Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 290 of 362
Found at i:97452201 original size:24 final size:23
Alignment explanation
Indices: 97452174--97452316 Score: 180
Period size: 24 Copynumber: 6.0 Consensus size: 23
97452164 GAGGAAGTGA
97452174 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
97452197 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
97452221 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
97452244 TAAAGGGCTTATGCCCCGGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
97452267 AAAAAGGGCTTTTGCCCCAGTTACT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
97452292 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
97452316 A
1 A
97452317 TGATAAAACA
Statistics
Matches: 106, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
23 43 0.41
24 52 0.49
25 11 0.10
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:97452229 original size:23 final size:23
Alignment explanation
Indices: 97452175--97452294 Score: 168
Period size: 23 Copynumber: 5.1 Consensus size: 23
97452165 AGGAAGTGAA
*
97452175 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
97452199 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
97452222 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
97452245 AAAGGGCTTATGCCCCGGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
97452269 AAAGGGCTTTTGCCCCAGTTACT
1 AAAGGGCTTATGCCCCAGTTATT
97452292 AAA
1 AAA
97452295 AGAGGCTAGG
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
23 46 0.53
24 40 0.47
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:97452273 original size:47 final size:47
Alignment explanation
Indices: 97452173--97452316 Score: 175
Period size: 47 Copynumber: 3.0 Consensus size: 47
97452163 GGAGGAAGTG
*
97452173 AAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTACGCCCCAGTTAT
* * *
97452221 -TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCGGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTACGCCCCAGTTAT
* * *
97452267 AAAAAGGGCTTTTGCCCCAGTTACTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TTAAAG-GGCTTACGCC-CCAGTTAT
97452316 A
1 A
97452317 TGATAAAACA
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
46 20 0.24
47 42 0.51
48 10 0.12
49 11 0.13
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTACGCCCCAGTTAT
Found at i:97452544 original size:31 final size:31
Alignment explanation
Indices: 97452509--97452572 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
97452499 CGTTTACAGT
*
97452509 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
97452540 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
97452571 AA
1 AA
97452573 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:97457408 original size:26 final size:26
Alignment explanation
Indices: 97457346--97457419 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
97457336 ATATTTTCTC
97457346 AAAATTTTACTAGGGGTAAAATCGTCA
1 AAAATTTTACTA-GGGTAAAATCGTCA
*
97457373 AAAATTTTACTAGAGGTGAAATCGT-A
1 AAAATTTTACTAG-GGTAAAATCGTCA
97457399 AAAGA-TTTACTAGGGTAAAAT
1 AAA-ATTTTACTAGGGTAAAAT
97457420 AGGGGTGAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.16
26 13 0.30
27 23 0.53
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (26 bp):
AAAATTTTACTAGGGTAAAATCGTCA
Found at i:97462833 original size:18 final size:16
Alignment explanation
Indices: 97462812--97462850 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
97462802 ATAAAAATTG
*
97462812 AAATAAACACACAAATAA
1 AAATAAA-AAACAAA-AA
97462830 AAATAAAAAACAAAAA
1 AAATAAAAAACAAAAA
97462846 AAATA
1 AAATA
97462851 CACATAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 6 0.30
18 7 0.35
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (16 bp):
AAATAAAAAACAAAAA
Found at i:97463767 original size:24 final size:25
Alignment explanation
Indices: 97463713--97463769 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
97463703 ACTGCTCTAT
97463713 TGGGCATATAATCACCTTCTTTTTA
1 TGGGCATATAATCACCTTCTTTTTA
97463738 TGGGCATATAATCACCTTCTTTTTA
1 TGGGCATATAATCACCTTCTTTTTA
97463763 T-GGCATA
1 TGGGCATA
97463770 ATTTCGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (25 bp):
TGGGCATATAATCACCTTCTTTTTA
Found at i:97464963 original size:42 final size:40
Alignment explanation
Indices: 97464884--97465125 Score: 252
Period size: 41 Copynumber: 6.0 Consensus size: 40
97464874 TGTGAAACAT
97464884 AGAGCAATAGCGGCGTTTTTGGT-AAACGCCGCTAAAAAC
1 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAC
* * * *
97464923 AGAGTAATAGCGGCATTTTTTTGTTAAAACGCCGTTAAAAAC
1 AGAGCAATAGCGGC--GTTTTTGGTAAAACGCCGCTAAAAAC
* * *
97464965 AAAGCAATAGCAGCGTTTTTGGTAAACCGCCGCTAAAAACC
1 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAA-C
* * *
97465006 AGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAATC
1 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAA-C
* * * **
97465047 GGAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAAAC
1 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAC
* * * * *
97465087 TGGAGCATTAGCAGCGCTTTCGGTAAAACGCCGCTAAAA
1 -AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAA
97465126 TTCATATAAC
Statistics
Matches: 176, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 13 0.07
40 22 0.12
41 115 0.65
42 26 0.15
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (40 bp):
AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAC
Found at i:97465072 original size:82 final size:80
Alignment explanation
Indices: 97464884--97465125 Score: 279
Period size: 82 Copynumber: 3.0 Consensus size: 80
97464874 TGTGAAACAT
* * ** * *
97464884 AGAGCAATAGCGGCGTTTTTGGTAAACGCCGCTAAAAA-CAGAGTAATAGCGGCATTTTTTTGTT
1 AGAGCAATAGCGGCGTTTTTGGTAAACGCCGCTAAAAACCAGAGCATTAGCGGC--GCTTTCGGT
*
97464948 AAAACGCCGTTAAAAAC
64 AAAACGCCGCTAAAAAC
* *
97464965 AAAGCAATAGCAGCGTTTTTGGTAAACCGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
1 AGAGCAATAGCGGCGTTTTTGGTAAA-CGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
97465030 AAACGCCGCTAAAAATC
65 AAACGCCGCTAAAAA-C
* * * ** ** *
97465047 GGAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAAACTGGAGCATTAGCAGCGCTTTCGGTA
1 AGAGCAATAGCGGCGTTTTTGGT-AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
97465112 AAACGCCGCTAAAA
65 AAACGCCGCTAAAA
97465126 TTCATATAAC
Statistics
Matches: 138, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
81 44 0.32
82 78 0.57
83 16 0.12
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (80 bp):
AGAGCAATAGCGGCGTTTTTGGTAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTAA
AACGCCGCTAAAAAC
Found at i:97465122 original size:123 final size:122
Alignment explanation
Indices: 97464884--97465125 Score: 290
Period size: 123 Copynumber: 2.0 Consensus size: 122
97464874 TGTGAAACAT
* * * ** **
97464884 AGAGCAATAGCGGCGTTTTTGGTAAACGCCGCTAAAAACAGAGTAATAGCGGCATTTTTTTGTTA
1 AGAGCAATAGCGGCGCTTTCGGTAAACGCCGCTAAAAACAGAGCAATAGCGGCAGCTTTCAGTTA
* * * *
97464949 AAACGCCGTTAAAAACAAAGCAATAGCAGCGTTTTTGGTAAACCGCCGCTAAAAACC
66 AAACGCCGCTAAAAACAAAGCAATAGCAGCGCTTTCGGTAAAACGCCGCTAAAAACC
* * *
97465006 AGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAATCGGAGCATTAGCGGC-GCTTTCAG-
1 AGAGCAATAGCGGCGCTTTCGGT-AAACGCCGCTAAAAA-CAGAGCAATAGCGGCAGCTTTCAGT
** *
97465069 TAAAACGCCGCTAAAAACTGGAGCATTAGCAGCGCTTTCGGTAAAACGCCGCTAAAA
64 TAAAACGCCGCTAAAAAC-AAAGCAATAGCAGCGCTTTCGGTAAAACGCCGCTAAAA
97465126 TTCATATAAC
Statistics
Matches: 100, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
122 37 0.37
123 51 0.51
124 12 0.12
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (122 bp):
AGAGCAATAGCGGCGCTTTCGGTAAACGCCGCTAAAAACAGAGCAATAGCGGCAGCTTTCAGTTA
AAACGCCGCTAAAAACAAAGCAATAGCAGCGCTTTCGGTAAAACGCCGCTAAAAACC
Found at i:97465213 original size:23 final size:22
Alignment explanation
Indices: 97465166--97465213 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
97465156 AAAAAATCAT
* *
97465166 AAACACTAATCTATAATCCTTA
1 AAACACTAAACTATAAACCTTA
*
97465188 AAACACTAAACTGCTAAACCTTA
1 AAACACTAAACT-ATAAACCTTA
97465211 AAA
1 AAA
97465214 AATCTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (22 bp):
AAACACTAAACTATAAACCTTA
Found at i:97465464 original size:15 final size:15
Alignment explanation
Indices: 97465428--97465460 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
97465418 TATTTTAAGT
*
97465428 TTTATGGATTATGAG
1 TTTAGGGATTATGAG
97465443 TTTAGGGATTATG-G
1 TTTAGGGATTATGAG
97465457 TTTA
1 TTTA
97465461 AGGGTTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (15 bp):
TTTAGGGATTATGAG
Found at i:97465519 original size:21 final size:21
Alignment explanation
Indices: 97465433--97465526 Score: 59
Period size: 21 Copynumber: 4.4 Consensus size: 21
97465423 TAAGTTTTAT
*
97465433 GGATTATGAGTTTAGGGAT-TA
1 GGATTAAGAGTTTAGGG-TCTA
* *
97465454 TGGTTTAAG-GGTTAGGGGTCTA
1 -GGATTAAGAGTTTA-GGGTCTA
*** *
97465476 GGATTAAGAGTTTATATTTTA
1 GGATTAAGAGTTTAGGGTCTA
97465497 GGATTTAAGA-TTTAGGGTCTA
1 GGA-TTAAGAGTTTAGGGTCTA
97465518 GGGATTAAG
1 -GGATTAAG
97465527 GATCAAGATT
Statistics
Matches: 54, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
21 30 0.56
22 24 0.44
ACGTcount: A:0.28, C:0.02, G:0.32, T:0.38
Consensus pattern (21 bp):
GGATTAAGAGTTTAGGGTCTA
Found at i:97465662 original size:14 final size:14
Alignment explanation
Indices: 97465645--97465682 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
97465635 ATCATTATAG
97465645 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
*
97465659 TTTAGGG-ATATGA
1 TTTAGGGTTTATGA
*
97465672 TTAAGGGTTTA
1 TTTAGGGTTTA
97465683 AGGTTTATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:97465731 original size:22 final size:22
Alignment explanation
Indices: 97465677--97465728 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
97465667 TATGATTAAG
97465677 GGTTTAAGGTTTATGAATTACT
1 GGTTTAAGGTTTATGAATTACT
** *
97465699 ATTTTAAGGTTTATGTATTA-T
1 GGTTTAAGGTTTATGAATTACT
97465720 GGTTTAAGG
1 GGTTTAAGG
97465729 GTTGGGGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (22 bp):
GGTTTAAGGTTTATGAATTACT
Found at i:97466135 original size:19 final size:19
Alignment explanation
Indices: 97466111--97466153 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
97466101 TATTAGATTT
*
97466111 TAAAAA-ATTAATAAATAAA
1 TAAAAACATTAAT-AACAAA
*
97466130 TAAAAACATTGATAACAAA
1 TAAAAACATTAATAACAAA
97466149 TAAAA
1 TAAAA
97466154 GTGAAATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (19 bp):
TAAAAACATTAATAACAAA
Found at i:97470233 original size:75 final size:76
Alignment explanation
Indices: 97470109--97470253 Score: 247
Period size: 75 Copynumber: 1.9 Consensus size: 76
97470099 AGACCTAAAT
* * *
97470109 TCGGGTTTGACACATTTGAAAACTTTAGTTTCTCCCTCGATGTCCATAGTAAATTCTCCCCATCC
1 TCGGGTTTGACACATTTGAAAACTTTAGTTTCTCCCTCAATGTCCATAGTAAATGCTCCCCACCC
97470174 TACGTTTATGG
66 TACGTTTATGG
*
97470185 TCGGGTTTGACACATTTGAAAAC-TTAGTTTCTCCCTCAATGTCCATAGTGAATGCTCCCCACCC
1 TCGGGTTTGACACATTTGAAAACTTTAGTTTCTCCCTCAATGTCCATAGTAAATGCTCCCCACCC
97470249 TACGT
66 TACGT
97470254 CTATAGTGGC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 42 0.65
76 23 0.35
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (76 bp):
TCGGGTTTGACACATTTGAAAACTTTAGTTTCTCCCTCAATGTCCATAGTAAATGCTCCCCACCC
TACGTTTATGG
Found at i:97477763 original size:23 final size:23
Alignment explanation
Indices: 97477737--97477780 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
97477727 TGAAGATTCC
*
97477737 TAATATGAAAAGATTTGATTTTT
1 TAATATGAAAAGATATGATTTTT
* *
97477760 TAATCTTAAAAGATATGATTT
1 TAATATGAAAAGATATGATTT
97477781 GTAGATTGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (23 bp):
TAATATGAAAAGATATGATTTTT
Found at i:97480054 original size:38 final size:37
Alignment explanation
Indices: 97479984--97480060 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 37
97479974 ATTTTAATAT
* *
97479984 AAAAATTAAATTATTAAAAATTTATTAAAAATTATAA
1 AAAAATTAAATTATTAAAAATATAATAAAAATTATAA
*
97480021 AAAAATATAAAATT-TTATAAATATAATAAAAATTATAA
1 AAAAAT-T-AAATTATTAAAAATATAATAAAAATTATAA
97480059 AA
1 AA
97480061 TATATAGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 6 0.17
38 24 0.69
39 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (37 bp):
AAAAATTAAATTATTAAAAATATAATAAAAATTATAA
Found at i:97480094 original size:10 final size:9
Alignment explanation
Indices: 97480000--97480097 Score: 63
Period size: 10 Copynumber: 10.3 Consensus size: 9
97479990 TAAATTATTA
97480000 AAAATTTATT
1 AAAATTTA-T
*
97480010 AAAAATTAT
1 AAAATTTAT
**
97480019 AAAAAAATAT
1 -AAAATTTAT
97480029 AAAATTT-T
1 AAAATTTAT
*
97480037 ATAAATATAAT
1 A-AAAT-TTAT
*
97480048 AAAAATTAT
1 AAAATTTAT
*
97480057 AAAATATAT
1 AAAATTTAT
*
97480066 AGAAATATAT
1 A-AAATTTAT
*
97480076 AAAAATTAT
1 AAAATTTAT
97480085 AAAATTTTAT
1 AAAA-TTTAT
97480095 AAA
1 AAA
97480098 GTCGTAAGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
8 2 0.03
9 31 0.44
10 35 0.50
11 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (9 bp):
AAAATTTAT
Found at i:97480095 original size:19 final size:19
Alignment explanation
Indices: 97480007--97480097 Score: 75
Period size: 19 Copynumber: 4.9 Consensus size: 19
97479997 TTAAAAATTT
*
97480007 ATTA-AAAATTATA-AAAA
1 ATTATAAAATTTTATAAAA
* *
97480024 AATATAAAATTTTATAAAT
1 ATTATAAAATTTTATAAAA
* *
97480043 ATAATAAAA-ATTAT-AAA
1 ATTATAAAATTTTATAAAA
*
97480060 ATATATAGAAA-TATATAAAA
1 AT-TATA-AAATTTTATAAAA
97480080 ATTATAAAATTTTATAAA
1 ATTATAAAATTTTATAAA
97480098 GTCGTAAGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
17 7 0.12
18 18 0.32
19 27 0.47
20 5 0.09
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (19 bp):
ATTATAAAATTTTATAAAA
Found at i:97480095 original size:29 final size:28
Alignment explanation
Indices: 97479991--97480097 Score: 87
Period size: 29 Copynumber: 3.7 Consensus size: 28
97479981 TATAAAAATT
*
97479991 AAATTATTAAAAATTTATTAAAA-ATTATAA
1 AAATTA-TAAAATTTTA-TAAAATA-TATAA
* *
97480021 AAA-AATATAAAATTT-TATAAATATAATAA
1 AAATTATA-AAATTTTATA-AAATAT-ATAA
*
97480050 AAATTATAAAA-TATATAGAAATATATAA
1 AAATTATAAAATTTTATA-AAATATATAA
97480078 AAATTATAAAATTTTATAAA
1 AAATTATAAAATTTTATAAA
97480098 GTCGTAAGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
27 2 0.03
28 25 0.38
29 32 0.49
30 6 0.09
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
AAATTATAAAATTTTATAAAATATATAA
Found at i:97480552 original size:84 final size:83
Alignment explanation
Indices: 97480453--97480646 Score: 212
Period size: 83 Copynumber: 2.3 Consensus size: 83
97480443 ATAAGAGTAG
* * * *
97480453 GGGCTTAATTGTTTTTTTGAAAAATTTTGAG-GGTCTTTTTGATGCATTTTAAAAGTTCAAGTAT
1 GGGCTTAATTGTTTTTTTGAAAAAGTTTGAGAGAT-TTTTT-ATGCATTTTAAAAGTTCAAATAC
* *
97480517 TCAATTGAGTG-AAAAAAAT
64 TCAATTAAGTGAAAAAAAAA
* * * *
97480536 GGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGAGATTTTTTATGTATTTTGAAAGTTCAAATGCT
1 GGGCTTAATTG-TTTTTTTGAAAAAGTTTGAGAGATTTTTTATGCATTTTAAAAGTTCAAATACT
97480601 CAATTAAGTGCAAAAAAAAA
65 CAATTAAGTG-AAAAAAAAA
* * *
97480621 AGACTTAATTAATTTTTTTGAAAAAG
1 GGGCTTAATT-GTTTTTTTGAAAAAG
97480647 CTTAATAGCT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
83 39 0.42
84 23 0.25
85 30 0.33
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (83 bp):
GGGCTTAATTGTTTTTTTGAAAAAGTTTGAGAGATTTTTTATGCATTTTAAAAGTTCAAATACTC
AATTAAGTGAAAAAAAAA
Found at i:97487109 original size:126 final size:126
Alignment explanation
Indices: 97486883--97487266 Score: 624
Period size: 126 Copynumber: 3.0 Consensus size: 126
97486873 TTTTTGCAAG
* * * * * *
97486883 AATAATTCTAAGCAGACGTTTCTTAAAAAATAGTGTCGGAAAACGCTTCAAGCAGGATGCACAGT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTG-CCGAAAACGCTTCAAGCAGGATGCACTGT
*
97486948 CAGCAAAATTTCTGGGAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
65 CAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* *
97487010 AATAATTCTGAGTAAACATTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
* *
97487075 AGCAAAATTTTTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCAACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
97487136 AATAATTCTGAATAGACGTTTCTGAACAAATAGTGCCGAAAACACTTCAAGCAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
*
97487201 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
97487262 AATAA
1 AATAA
97487267 GGCTATAAAT
Statistics
Matches: 238, Mismatches: 19, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
126 209 0.88
127 29 0.12
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:97489885 original size:18 final size:18
Alignment explanation
Indices: 97489859--97489901 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
97489849 GACTAGGAAA
* *
97489859 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
97489877 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
97489895 AGGATAC
1 AGGATAC
97489902 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:97491565 original size:48 final size:48
Alignment explanation
Indices: 97491497--97491599 Score: 147
Period size: 48 Copynumber: 2.1 Consensus size: 48
97491487 ATGCAAACAT
*
97491497 CATAAATGAAAAAAAAATCAAGCAGTATTG-AAATTGTAATTATAA-TTG
1 CATAAATGAAAAAAAAATCAAACAGTATTGCAAATT-TAATTA-AATTTG
* *
97491545 CATAAATGAATAAAATATCAAACAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAAAATCAAACAGTATTGCAAATTTAATTAAATTTG
97491593 CATAAAT
1 CATAAAT
97491600 TAAATTAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
47 2 0.04
48 43 0.86
49 5 0.10
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (48 bp):
CATAAATGAAAAAAAAATCAAACAGTATTGCAAATTTAATTAAATTTG
Found at i:97491610 original size:48 final size:47
Alignment explanation
Indices: 97491497--97491631 Score: 132
Period size: 48 Copynumber: 2.8 Consensus size: 47
97491487 ATGCAAACAT
* *
97491497 CATAAATGAAA-AAAAAATCAAGCAGTATTGAAATTGTAATTATAATTG
1 CATAAAT-AAATAAAATATCAAACAGTATTGAAATT-TAATTATAATTG
*
97491545 CATAAATGAATAAAATATCAAACAGTATTGCAAATTTAATTA-AATTTG
1 CATAAATAAATAAAATATCAAACAGTATTG-AAATTTAATTATAA-TTG
* * * *
97491593 CATAAATTAAAT-TAATATCGAATAATATTGAAAATTTAA
1 CATAAA-TAAATAAAATATCAAACAGTATTG-AAATTTAA
97491632 AATTATCACT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
47 4 0.05
48 61 0.82
49 9 0.12
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.33
Consensus pattern (47 bp):
CATAAATAAATAAAATATCAAACAGTATTGAAATTTAATTATAATTG
Found at i:97492855 original size:14 final size:14
Alignment explanation
Indices: 97492836--97492874 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
97492826 TATGGTGTTC
97492836 TTTTCTTTTTTTCT
1 TTTTCTTTTTTTCT
*
97492850 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTCT
97492864 TTTTCCTTTTT
1 TTTT-CTTTTT
97492875 CCATGTGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTCTTTTTTTCT
Found at i:97492865 original size:21 final size:21
Alignment explanation
Indices: 97492836--97492875 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
97492826 TATGGTGTTC
*
97492836 TTTTCTTTTTTTCTTTTTCTT
1 TTTTCTTTTTTCCTTTTTCTT
*
97492857 TTTTTTTTTTTCCTTTTTC
1 TTTTCTTTTTTCCTTTTTC
97492876 CATGTGTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTCTTTTTTCCTTTTTCTT
Found at i:97493875 original size:18 final size:19
Alignment explanation
Indices: 97493845--97493880 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
97493835 ATAAAGATGC
97493845 TTTAAAAATTTTAAATTTT
1 TTTAAAAATTTTAAATTTT
97493864 TTTAAAAA-TTTAAATTT
1 TTTAAAAATTTTAAATTT
97493881 AAAACAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAAAAATTTTAAATTTT
Found at i:97493931 original size:14 final size:14
Alignment explanation
Indices: 97493889--97493934 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
97493879 TTAAAACAAA
97493889 TCAAA-TTTAAGTTT
1 TCAAATTTTAA-TTT
97493903 TCTAAATTTTAATTT
1 TC-AAATTTTAATTT
97493918 TCAAATTATT-ATTT
1 TCAAATT-TTAATTT
97493932 TCA
1 TCA
97493935 TACACTTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 14 0.48
15 10 0.34
16 5 0.17
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (14 bp):
TCAAATTTTAATTT
Found at i:97494499 original size:20 final size:20
Alignment explanation
Indices: 97494474--97494511 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
97494464 AATCCGGGAC
97494474 TAATTTGAATTAAAACAGAT
1 TAATTTGAATTAAAACAGAT
97494494 TAATTTGAATTAAAACAG
1 TAATTTGAATTAAAACAG
97494512 GCAAATATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (20 bp):
TAATTTGAATTAAAACAGAT
Found at i:97494522 original size:20 final size:20
Alignment explanation
Indices: 97494479--97494522 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
97494469 GGGACTAATT
** *
97494479 TGAATTAAAACAGATTAATT
1 TGAATTAAAACAGACAAATA
*
97494499 TGAATTAAAACAGGCAAATA
1 TGAATTAAAACAGACAAATA
97494519 TGAA
1 TGAA
97494523 AATTTTGAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.27
Consensus pattern (20 bp):
TGAATTAAAACAGACAAATA
Found at i:97497267 original size:26 final size:26
Alignment explanation
Indices: 97497237--97497344 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
97497227 TGAAATTCCC
97497237 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
97497263 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
97497289 AACATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
97497315 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
97497341 ATCA
1 ATCA
97497345 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:97503501 original size:13 final size:13
Alignment explanation
Indices: 97503483--97503526 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
97503473 AATGTGTAAA
97503483 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
97503496 ATGAAATGGATAT
1 ATGAAATGGTTAT
**
97503509 ACAAAATGGTTAT
1 ATGAAATGGTTAT
97503522 ATGAA
1 ATGAA
97503527 TCAATTATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.20, T:0.32
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:97503925 original size:17 final size:17
Alignment explanation
Indices: 97503892--97503925 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
97503882 TTGTAGATCA
**
97503892 TTGGAAGTTTATGTCGG
1 TTGGAAGTTTAAATCGG
97503909 TTGGAAGTTTAAATCGG
1 TTGGAAGTTTAAATCGG
97503926 AGCTCACACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.32, T:0.38
Consensus pattern (17 bp):
TTGGAAGTTTAAATCGG
Found at i:97508081 original size:28 final size:27
Alignment explanation
Indices: 97508026--97508090 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
97508016 TTTAATTTTA
* *
97508026 ATATTCAAATTTCAATTAAGTTTTTTC
1 ATATTCAAATATCAATTAAGTTTCTTC
97508053 ATATTCAAATATCTAATTAA-TTTACTTC
1 ATATTCAAATATC-AATTAAGTTT-CTTC
97508081 A-ATCTCAAAT
1 ATAT-TCAAAT
97508091 TTATTTTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 17 0.52
28 16 0.48
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (27 bp):
ATATTCAAATATCAATTAAGTTTCTTC
Found at i:97508496 original size:2 final size:2
Alignment explanation
Indices: 97508489--97508517 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
97508479 ATATTTTCTT
97508489 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
97508518 TTAAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:97515250 original size:49 final size:50
Alignment explanation
Indices: 97515170--97515267 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 50
97515160 ATAATATGAA
*
97515170 CATACTGAAAGATAGCAAATAAGCTTCAGCACTAGTGAGTGAAATCACAG
1 CATACTGAAAGATAGCAAATAAGCTTCAGCACTACTGAGTGAAATCACAG
* *
97515220 CATATTGAAAGAT-GCAAATAAGCTTTAGCACTACTGAGTGAAATCACA
1 CATACTGAAAGATAGCAAATAAGCTTCAGCACTACTGAGTGAAATCACA
97515268 TGCCTTGTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 33 0.73
50 12 0.27
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.22
Consensus pattern (50 bp):
CATACTGAAAGATAGCAAATAAGCTTCAGCACTACTGAGTGAAATCACAG
Found at i:97517925 original size:4 final size:4
Alignment explanation
Indices: 97517910--97517954 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
97517900 TCCTTAGCCA
* * *
97517910 TATG TTTG TATG TATG TATG TATG TATG TATA TATG TATG AATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
97517955 GTTTAGGTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:97525496 original size:19 final size:16
Alignment explanation
Indices: 97525458--97525490 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
97525448 TGGAAGTACT
97525458 ACGTCAGTAATTAATG
1 ACGTCAGTAATTAATG
97525474 ACGTCAGTAATTAATG
1 ACGTCAGTAATTAATG
97525490 A
1 A
97525491 TGACGTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (16 bp):
ACGTCAGTAATTAATG
Found at i:97528333 original size:8 final size:9
Alignment explanation
Indices: 97528302--97528343 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
97528292 CTTCATTTAT
97528302 TTAATATAA
1 TTAATATAA
*
97528311 TAAATA-AA
1 TTAATATAA
97528319 TTAATATAA
1 TTAATATAA
97528328 TTATATATTAA
1 TTA-ATA-TAA
97528339 TTAAT
1 TTAAT
97528344 CAAAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.25
9 10 0.36
10 5 0.18
11 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAATATAA
Found at i:97529203 original size:36 final size:36
Alignment explanation
Indices: 97529155--97529223 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
97529145 CCATGTCAAA
*
97529155 AAAAAAATTCTGTTTAAAAATTAAAAAAAAAAAGCT
1 AAAAAAACTCTGTTTAAAAATTAAAAAAAAAAAGCT
97529191 AAAAAAACTCTGTTTAAAAATTAAAAAAAAAAA
1 AAAAAAACTCTGTTTAAAAATTAAAAAAAAAAA
97529224 CAAAAACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.23
Consensus pattern (36 bp):
AAAAAAACTCTGTTTAAAAATTAAAAAAAAAAAGCT
Found at i:97529313 original size:27 final size:27
Alignment explanation
Indices: 97529282--97529359 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
97529272 AGGGGGTGCT
* *
97529282 AGAGGTGGCATTGGTTGTGCCTCTAGC
1 AGAGGTGGCACTGGTTGTGCCTCTAGA
* ** *
97529309 AGAGGCGGCACTGGTTGCACCTTTAGA
1 AGAGGTGGCACTGGTTGTGCCTCTAGA
* *
97529336 AGAGATGACACTGGTTGTGCCTCT
1 AGAGGTGGCACTGGTTGTGCCTCT
97529360 GGCAAAGGCA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.27
Consensus pattern (27 bp):
AGAGGTGGCACTGGTTGTGCCTCTAGA
Found at i:97529419 original size:3 final size:3
Alignment explanation
Indices: 97529398--97529448 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
97529388 TTACCTTTTC
* *
97529398 TCT TCT CCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
97529446 TCT
1 TCT
97529449 CTTATCCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:97529475 original size:28 final size:28
Alignment explanation
Indices: 97529442--97529513 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
97529432 CTTCTTCTTC
97529442 TTCTTCTCTTATCCTTTTTTTTTTCTCA
1 TTCTTCTCTTATCCTTTTTTTTTTCTCA
97529470 TTCTTCTCTTATCC-TTTTTTTTTCTCA
1 TTCTTCTCTTATCCTTTTTTTTTTCTCA
*
97529497 TTCTTCTTCTTCTCCTT
1 TTCTTC-TCTTATCCTT
97529514 GCTGTTTCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 19 0.46
28 21 0.51
29 1 0.02
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.67
Consensus pattern (28 bp):
TTCTTCTCTTATCCTTTTTTTTTTCTCA
Found at i:97529707 original size:24 final size:24
Alignment explanation
Indices: 97529662--97529708 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
97529652 CCCCTCAATC
**
97529662 TGCCAGCTTTTGTTTTTTTTTTTT
1 TGCCAGCTTTTGTTTTGATTTTTT
97529686 TGCCAGCTTTT-TTTTAGATTTTT
1 TGCCAGCTTTTGTTTT-GATTTTT
97529709 ATTTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.09, C:0.13, G:0.13, T:0.66
Consensus pattern (24 bp):
TGCCAGCTTTTGTTTTGATTTTTT
Found at i:97530783 original size:42 final size:41
Alignment explanation
Indices: 97530719--97530875 Score: 152
Period size: 42 Copynumber: 3.8 Consensus size: 41
97530709 TTGTGTTTAC
* * * *
97530719 TTTCCGTTTAGCTCTCACGAGCTTTTGTTCAACTCATATGAG
1 TTTCCGTTCAGCTCTTATGAGCTTTTGTTCAAC-CATATGGG
* *
97530761 TTTCCGTTCAGCTCTTTTGAGCTTTTGTTTAACCATTATGGG
1 TTTCCGTTCAGCTCTTATGAGCTTTTGTTCAACCA-TATGGG
* * ** *
97530803 TTTTCATTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGG
1 TTTCCGTTCAGCTCTTATGAGCTTTTGTTCAA-CCATATGGG
* * * *
97530845 TTTCTGTTTAGCACTTATGTGCTTTTGTTCA
1 TTTCCGTTCAGCTCTTATGAGCTTTTGTTCA
97530876 GCTTTCGGGC
Statistics
Matches: 92, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 2 0.02
42 88 0.96
43 2 0.02
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (41 bp):
TTTCCGTTCAGCTCTTATGAGCTTTTGTTCAACCATATGGG
Found at i:97530833 original size:21 final size:21
Alignment explanation
Indices: 97530720--97530878 Score: 59
Period size: 21 Copynumber: 7.6 Consensus size: 21
97530710 TGTGTTTACT
* * *
97530720 TTCCGTTTAGCTCTCACGAGC
1 TTCCGTTCAGCTCTTATGAGC
** * * *
97530741 TTTTGTTCAACTCATATGAGT
1 TTCCGTTCAGCTCTTATGAGC
*
97530762 TTCCGTTCAGCTCTTTTGAGC
1 TTCCGTTCAGCTCTTATGAGC
** * * * *
97530783 TTTTGTTTAAC-CATTATGGGT
1 TTCCGTTCAGCTC-TTATGAGC
* *
97530804 TTTCATTCAGCTCTTATGAGC
1 TTCCGTTCAGCTCTTATGAGC
* * * *
97530825 TTCCGTTCAACCCTTATGGGT
1 TTCCGTTCAGCTCTTATGAGC
* * * *
97530846 TTCTGTTTAGCACTTATGTGC
1 TTCCGTTCAGCTCTTATGAGC
**
97530867 TTTTGTTCAGCT
1 TTCCGTTCAGCT
97530879 TTCGGGCTTC
Statistics
Matches: 94, Mismatches: 42, Indels: 4
0.67 0.30 0.03
Matches are distributed among these distances:
20 1 0.01
21 92 0.98
22 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.45
Consensus pattern (21 bp):
TTCCGTTCAGCTCTTATGAGC
Found at i:97530876 original size:63 final size:62
Alignment explanation
Indices: 97530739--97530878 Score: 140
Period size: 63 Copynumber: 2.2 Consensus size: 62
97530729 GCTCTCACGA
* * * * *
97530739 GCTTTTGTTCAACTCATATGAGTTTCCGTTCAGCTCTTTTGAGCTTTTGTTTAACCATTATG
1 GCTTTTGTTCAGCTCATATGAGCTTCCGTTCAACCCTTATGAGCTTTTGTTTAACCATTATG
* * * * *
97530801 GGTTTTCATTCAGCTCTTATGAGCTTCCGTTCAACCCTTATG-GGTTTCTGTTT-AGCACTTATG
1 GCTTTT-GTTCAGCTCATATGAGCTTCCGTTCAACCCTTATGAGCTTT-TGTTTAACCA-TTATG
97530864 TGCTTTTGTTCAGCT
1 -GCTTTTGTTCAGCT
97530879 TTCGGGCTTC
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
62 12 0.19
63 45 0.73
64 5 0.08
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (62 bp):
GCTTTTGTTCAGCTCATATGAGCTTCCGTTCAACCCTTATGAGCTTTTGTTTAACCATTATG
Found at i:97531541 original size:14 final size:14
Alignment explanation
Indices: 97531522--97531548 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
97531512 TGGTCAAATC
97531522 CTTGTAATAGCCCT
1 CTTGTAATAGCCCT
97531536 CTTGTAATAGCCC
1 CTTGTAATAGCCC
97531549 GTTTTTGGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (14 bp):
CTTGTAATAGCCCT
Found at i:97534197 original size:17 final size:17
Alignment explanation
Indices: 97534175--97534220 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
97534165 GTGATTGTGT
97534175 TGAATGATTTATGAGAA
1 TGAATGATTTATGAGAA
97534192 TGAATGATTTATGAGAA
1 TGAATGATTTATGAGAA
* *
97534209 CGAATGCTTTAT
1 TGAATGATTTAT
97534221 AGTTGATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (17 bp):
TGAATGATTTATGAGAA
Found at i:97541062 original size:14 final size:14
Alignment explanation
Indices: 97541043--97541077 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
97541033 GAAATTGCAA
* *
97541043 GAAGCTTTAGGTAC
1 GAAGCTATAAGTAC
97541057 GAAGCTATAAGTAC
1 GAAGCTATAAGTAC
97541071 GAAGCTA
1 GAAGCTA
97541078 CATTTTAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (14 bp):
GAAGCTATAAGTAC
Found at i:97546032 original size:30 final size:32
Alignment explanation
Indices: 97545970--97546048 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
97545960 TATTTATTTC
* ** *
97545970 TTTAAATATATATAATCAAATCAAAATTAAAA-
1 TTTACATATATAT-ATTGAATCAAAATCAAAAT
*
97546002 TTT-CATATATATATTGAATCACAATCAAAAT
1 TTTACATATATATATTGAATCAAAATCAAAAT
97546033 TTTACATATATATATT
1 TTTACATATATATATT
97546049 AAAGAAACAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 14 0.35
31 11 0.28
32 15 0.38
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.41
Consensus pattern (32 bp):
TTTACATATATATATTGAATCAAAATCAAAAT
Found at i:97564206 original size:58 final size:58
Alignment explanation
Indices: 97564086--97564207 Score: 133
Period size: 58 Copynumber: 2.1 Consensus size: 58
97564076 AGAAATAGTG
* * * * *
97564086 AAAATGGAGAAATGGGAAACATTTAGAAATGATTATGGTTTTCTTCAAAGTGAAATTG
1 AAAATGGAGAAATGGGAAACATTTAGAAATGATGATGGTTTTCTCCAAAATGAAAATA
* *
97564144 AAAATGGAGAAAT-GGAATCATTTGGAAATGAATGA-GGTTTT-TCCCAAAATAGAAAATA
1 AAAATGGAGAAATGGGAAACATTTAGAAATG-ATGATGGTTTTCT-CCAAAAT-GAAAATA
97564202 AAAATG
1 AAAATG
97564208 ATCTGAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
56 1 0.02
57 26 0.48
58 27 0.50
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (58 bp):
AAAATGGAGAAATGGGAAACATTTAGAAATGATGATGGTTTTCTCCAAAATGAAAATA
Found at i:97569201 original size:21 final size:21
Alignment explanation
Indices: 97569175--97569218 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
97569165 GTATATGGAA
97569175 AAATGTTAGTAAACTTGTATT
1 AAATGTTAGTAAACTTGTATT
97569196 AAATGTTAGTAAACTTGTATT
1 AAATGTTAGTAAACTTGTATT
97569217 AA
1 AA
97569219 TAAGGTCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGTTAGTAAACTTGTATT
Found at i:97572052 original size:34 final size:33
Alignment explanation
Indices: 97571998--97572074 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
97571988 CATTATCAAC
*
97571998 CATACCAAAACATCCCCAAAAAACATGTTCAAAT
1 CATACCTAAACATCCCC-AAAAACATGTTCAAAT
* * * * *
97572032 CATGCCTAAACATGCTCAAAAATATGTTCCAAT
1 CATACCTAAACATCCCCAAAAACATGTTCAAAT
97572065 CATACCTAAA
1 CATACCTAAA
97572075 TAATAACTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 23 0.64
34 13 0.36
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.22
Consensus pattern (33 bp):
CATACCTAAACATCCCCAAAAACATGTTCAAAT
Found at i:97572224 original size:11 final size:11
Alignment explanation
Indices: 97572208--97572232 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
97572198 CTTCAAATAT
97572208 CATTACCAAAA
1 CATTACCAAAA
97572219 CATTACCAAAA
1 CATTACCAAAA
97572230 CAT
1 CAT
97572233 AGCTCATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.20
Consensus pattern (11 bp):
CATTACCAAAA
Found at i:97587860 original size:93 final size:93
Alignment explanation
Indices: 97587743--97587929 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
97587733 TTTTTTACCC
97587743 TATTTTGGCTGAACTAATACTGGAGCTTCGGTCAAAAGGGCTTTCAACTGATCAAAACTTTTCTG
1 TATTTTGGCTGAACTAATACTGGAGCTTCGGTCAAAAGGGCTTTCAACTGATCAAAACTTTTCTG
97587808 GCACTTCTCTGACCACTCGAATTTAACA
66 GCACTTCTCTGACCACTCGAATTTAACA
97587836 TATTTTGGCTGAACTAATACTGGAGCTTCGGTCAAAAGGGCTTTCAACTGATCAAAACTTTTCTG
1 TATTTTGGCTGAACTAATACTGGAGCTTCGGTCAAAAGGGCTTTCAACTGATCAAAACTTTTCTG
97587901 GCACTTCTCTGACCACTCGAATTTAACA
66 GCACTTCTCTGACCACTCGAATTTAACA
97587929 T
1 T
97587930 CTTTCTGTAA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (93 bp):
TATTTTGGCTGAACTAATACTGGAGCTTCGGTCAAAAGGGCTTTCAACTGATCAAAACTTTTCTG
GCACTTCTCTGACCACTCGAATTTAACA
Found at i:97596583 original size:42 final size:42
Alignment explanation
Indices: 97596547--97596635 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
97596537 TCTTACATGT
97596547 ATCAAATATCGATAC-CACTGTCCCAGACAGGGTCTTACACGAA
1 ATCAAATA-CGATACTCA-TGTCCCAGACAGGGTCTTACACGAA
* *
97596590 ATCAAATACGATACTGATGTCCCAGACATGGTCTTACACGTAA
1 ATCAAATACGATACTCATGTCCCAGACAGGGTCTTACACG-AA
97596633 ATC
1 ATC
97596636 TCACATCGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
42 28 0.67
43 14 0.33
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (42 bp):
ATCAAATACGATACTCATGTCCCAGACAGGGTCTTACACGAA
Found at i:97599441 original size:17 final size:16
Alignment explanation
Indices: 97599397--97599443 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
97599387 TTTTTATTAA
97599397 TTTATCAATTAATTACC
1 TTTAT-AATTAATTACC
*
97599414 TATT-TACTTAATTAACC
1 T-TTATAATTAATT-ACC
97599431 TTTATAATTAATT
1 TTTATAATTAATT
97599444 CAAATTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 9 0.36
17 14 0.56
18 2 0.08
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTATAATTAATTACC
Found at i:97609274 original size:15 final size:15
Alignment explanation
Indices: 97609240--97609274 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
97609230 GTTGGTGAAG
*
97609240 AGAGAGAGAGGGGGA
1 AGAGAGAGAGGAGGA
*
97609255 GGAGAGAGAGGAGGA
1 AGAGAGAGAGGAGGA
97609270 AGAGA
1 AGAGA
97609275 AGAAAGAGGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (15 bp):
AGAGAGAGAGGAGGA
Found at i:97612524 original size:8 final size:8
Alignment explanation
Indices: 97612511--97612579 Score: 66
Period size: 8 Copynumber: 8.0 Consensus size: 8
97612501 ATTGAATTGA
97612511 ATATATGT
1 ATATATGT
97612519 ATATATGT
1 ATATATGT
*
97612527 GATAATGTGT
1 -AT-ATATGT
*
97612537 ATATATGGA
1 ATATAT-GT
97612546 ATATATGT
1 ATATATGT
97612554 ATATATGT
1 ATATATGT
*
97612562 GATAATGTGT
1 -AT-ATATGT
97612572 ATATATGT
1 ATATATGT
97612580 GAAATTGAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
8 25 0.50
9 15 0.30
10 10 0.20
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (8 bp):
ATATATGT
Found at i:97612539 original size:18 final size:18
Alignment explanation
Indices: 97612516--97612581 Score: 100
Period size: 18 Copynumber: 3.7 Consensus size: 18
97612506 ATTGAATATA
97612516 TGTATATATGTGATAATG
1 TGTATATATGTGATAATG
*
97612534 TGTATATATG-GA-ATATA
1 TGTATATATGTGATA-ATG
97612551 TGTATATATGTGATAATG
1 TGTATATATGTGATAATG
97612569 TGTATATATGTGA
1 TGTATATATGTGA
97612582 AATTGAGACA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.02
17 14 0.33
18 27 0.63
19 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (18 bp):
TGTATATATGTGATAATG
Found at i:97612549 original size:35 final size:35
Alignment explanation
Indices: 97612509--97612578 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
97612499 AGATTGAATT
97612509 GAATATATGTATATATGTGATAATGTGTATATATG
1 GAATATATGTATATATGTGATAATGTGTATATATG
97612544 GAATATATGTATATATGTGATAATGTGTATATATG
1 GAATATATGTATATATGTGATAATGTGTATATATG
97612579 TGAAATTGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (35 bp):
GAATATATGTATATATGTGATAATGTGTATATATG
Found at i:97612970 original size:20 final size:20
Alignment explanation
Indices: 97612923--97612980 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
97612913 AATGGCAAAG
*
97612923 ATGATG-AATG-AATATGAG
1 ATGATGAAATGTAATATGAA
97612941 ATGA-GAAATGTAATATGAA
1 ATGATGAAATGTAATATGAA
*
97612960 ATGATGAAATGTAATGTGAA
1 ATGATGAAATGTAATATGAA
97612980 A
1 A
97612981 CTTGAAATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 1 0.03
18 8 0.23
19 11 0.31
20 15 0.43
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (20 bp):
ATGATGAAATGTAATATGAA
Found at i:97613182 original size:28 final size:28
Alignment explanation
Indices: 97613151--97613206 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
97613141 GATTTGAAAC
97613151 ATAAGTGCATAATATTTCTTGTTACATT
1 ATAAGTGCATAATATTTCTTGTTACATT
97613179 ATAAGTGCATAATATTTCTTGTTACATT
1 ATAAGTGCATAATATTTCTTGTTACATT
97613207 CTCACACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (28 bp):
ATAAGTGCATAATATTTCTTGTTACATT
Found at i:97617956 original size:5 final size:5
Alignment explanation
Indices: 97617946--97617970 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
97617936 TTTGTGGAGG
97617946 AGACA AGACA AGACA AGACA AGACA
1 AGACA AGACA AGACA AGACA AGACA
97617971 GTTTTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.20, T:0.00
Consensus pattern (5 bp):
AGACA
Found at i:97622144 original size:11 final size:11
Alignment explanation
Indices: 97622112--97622145 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
97622102 TTTTTGTTCC
97622112 TTTCTTC-TCT
1 TTTCTTCTTCT
97622122 TTTCTATCTTCT
1 TTTCT-TCTTCT
97622134 TTTCTTCTTCT
1 TTTCTTCTTCT
97622145 T
1 T
97622146 CTCCCTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 9 0.41
12 8 0.36
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTCTTCTTCT
Found at i:97623823 original size:17 final size:16
Alignment explanation
Indices: 97623803--97623857 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
97623793 TAATATTAGT
97623803 ATATAAATAGAAATA-AA
1 ATAT-AATA-AAATAGAA
97623820 ATATAAT-AAATAGAA
1 ATATAATAAAATAGAA
*
97623835 ATATAATAATAGTAGAA
1 ATATAATAA-AATAGAA
97623852 ATATAA
1 ATATAA
97623858 ATAGATAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 5 0.15
15 9 0.26
16 4 0.12
17 16 0.47
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
ATATAATAAAATAGAA
Found at i:97623828 original size:20 final size:20
Alignment explanation
Indices: 97623805--97623842 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
97623795 ATATTAGTAT
97623805 ATAAATAGAAATAAAATATA
1 ATAAATAGAAATAAAATATA
*
97623825 ATAAATAGAAATATAATA
1 ATAAATAGAAATAAAATA
97623843 ATAGTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAAATAGAAATAAAATATA
Found at i:97623838 original size:15 final size:15
Alignment explanation
Indices: 97623813--97623857 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
97623803 ATATAAATAG
97623813 AAATA-AAATATAAT
1 AAATAGAAATATAAT
97623827 AAATAGAAATATAAT
1 AAATAGAAATATAAT
97623842 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
97623858 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.18
15 11 0.39
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:97623877 original size:15 final size:14
Alignment explanation
Indices: 97623805--97623929 Score: 64
Period size: 15 Copynumber: 8.7 Consensus size: 14
97623795 ATATTAGTAT
*
97623805 ATAAATAGAAATA-
1 ATAAATAAAAATAG
97623818 A-AATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
97623833 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
97623847 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
97623862 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
97623877 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
97623891 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
97623906 ATAAATATAAATAG
1 ATAAATAAAAATAG
97623920 A-AACATAAAA
1 ATAA-ATAAAA
97623930 TAATAGCAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
12 8 0.09
13 9 0.10
14 29 0.33
15 31 0.35
16 5 0.06
17 7 0.08
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:97623882 original size:29 final size:28
Alignment explanation
Indices: 97623825--97623929 Score: 67
Period size: 29 Copynumber: 3.6 Consensus size: 28
97623815 ATAAAATATA
* * *
97623825 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAACATAAAAATAG-ATAAAT
97623854 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAAAAA-TAGATAAAT
*
97623883 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAAAAATAGATAAAT
97623912 ATAAATAGAAACATAAAA
1 ATAAATAGAAACATAAAA
97623930 TAATAGCAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
25 1 0.02
26 6 0.09
28 2 0.03
29 38 0.59
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAAAAATAGATAAAT
Found at i:97624883 original size:44 final size:44
Alignment explanation
Indices: 97624833--97624917 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
97624823 TGTTTCGATT
* * *
97624833 TGCTCCACTACTGCTTAGGGAGATATGATCTGTAATCTTCATCC
1 TGCTCCACTACTGCTCAGGGAGATAAGATCTGTAACCTTCATCC
*
97624877 TGCTCCACTGCTGCTCAGGGAGATAAGATCTGTAACCTTCA
1 TGCTCCACTACTGCTCAGGGAGATAAGATCTGTAACCTTCA
97624918 GTCTGTTACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (44 bp):
TGCTCCACTACTGCTCAGGGAGATAAGATCTGTAACCTTCATCC
Found at i:97625223 original size:86 final size:86
Alignment explanation
Indices: 97624933--97625697 Score: 1045
Period size: 86 Copynumber: 8.9 Consensus size: 86
97624923 TTACCCTACT
** * ** * **
97624933 GTTAAGGCTCATTGTCCTCGATCTGCTCCACTACTACTTAGGGAGATAAGATATGTA--ACTCAG
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTATTTTTCAG
*
97624996 CCTATTACCCTACTGCTTAGGGG
64 CCTGTTACCCTACTGCTTAGGGG
* * * *
97625019 GTTAAGGCTCACTGTCTTCAATCTGCTCCACTACTGTTTAGGGATAAGATCTATA-CTTTCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
97625083 TGTTACCCTACTGCTTAGGGG
66 TGTTACCCTACTGCTTAGGGG
* * * * *
97625104 GTTAGGGCTTGCTGTCTTCAATCTGCTCCACTACTGTATAGGGATAAGATTTGTATTTTTCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
* *
97625169 TGTTACCCTACGGCTTAGGAG
66 TGTTACCCTACTGCTTAGGGG
* * * *
97625190 GTTAAGGCTCACCGTCTTCGATCTACTCTACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
*
97625255 TGTTACCCTACTGCTTAAGGG
66 TGTTACCCTACTGCTTAGGGG
* * *
97625276 GTTAAGGCTCGCTATCTTCGATCTGCTCCACTATTGTTTAGGGATAAGATCTGTATTTTCCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
*
97625341 TGTTACCCTACTACTTAGGGG
66 TGTTACCCTACTGCTTAGGGG
* * * *
97625362 GTTAAGGTTCGCTGTCTTCGATCTGCTCCACTATTGTTTAGGGATAATATCTGTATTTTCCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
97625427 TGTTACCCTACTGCTTAGGGG
66 TGTTACCCTACTGCTTAGGGG
* * * *
97625448 GTTAAGACTCGCTGTCTTCGATCTGCTTCACTACTGTTTAGGGATAATATCTGTATTTTCCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
* *
97625513 TATTACCCTACTGGTTAGGGG
66 TGTTACCCTACTGCTTAGGGG
* * * *
97625534 GTCAAGGCTCGCTGTCTTCAATCTGTTCCACTACTATTTAGGGATAAGATCTGTATTTTT-AGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
*
97625598 TGTTACCCTACTGCTTAAGGG
66 TGTTACCCTACTGCTTAGGGG
* * * *
97625619 GTTAAGGCTCGTTGTCTTTGATCTGTTCCACTACTGTTTATGGATAAGATCTGTA-TTTTCAGCC
1 GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
97625683 TGTTACCCTACTGCT
66 TGTTACCCTACTGCT
97625698 CGTTGTTTTC
Statistics
Matches: 609, Mismatches: 67, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
84 15 0.02
85 167 0.27
86 427 0.70
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
GTTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTTCAGCC
TGTTACCCTACTGCTTAGGGG
Found at i:97625931 original size:84 final size:84
Alignment explanation
Indices: 97625786--97626192 Score: 602
Period size: 84 Copynumber: 4.8 Consensus size: 84
97625776 AAGGCTCGCT
* * *
97625786 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTTGATCTACTCCACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
* *
97625851 GGAGATTTGTATTTTCTAG
66 GGAGATCTGTATTTTCCAG
* *
97625870 CCTATTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAAG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
*
97625935 GGAGATCTATATTTTCCAG
66 GGAGATCTGTATTTTCCAG
* * *
97625954 CCTGTTACCCTACTGCTTAAGGGGTTAAGGCTTGCTGTCTTCAATCTGCTCCACTACTATTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
97626019 GGAGATCTGTATTTTCCAG
66 GGAGATCTGTATTTTCCAG
* * * *
97626038 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTATCTTTGAACTGATCCACTACTGTTTAGG
1 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
97626103 GGAGATCTGTATTCTT-CAG
66 GGAGATCTGTATT-TTCCAG
* ** * *
97626122 CCCGTTACCCTACTGCTTAGGGGGGTTAAGGCTCACTGTCTTCGATCCGCTCCACTACTGCTTA-
1 CCTGTTACCCTACTGCTTA-GGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAG
97626186 GGGAGAT
65 GGGAGAT
97626193 AAGATCTGTA
Statistics
Matches: 291, Mismatches: 30, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
84 253 0.87
85 38 0.13
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (84 bp):
CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGG
GGAGATCTGTATTTTCCAG
Found at i:97626251 original size:44 final size:45
Alignment explanation
Indices: 97626188--97626284 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 45
97626178 ACTGCTTAGG
*
97626188 GAGATAAGATCTGTAATCTTCAGCCTGCT-TTCTTGCTACCTCA-A
1 GAGATAAGATCTGTAATCTTCAACCTGCTCTT-TTGCTACCTCAGA
* *
97626232 GAAGATAAGA-CTTGT-ATCTTCAATCTGCTCTTTTGCTATCTCAGA
1 G-AGATAAGATC-TGTAATCTTCAACCTGCTCTTTTGCTACCTCAGA
97626277 GAGATAAG
1 GAGATAAG
97626285 GCCGGTGGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
44 31 0.67
45 15 0.33
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (45 bp):
GAGATAAGATCTGTAATCTTCAACCTGCTCTTTTGCTACCTCAGA
Found at i:97626385 original size:45 final size:44
Alignment explanation
Indices: 97626298--97626394 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 44
97626288 GGTGGCTAAA
* *
97626298 ATCTACTCCATAGCCGATACATAGAGATAAGACTCGTCATTTTC
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTAATTTTC
*
97626342 GATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAATTTTC
1 -ATCTGCTCCATAGCCGATACATAGAGATAAGACTC-GTAATTTTC
97626387 AGTCTGCT
1 A-TCTGCT
97626395 TTCTTGCTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
44 3 0.06
45 44 0.94
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCATAGCCGATACATAGAGATAAGACTCGTAATTTTC
Found at i:97626487 original size:178 final size:178
Alignment explanation
Indices: 97626187--97626602 Score: 663
Period size: 178 Copynumber: 2.3 Consensus size: 178
97626177 TACTGCTTAG
* *
97626187 GGAGATAAGATCTGTAATCTTCAGCCTGCTTTCTTGCTACCTCAAGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTTCTTGCTACCTCAAGAAGATAAGACTTGTATCTT
* ** *
97626252 CAATCTGCTCTTTTGCTATCTCAGAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCGATA
66 CAAGCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCGATA
* *
97626317 CATAGAGATAAGACTCGTCATTTTCGATCTGCTCCATAGCCGATACAT
131 CATAGAGATAAAACTCGCCATTTTCGATCTGCTCCATAGCCGATACAT
97626365 GGAGATAAGATCTGTAATTTTCAGTCTGCTTTCTTGCTACCTCAAGAAGATAAGACTTGTATCTT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTTCTTGCTACCTCAAGAAGATAAGACTTGTATCTT
* * *
97626430 CAAGCTGTTCTCCTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATA
66 CAAGCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCGATA
* * * *
97626495 TATGGAGATAAAACTCGCCATTTTTGATCTGCTCCATAGCCGATACGT
131 CATAGAGATAAAACTCGCCATTTTCGATCTGCTCCATAGCCGATACAT
* *
97626543 GGAGATAAGATCTGTAATTTTCAGTCTGC-TTCTTTGCTACCTTAGGAAGATAAGACTTGT
1 GGAGATAAGATCTGTAATTTTCAGTCTGCTTTC-TTGCTACCTCAAGAAGATAAGACTTGT
97626603 GAATTCACCG
Statistics
Matches: 220, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
177 3 0.01
178 217 0.99
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (178 bp):
GGAGATAAGATCTGTAATTTTCAGTCTGCTTTCTTGCTACCTCAAGAAGATAAGACTTGTATCTT
CAAGCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTACTCCATAGCCGATA
CATAGAGATAAAACTCGCCATTTTCGATCTGCTCCATAGCCGATACAT
Found at i:97631053 original size:19 final size:19
Alignment explanation
Indices: 97631014--97631057 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
97631004 AATGCACATG
97631014 ATGC-AATAATGCAATGCA
1 ATGCAAATAATGCAATGCA
*
97631032 ATGCAAATACATGGAATG-A
1 ATGCAAATA-ATGCAATGCA
97631051 ATGCAAA
1 ATGCAAA
97631058 AGAAAGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 12 0.52
20 7 0.30
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (19 bp):
ATGCAAATAATGCAATGCA
Found at i:97632604 original size:28 final size:24
Alignment explanation
Indices: 97632573--97632625 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 24
97632563 TTTACATAAC
97632573 AGATTTGAAAAGAAAACATATATTAAAT
1 AGATTT-AAAAG-AAAC-TATA-TAAAT
97632601 AGATTTAAAAGAAACTATATAAAT
1 AGATTTAAAAGAAACTATATAAAT
97632625 A
1 A
97632626 AAATAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 6 0.24
25 4 0.16
26 4 0.16
27 5 0.20
28 6 0.24
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.28
Consensus pattern (24 bp):
AGATTTAAAAGAAACTATATAAAT
Found at i:97632627 original size:28 final size:28
Alignment explanation
Indices: 97632573--97632627 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
97632563 TTTACATAAC
*
97632573 AGATTTGAAAAGAAAACATATATTAAAT
1 AGATTTGAAAAGAAAACATATAATAAAT
97632601 AGATTT-AAAAG-AAACTATATAAATAAA
1 AGATTTGAAAAGAAAAC-ATAT-AATAAA
97632628 ATAACATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 9 0.38
28 11 0.46
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (28 bp):
AGATTTGAAAAGAAAACATATAATAAAT
Found at i:97635715 original size:23 final size:23
Alignment explanation
Indices: 97635649--97635715 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
97635639 TATAAGAAAA
*
97635649 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
97635669 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
97635692 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
97635715 A
1 A
97635716 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:97635715 original size:29 final size:28
Alignment explanation
Indices: 97635629--97635745 Score: 71
Period size: 29 Copynumber: 4.0 Consensus size: 28
97635619 TAACAATAGT
* * *
97635629 GAAAAACATATATAAGAAAAATAATAAT-
1 GAAAAATATAAAT-AGATAAATAATAATA
* * *
97635657 GAAAATAATATTAGTATATAAATAGA-AATA
1 G-AAA-AATATAAATAGATAAATA-ATAATA
97635687 -AAAATATAATAAATAGA-AATATAATAATA
1 GAAAA-AT-ATAAATAGATAA-ATAATAATA
*
97635716 GTAGAAATATAAATAGATAAATAATAATA
1 G-AAAAATATAAATAGATAAATAATAATA
97635745 G
1 G
97635746 TATTAGAATA
Statistics
Matches: 68, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
27 1 0.01
28 9 0.13
29 45 0.66
30 10 0.15
31 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.09, T:0.26
Consensus pattern (28 bp):
GAAAAATATAAATAGATAAATAATAATA
Found at i:97635722 original size:17 final size:15
Alignment explanation
Indices: 97635682--97635727 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
97635672 ATATAAATAG
*
97635682 AAATAAAAATATAAT
1 AAATAGAAATATAAT
97635697 AAATAGAAATATAAT
1 AAATAGAAATATAAT
97635712 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
97635728 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:97635727 original size:14 final size:15
Alignment explanation
Indices: 97635707--97635747 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
97635697 AAATAGAAAT
97635707 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
97635722 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
97635736 ATAATAATAGTA
1 ATAATAATAGTA
97635748 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:97635742 original size:15 final size:14
Alignment explanation
Indices: 97635682--97635742 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 14
97635672 ATATAAATAG
*
97635682 AAATAAAAATATAAT
1 AAATAGAAA-ATAAT
97635697 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
97635712 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
97635726 AAATAGATAAATAAT
1 AAATAGA-AAATAAT
97635741 AA
1 AA
97635743 TAGTATTAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.30
15 26 0.65
16 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:97641798 original size:19 final size:21
Alignment explanation
Indices: 97641774--97641818 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
97641764 CAGGAAAAGA
97641774 ATAAATTTATATTA-AA-TAT
1 ATAAATTTATATTATAATTAT
*
97641793 ATAAATTTATTTTATAATTAT
1 ATAAATTTATATTATAATTAT
97641814 ATAAA
1 ATAAA
97641819 AATTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.57
20 2 0.09
21 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAATTTATATTATAATTAT
Found at i:97641868 original size:21 final size:21
Alignment explanation
Indices: 97641842--97641882 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
97641832 AAAAAATATA
*
97641842 TAAAATTAT-TAAATATTAAAT
1 TAAAATAATATAAA-ATTAAAT
97641863 TAAAATAATATAAAATTAAA
1 TAAAATAATATAAAATTAAA
97641883 ATGGGCGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAATAATATAAAATTAAAT
Found at i:97641884 original size:16 final size:16
Alignment explanation
Indices: 97641834--97641884 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
97641824 TAATAAATAA
97641834 AAAAT-ATATAAAATT
1 AAAATAATATAAAATT
** *
97641849 ATTA-AATATTAAATT
1 AAAATAATATAAAATT
97641864 AAAATAATATAAAATT
1 AAAATAATATAAAATT
97641880 AAAAT
1 AAAAT
97641885 GGGCGAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATAATATAAAATT
Found at i:97648255 original size:46 final size:44
Alignment explanation
Indices: 97648169--97648260 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 44
97648159 ATATCTATTT
*
97648169 CATTCAACCAAACACAATAATACTATTACAGATTTATTCCATTA
1 CATTCAACCAAACACAATAATACTATTACAGATCTATTCCATTA
* *
97648213 CATTCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTCCATTA
1 CATTCAACCAAACACAAT-AA-TACT-ATTACAGATCTATTCCATTA
97648259 CA
1 CA
97648261 GCTTTATTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 16 0.38
45 4 0.10
46 20 0.48
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAATAATACTATTACAGATCTATTCCATTA
Found at i:97648260 original size:16 final size:16
Alignment explanation
Indices: 97648239--97648289 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
97648229 TGAATTACTG
97648239 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
97648255 ATTACAGCTTTATTCT
1 ATTACAGCTCTATTCC
*
97648271 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
97648287 ATT
1 ATT
97648290 TCAGTGAACC
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:0.27, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:97653711 original size:19 final size:19
Alignment explanation
Indices: 97653672--97653715 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
97653662 AATGCACATG
97653672 ATGC-AATAATGCAATGCA
1 ATGCAAATAATGCAATGCA
*
97653690 ATGCAAATACATGGAATG-A
1 ATGCAAATA-ATGCAATGCA
97653709 ATGCAAA
1 ATGCAAA
97653716 AGAAAGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 12 0.52
20 7 0.30
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (19 bp):
ATGCAAATAATGCAATGCA
Found at i:97655261 original size:28 final size:24
Alignment explanation
Indices: 97655230--97655282 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 24
97655220 TTTACATAAC
97655230 AGATTTGAAAAGAAAACATATATTAAAT
1 AGATTT-AAAAG-AAAC-TATA-TAAAT
97655258 AGATTTAAAAGAAACTATATAAAT
1 AGATTTAAAAGAAACTATATAAAT
97655282 A
1 A
97655283 AAATAACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 6 0.24
25 4 0.16
26 4 0.16
27 5 0.20
28 6 0.24
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.28
Consensus pattern (24 bp):
AGATTTAAAAGAAACTATATAAAT
Found at i:97655284 original size:28 final size:28
Alignment explanation
Indices: 97655230--97655284 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
97655220 TTTACATAAC
*
97655230 AGATTTGAAAAGAAAACATATATTAAAT
1 AGATTTGAAAAGAAAACATATAATAAAT
97655258 AGATTT-AAAAG-AAACTATATAAATAAA
1 AGATTTGAAAAGAAAAC-ATAT-AATAAA
97655285 ATAACATAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 9 0.38
28 11 0.46
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (28 bp):
AGATTTGAAAAGAAAACATATAATAAAT
Found at i:97656339 original size:21 final size:22
Alignment explanation
Indices: 97656299--97656344 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
97656289 TTCTCTGAAC
97656299 AACAAAGGAAAAAAACCCCCTA
1 AACAAAGGAAAAAAACCCCCTA
* *
97656321 AACAAATGAAAATAACCCCCTA
1 AACAAAGGAAAAAAACCCCCTA
97656343 AA
1 AA
97656345 TAATTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.26, G:0.07, T:0.09
Consensus pattern (22 bp):
AACAAAGGAAAAAAACCCCCTA
Found at i:97660791 original size:14 final size:14
Alignment explanation
Indices: 97660772--97660799 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
97660762 GGGTAGAAAC
97660772 CCTAAACCTATAGT
1 CCTAAACCTATAGT
97660786 CCTAAACCTATAGT
1 CCTAAACCTATAGT
97660800 TTAATTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
CCTAAACCTATAGT
Found at i:97671178 original size:129 final size:129
Alignment explanation
Indices: 97670948--97671188 Score: 340
Period size: 129 Copynumber: 1.9 Consensus size: 129
97670938 AAAAGCAACA
** * *
97670948 AAGCTTGTTAAGTCATCAGAGAGGCTTTTACCTAAGGAAGAGGTGACTTGTGCATTAGACTTCGA
1 AAGCTTGTTAAGTCATCAGAGAGGCTTCCACCCAAGGAAGAGGTGACTTGTGCATCAGACTTCGA
** *
97671013 GGAAAAAGTAACTATGCAAACATTGAAACTAGGATCAATGAGGCTCAGTTTTGGGAAAGTGACG
66 GGAAAAAGTAACTACACAAACATTGAAACGAGGATCAATGAGGCTCAGTTTTGGGAAAGTGACG
* * * * *
97671077 AAGCTTGTTGAGTCATCGGAGAGGCTTCCACCCAAGGTATAGGTGAGTTGTGCATCAGACTTCGA
1 AAGCTTGTTAAGTCATCAGAGAGGCTTCCACCCAAGGAAGAGGTGACTTGTGCATCAGACTTCGA
* *
97671142 GGAAAAAGT-ACTGACACAAATATTGAAACGATGATCAATGAGGCTCA
66 GGAAAAAGTAACT-ACACAAACATTGAAACGAGGATCAATGAGGCTCA
97671189 TTTCTGTTGA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 3 0.03
129 94 0.97
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (129 bp):
AAGCTTGTTAAGTCATCAGAGAGGCTTCCACCCAAGGAAGAGGTGACTTGTGCATCAGACTTCGA
GGAAAAAGTAACTACACAAACATTGAAACGAGGATCAATGAGGCTCAGTTTTGGGAAAGTGACG
Found at i:97671661 original size:12 final size:12
Alignment explanation
Indices: 97671644--97671668 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
97671634 ATTTAATCAC
97671644 TTTAATATTAAA
1 TTTAATATTAAA
97671656 TTTAATATTAAA
1 TTTAATATTAAA
97671668 T
1 T
97671669 ATTATTAAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:97671754 original size:20 final size:18
Alignment explanation
Indices: 97671707--97671755 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
97671697 AAAAATAAAC
97671707 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
97671724 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
97671744 ATTAAATTAATA
1 ATTAAATTAATA
97671756 AAATAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:97673433 original size:14 final size:15
Alignment explanation
Indices: 97673398--97673431 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
97673388 CTATGCATGC
*
97673398 AAAATATAAAAGACAA
1 AAAATACAAAAGA-AA
97673414 AAAATACAAAAGAAA
1 AAAATACAAAAGAAA
97673429 AAA
1 AAA
97673432 TAGTGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAATACAAAAGAAA
Found at i:97678010 original size:9 final size:9
Alignment explanation
Indices: 97677990--97678036 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
97677980 AGTATAAAAC
*
97677990 TAACCAAAT
1 TAACCGAAT
*
97677999 TAATCGAAT
1 TAACCGAAT
97678008 TAACCGAAT
1 TAACCGAAT
97678017 T-ACCGGAAT
1 TAACC-GAAT
97678026 TAACCGAAT
1 TAACCGAAT
97678035 TA
1 TA
97678037 TTTGTATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 3 0.09
9 27 0.82
10 3 0.09
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (9 bp):
TAACCGAAT
Found at i:97678071 original size:5 final size:6
Alignment explanation
Indices: 97678056--97678090 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
97678046 AATTATATGT
97678056 TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
97678091 ATTAAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 21 0.78
8 6 0.22
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:97678078 original size:14 final size:14
Alignment explanation
Indices: 97678061--97678087 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
97678051 TATGTTTTTT
97678061 ATTTTTATTTTTAG
1 ATTTTTATTTTTAG
97678075 ATTTTTATTTTTA
1 ATTTTTATTTTTA
97678088 TTTATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (14 bp):
ATTTTTATTTTTAG
Found at i:97678137 original size:13 final size:13
Alignment explanation
Indices: 97678119--97678148 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
97678109 TTTATGATTT
97678119 GGTTGGGTAATTG
1 GGTTGGGTAATTG
*
97678132 GGTTGGGTACTTG
1 GGTTGGGTAATTG
97678145 GGTT
1 GGTT
97678149 AATATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.03, G:0.47, T:0.40
Consensus pattern (13 bp):
GGTTGGGTAATTG
Found at i:97680248 original size:26 final size:26
Alignment explanation
Indices: 97680219--97680275 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
97680209 AGATTAATTA
*
97680219 TTTAATAA-TAAATTTTAATTGATAGT
1 TTTAA-AATTAAATTTTAATTGATAAT
** *
97680245 TTTAAAATTATTTTTTAATTTATAAT
1 TTTAAAATTAAATTTTAATTGATAAT
97680271 TTTAA
1 TTTAA
97680276 GTGAAAGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (26 bp):
TTTAAAATTAAATTTTAATTGATAAT
Found at i:97680436 original size:2 final size:2
Alignment explanation
Indices: 97680429--97680453 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
97680419 ACCCGTACGA
97680429 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
97680454 AAAGATTGAT
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:97689735 original size:16 final size:16
Alignment explanation
Indices: 97689684--97689738 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
97689674 GGCATAATTT
97689684 AAAATACAA-ATTTTAA
1 AAAATA-AATATTTTAA
* *
97689700 GAAAATTGAATATTAT-A
1 -AAAA-TAAATATTTTAA
97689717 AAAATAAATATTTTAA
1 AAAATAAATATTTTAA
97689733 AAAATA
1 AAAATA
97689739 TTAGTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 8 0.26
16 11 0.35
17 7 0.23
18 5 0.16
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (16 bp):
AAAATAAATATTTTAA
Found at i:97696508 original size:48 final size:48
Alignment explanation
Indices: 97696325--97696553 Score: 179
Period size: 48 Copynumber: 4.9 Consensus size: 48
97696315 GGGTTATGTG
* * * *
97696325 TGATCCCATGTAAGACCAT-TTTGGGACATGGCATTTTGTATCGTTCTGA
1 TGATCCCATGTAAGACCATGTTTGGGACATGGCA-TTGGCATCGATAT-A
* * *
97696374 -GATCCCATGTAAGACCATGTTTGGGACATGACTTTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATA
* * * * *
97696421 TAATTTCC-TGTAAGACCATAG-CTAGG-C-T-G--TTGGCATCGATCTA
1 TGA-TCCCATGTAAGACCAT-GTTTGGGACATGGCATTGGCATCGATATA
* * *
97696464 CGATCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATA
* * ** *
97696512 TGATCCCATGTAATACCATATCCGGGATATGGCATTGGCATC
1 TGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATC
97696554 CTACCATGTG
Statistics
Matches: 140, Mismatches: 29, Indels: 23
0.73 0.15 0.12
Matches are distributed among these distances:
42 4 0.03
43 26 0.19
44 1 0.01
45 1 0.01
46 2 0.01
47 1 0.01
48 89 0.64
49 16 0.11
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATA
Found at i:97697695 original size:13 final size:13
Alignment explanation
Indices: 97697679--97697713 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
97697669 CTCAGGACAC
97697679 GGGCGTGTGCCCA
1 GGGCGTGTGCCCA
97697692 GGGCGTGTGCCCA
1 GGGCGTGTGCCCA
*
97697705 GGCCGTGTG
1 GGGCGTGTG
97697714 AAGTCTGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.29, G:0.49, T:0.17
Consensus pattern (13 bp):
GGGCGTGTGCCCA
Found at i:97704299 original size:74 final size:74
Alignment explanation
Indices: 97704178--97704329 Score: 268
Period size: 74 Copynumber: 2.1 Consensus size: 74
97704168 ATGTAAGACC
*
97704178 ATGTCTAGGACATGGCACTGGCATCGTTATGAGATCCCATATAAGACCATGTTTGGGATATGACT
1 ATGTCTAGGACATGGCACTGGCATCATTATGAGATCCCATATAAGACCATGTTTGGGATATGACT
97704243 TTGGCATCG
66 TTGGCATCG
* * *
97704252 ATGTCTAGGACATGGCGCTGGCATCATTTTGAGATCTCATATAAGACCATGTTTGGGATATGACT
1 ATGTCTAGGACATGGCACTGGCATCATTATGAGATCCCATATAAGACCATGTTTGGGATATGACT
97704317 TTGGCATCG
66 TTGGCATCG
97704326 ATGT
1 ATGT
97704330 GTAATTTCGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (74 bp):
ATGTCTAGGACATGGCACTGGCATCATTATGAGATCCCATATAAGACCATGTTTGGGATATGACT
TTGGCATCG
Found at i:97704414 original size:48 final size:48
Alignment explanation
Indices: 97704359--97704462 Score: 136
Period size: 48 Copynumber: 2.2 Consensus size: 48
97704349 TAACTGGTCT
* * * *
97704359 ATTGGCATCGATCTACGATCCCATGTAGGACCATGTCTGGGACATGGC
1 ATTGGCATCGATATACGATCCCATGTAAGACCATATCCGGGACATGGC
* ** *
97704407 ATTGGCATTGATATGTGATCCCATGTAAGACCATATCCGGGATATGGC
1 ATTGGCATCGATATACGATCCCATGTAAGACCATATCCGGGACATGGC
97704455 ATTGGCAT
1 ATTGGCAT
97704463 TCTATCATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (48 bp):
ATTGGCATCGATATACGATCCCATGTAAGACCATATCCGGGACATGGC
Found at i:97706349 original size:33 final size:32
Alignment explanation
Indices: 97706310--97706433 Score: 112
Period size: 33 Copynumber: 3.9 Consensus size: 32
97706300 TATAAATATG
97706310 TGTAAGACCATAGCTGGGCTATGGCATCTTGA
1 TGTAAGACCATAGCTGGGCTATGGCATCTTGA
* *
97706342 TGATAAGACCATAACTGGG-TAATGGCAT-TACGA
1 TG-TAAGACCATAGCTGGGCT-ATGGCATCT-TGA
* * * *
97706375 GTGTAAGACCATTGCAGGGCCATGGCA-ATTG-
1 -TGTAAGACCATAGCTGGGCTATGGCATCTTGA
* *
97706406 TGTAAGACCATAGTTGGACTATGGCATC
1 TGTAAGACCATAGCTGGGCTATGGCATC
97706434 AAAAAACAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 15
0.72 0.13 0.15
Matches are distributed among these distances:
30 21 0.29
32 5 0.07
33 44 0.61
34 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (32 bp):
TGTAAGACCATAGCTGGGCTATGGCATCTTGA
Found at i:97706398 original size:103 final size:103
Alignment explanation
Indices: 97706207--97706398 Score: 224
Period size: 103 Copynumber: 1.9 Consensus size: 103
97706197 AATGTTTAAA
* * * **
97706207 TGTAAGACCATAGCTGAGCTATGGCCTTTTAATGAAAAGAACATAACTGGGTTATGACACTTTGG
1 TGTAAGACCATAGCTGAGCTATGGCATCTTAATGAAAAGAACATAACTGGGTAATGACACTTACG
**
97706272 ACGTAAAACCATGGTTGGACCATGACAGTATAAATATG
66 ACGTAAAACCATGGCAGGACCATGACAGTATAAATATG
* * * * *
97706310 TGTAAGACCATAGCTGGGCTATGGCATCTTGATGATAAGACCATAACTGGGTAATGGCA-TTACG
1 TGTAAGACCATAGCTGAGCTATGGCATCTTAATGAAAAGAACATAACTGGGTAATGACACTTACG
* * * *
97706374 AGTGTAAGACCATTGCAGGGCCATG
66 A-CGTAAAACCATGGCAGGACCATG
97706399 GCAATTGTGT
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
102 4 0.06
103 68 0.94
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (103 bp):
TGTAAGACCATAGCTGAGCTATGGCATCTTAATGAAAAGAACATAACTGGGTAATGACACTTACG
ACGTAAAACCATGGCAGGACCATGACAGTATAAATATG
Found at i:97714296 original size:19 final size:19
Alignment explanation
Indices: 97714272--97714308 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
97714262 TTTTCTATGC
97714272 CTATGAGCTTACTAAGCTT
1 CTATGAGCTTACTAAGCTT
97714291 CTATGAGCTTACTAAGCT
1 CTATGAGCTTACTAAGCT
97714309 ACTTGTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (19 bp):
CTATGAGCTTACTAAGCTT
Found at i:97718604 original size:26 final size:26
Alignment explanation
Indices: 97718575--97718628 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
97718565 TTCATGTAAG
*
97718575 TTCATTTCTTGCTCTTTTCTTGAATT
1 TTCAGTTCTTGCTCTTTTCTTGAATT
97718601 TTCAGTTCTTGCTCTTTTCTTGAATT
1 TTCAGTTCTTGCTCTTTTCTTGAATT
97718627 TT
1 TT
97718629 TTGTGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.11, C:0.19, G:0.09, T:0.61
Consensus pattern (26 bp):
TTCAGTTCTTGCTCTTTTCTTGAATT
Found at i:97719531 original size:33 final size:33
Alignment explanation
Indices: 97719454--97719531 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
97719444 GTATATATAT
*
97719454 GTGTAAGACCATAACTGGGTTATGACATCCTGA
1 GTGTAAGACCATAACTGGGTTATGACATCATGA
* * *
97719487 -TGATAAAACCATAACTGGGTTATGGCATTATGA
1 GTG-TAAGACCATAACTGGGTTATGACATCATGA
97719520 GTGTAAGACCAT
1 GTGTAAGACCAT
97719532 GGCAGGGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 2 0.05
33 34 0.89
34 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (33 bp):
GTGTAAGACCATAACTGGGTTATGACATCATGA
Found at i:97726115 original size:25 final size:23
Alignment explanation
Indices: 97726077--97726164 Score: 88
Period size: 26 Copynumber: 3.6 Consensus size: 23
97726067 TTTACATCTC
*
97726077 AAAAAATTACAAAAAAATATTTATAT
1 AAAAATTTA-AAAAAAATA--TATAT
*
97726103 AAAAATTTAAAAATAATAATATATT
1 AAAAATTTAAAAAAAAT-ATATA-T
*
97726128 AAAAATTTTAAAAATAATATATA-
1 AAAAA-TTTAAAAAAAATATATAT
97726151 AAAAATTTAAAAAA
1 AAAAATTTAAAAAA
97726165 TTATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
22 8 0.14
23 5 0.09
24 4 0.07
25 18 0.32
26 21 0.38
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAAATTTAAAAAAAATATATAT
Found at i:97726117 original size:22 final size:22
Alignment explanation
Indices: 97726089--97726163 Score: 89
Period size: 22 Copynumber: 3.2 Consensus size: 22
97726079 AAAATTACAA
*
97726089 AAAAATATTTATATAAAAATTT
1 AAAAATATATATATAAAAATTT
97726111 AAAAATAATAATATATTAAAAATTTT
1 AAAAAT-AT-ATATA-TAAAAA-TTT
97726137 AAAAATA-ATATATAAAAAATTT
1 AAAAATATATATAT-AAAAATTT
97726159 AAAAA
1 AAAAA
97726164 ATTATAAAAC
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
22 15 0.32
23 12 0.26
24 4 0.09
25 7 0.15
26 9 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAAATATATATATAAAAATTT
Done.