Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 164 of 349
Found at i:52970941 original size:27 final size:28
Alignment explanation
Indices: 52970829--52970954 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
52970819 CATGAGATTG
* * *
52970829 GCACTAAGTGTGC-AGGTTTAAATTGTACA
1 GCACTAAGTGTGCGA-GTTT-GATTATATA
*
52970858 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52970886 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52970914 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52970941 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52970955 GACTTAATAT
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 24 0.27
28 48 0.53
29 17 0.19
30 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52970965 original size:27 final size:27
Alignment explanation
Indices: 52970857--52970967 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
52970847 TAAATTGTAC
* * *
52970857 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52970885 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52970913 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
52970940 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
52970967 A
1 A
52970968 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:52979503 original size:35 final size:35
Alignment explanation
Indices: 52979387--52979504 Score: 137
Period size: 35 Copynumber: 3.4 Consensus size: 35
52979377 AAGGTATTGT
* * *
52979387 TCCGTAGAGCCAATAGACCATTTCCATGATGCCGT
1 TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
* * *
52979422 TTCGTAGAGCCAGCAGATCATTTCTATGATGCCGC
1 TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
* * **
52979457 TCTGTAAAGCCAGTAGATCATTTCCATGATGTTGC
1 TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
*
52979492 TCCATAGAGCCAG
1 TCCGTAGAGCCAG
52979505 CAGACTATTT
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (35 bp):
TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
Found at i:52986730 original size:79 final size:81
Alignment explanation
Indices: 52986629--52986813 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
52986619 GCTACTCGTT
* * *
52986629 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
52986692 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
52986709 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
52986773 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
52986789 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52986814 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:52986813 original size:40 final size:40
Alignment explanation
Indices: 52986629--52986813 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
52986619 GCTACTCGTT
* *
52986629 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
52986669 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
52986709 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
52986748 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
52986789 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52986814 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:53011563 original size:12 final size:13
Alignment explanation
Indices: 53011546--53011574 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
53011536 TAAACAGAAA
53011546 CATAT-AATAAAT
1 CATATAAATAAAT
53011558 CATATAAATAAAT
1 CATATAAATAAAT
53011571 CATA
1 CATA
53011575 ACTAGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (13 bp):
CATATAAATAAAT
Found at i:53017346 original size:46 final size:47
Alignment explanation
Indices: 53017214--53017423 Score: 161
Period size: 46 Copynumber: 4.5 Consensus size: 47
53017204 TGAGAGTCAT
* * *
53017214 TGTAAGGCCATGTCTGGGACATGGCATTGGCATTA--AGATG-AGAGCTAG
1 TGTAAGACCATGTCTGGGACAT-ACATCGGC--TACGAGATGTA-AGCTAG
* * * * *
53017262 TGTAAGA-CATGTTTGGGACATGCATTAGCCT-CGTGATGTAAGCTAG
1 TGTAAGACCATGTCTGGGACATACA-TCGGCTACGAGATGTAAGCTAG
53017308 TGTAAGA-CATGTCTGGGACATACATCGGCTACGAGATGT--G-TCAG
1 TGTAAGACCATGTCTGGGACATACATCGGCTACGAGATGTAAGCT-AG
* * *
53017352 TGTAAGACCATGTCTGGGACATGACATCAGC-ACGGATATGTGAGAGCTAA
1 TGTAAGACCATGTCTGGGACAT-ACATCGGCTAC-GAGATGT-A-AGCTAG
53017402 TGTAAGACCATGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
53017424 GGTGTCGGCC
Statistics
Matches: 135, Mismatches: 13, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 21 0.16
46 55 0.41
47 17 0.13
48 6 0.04
50 24 0.18
51 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATACATCGGCTACGAGATGTAAGCTAG
Found at i:53017528 original size:96 final size:98
Alignment explanation
Indices: 53017347--53017528 Score: 237
Period size: 96 Copynumber: 1.9 Consensus size: 98
53017337 TACGAGATGT
*
53017347 GTCAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGATATGTGAGAGCTAATGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGA-ATGTGAGAGCCAATGTAAGACCA
* **
53017412 TGTCTGGGACATGGTGTCGGCCTCGATTTCGATA
65 TGTCTAGGACATGGCATCGGCCTCGATTTCGATA
* * * *
53017446 GTCAGTGTAAGACCATGTCTGGGACATGGCAT-TG-ACTTG-ATG-GATGAGCCAGTGTAAGACC
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCAGCAC-GGAATGTGA-GAGCCAATGTAAGACC
53017507 ATGTCTAGGACATGGCATCGGC
64 ATGTCTAGGACATGGCATCGGC
53017529 ATTATACCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
95 2 0.03
96 36 0.49
97 2 0.03
98 2 0.03
99 31 0.42
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (98 bp):
GTCAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGAATGTGAGAGCCAATGTAAGACCAT
GTCTAGGACATGGCATCGGCCTCGATTTCGATA
Found at i:53025912 original size:38 final size:38
Alignment explanation
Indices: 53025861--53025952 Score: 139
Period size: 38 Copynumber: 2.4 Consensus size: 38
53025851 ATTTCCTTTT
* *
53025861 GAAAATCCATTTACAACCTAGTGGTTTGCTACCAAGAG
1 GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
* * *
53025899 GAAAATACATTTACAACTTAATGGTTTGCTACTAAGAA
1 GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
53025937 GAAAATCCATTTACAA
1 GAAAATCCATTTACAA
53025953 TGACTTAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.28
Consensus pattern (38 bp):
GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
Found at i:53027503 original size:49 final size:48
Alignment explanation
Indices: 53027448--53027575 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 48
53027438 TTGAATTTTA
*
53027448 AAAACTCTTTTAAATAATAATTTCAATTCTATTTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAATTT-AATTCTATTTAATTAT-TATTTATCT
53027497 AAAACTCTTTTAAATAATAATATT-ATT-T-TTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAAT-TTAATTCTATTTAATTATTATTTATCT
*
53027543 AAAACTCTTTTAAATAATAATTAAATTCTATTT
1 AAAACTCTTTTAAATAATAATTTAATTCTATTT
53027576 CCTTATTTGA
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
45 2 0.03
46 39 0.54
47 2 0.03
48 6 0.08
49 21 0.29
50 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.52
Consensus pattern (48 bp):
AAAACTCTTTTAAATAATAATTTAATTCTATTTAATTATTATTTATCT
Found at i:53028935 original size:20 final size:23
Alignment explanation
Indices: 53028910--53028954 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 23
53028900 AGTTCGTATG
53028910 GTTAAAATT-T-AATGTT-ATAT
1 GTTAAAATTATGAATGTTAATAT
*
53028930 GTTAAATTTATGAATGTTAATAT
1 GTTAAAATTATGAATGTTAATAT
53028953 GT
1 GT
53028955 AGTTGTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 6 0.29
23 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
GTTAAAATTATGAATGTTAATAT
Found at i:53029283 original size:101 final size:101
Alignment explanation
Indices: 53029073--53029263 Score: 276
Period size: 101 Copynumber: 1.9 Consensus size: 101
53029063 TGATGGATAT
* * * * * *
53029073 GACCATTGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTTTAATGA
1 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
*
53029138 AAAGACCATAACTGAGGTATGGCACCTTGAACGTAA
66 AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
* *
53029174 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACTATAGCTAGGTTATGGCATTCTGATGA
1 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
*
53029239 TAAGACCATAACT-AGGTTACGGCAC
66 AAAGACCATAACTGAGG-TACGGCAC
53029264 TATGGCTGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 3 0.04
101 76 0.96
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (101 bp):
GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
Found at i:53029292 original size:101 final size:101
Alignment explanation
Indices: 53029073--53029292 Score: 266
Period size: 101 Copynumber: 2.2 Consensus size: 101
53029063 TGATGGATAT
* * * * * * *
53029073 GACCATTGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTTTAATGA
1 GACCATGGTAGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
*
53029138 AAAGACCATAACTGAGGTATGGCACCTTGAACGTAA
66 AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
* * *
53029174 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACTATAGCTAGGTTATGGCATTCTGATGA
1 GACCATGGTAGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
* *
53029239 TAAGACCATAACT-AGGTTACGGCA-CTATG-GCTGTAA
66 AAAGACCATAACTGAGG-TACGGCACCT-TGAAC-GTAA
*
53029275 GACCATGGTAGGGCCATG
1 GACCATGGTAGGACCATG
53029293 GCAATGCATG
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
100 6 0.06
101 97 0.94
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (101 bp):
GACCATGGTAGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
Found at i:53043849 original size:78 final size:79
Alignment explanation
Indices: 53043733--53043881 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 79
53043723 TTCCTCGAAG
* * *
53043733 TTAAAAAAAAAATTAACCTTATTTTTTTTACATCCAATTGGTTACTTAAACTTTCAAAATGTATA
1 TTAAAAAAAAAATTAACCTTATTTTTTTCACATCCAATTGGGTACTTAAACTTTCAAAATGCA-A
53043798 AAAAAAGTCCTTAAA
65 AAAAAAGTCCTTAAA
* * * *
53043813 TTAAAAAAAATAATTAAGCTT-TTTTTTTCAC-T-CAATTGGGTATTTGAACTTTTAAAATGCAA
1 TTAAAAAAAA-AATTAACCTTATTTTTTTCACATCCAATTGGGTACTTAAACTTTCAAAATGCAA
53043875 AAAAAAG
65 AAAAAAG
53043882 CAATTAAGCC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
77 8 0.13
78 24 0.39
79 1 0.02
80 19 0.31
81 9 0.15
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (79 bp):
TTAAAAAAAAAATTAACCTTATTTTTTTCACATCCAATTGGGTACTTAAACTTTCAAAATGCAAA
AAAAAGTCCTTAAA
Found at i:53044235 original size:9 final size:9
Alignment explanation
Indices: 53044149--53044247 Score: 51
Period size: 10 Copynumber: 10.6 Consensus size: 9
53044139 TATGTGACAA
53044149 AAAAATTAT
1 AAAAATTAT
53044158 AAAAA--AT
1 AAAAATTAT
53044165 AAAAATTAGT
1 AAAAATTA-T
*
53044175 AAAAGTTAT
1 AAAAATTAT
* *
53044184 AAGAATCATT
1 AAAAATTA-T
**
53044194 AAATTTTAAT
1 AAAAATT-AT
53044204 AAAAA-TATT
1 AAAAATTA-T
*
53044213 TAAAATTGATT
1 AAAAATT-A-T
53044224 AAAAATTAT
1 AAAAATTAT
*
53044233 AAAAAATTCT
1 -AAAAATTAT
53044243 AAAAA
1 AAAAA
53044248 GATTTATTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
7 7 0.10
8 1 0.01
9 24 0.35
10 26 0.38
11 10 0.15
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:53044503 original size:28 final size:28
Alignment explanation
Indices: 53044441--53044521 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
53044431 GTACGATAAT
**
53044441 CTTTATAATTTTTTTTATGAATTTTATATTT
1 CTTTATAA--TTTTTTAT-AATTTTATATGA
53044472 CTTTAT-ATTTTTTATAATTTTATTATGA
1 CTTTATAATTTTTTATAATTTTA-TATGA
**
53044500 CTTTATAAAATTTTATAATTTT
1 CTTTATAATTTTTTATAATTTT
53044522 TTTTTACAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.16
28 17 0.39
29 13 0.30
30 1 0.02
31 6 0.14
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (28 bp):
CTTTATAATTTTTTATAATTTTATATGA
Found at i:53044572 original size:19 final size:19
Alignment explanation
Indices: 53044501--53044603 Score: 79
Period size: 19 Copynumber: 5.3 Consensus size: 19
53044491 TTATTATGAC
53044501 TTTATAAAATTTTATAATTTT
1 TTTATAAAATTTTATAA--TT
*
53044522 TTTTTACAAATTTTATAA-T
1 TTTATA-AAATTTTATAATT
53044541 TTTA-AATATATTTTAT-ATT
1 TTTATAA-A-ATTTTATAATT
*
53044560 TTTATTAAAATTTAATAATT
1 TTTA-TAAAATTTTATAATT
* *
53044580 TTTGT-AATTTTTATTAATT
1 TTTATAAAATTTTA-TAATT
53044599 TTTAT
1 TTTAT
53044604 TTTTATCATT
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
17 1 0.01
18 9 0.13
19 32 0.48
20 7 0.10
21 7 0.10
22 11 0.16
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:53044591 original size:10 final size:10
Alignment explanation
Indices: 53044557--53044604 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
53044547 TATATTTTAT
53044557 ATTTTTATTA
1 ATTTTTATTA
** *
53044567 AAATTTAATA
1 ATTTTTATTA
*
53044577 ATTTTT-GTA
1 ATTTTTATTA
53044586 ATTTTTATTA
1 ATTTTTATTA
53044596 ATTTTTATT
1 ATTTTTATT
53044605 TTTATCATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:53044602 original size:29 final size:28
Alignment explanation
Indices: 53044532--53044602 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
53044522 TTTTTACAAA
*
53044532 TTTTA-TAATTTTAAATATATTTTATAT
1 TTTTATTAATTTTTAATATATTTTATAT
** *
53044559 TTTTATTAAAATTTAATA-ATTTTTGTAAT
1 TTTTATTAATTTTTAATATA-TTTTAT-AT
53044588 TTTTATTAATTTTTA
1 TTTTATTAATTTTTA
53044603 TTTTTATCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 6 0.17
28 14 0.40
29 15 0.43
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTATTAATTTTTAATATATTTTATAT
Found at i:53044797 original size:26 final size:25
Alignment explanation
Indices: 53044768--53044818 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
53044758 TTGAGTAAAA
**
53044768 AAAAAAGACTTAATTATTTTTTTATG
1 AAAAAAGA-TTAAGAATTTTTTTATG
*
53044794 AAAAAAGATTGAGAATTTTTTTATG
1 AAAAAAGATTAAGAATTTTTTTATG
53044819 CATTTTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (25 bp):
AAAAAAGATTAAGAATTTTTTTATG
Found at i:53049246 original size:28 final size:28
Alignment explanation
Indices: 53049176--53049270 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 28
53049166 GGCAAGTTAA
53049176 GTTTGCTAGTTTGTTTAGCAAACTGAGG
1 GTTTGCTAGTTTGTTTAGCAAACTGAGG
** * * *
53049204 GTTCACCAGTTTGTTTAGCGAACTGGGG
1 GTTTGCTAGTTTGTTTAGCAAACTGAGG
* * * * *
53049232 GTTTGCTAGTCTGTTTGGCTAATTAAGG
1 GTTTGCTAGTTTGTTTAGCAAACTGAGG
*
53049260 GTTTGCCAGTT
1 GTTTGCTAGTT
53049271 GAGTTGTGAA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.39
Consensus pattern (28 bp):
GTTTGCTAGTTTGTTTAGCAAACTGAGG
Found at i:53057258 original size:19 final size:19
Alignment explanation
Indices: 53057234--53057272 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
53057224 ATTTTGAGTT
53057234 AGACGAATTGAGTTATTCG
1 AGACGAATTGAGTTATTCG
53057253 AGACGAATTGAGTTATTCG
1 AGACGAATTGAGTTATTCG
53057272 A
1 A
53057273 ATTTTTCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (19 bp):
AGACGAATTGAGTTATTCG
Found at i:53057736 original size:17 final size:17
Alignment explanation
Indices: 53057716--53057776 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
53057706 ATCTATATCT
*
53057716 ATTATTTATATTATTAA
1 ATTATTTATATTATTGA
* *
53057733 ATTAATTTTTACATT-TTGT
1 ATT-A--TTTATATTATTGA
*
53057752 ACTATTTATATTATTGA
1 ATTATTTATATTATTGA
53057769 ATTATTTA
1 ATTATTTA
53057777 ATCATATTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
16 7 0.21
17 13 0.39
18 2 0.06
19 4 0.12
20 7 0.21
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:53061779 original size:19 final size:19
Alignment explanation
Indices: 53061755--53061803 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
53061745 GATTAAGATC
53061755 TGGTTTTCACTAAAAT-GAA
1 TGGTTTTC-CTAAAATAGAA
*
53061774 TGGTTTTCCTAGAATAGAA
1 TGGTTTTCCTAAAATAGAA
53061793 -GGTTTT-CTAAA
1 TGGTTTTCCTAAA
53061804 GTTTTCGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.15
18 12 0.44
19 11 0.41
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (19 bp):
TGGTTTTCCTAAAATAGAA
Found at i:53068075 original size:17 final size:18
Alignment explanation
Indices: 53068044--53068088 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
53068034 CTTAGCCAAT
*
53068044 TGGGCCATGT-GGGCCATA
1 TGGG-CATGTAGGCCCATA
53068062 TGGGCATGTAGGCCCATA
1 TGGGCATGTAGGCCCATA
*
53068080 CGGGCATGT
1 TGGGCATGT
53068089 GAAATTCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (18 bp):
TGGGCATGTAGGCCCATA
Found at i:53069062 original size:18 final size:18
Alignment explanation
Indices: 53069021--53069069 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
53069011 GATTAAGATC
*
53069021 TGGTTTTCCCTAAAACGAA
1 TGGTTTT-CCTAAAAAGAA
53069040 TGGTTTTCCTAAAATAGAA
1 TGGTTTTCCTAAAA-AGAA
53069059 -GGTTTT-CTAAA
1 TGGTTTTCCTAAA
53069070 GCTTTCGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.18
18 13 0.46
19 10 0.36
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (18 bp):
TGGTTTTCCTAAAAAGAA
Found at i:53072247 original size:40 final size:40
Alignment explanation
Indices: 53072195--53072471 Score: 455
Period size: 40 Copynumber: 6.9 Consensus size: 40
53072185 ATAACCGCAA
* * * * *
53072195 GCACAATTGCCTTCGAGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
53072235 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
53072275 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
53072315 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
53072355 GTACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53072395 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53072435 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
53072472 ATGCTCATGC
Statistics
Matches: 220, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:53079492 original size:40 final size:40
Alignment explanation
Indices: 53079441--53079715 Score: 446
Period size: 40 Copynumber: 6.9 Consensus size: 40
53079431 ATAACCGCAA
* * * *
53079441 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
53079481 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
53079521 GCATAATTGCCTTCGGGTCTTAGCCCGAATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
53079561 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53079601 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53079641 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53079681 G--CAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
53079716 ATGCTCATGC
Statistics
Matches: 219, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
38 34 0.16
40 185 0.84
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:53086727 original size:40 final size:40
Alignment explanation
Indices: 53086676--53086952 Score: 455
Period size: 40 Copynumber: 6.9 Consensus size: 40
53086666 ATAACCGCAA
* * * *
53086676 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
53086716 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
53086756 GCATAATTGCCTTCGGGTCTTAGCCCGAATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
53086796 GCAGAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53086836 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53086876 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
53086916 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
53086953 ATGCTCATGC
Statistics
Matches: 220, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:53099208 original size:26 final size:26
Alignment explanation
Indices: 53099179--53099286 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
53099169 TGGTACAAAT
*
53099179 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
53099205 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
53099231 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
53099257 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
53099283 TGAT
1 TGAT
53099287 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:53100953 original size:54 final size:54
Alignment explanation
Indices: 53100871--53101014 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
53100861 TGGAGGAAGC
53100871 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
53100925 GTCCTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
53100979 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
53101015 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:53101025 original size:27 final size:27
Alignment explanation
Indices: 53100874--53101032 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
53100864 AGGAAGCGTC
*
53100874 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
53100901 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
53100928 CTGGTGGTTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
53100955 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
53100982 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
53101009 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
53101033 GTAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:53101026 original size:81 final size:80
Alignment explanation
Indices: 53100874--53101032 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 80
53100864 AGGAAGCGTC
* *
53100874 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGTTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGCTTAC
53100939 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
53100955 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTG-CT
*
53101018 T-CGTCACAATATCTG
63 TACGCCACAATATCTG
53101033 GTAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 16 0.23
81 51 0.74
82 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGCTTAC
GCCACAATATCTGAT
Found at i:53102746 original size:106 final size:105
Alignment explanation
Indices: 53102552--53102751 Score: 364
Period size: 106 Copynumber: 1.9 Consensus size: 105
53102542 CTAATAGGAC
53102552 TACCCGTCTGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACAC
1 TACCCGTCTGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACAC
*
53102617 TCGTCCGAGCTAGATTCCTTTTCATACTTGATATCACGAT
66 CCGTCCGAGCTAGATTCCTTTTCATACTTGATATCACGAT
*
53102657 TACCCGTCTAGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGGAACA
1 TACCCGTCT-GGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACA
*
53102722 CCCGTCCGGGCTAGATTCCTTTTCATACTT
65 CCCGTCCGAGCTAGATTCCTTTTCATACTT
53102752 AAGATCATGG
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
105 9 0.10
106 82 0.90
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (105 bp):
TACCCGTCTGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACAC
CCGTCCGAGCTAGATTCCTTTTCATACTTGATATCACGAT
Found at i:53108046 original size:23 final size:22
Alignment explanation
Indices: 53108013--53108108 Score: 93
Period size: 23 Copynumber: 4.2 Consensus size: 22
53108003 AGTTACCGAC
*
53108013 TCTGTGAAAGCCTTTATGGCTGT
1 TCTGTGAAAGCCTTTGTGG-TGT
* *
53108036 TCTGTGGAAGCCTTTTTGGATGT
1 TCTGTGAAAGCCTTTGTGG-TGT
*
53108059 TCTGTGAAAGCCTTTGTAGTAGT
1 TCTGTGAAAGCCTTTGTGGT-GT
* * *
53108082 TCTGAGGAAGCCCTTGTGGTTGT
1 TCTGTGAAAGCCTTTGTGG-TGT
53108105 TCTG
1 TCTG
53108109 ATATATGAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
22 1 0.02
23 59 0.97
24 1 0.02
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.40
Consensus pattern (22 bp):
TCTGTGAAAGCCTTTGTGGTGT
Found at i:53108084 original size:46 final size:46
Alignment explanation
Indices: 53108013--53108108 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
53108003 AGTTACCGAC
* * * *
53108013 TCTGTGAAAGCCTTTATGGCTGTTCTGTGGAAGCCTTTTTGGATGT
1 TCTGTGAAAGCCTTTATAGCTGTTCTGAGGAAGCCCTTGTGGATGT
* *
53108059 TCTGTGAAAGCCTTTGTAG-TAGTTCTGAGGAAGCCCTTGTGGTTGT
1 TCTGTGAAAGCCTTTATAGCT-GTTCTGAGGAAGCCCTTGTGGATGT
53108105 TCTG
1 TCTG
53108109 ATATATGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 42 0.98
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.40
Consensus pattern (46 bp):
TCTGTGAAAGCCTTTATAGCTGTTCTGAGGAAGCCCTTGTGGATGT
Found at i:53110396 original size:50 final size:50
Alignment explanation
Indices: 53110341--53110455 Score: 194
Period size: 50 Copynumber: 2.3 Consensus size: 50
53110331 AGTGAAACTA
*
53110341 GCTACTGCACCTTGCCAGCAGAACTAGCCCTCCACCCTGATCCTTCGCGC
1 GCTACTGCACCTTGCCAGCAGAACTAGCCCGCCACCCTGATCCTTCGCGC
* * *
53110391 GCTACTGCACCTTGCCAGTAGAACTAGCCCGCCACCCTGATCCTTTGCGT
1 GCTACTGCACCTTGCCAGCAGAACTAGCCCGCCACCCTGATCCTTCGCGC
53110441 GCTACTGCACCTTGC
1 GCTACTGCACCTTGC
53110456 TCCTTTACCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.17, C:0.41, G:0.19, T:0.23
Consensus pattern (50 bp):
GCTACTGCACCTTGCCAGCAGAACTAGCCCGCCACCCTGATCCTTCGCGC
Found at i:53120429 original size:17 final size:18
Alignment explanation
Indices: 53120407--53120441 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
53120397 GGTTCATCCG
53120407 TGTGGCCCACAC-GCCTA
1 TGTGGCCCACACGGCCTA
*
53120424 TGTGGCCTACACGGCCTA
1 TGTGGCCCACACGGCCTA
53120442 ATAGGTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.17, C:0.37, G:0.26, T:0.20
Consensus pattern (18 bp):
TGTGGCCCACACGGCCTA
Found at i:53131531 original size:43 final size:43
Alignment explanation
Indices: 53131405--53131509 Score: 183
Period size: 43 Copynumber: 2.4 Consensus size: 43
53131395 GTCTTACATT
53131405 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
1 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
* * *
53131448 TAATCACATATCGATGCCCCTGTCCCAGACAGGGTCTTACTGG
1 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
53131491 TAATCACATATCGATGCCA
1 TAATCACATATCGATGCCA
53131510 ACGTATTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (43 bp):
TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
Found at i:53132149 original size:15 final size:15
Alignment explanation
Indices: 53132126--53132156 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53132116 TGAAAAATTC
53132126 CAATACAAAACATAT
1 CAATACAAAACATAT
*
53132141 CAATCCAAAACATAT
1 CAATACAAAACATAT
53132156 C
1 C
53132157 TTTCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:53132669 original size:14 final size:14
Alignment explanation
Indices: 53132652--53132678 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53132642 AAATCACGAA
53132652 AATTTCACACATAT
1 AATTTCACACATAT
53132666 AATTTCACACATA
1 AATTTCACACATA
53132679 ATAAAAATAA
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:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:53139971 original size:14 final size:14
Alignment explanation
Indices: 53139954--53139980 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53139944 AAATCACGAA
53139954 AATTTCACACATAT
1 AATTTCACACATAT
53139968 AATTTCACACATA
1 AATTTCACACATA
53139981 ATAAAAATAG
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:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:53140570 original size:19 final size:19
Alignment explanation
Indices: 53140546--53140582 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
53140536 GTTACATGCA
53140546 CACATGATTCCACTAATCT
1 CACATGATTCCACTAATCT
*
53140565 CACATGGTTCCACTAATC
1 CACATGATTCCACTAATC
53140583 AAACACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (19 bp):
CACATGATTCCACTAATCT
Found at i:53148219 original size:26 final size:26
Alignment explanation
Indices: 53148183--53148238 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
53148173 TCATGGAGTG
53148183 TCAACCAGTCCATACCCAAAATGACA
1 TCAACCAGTCCATACCCAAAATGACA
53148209 TCAACCAGTCCATACCCAAAATGACA
1 TCAACCAGTCCATACCCAAAATGACA
53148235 TCAA
1 TCAA
53148239 ACTCATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.34, G:0.07, T:0.16
Consensus pattern (26 bp):
TCAACCAGTCCATACCCAAAATGACA
Found at i:53150720 original size:74 final size:74
Alignment explanation
Indices: 53150599--53150749 Score: 275
Period size: 74 Copynumber: 2.0 Consensus size: 74
53150589 GGCTGTGTGT
* *
53150599 CACACACAGCCTAGACACAATCCCGTGTGTCTACCTGTGTGGACAATATAAGGCTCTCTACCAAG
1 CACACACAGCCTAGACACAAGCCCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
53150664 CTTTTTTGC
66 CTTTTTTGC
*
53150673 CACACACAGCCTAGACACAAGCTCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
1 CACACACAGCCTAGACACAAGCCCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
53150738 CTTTTTTGC
66 CTTTTTTGC
53150747 CAC
1 CAC
53150750 TCTGAAACAC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (74 bp):
CACACACAGCCTAGACACAAGCCCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
CTTTTTTGC
Found at i:53155149 original size:15 final size:15
Alignment explanation
Indices: 53155131--53155160 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53155121 ATTTTCATTT
53155131 TTAAAATTTAATTAC
1 TTAAAATTTAATTAC
*
53155146 TTAAAATTTGATTAC
1 TTAAAATTTAATTAC
53155161 AAATGAAAAT
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:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAAATTTAATTAC
Found at i:53156919 original size:20 final size:22
Alignment explanation
Indices: 53156894--53156937 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
53156884 TCGCATAAAC
53156894 AACATGT-A-GGGTTCGCATGT
1 AACATGTAAGGGGTTCGCATGT
53156914 AACATGTAAGGGGTTCGCATGT
1 AACATGTAAGGGGTTCGCATGT
53156936 AA
1 AA
53156938 TAATCATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 14 0.64
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (22 bp):
AACATGTAAGGGGTTCGCATGT
Found at i:53158606 original size:17 final size:17
Alignment explanation
Indices: 53158584--53158617 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
53158574 GCAAGCTTAA
53158584 ATAAATATAAAAAAATT
1 ATAAATATAAAAAAATT
* *
53158601 ATAAATTTATAAAAATT
1 ATAAATATAAAAAAATT
53158618 TATTTCACAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATATAAAAAAATT
Found at i:53159216 original size:77 final size:77
Alignment explanation
Indices: 53159110--53159270 Score: 322
Period size: 77 Copynumber: 2.1 Consensus size: 77
53159100 AAAAAAGTAT
53159110 AAAAAATTTTAAAAAAATAAGAAAAGAAATTTTTCTAAAATTATCAAACTTTTTATATTATGATT
1 AAAAAATTTTAAAAAAATAAGAAAAGAAATTTTTCTAAAATTATCAAACTTTTTATATTATGATT
53159175 TTGAAATTTAAA
66 TTGAAATTTAAA
53159187 AAAAAATTTTAAAAAAATAAGAAAAGAAATTTTTCTAAAATTATCAAACTTTTTATATTATGATT
1 AAAAAATTTTAAAAAAATAAGAAAAGAAATTTTTCTAAAATTATCAAACTTTTTATATTATGATT
53159252 TTGAAATTTAAA
66 TTGAAATTTAAA
53159264 AAAAAAT
1 AAAAAAT
53159271 AAAAAAATCA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 84 1.00
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (77 bp):
AAAAAATTTTAAAAAAATAAGAAAAGAAATTTTTCTAAAATTATCAAACTTTTTATATTATGATT
TTGAAATTTAAA
Found at i:53160020 original size:61 final size:60
Alignment explanation
Indices: 53159896--53160020 Score: 130
Period size: 61 Copynumber: 2.0 Consensus size: 60
53159886 TATTTTACTG
* * * *
53159896 TTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTTTTTTTTATTTTCTA
1 TTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATATTTCTTTTTTATATATTCTA
* *
53159957 TTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATTATCTATTTATTATATATT-TA
1 TTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATATT-TCT-TTT-TTATATATTCTA
53160018 TTA
1 TTA
53160021 TGTAAATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
59 15 0.28
60 6 0.11
61 26 0.48
62 7 0.13
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (60 bp):
TTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATATTTCTTTTTTATATATTCTA
Found at i:53160350 original size:18 final size:16
Alignment explanation
Indices: 53160306--53160352 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
53160296 TAGCACAATG
53160306 TTTATTACATTATTGTA
1 TTTATTA-ATTATTGTA
*
53160323 TTTATT-ATTATTGTTGT
1 TTTATTAATTATTG-T-A
53160340 TTTATTAATTATT
1 TTTATTAATTATT
53160353 TCTATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.27
16 1 0.04
17 12 0.46
18 6 0.23
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTATTAATTATTGTA
Found at i:53160360 original size:13 final size:12
Alignment explanation
Indices: 53160339--53160388 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
53160329 ATTATTGTTG
53160339 TTTTATTAATTA
1 TTTTATTAATTA
53160351 TTTCTATTAATTA
1 TTT-TATTAATTA
*
53160364 CTATTATT-ATTA
1 -TTTTATTAATTA
*
53160376 TTTTATTATTTA
1 TTTTATTAATTA
53160388 T
1 T
53160389 ATATGGTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 6 0.19
12 11 0.34
13 13 0.41
14 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTATTAATTA
Found at i:53160724 original size:126 final size:126
Alignment explanation
Indices: 53160489--53160730 Score: 430
Period size: 126 Copynumber: 1.9 Consensus size: 126
53160479 CATTGATCTT
* * **
53160489 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
53160554 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTAACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTAACCAGTTCA
53160615 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
* *
53160680 ACGTATTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCT
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCT
53160731 TAAGGCTAAA
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTAACCAGTTCA
Found at i:53162793 original size:140 final size:140
Alignment explanation
Indices: 53162527--53162806 Score: 546
Period size: 140 Copynumber: 2.0 Consensus size: 140
53162517 CTTGGCTGAG
53162527 ACTTTCAGATCTTTGAGTGCATGTCGGAGGGCAGGTGAAGGCAGATTTATTGGGTGTGCACAACT
1 ACTTTCAGATCTTTGAGTGCATGTCGGAGGGCAGGTGAAGGCAGATTTATTGGGTGTGCACAACT
53162592 CTTGTTAGTATGGTTTCATTGCCACTTTTGGAGGGTAGAAAAAGGATCTTACCGACCTTTTTTTG
66 CTTGTTAGTATGGTTTCATTGCCACTTTTGGAGGGTAGAAAAAGGATCTTACCGACCTTTTTTTG
53162657 GAGATTACTC
131 GAGATTACTC
53162667 ACTTTCAGATCTTTGAGTGCATGTCGGAGGGCAGGTGAAGGCAGATTTATTGGGTGTGCACAACT
1 ACTTTCAGATCTTTGAGTGCATGTCGGAGGGCAGGTGAAGGCAGATTTATTGGGTGTGCACAACT
53162732 CTTGTTAGTATGGTTTCATTGCCACTTTTGGA-GGTAG-AAAAGGATCTTACCGACCTTTTTTTG
66 CTTGTTAGTATGGTTTCATTGCCACTTTTGGAGGGTAGAAAAAGGATCTTACCGACCTTTTTTTG
53162795 GAGATTACTC
131 GAGATTACTC
53162805 AC
1 AC
53162807 CTTTGAAGGA
Statistics
Matches: 140, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
138 38 0.27
139 5 0.04
140 97 0.69
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (140 bp):
ACTTTCAGATCTTTGAGTGCATGTCGGAGGGCAGGTGAAGGCAGATTTATTGGGTGTGCACAACT
CTTGTTAGTATGGTTTCATTGCCACTTTTGGAGGGTAGAAAAAGGATCTTACCGACCTTTTTTTG
GAGATTACTC
Found at i:53172478 original size:45 final size:45
Alignment explanation
Indices: 53172157--53172680 Score: 195
Period size: 45 Copynumber: 11.6 Consensus size: 45
53172147 TATCATCAGC
* * *
53172157 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCCGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * *
53172202 CTTATCTTCACTAAGCAGGAGTGAAGCA-GATCAAATTTTGGC-GAGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-TATAGCAGA-T
* * ** ** *** * *
53172248 CTTATCTTCACTGAGTAGGAGTGAAGCAGATTTCAGCCACCAG-C
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * *
53172292 CTTATCTTCACGGAGCAGGAGTGGAGTAGGCTAAACATACCCGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * *
53172337 CTTTTCTTCACTGAGCAGGAGTGAAGCA-GATCAAATTGTGGC-GAGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-TATAGCAGA-T
* * * * *
53172383 CTTATCTCCA-TGTATC-GGCAATGGAGCAGATTCT-AATCAT--CAG-C
1 CTTATCTTCACTG-AGCAGG-AGTGGAGCAG--GCTAAAT-ATAGCAGAT
* *
53172427 CTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATAGCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * * * **
53172472 CTTATCTTCGCTGAGCAGGAGCGGAGCA-GATCGAATTTTGGTGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATATAGCAG-AT
* * ** *
53172518 CTTATC-TCCCTGTA-CTAACGA-TGGAGCAGATTCCAATCAT--CAGA-
1 CTTATCTTCACTG-AGC--AGGAGTGGAGCAGGCT-AAAT-ATAGCAGAT
* * *
53172562 CTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATATCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * * * *
53172607 CTTATCTCCGCTGAACAAGAGTGGAGCAGG-TCAGATACAGCGGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATATAGCAGAT
* *
53172652 CTTATCTTCGCTGAGCAGGAGCGGAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
53172681 ATCAAATTTT
Statistics
Matches: 346, Mismatches: 97, Indels: 72
0.67 0.19 0.14
Matches are distributed among these distances:
42 6 0.02
43 9 0.03
44 78 0.23
45 170 0.49
46 69 0.20
47 12 0.03
48 1 0.00
49 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
Found at i:53172620 original size:135 final size:133
Alignment explanation
Indices: 53172148--53172613 Score: 567
Period size: 135 Copynumber: 3.5 Consensus size: 133
53172138 AAAGATAGAT
* *
53172148 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCCGATCTTATCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * * *
53172213 TAAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTG-AGTAGGAGTGAAGCAG
66 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATC-TCCCTGTA-TACGA-TGGAGCAG
*
53172277 ATTTCA
128 ATTCCA
** * * * * * *
53172283 GCCACCAGCCTTATCTTCACGGAGCAGGAGTGGAGTAGGCTAAACATACCCGATCTTTTCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* *
53172348 TGAGCAGGAGTGAAGCAGATCAAATTGTGGCGAGTCTTATCTCCATGTAT-CGGCAATGGAGCAG
66 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCCTGTATAC-G--ATGGAGCAG
*
53172412 ATTCTA
128 ATTCCA
* * * *
53172418 ATCATCAGCCTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATAGCAGATCTTATCTTCGC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * * * *
53172483 TGAGCAGGAGCGGAGCAGATCGAATTTTGGTGAATCTTATCTCCCTGTACTAACGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCCTGTA-T-ACGATGGAGCAGA
53172548 TTCCA
129 TTCCA
* * * *
53172553 ATCATCAGACTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATATCAGATCTTATCT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCT
53172614 CCGCTGAACA
Statistics
Matches: 288, Mismatches: 36, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
134 6 0.02
135 278 0.97
136 2 0.01
137 1 0.00
138 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (133 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCCTGTATACGATGGAGCAGATT
CCA
Found at i:53172935 original size:29 final size:29
Alignment explanation
Indices: 53172902--53172965 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
53172892 CCAAATTAAA
*
53172902 CACCCCACTAAACCGA-CCATTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
53172931 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
53172960 CACCCC
1 CACCCC
53172966 CACACCCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.31, C:0.50, G:0.02, T:0.17
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:53172978 original size:37 final size:37
Alignment explanation
Indices: 53172931--53173005 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
53172921 TTAACTCCAT
53172931 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
* *
53172968 CACCCTACTAAACCATCCACTACCTCTATCGCCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
53173005 C
1 C
53173006 TACCTCCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.53, G:0.01, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:53173798 original size:21 final size:21
Alignment explanation
Indices: 53173755--53173807 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
53173745 AGCACAATGT
*
53173755 TTATTAC-ATTATTGTATTTA
1 TTATTACTATTATTGTATTAA
* *
53173775 TTATTACTATTGTTTTATTAA
1 TTATTACTATTATTGTATTAA
*
53173796 TTATTTCTATTA
1 TTATTACTATTA
53173808 ATTACTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (21 bp):
TTATTACTATTATTGTATTAA
Found at i:53174174 original size:126 final size:126
Alignment explanation
Indices: 53173949--53174181 Score: 430
Period size: 126 Copynumber: 1.8 Consensus size: 126
53173939 TCTCAAAATT
53173949 TTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGT
1 TTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGT
53174014 TTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAA
66 TTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAA
* * *
53174075 TTTCACAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTATTGGGT
1 TTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGT
*
53174140 TTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 TTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
53174182 AGGCTAAAAC
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 103 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGT
TTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAA
Found at i:53174672 original size:21 final size:21
Alignment explanation
Indices: 53174638--53174690 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
53174628 GACACACTTT
*
53174638 ATATCAAAGGGTTATAAAAATC
1 ATATCAAA-AGTTATAAAAATC
* * *
53174660 ATATTAAAAGTTATTAAAATT
1 ATATCAAAAGTTATAAAAATC
53174681 ATATCAAAAG
1 ATATCAAAAG
53174691 CTACCAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (21 bp):
ATATCAAAAGTTATAAAAATC
Found at i:53182163 original size:184 final size:184
Alignment explanation
Indices: 53181854--53182222 Score: 720
Period size: 184 Copynumber: 2.0 Consensus size: 184
53181844 TAAAATTCTT
*
53181854 ACTTTGTAGGAAAGTAAATCTCTCTTTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
1 ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
53181919 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
66 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
*
53181984 AACTTGTTGTATTTTTAGCCCCATCGGTGTCATCTATTTATAGGGGAGGAACTG
131 AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
53182038 ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
1 ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
53182103 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
66 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
53182168 AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
131 AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
53182222 A
1 A
53182223 AACCCTAGTT
Statistics
Matches: 183, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 183 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (184 bp):
ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
Found at i:53183000 original size:16 final size:17
Alignment explanation
Indices: 53182979--53183024 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
53182969 AATTGGGTTG
53182979 AGAAAATT-ATTTAATT
1 AGAAAATTAATTTAATT
53182995 AGAAAATTAATTT-ATT
1 AGAAAATTAATTTAATT
53183011 -G-AAATTAATTTAAT
1 AGAAAATTAATTTAAT
53183025 AAATAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.36
15 3 0.11
16 11 0.39
17 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (17 bp):
AGAAAATTAATTTAATT
Found at i:53193271 original size:33 final size:33
Alignment explanation
Indices: 53193232--53193299 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
53193222 GTATGTGTGA
** *
53193232 ATAAGGGTGGTGGATGGCTTGGTAAGTAGCCTT
1 ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
53193265 ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
1 ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
53193298 AT
1 AT
53193300 TATTGTCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.29
Consensus pattern (33 bp):
ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
Found at i:53196902 original size:90 final size:90
Alignment explanation
Indices: 53196742--53196906 Score: 215
Period size: 90 Copynumber: 1.8 Consensus size: 90
53196732 ATTTCAAAGC
** * * * * *
53196742 CATGTCCCAAACATGGTCTTACATGGGTTTACATATTGATGCCATATCCTAGATACGGTCTTATA
1 CATGTCCCAAACATGGTCTTACATGGGCCTACACATCGATGCCATATCCCAGACACGGTCTTACA
53196807 CGAAATCTCACGTCGGTGCCGATGT
66 CGAAATCTCACGTCGGTGCCGATGT
* * *
53196832 CATGTCCCAGACATGGTCTTACATGGGACCT-CACATCGATGCCATGTCCCAGACATGGTCTTAC
1 CATGTCCCAAACATGGTCTTACATGGG-CCTACACATCGATGCCATATCCCAGACACGGTCTTAC
*
53196896 ATGAAATCTCA
65 ACGAAATCTCA
53196907 TATCAATGTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
90 62 0.98
91 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (90 bp):
CATGTCCCAAACATGGTCTTACATGGGCCTACACATCGATGCCATATCCCAGACACGGTCTTACA
CGAAATCTCACGTCGGTGCCGATGT
Found at i:53196924 original size:42 final size:42
Alignment explanation
Indices: 53196836--53196950 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
53196826 CGATGTCATG
** * * * *
53196836 TCCCAGACATGGTCTTACATGGGACCTCACATCGATGCCATG
1 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
* *
53196878 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGTCGTA
1 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
* * *
53196920 TCCCAGATATGGTCTTGCATGAAATCACATA
1 TCCCAGACATGGTCTTACATGAAATCTCATA
53196951 CCGAGGCCGA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
Found at i:53197049 original size:48 final size:48
Alignment explanation
Indices: 53196968--53197088 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
53196958 CGACGCTATA
* * **
53196968 TCCCAGATATGGTCTTACACTTGC-ACACGTATCAATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTACAC-TATCAACACCGATGCCATG
*
53197016 TCCCAGACATGGTCTTACACTGGCTATCA-TATCAACACTGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTA-CACTATCAACACCGATGCCATG
*
53197064 TCCCAGACATGGTCTTACATTGGCT
1 TCCCAGACATGGTCTTACACTGGCT
53197089 CTTATTAATC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 62 0.95
49 1 0.02
50 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACACTGGCTACACTATCAACACCGATGCCATG
Found at i:53197872 original size:25 final size:25
Alignment explanation
Indices: 53197844--53197892 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
53197834 GACTAAAGTA
53197844 TACCCATTTCACATGCCAAGTTACT
1 TACCCATTTCACATGCCAAGTTACT
53197869 TACCCATTTCACATGCCAAGTTAC
1 TACCCATTTCACATGCCAAGTTAC
53197893 CATGAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.31
Consensus pattern (25 bp):
TACCCATTTCACATGCCAAGTTACT
Found at i:53205467 original size:29 final size:29
Alignment explanation
Indices: 53205432--53205505 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
53205422 GTTGTGAGAT
* *
53205432 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53205461 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53205490 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53205506 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53214694 original size:29 final size:29
Alignment explanation
Indices: 53214628--53214694 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
53214618 TAAAATGTCC
* *
53214628 AAATAGGGATTAAATTGTGAAATGTGTAA
1 AAATATGGATTAAATTGTGAAATATGTAA
*
53214657 AATTCATGG-TTAAATTGTGAAATAAATG-AA
1 AAAT-ATGGATTAAATTGTGAAAT--ATGTAA
53214687 AAATATGG
1 AAATATGG
53214695 GCTGCTAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
29 21 0.68
30 8 0.26
31 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.21, T:0.31
Consensus pattern (29 bp):
AAATATGGATTAAATTGTGAAATATGTAA
Found at i:53220033 original size:25 final size:26
Alignment explanation
Indices: 53220005--53220058 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
53219995 TGTGTTACAT
* *
53220005 ATTTTAATGCTTTAA-TGTTAT-ATGA
1 ATTTAAATGC-TTAATTGCTATCATGA
53220030 ATTTAAATGCTTAATTGCTATCATGA
1 ATTTAAATGCTTAATTGCTATCATGA
53220056 ATT
1 ATT
53220059 ATATGCCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.16
25 14 0.56
26 7 0.28
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTAAATGCTTAATTGCTATCATGA
Found at i:53224797 original size:27 final size:27
Alignment explanation
Indices: 53224767--53224822 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
53224757 CTAGTTATAG
*
53224767 CTATATTAAATGTTAAAGTGAGGTTTT
1 CTATATTAAATGTTAAAGCGAGGTTTT
53224794 CTATATTAAATGTTAAAGCGAGGTTTT
1 CTATATTAAATGTTAAAGCGAGGTTTT
53224821 CT
1 CT
53224823 TTGCGAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
CTATATTAAATGTTAAAGCGAGGTTTT
Found at i:53226677 original size:25 final size:26
Alignment explanation
Indices: 53226649--53226702 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
53226639 TGTGTTACAT
* *
53226649 ATTTTAATGCTTAAATGTTAT-ATGA
1 ATTTAAATGCTTAAATGCTATCATGA
*
53226674 ATTTAAATGCTTAATTGCTATCATGA
1 ATTTAAATGCTTAAATGCTATCATGA
53226700 ATT
1 ATT
53226703 ATATGCCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (26 bp):
ATTTAAATGCTTAAATGCTATCATGA
Found at i:53238003 original size:47 final size:47
Alignment explanation
Indices: 53237948--53238139 Score: 278
Period size: 47 Copynumber: 4.1 Consensus size: 47
53237938 TTAGGATTTT
* * *
53237948 AATGTGATGAATGTGAATATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
53237995 AATGTGATGAATGTGAACATGCATATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
53238042 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAGGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
53238089 GATGTGATGAATGTGAACATGTATATATGTGGA-AAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGT-GATAAGGCCGAATGGCC
53238136 AATG
1 AATG
53238140 CGAAATGTGT
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
47 130 0.98
48 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:53238175 original size:46 final size:46
Alignment explanation
Indices: 53238125--53238248 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 46
53238115 ATGTGGAAAG
53238125 GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGATAAA
1 GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGATAAA
* * * *
53238171 GCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGTGGTAAA
1 GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGATAAA
* * * *
53238217 GCCAAATGGCTAATGTGAGATATGTATGAGAT
1 GCCGAATGGCTAATGCGAAATGTGTATGAGAT
53238249 TGTATATATA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (46 bp):
GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGATAAA
Found at i:53241528 original size:39 final size:40
Alignment explanation
Indices: 53241427--53241528 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
53241417 TATTCGGATG
*
53241427 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
53241467 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CT
* *
53241507 ATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
53241529 TACTTGGTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
39 17 0.29
40 41 0.71
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
Found at i:53249324 original size:40 final size:40
Alignment explanation
Indices: 53249262--53249443 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
53249252 TATTCGGATG
53249262 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * * *
53249302 ATAACTGGGTTACGTCCTGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
53249342 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
53249382 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * *
53249422 ATATCC-GGCTAAATCCTGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
53249444 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 16 0.13
40 111 0.87
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:53249443 original size:39 final size:40
Alignment explanation
Indices: 53249262--53249410 Score: 253
Period size: 40 Copynumber: 3.7 Consensus size: 40
53249252 TATTCGGATG
*
53249262 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
* * * *
53249302 ATAACTGGGTTACGTCCTGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
53249342 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
53249382 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
53249411 AGCGAGTAGC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
Found at i:53252986 original size:17 final size:18
Alignment explanation
Indices: 53252954--53252987 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53252944 ATATCATACA
*
53252954 AAAATTTTGGAAACTTAG
1 AAAATTTTGCAAACTTAG
53252972 AAAATTTT-CAAACTTA
1 AAAATTTTGCAAACTTA
53252988 TAGAGGTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (18 bp):
AAAATTTTGCAAACTTAG
Found at i:53264356 original size:42 final size:41
Alignment explanation
Indices: 53264310--53264461 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 41
53264300 AGACTAAATC
* * *
53264310 TAAGACCATATCCAGGATATGGCATCAATATGAGACTACGTG
1 TAAGACCATAT-CAGGATATGGCATCGATATGAGATTACATG
* *
53264352 TAAGACCATATCTGGTATATGGCATCGATATGAGATTTCATG
1 TAAGACCATATCAGG-ATATGGCATCGATATGAGATTACATG
* * **
53264394 TAAGACCATAGCTAGGCTATTGGCATCGATACAAGATTACATG
1 TAAGACCATATC-AGGATA-TGGCATCGATATGAGATTACATG
*
53264437 TAAGACCATATCTGAGATATGGCAT
1 TAAGACCATATCAG-GATATGGCAT
53264462 TGGTAGGGTA
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.03
42 53 0.58
43 36 0.39
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (41 bp):
TAAGACCATATCAGGATATGGCATCGATATGAGATTACATG
Found at i:53266476 original size:40 final size:40
Alignment explanation
Indices: 53266416--53266637 Score: 365
Period size: 40 Copynumber: 5.6 Consensus size: 40
53266406 CAAGCTCAAT
* * * * *
53266416 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
53266456 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
53266496 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
53266536 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
53266576 TGCCTTC-GGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
53266615 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
53266638 GTATTCAAAT
Statistics
Matches: 170, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 37 0.22
40 133 0.78
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:53274922 original size:39 final size:39
Alignment explanation
Indices: 53274795--53275010 Score: 350
Period size: 39 Copynumber: 5.6 Consensus size: 39
53274785 CAAGCTCAAT
* * * *
53274795 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACT-GCACAAA
53274835 TGCCTTCGGGTCTTAGCCCGGATATA-CAACTG--C-AA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAA
53274870 TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAA
53274909 TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACT-GCACAAA
53274949 TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAA
53274988 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
53275011 GTATTCAAAT
Statistics
Matches: 169, Mismatches: 2, Indels: 11
0.93 0.01 0.06
Matches are distributed among these distances:
35 28 0.17
36 7 0.04
38 2 0.01
39 69 0.41
40 63 0.37
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAA
Found at i:53274974 original size:79 final size:74
Alignment explanation
Indices: 53274795--53275010 Score: 342
Period size: 79 Copynumber: 2.8 Consensus size: 74
53274785 CAAGCTCAAT
* * * *
53274795 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACT-GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
53274860 ACAACTGCAA
65 ACAACTGCAA
53274870 TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
53274935 TCAACTCGCACAAA
66 -CAACT-G--C-AA
53274949 TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAATGCCTTCGGGTCTTAGCCCGGAT
53275011 GTATTCAAAT
Statistics
Matches: 132, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
74 32 0.24
75 34 0.26
76 1 0.01
78 1 0.01
79 64 0.48
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (74 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
CAACTGCAA
Found at i:53283081 original size:41 final size:38
Alignment explanation
Indices: 53283036--53283204 Score: 200
Period size: 38 Copynumber: 4.3 Consensus size: 38
53283026 CCTTTTGGGT
*
53283036 CTTAGCCCGGATATATCAACTTGGCCCAATTTGCCTTCGGG
1 CTTAGCCCGGATATATCAACTT-G-CCAA-ATGCCTTCGGG
53283077 CTTAGCCCGGATATATCAACTTGCACAAATGCCTTCGGTG
1 CTTAGCCCGGATATATCAACTTGC-CAAATGCCTTCGG-G
* * *
53283117 CTTTAGCCC-TATATATCAACTCG-CAATTGCCTTCGGG
1 C-TTAGCCCGGATATATCAACTTGCCAAATGCCTTCGGG
*
53283154 TCTTTAGCCC-GATATATCAACTTGCAAAATGCCTTCGGG
1 -C-TTAGCCCGGATATATCAACTTGCCAAATGCCTTCGGG
53283193 CTTAGCCCGGAT
1 CTTAGCCCGGAT
53283205 TATTCAATGC
Statistics
Matches: 114, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
37 8 0.07
38 37 0.32
39 22 0.19
40 18 0.16
41 29 0.25
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (38 bp):
CTTAGCCCGGATATATCAACTTGCCAAATGCCTTCGGG
Found at i:53283148 original size:38 final size:36
Alignment explanation
Indices: 53282985--53283201 Score: 166
Period size: 38 Copynumber: 5.5 Consensus size: 36
53282975 ACAACTCAAT
* * *
53282985 TGCCTTCGGGTCTTAACCCGGTAT-GCAACTCGCACGAA
1 TGCCTTCGGG-CTTAGCCCGATATATCAACTCGCA--AA
* * *
53283023 TAGCCTTTTGGGTCTTAGCCCGGATATATCAACTTGGCCCAATT
1 T-GCC-TTCGGG-CTTAGCCC-GATATATCAAC-T--CGCAA-A
*
53283067 TGCCTTCGGGCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGCTTAGCCC-GATATATCAAC-T-CGCAAA
* *
53283106 TGCCTTCGGTGCTTTAGCCCTATATATCAACTCGCAAT
1 TGCCTTCGG-GC-TTAGCCCGATATATCAACTCGCAAA
*
53283144 TGCCTTCGGGTCTTTAGCCCGATATATCAACTTGCAAAA
1 TGCCTTCGGG-C-TTAGCCCGATATATCAACTCGC-AAA
53283183 TGCCTTCGGGCTTAGCCCG
1 TGCCTTCGGGCTTAGCCCG
53283202 GATTATTCAA
Statistics
Matches: 152, Mismatches: 15, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
37 9 0.06
38 37 0.24
39 25 0.16
40 30 0.20
41 33 0.22
42 9 0.06
43 5 0.03
44 1 0.01
45 3 0.02
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (36 bp):
TGCCTTCGGGCTTAGCCCGATATATCAACTCGCAAA
Found at i:53290362 original size:40 final size:40
Alignment explanation
Indices: 53290230--53290449 Score: 347
Period size: 40 Copynumber: 5.6 Consensus size: 40
53290220 CAAGCTCAAT
* * * * *
53290230 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
*
53290270 TGCCTT--GGTCTTAGCCCGGATATATCAACTTGC-CAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
53290307 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
* *
53290347 TGCCTTCGGGTCTTAGCCCGTATATATCAACTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
53290387 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
53290427 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
53290450 GTATTCAATG
Statistics
Matches: 166, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
37 8 0.05
38 23 0.14
39 27 0.16
40 108 0.65
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCACAAA
Found at i:53297495 original size:40 final size:40
Alignment explanation
Indices: 53297447--53297594 Score: 269
Period size: 40 Copynumber: 3.7 Consensus size: 40
53297437 ACAAACACAT
* * *
53297447 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
53297487 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
53297527 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
53297567 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
53297595 TCCAATGCTC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:53305027 original size:30 final size:30
Alignment explanation
Indices: 53304993--53305051 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
53304983 CACTATGAAT
53304993 ATGTTTCTTGGATTATTATGTAATTGTCAA
1 ATGTTTCTTGGATTATTATGTAATTGTCAA
53305023 ATGTTTCTTGGATTATTATGTAATTGTCA
1 ATGTTTCTTGGATTATTATGTAATTGTCA
53305052 CAACATTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.17, T:0.51
Consensus pattern (30 bp):
ATGTTTCTTGGATTATTATGTAATTGTCAA
Found at i:53310620 original size:14 final size:14
Alignment explanation
Indices: 53310601--53310629 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
53310591 ATAGAATCAT
53310601 TCAATCTAGAAAAA
1 TCAATCTAGAAAAA
53310615 TCAATCTAGAAAAA
1 TCAATCTAGAAAAA
53310629 T
1 T
53310630 AAAGGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (14 bp):
TCAATCTAGAAAAA
Found at i:53313930 original size:28 final size:28
Alignment explanation
Indices: 53313885--53313974 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
53313875 TATATACGTG
53313885 CATATAGCCCACTT-GGCCCAATCTCATT
1 CATATAGCCCA-TTAGGCCCAATCTCATT
*
53313913 CATATGGCCCATTAGGCCCAAT-TCATATT
1 CATATAGCCCATTAGGCCCAATCTC--ATT
53313942 CATATAGCCCATTAGGCCCAATCTCATT
1 CATATAGCCCATTAGGCCCAATCTCATT
53313970 CATAT
1 CATAT
53313975 GTGCATATGA
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
27 4 0.07
28 26 0.46
29 24 0.43
30 2 0.04
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (28 bp):
CATATAGCCCATTAGGCCCAATCTCATT
Found at i:53317519 original size:16 final size:16
Alignment explanation
Indices: 53317498--53317556 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
53317488 GTAGATCGGT
53317498 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
*
53317514 AAAAGCTGAAATACCG
1 AAAAGCTGAAATGCCG
*
53317530 AAAAGCTGAAATGCTG
1 AAAAGCTGAAATGCCG
*
53317546 AAAAGTTGAAA
1 AAAAGCTGAAA
53317557 GTTTGGATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.15
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:53317524 original size:8 final size:8
Alignment explanation
Indices: 53317498--53317556 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
53317488 GTAGATCGGT
53317498 AAAAGCTG
1 AAAAGCTG
* *
53317506 AAATGCCG
1 AAAAGCTG
53317514 AAAAGCTG
1 AAAAGCTG
*
53317522 AAATA-CCG
1 AAA-AGCTG
53317530 AAAAGCTG
1 AAAAGCTG
*
53317538 AAATGCTG
1 AAAAGCTG
*
53317546 AAAAGTTG
1 AAAAGCTG
53317554 AAA
1 AAA
53317557 GTTTGGATAC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
7 1 0.03
8 38 0.95
9 1 0.03
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.15
Consensus pattern (8 bp):
AAAAGCTG
Found at i:53317677 original size:19 final size:19
Alignment explanation
Indices: 53317653--53317689 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
53317643 ACTTTGGTTG
53317653 TGAATAGGCCAAATGGGCA
1 TGAATAGGCCAAATGGGCA
*
53317672 TGAATAGGCTAAATGGGC
1 TGAATAGGCCAAATGGGC
53317690 CCGAGGGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (19 bp):
TGAATAGGCCAAATGGGCA
Found at i:53317800 original size:28 final size:30
Alignment explanation
Indices: 53317768--53317884 Score: 115
Period size: 28 Copynumber: 4.1 Consensus size: 30
53317758 GTGAGCATGA
*
53317768 ATAT-AATGTGATTTGGG-CTGGATGGGCC
1 ATATAAATGTGAATTGGGCCTGGATGGGCC
*
53317796 ATAT-AAT-TGAGATTGGGCCT-AATGGGCC
1 ATATAAATGTGA-ATTGGGCCTGGATGGGCC
* *
53317824 ATATGAACGTGAATTGGGCC-GGATGGGCC
1 ATATAAATGTGAATTGGGCCTGGATGGGCC
* *
53317853 ATATAAATGAG-ATTGGGCCTAG-TGGGCC
1 ATATAAATGTGAATTGGGCCTGGATGGGCC
53317881 ATAT
1 ATAT
53317885 GCCTGTATGT
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.04
28 41 0.55
29 28 0.37
30 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.27
Consensus pattern (30 bp):
ATATAAATGTGAATTGGGCCTGGATGGGCC
Found at i:53317868 original size:57 final size:57
Alignment explanation
Indices: 53317775--53317885 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
53317765 TGAATATAAT
* * *
53317775 GTGATTTGGGCTGGATGGGCCATATAATTGAGATTGGGCCTAATGGGCCATATGAAC
1 GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAAC
*
53317832 GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAGTGGGCCATATG
1 GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATG
53317886 CCTGTATGTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.26
Consensus pattern (57 bp):
GTGAATTGGGCCGGATGGGCCATATAAATGAGATTGGGCCTAATGGGCCATATGAAC
Found at i:53321703 original size:40 final size:40
Alignment explanation
Indices: 53321648--53321875 Score: 420
Period size: 40 Copynumber: 5.7 Consensus size: 40
53321638 GAGCATTGGA
53321648 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
53321688 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
53321728 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
53321768 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
53321808 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
53321848 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
53321876 ATGTGTTTGC
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:53326052 original size:19 final size:19
Alignment explanation
Indices: 53326028--53326064 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
53326018 CTTGGGTTGT
*
53326028 GAATAGGCCAAATGGGCCG
1 GAATAGGCAAAATGGGCCG
53326047 GAATAGGCAAAATGGGCC
1 GAATAGGCAAAATGGGCC
53326065 CGAGGGGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.35, T:0.11
Consensus pattern (19 bp):
GAATAGGCAAAATGGGCCG
Found at i:53326223 original size:29 final size:29
Alignment explanation
Indices: 53326154--53326288 Score: 172
Period size: 29 Copynumber: 4.7 Consensus size: 29
53326144 ATAATTTGAT
*
53326154 TTGGGCCGGATGGGCCATAT-AAATGAGA
1 TTGGGCCTGATGGGCCATATGAAATGAGA
*
53326182 TTGGGCCTAATGGGCCATATGAATATGA-A
1 TTGGGCCTGATGGGCCATATGAA-ATGAGA
*
53326211 TTGGGCCTGATGGGCCATATGAACGTGA-A
1 TTGGGCCTGATGGGCCATATGAA-ATGAGA
*
53326240 TTGGGCCGGATGGGCCATAT-AAATGAGA
1 TTGGGCCTGATGGGCCATATGAAATGAGA
53326268 TTGGGCCT-AGTGGGCCATATG
1 TTGGGCCTGA-TGGGCCATATG
53326289 CATGTATGTA
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
27 4 0.04
28 38 0.40
29 48 0.51
30 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAAATGAGA
Found at i:53326271 original size:57 final size:58
Alignment explanation
Indices: 53326154--53326288 Score: 172
Period size: 57 Copynumber: 2.4 Consensus size: 58
53326144 ATAATTTGAT
* *
53326154 TTGGGCCGGATGGGCCATAT-AAATGAGATTGGGCCTAATGGGCCATATGAATATGAA
1 TTGGGCCTGATGGGCCATATGAAATGAGATTGGGCCGAATGGGCCATATGAATATGAA
* *
53326211 TTGGGCCTGATGGGCCATATGAACGTGA-ATTGGGCCGGATGGGCCATAT-AA-ATGAGA
1 TTGGGCCTGATGGGCCATATGAA-ATGAGATTGGGCCGAATGGGCCATATGAATATGA-A
53326268 TTGGGCCT-AGTGGGCCATATG
1 TTGGGCCTGA-TGGGCCATATG
53326289 CATGTATGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
56 5 0.07
57 41 0.59
58 21 0.30
59 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (58 bp):
TTGGGCCTGATGGGCCATATGAAATGAGATTGGGCCGAATGGGCCATATGAATATGAA
Found at i:53331532 original size:46 final size:45
Alignment explanation
Indices: 53331482--53331654 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 45
53331472 TCGGGCATCC
53331482 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCT
*** * * *
53331528 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCT
* *
53331575 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCT
* *
53331621 GAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53331655 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.61
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCT
Found at i:53331634 original size:93 final size:93
Alignment explanation
Indices: 53331475--53331646 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
53331465 AGGATGTTCG
* *
53331475 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
53331540 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
53331568 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
53331633 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
53331647 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:53337338 original size:24 final size:24
Alignment explanation
Indices: 53337288--53337341 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
53337278 AATCGAATTT
*
53337288 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
53337312 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
53337336 GCACAC
1 GCACAC
53337342 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:53344218 original size:40 final size:40
Alignment explanation
Indices: 53344143--53344366 Score: 226
Period size: 40 Copynumber: 5.7 Consensus size: 40
53344133 GCTCCTCGTT
* * * *
53344143 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
53344183 C-AATGCCTTCGGGACATTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGAC-TTAACCCGGATTTAGTAACTCGCA
*
53344223 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
53344262 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
53344302 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
53344343 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53344367 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 66 0.42
40 71 0.46
41 19 0.12
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53344327 original size:79 final size:80
Alignment explanation
Indices: 53344143--53344366 Score: 235
Period size: 79 Copynumber: 2.8 Consensus size: 80
53344133 GCTCCTCGTT
* * *
53344143 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATTAACCCGG
53344208 ATTTAATAACTCGCA
66 ATTTAATAACTCGCA
* * * *
53344223 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGGCCTTCGGGGC-TTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATTAACCCG
* *
53344286 GAATTT-GTATCTCGCA
65 G-ATTTAATAACTCGCA
* * * * * *
53344302 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAA-GCCTTCGGGAC-TTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGACATTAACCC
53344364 GGA
64 GGA
53344367 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
78 4 0.03
79 65 0.54
80 49 0.40
81 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATTAACCCGG
ATTTAATAACTCGCA
Found at i:53351995 original size:40 final size:40
Alignment explanation
Indices: 53351895--53352119 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
53351885 GCTCCTCGTT
* * * *
53351895 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
53351935 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
53351974 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
53352014 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
53352054 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
53352095 CGAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53352120 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 104 0.66
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53356018 original size:24 final size:24
Alignment explanation
Indices: 53355968--53356021 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
53355958 AATCGAATTT
*
53355968 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
53355992 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
53356016 GCACAC
1 GCACAC
53356022 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:53362812 original size:32 final size:31
Alignment explanation
Indices: 53362752--53362813 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
53362742 GTAGTGAAAC
* *
53362752 AAAAAAATGGGAGTAAATAGAAGAAAATTCT
1 AAAAAAATGGGAGTAAACAAAAGAAAATTCT
*
53362783 AAAAAAGATGGGAGTAAACAAAAGCAAATTC
1 AAAAAA-ATGGGAGTAAACAAAAGAAAATTC
53362814 ATCTTGCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.58, C:0.06, G:0.19, T:0.16
Consensus pattern (31 bp):
AAAAAAATGGGAGTAAACAAAAGAAAATTCT
Found at i:53363473 original size:21 final size:20
Alignment explanation
Indices: 53363444--53363483 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
53363434 CATGTATTTT
53363444 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
53363465 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
53363484 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:53363491 original size:20 final size:21
Alignment explanation
Indices: 53363449--53363491 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
53363439 ATTTTAATGA
*
53363449 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
53363470 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
53363490 TT
1 TT
53363492 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:53380331 original size:43 final size:42
Alignment explanation
Indices: 53380246--53380367 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
53380236 AGGGTTACTA
* * * *
53380246 AGATTATGTGTAAGACCATATTTAGGATATGGCATCGATACG
1 AGATTACGTGTAAGACCATATCTGGGATATGGCATTGATACG
* *
53380288 AGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATTGATACG
1 AGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATTGATACG
*
53380331 AGATTACATGTAAGACCATATCTGGGATATGGCATTG
1 AGATTACGTGTAAGACCATATCTGGGATATGGCATTG
53380368 TATGGTATTG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 31 0.46
43 37 0.54
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTGGGATATGGCATTGATACG
Found at i:53385950 original size:20 final size:21
Alignment explanation
Indices: 53385909--53385950 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
53385899 GTTTAATGAC
*
53385909 TGATGATAGATTATGAATGTT
1 TGATGATAGATTATGAAAGTT
53385930 TGATGATAG-TTAT-ACAAGTT
1 TGATGATAGATTATGA-AAGTT
53385950 T
1 T
53385951 TGTTAAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 1 0.05
20 9 0.47
21 9 0.47
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.43
Consensus pattern (21 bp):
TGATGATAGATTATGAAAGTT
Found at i:53403890 original size:40 final size:40
Alignment explanation
Indices: 53403823--53403913 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
53403813 TATGTTTGGT
* * *
53403823 ACTTAGTGTGCGTATAGAGATAGCTTCGGCTATATAAAGC
1 ACTTAGTGTGCGAATAGAAATACCTTCGGCTATATAAAGC
* * **
53403863 ACTTAGTTTGCGAATCGAAATACCTTCGGCTATATATGGC
1 ACTTAGTGTGCGAATAGAAATACCTTCGGCTATATAAAGC
53403903 ACTTAGTGTGC
1 ACTTAGTGTGC
53403914 TAGACCTAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (40 bp):
ACTTAGTGTGCGAATAGAAATACCTTCGGCTATATAAAGC
Found at i:53403978 original size:41 final size:41
Alignment explanation
Indices: 53403842--53403971 Score: 115
Period size: 41 Copynumber: 3.2 Consensus size: 41
53403832 GCGTATAGAG
* * * * *
53403842 ATAGCTTCGGCTAT-ATAAAGCACTTAGTTTGCGA-ATCGAA
1 ATAGCTTCGTCTATGA-AAGGCACTTAGTGTGCGAGACCTAA
* * * * *
53403882 ATACCTTCGGCTAT-ATATGGCACTTAGTGTGCTAGACCTAG
1 ATAGCTTCGTCTATGA-AAGGCACTTAGTGTGCGAGACCTAA
53403923 ATAGCTTCGTCTATGAAAGGCACTTAGTGTGCGAGA-CTATA
1 ATAGCTTCGTCTATGAAAGGCACTTAGTGTGCGAGACCTA-A
53403964 ATAGCTTC
1 ATAGCTTC
53403972 AGCTATGCTT
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
40 32 0.43
41 41 0.55
42 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (41 bp):
ATAGCTTCGTCTATGAAAGGCACTTAGTGTGCGAGACCTAA
Found at i:53410008 original size:44 final size:44
Alignment explanation
Indices: 53409867--53410036 Score: 161
Period size: 44 Copynumber: 3.9 Consensus size: 44
53409857 TCATACAACA
* * *
53409867 CCAACGTCCTAAATATGGTCTTACA-TGT-AATCACATATCGATT
1 CCAACGTCCTAGACATGGTCTTACACT-TAAATCACATATCGATG
* * * * * *
53409910 CC-ACTGTCCCAGACAGGGTCTTACAC-GAACTTATATA-CGATG
1 CCAAC-GTCCTAGACATGGTCTTACACTTAAATCACATATCGATG
* * *
53409952 CCGATGTCCTAGACATGGTCTTACACTTAAATCACAAATCGATG
1 CCAACGTCCTAGACATGGTCTTACACTTAAATCACATATCGATG
* *
53409996 CCAACGTCCTAGACGTGGTCTTACACATAAATCACATATCG
1 CCAACGTCCTAGACATGGTCTTACACTTAAATCACATATCG
53410037 GAACCCTATG
Statistics
Matches: 99, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
42 27 0.27
43 31 0.31
44 41 0.41
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (44 bp):
CCAACGTCCTAGACATGGTCTTACACTTAAATCACATATCGATG
Found at i:53412078 original size:46 final size:46
Alignment explanation
Indices: 53412028--53412203 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
53412018 TGGTTGAGCA
53412028 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
53412074 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
53412119 CATCCGAACTCGTTGAGTTGTGTCCGAGTTTACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53412167 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53412204 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53412184 original size:93 final size:93
Alignment explanation
Indices: 53412025--53412196 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
53412015 GGATGGTTGA
* *
53412025 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
53412090 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
53412118 GCATCCGAACTCGTTGAGTTGTGTCCGAGTTTACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53412183 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53412197 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53415221 original size:34 final size:34
Alignment explanation
Indices: 53415183--53415248 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
53415173 GTATTAGTTA
* * * * *
53415183 GGGTCGTAGTCCATTACAGTATCAGTATCAGTGT
1 GGGTCGTAGCCCAATACACTAACAGTAACAGTGT
*
53415217 GGGTCTTAGCCCAATACACTAACAGTAACAGT
1 GGGTCGTAGCCCAATACACTAACAGTAACAGT
53415249 AATACAATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (34 bp):
GGGTCGTAGCCCAATACACTAACAGTAACAGTGT
Found at i:53421382 original size:40 final size:38
Alignment explanation
Indices: 53421299--53421515 Score: 223
Period size: 40 Copynumber: 5.7 Consensus size: 38
53421289 TTGAATGATG
* * * *
53421299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAA-T-ACTAAA
53421339 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGA-ATACTAAA
53421379 TCCGGACTAA-TCCCGAAGGCA-TTGTGCGAATACT-AA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAATACTAAA
*
53421415 TCCGG-C-AAGTCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCGAAGGCATTTGTGCGA-ATACTAAA
**
53421452 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATACTATAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAATACTA-AA
* *
53421492 -CCGGGCTATGTCCGAAGGCATTTG
1 TCCGGACTAAGTCCGAAGGCATTTG
53421516 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 9, Indels: 26
0.82 0.05 0.14
Matches are distributed among these distances:
34 11 0.07
35 10 0.06
36 11 0.07
37 12 0.08
38 22 0.14
39 27 0.17
40 52 0.33
41 10 0.06
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (38 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAATACTAAA
Found at i:53421434 original size:73 final size:76
Alignment explanation
Indices: 53421299--53421515 Score: 287
Period size: 73 Copynumber: 2.8 Consensus size: 76
53421289 TTGAATGATG
* * *
53421299 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAA-T-ACTATATCCGG-CTAAG-TCCGAAGGCATTT
53421364 GTGCGAGATACTAAA
62 GTGCGAGATACTAAA
*
53421379 TCCGGACTAA-TCCCGAAGGCATTGTGCGAATACTA-ATCCGGC-AAGTCCGAAGGCATTTGTGC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAATACTATATCCGGCTAAGTCCGAAGGCATTTGTGC
*
53421441 GAGTTACTAAA
66 GAGATACTAAA
* * *
53421452 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATACTATAACCGGGCTATGTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCA-TTGTGCGAATACTATATCC-GGCTAAGTCCGAAGGCATTTG
53421516 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 9, Indels: 12
0.85 0.06 0.08
Matches are distributed among these distances:
73 35 0.28
74 14 0.11
75 15 0.12
76 9 0.07
77 6 0.05
78 17 0.14
79 18 0.15
80 9 0.07
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (76 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAATACTATATCCGGCTAAGTCCGAAGGCATTTGTGC
GAGATACTAAA
Found at i:53427466 original size:40 final size:40
Alignment explanation
Indices: 53427429--53427650 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
53427419 GCTACTCGTT
* *
53427429 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
53427469 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
53427509 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
53427549 CAAATGCCTTC-GGATCTTAGTCCGGA-TTAGT-ACTCG--
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
53427585 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
53427626 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53427651 CATCATTCAA
Statistics
Matches: 166, Mismatches: 8, Indels: 16
0.87 0.04 0.08
Matches are distributed among these distances:
36 26 0.16
37 3 0.02
38 7 0.04
39 10 0.06
40 111 0.67
41 9 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Done.