.23
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAAGG
Found at i:35251571 original size:5 final size:5
Alignment explanation
Indices: 35251561--35251605 Score: 54
Period size: 5 Copynumber: 8.4 Consensus size: 5
35251551 TTTTAAATCT
*
35251561 TTTTA TTTTA TATTTA TGTTTT TTTTAA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA T-TTTA T-TTTA TTTT-A TTTTA TTTTA TTTTA TT
35251606 CGTTAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 22 0.63
6 13 0.37
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:35251576 original size:11 final size:10
Alignment explanation
Indices: 35251561--35251605 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 10
35251551 TTTTAAATCT
35251561 TTTTATTTTA
1 TTTTATTTTA
*
35251571 TATTTATGTTTT
1 T-TTTAT-TTTA
35251583 TTTTAATTTTA
1 TTTT-ATTTTA
35251594 TTTTATTTTA
1 TTTTATTTTA
35251604 TT
1 TT
35251606 CGTTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 9 0.30
11 15 0.50
12 6 0.20
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:35251940 original size:18 final size:17
Alignment explanation
Indices: 35251912--35251995 Score: 96
Period size: 17 Copynumber: 4.8 Consensus size: 17
35251902 AAAAACTAAT
*
35251912 CGTGTTTCAAAAATTTT
1 CGTGTTTCAAAAATTTC
* *
35251929 CATGTTTCCAAAAAATTCC
1 CGTGTTT-C-AAAAATTTC
*
35251948 CGTGTTTTAAAAATTTC
1 CGTGTTTCAAAAATTTC
*
35251965 CGTGTTTTCAAAAATTTT
1 CGTG-TTTCAAAAATTTC
35251983 CGTGTTTCAAAAA
1 CGTGTTTCAAAAA
35251996 AAATCCTTGT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
17 27 0.48
18 16 0.29
19 13 0.23
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (17 bp):
CGTGTTTCAAAAATTTC
Done.