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 179 of 349
Found at i:57928263 original size:39 final size:39
Alignment explanation
Indices: 57928190--57928446 Score: 249
Period size: 38 Copynumber: 6.6 Consensus size: 39
57928180 GCTCCTCGTT
* * * *
57928190 CAAAGCCTTCGGGACATAGCCC-GTTTTAGTAACTCACA
1 CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* *
57928228 CAAATGCCTTC-GGACATAGCCCGGATTTAACAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * *
57928267 C-ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGTA
1 CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* *
57928305 CGAAGCCTTCGGGACTTAACCC-GATTTAATAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * *
57928343 CGAATGCCTTCGGGACTTAACCCGG-TTTAA-ATCTCGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
* * * * *
57928381 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCA
57928422 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
57928447 CAGCATTCAA
Statistics
Matches: 184, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
37 11 0.06
38 79 0.43
39 65 0.35
40 18 0.10
41 11 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCA
Found at i:57928430 original size:78 final size:78
Alignment explanation
Indices: 57928191--57928446 Score: 204
Period size: 78 Copynumber: 3.3 Consensus size: 78
57928181 CTCCTCGTTC
* * * * * * *
57928191 AAAGCCTTCGGGACATAGCCC-GTTTTAGTAACTCACACAAATGCCTTC-GGACATAGCCCGGAT
1 AAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAA-GCCTTCGGGACTTAACCC-GAT
* * *
57928254 TTAACAACTCGCAC-
64 ATAATAACTAGCACG
* * * *
57928268 -ATGCCTTCGGGACTTAACCCGGATTTAATAACTCGTACGAAGCCTTCGGGACTTAACCCGATTT
1 AAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGCCTTCGGGACTTAACCCGATAT
*
57928332 AATAACTCGCACG
66 AATAACTAGCACG
* * * *
57928345 AATGCCTTCGGGACTTAACCCGG-TTTAA-ATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAA-GCCTTCGGGA-CTTA-ACCCGA
* *
57928407 TATATTCACTTAGCAC-
63 TATAATAAC-TAGCACG
*
57928423 AAAGCCTTCGGGACTTAGCCCGGA
1 AAAGCCTTCGGGACTTAACCCGGA
57928447 CAGCATTCAA
Statistics
Matches: 148, Mismatches: 22, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
76 51 0.34
77 39 0.26
78 53 0.36
79 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (78 bp):
AAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGCCTTCGGGACTTAACCCGATAT
AATAACTAGCACG
Found at i:57928455 original size:41 final size:41
Alignment explanation
Indices: 57928378--57928455 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57928368 TTTAAATCTC
* * *
57928378 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57928419 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57928456 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:57936056 original size:40 final size:40
Alignment explanation
Indices: 57935974--57936194 Score: 200
Period size: 40 Copynumber: 5.5 Consensus size: 40
57935964 CTCAAGAAAT
*
57935974 CTTCGGGAT-TTAG-CCGGATATAA-CTACTTGCACAAA-GC
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* ** *
57936012 CTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* *
57936052 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * * * *
57936092 CTTCGGGTCTTAGCCCGAATAT-AGCAATTTGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* ** * * *
57936132 CTTCGGATCTTAGTTCGGTTATAGTCAGCTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAATCA-CTAGCACAAATGC
*
57936173 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
57936195 CATTCGAATA
Statistics
Matches: 142, Mismatches: 34, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.08
39 18 0.13
40 85 0.60
41 27 0.19
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:57936106 original size:80 final size:79
Alignment explanation
Indices: 57935974--57936194 Score: 227
Period size: 80 Copynumber: 2.8 Consensus size: 79
57935964 CTCAAGAAAT
* * * *
57935974 CTTCGGGATTTAGCCGGATATAA-CTA-CTTGCACAAAGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCGGATATAATC-AGCTAGCACAAAGCCTTCGGGTCTTAGCCCGGATATAG-
*
57936037 C-ACTAGCATAAATGC
64 CAACTAGCACAAATGC
*
57936052 CTTCGGGACTTAGCCCGGATATAATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGAATATAG
1 CTTCGGGACTTAG-CCGGATATAATCAGCTAGCACAAA-GCCTTCGGGTCTTAGCCCGGATATAG
* * *
57936116 CAATTTGCACGAATGC
64 CAACTAGCACAAATGC
* * * *
57936132 CTTC-GGATCTTAGTTCGGTTATAGTCAGCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCAGCTAGCAC-AAAGCCTTCGGGTCTTAGCCCGGATAT
57936195 CATTCGAATA
Statistics
Matches: 120, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 12 0.10
79 23 0.19
80 52 0.43
81 30 0.25
82 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCAGCTAGCACAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:57939944 original size:43 final size:43
Alignment explanation
Indices: 57939888--57940044 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
57939878 AACATATACA
57939888 ATGCCAACT-TCCCAGACATGGTCTTACATGTAATCAAACATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACATGTAATCAAACA-CG
* * * *
57939931 ATGCC-ACTGTCCCAGACAGGGTCTTACATGAAATCAGATACG
1 ATGCCAACTGTCCCAGACATGGTCTTACATGTAATCAAACACG
* * ***
57939973 ATACCGA-TGTCCCAGACATGGTCTTACATGTAAAAT-AGAAGTTG
1 ATGCCAACTGTCCCAGACATGGTCTTACATGT--AATCA-AACACG
*
57940017 ATGCCAAC-ATCCCAGACATGGTCTTACA
1 ATGCCAACTGTCCCAGACATGGTCTTACA
57940045 CGAAATCACA
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 31 0.33
43 34 0.36
44 29 0.31
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACATGGTCTTACATGTAATCAAACACG
Found at i:57939996 original size:42 final size:43
Alignment explanation
Indices: 57939897--57940002 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 43
57939887 AATGCCAACT
* *
57939897 TCCCAGACATGGTCTTACATGTAATCAAACATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGAAATCAAACATCGATACCACTG
* * *
57939940 TCCCAGACAGGGTCTTACATGAAATCAGATA-CGATACCGA-TG
1 TCCCAGACATGGTCTTACATGAAATCAAACATCGATACC-ACTG
57939982 TCCCAGACATGGTCTTACATG
1 TCCCAGACATGGTCTTACATG
57940003 TAAAATAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGAAATCAAACATCGATACCACTG
Found at i:57954426 original size:25 final size:25
Alignment explanation
Indices: 57954398--57954453 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
57954388 GGTTTGGGGT
*
57954398 GTTACATTTAGTGGTATTAGAGCCA
1 GTTACATTTAGTGGTATCAGAGCCA
57954423 GTTACATTTAGTGGTATCAGAGCCA
1 GTTACATTTAGTGGTATCAGAGCCA
57954448 GTTACA
1 GTTACA
57954454 AAACTTGGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (25 bp):
GTTACATTTAGTGGTATCAGAGCCA
Found at i:57961585 original size:33 final size:33
Alignment explanation
Indices: 57961533--57961608 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
57961523 TATTGAATTG
* *
57961533 GGCTGAGGCCTGCACTGATATTGTTACTAAATA
1 GGCTAAGGCCTGCACTGATAATGTTACTAAATA
*
57961566 GGCTAAGGCCTGCATTGATAATGTTACTAAATA
1 GGCTAAGGCCTGCACTGATAATGTTACTAAATA
57961599 GGCTAAGGCC
1 GGCTAAGGCC
57961609 CTAACAGAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (33 bp):
GGCTAAGGCCTGCACTGATAATGTTACTAAATA
Found at i:57962966 original size:48 final size:47
Alignment explanation
Indices: 57962866--57962983 Score: 146
Period size: 48 Copynumber: 2.5 Consensus size: 47
57962856 GGGGTGTTAC
* * * * * * *
57962866 ATCATGGCCCAAAGCCAACTCATATATCTCACACTCGAAGTGCTAAT
1 ATCATGGCCCGAAGCCAAATCAAAAAGCTCACACCCGAAGTGCCAAT
*
57962913 ATCATGGCCCGAAGCCAAATCAAAGAAGCTCGCACCCGAAGTGCCAAT
1 ATCATGGCCCGAAGCCAAATCAAA-AAGCTCACACCCGAAGTGCCAAT
*
57962961 ATCATGGCCCGAAGTCAAATCAA
1 ATCATGGCCCGAAGCCAAATCAA
57962984 TGAATCCCCT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 21 0.34
48 40 0.66
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.18
Consensus pattern (47 bp):
ATCATGGCCCGAAGCCAAATCAAAAAGCTCACACCCGAAGTGCCAAT
Found at i:57964368 original size:36 final size:37
Alignment explanation
Indices: 57964328--57964400 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
57964318 TTGAATAGGT
*
57964328 TAGGGTGCTATTTTCTTATAG-GTTCTTCAGGTTCCC
1 TAGGGTACTATTTTCTTATAGCGTTCTTCAGGTTCCC
* *
57964364 TAGGGTACTATTTTCTTATAGCTTTTTTCAGGTTCCC
1 TAGGGTACTATTTTCTTATAGCGTTCTTCAGGTTCCC
57964401 ATGTGGCTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 20 0.61
37 13 0.39
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (37 bp):
TAGGGTACTATTTTCTTATAGCGTTCTTCAGGTTCCC
Found at i:57967386 original size:23 final size:23
Alignment explanation
Indices: 57967360--57967406 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
57967350 ACAAGAAAAC
57967360 CAACTTCCCGTAACCAGAACTCA
1 CAACTTCCCGTAACCAGAACTCA
* *
57967383 CAACTTTCCGTACCCAGAACTCA
1 CAACTTCCCGTAACCAGAACTCA
57967406 C
1 C
57967407 TTTTGCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.40, G:0.09, T:0.19
Consensus pattern (23 bp):
CAACTTCCCGTAACCAGAACTCA
Found at i:57973454 original size:49 final size:50
Alignment explanation
Indices: 57973374--57973606 Score: 281
Period size: 49 Copynumber: 4.7 Consensus size: 50
57973364 ATCTATTGTG
* *
57973374 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
57973424 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * * *
57973474 CGATCACGTGTGTAGTACTAAGTGTAAGCTACTACGTGTATCAGATAGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
57973524 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACTTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
57973574 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
57973607 TGCGTACCAG
Statistics
Matches: 154, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
49 71 0.46
50 46 0.30
51 37 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:57973571 original size:101 final size:98
Alignment explanation
Indices: 57973377--57973620 Score: 319
Period size: 100 Copynumber: 2.5 Consensus size: 98
57973367 TATTGTGAGG
* * * *
57973377 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATAGTTGGTCACATGTGTAGTACT
57973442 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCCGATAA-TT-GA
* *
57973477 TCACGTGTGTAGTACTAAGTGTAAGCTACTACGTGTATCAGATAGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATAGTT-GGTCACATGTGTAGTAC
* * *
57973542 TAAGTGCAGGCTACTACT-TGTACCGGATAATTGG
65 TAAGTGCAGGCTACTA-TGCGTACCCGATAATTGA
* * * * *
57973576 TCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAG
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATAG
57973621 CTTTGTCTAC
Statistics
Matches: 127, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
99 40 0.31
100 45 0.35
101 41 0.32
102 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATAGTTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAATTGA
Found at i:57978670 original size:49 final size:50
Alignment explanation
Indices: 57978597--57978842 Score: 307
Period size: 49 Copynumber: 4.9 Consensus size: 50
57978587 ATCTATTGTG
* * *
57978597 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
57978647 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * *
57978697 CGATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATAGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
57978747 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACTTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
57978797 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
57978843 GGTTTGTCTA
Statistics
Matches: 168, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
49 81 0.48
50 48 0.29
51 39 0.23
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:57978788 original size:101 final size:98
Alignment explanation
Indices: 57978600--57978843 Score: 319
Period size: 100 Copynumber: 2.5 Consensus size: 98
57978590 TATTGTGAGG
* * *
57978600 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTGGTCACATGTGTAGTACT
*
57978665 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAA-TT-GA
* *
57978700 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATAGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTT-GGTCACATGTGTAGTAC
* *
57978765 TAAGTGCAGGCTACTACT-TGTACCAGATAATTGG
65 TAAGTGCAGGCTACTA-TGCGTACCAGATAATTGA
* * * * * *
57978799 TCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAG
57978844 GTTTGTCTAC
Statistics
Matches: 127, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
99 39 0.31
100 45 0.35
101 42 0.33
102 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAATTGA
Found at i:57982748 original size:53 final size:53
Alignment explanation
Indices: 57982663--57982807 Score: 150
Period size: 53 Copynumber: 2.7 Consensus size: 53
57982653 TTCCTTTTTA
* * *
57982663 AACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATAC-TTGCCTTATG
1 AACTCACCATTGTCATGTCTTGACATGGTCTTACATGGGAT-CTTTGCCTTATG
*
57982716 AACTCACCATTGTCATG-CATTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTCACCATTGTCATGTC-TTGACATGGTCTTACATGGGATCTTTGCCTTAT-G
** * * * *
57982770 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATG
1 -AACTCACCATTGTCATGTCTTGACATGGTCTTACATG
57982808 ATTTCCTTTC
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.03
53 44 0.58
54 1 0.01
55 28 0.37
56 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (53 bp):
AACTCACCATTGTCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATG
Found at i:57984594 original size:12 final size:13
Alignment explanation
Indices: 57984560--57984599 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
57984550 TTTTTTTAAG
57984560 TAGTTTATTGATA
1 TAGTTTATTGATA
57984573 TAGTCATTATT-ATA
1 TAGT--TTATTGATA
57984587 TAGTTTATTGATA
1 TAGTTTATTGATA
57984600 AAAATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.21
13 7 0.29
14 7 0.29
15 5 0.21
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.53
Consensus pattern (13 bp):
TAGTTTATTGATA
Found at i:57996599 original size:27 final size:27
Alignment explanation
Indices: 57996472--57996599 Score: 193
Period size: 27 Copynumber: 4.7 Consensus size: 27
57996462 TACCAAAGTA
* *
57996472 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
57996499 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
57996526 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
* *
57996553 CCTTGAATTACAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACTGTTTTAC
*
57996580 CCTCGATTTACAAAATTACT
1 CCTCGATTTACAGAATTACT
57996600 AAAATACCCT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACTGTTTTAC
Found at i:57996608 original size:54 final size:54
Alignment explanation
Indices: 57996496--57996611 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
57996486 ATTACCGTTT
* * * ****
57996496 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGAATTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
* *
57996550 TACCCTTGAATTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGAATTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
57996604 TACCCTCG
1 TACCCTCG
57996612 GTTTAAAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.37
Consensus pattern (54 bp):
TACCCTCGAATTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:57996650 original size:53 final size:53
Alignment explanation
Indices: 57996591--57996821 Score: 227
Period size: 53 Copynumber: 4.3 Consensus size: 53
57996581 CTCGATTTAC
* * * * *
57996591 AAAATTACTAAAATACCCTCGGTTT-AAAAATTACCAAAATACCTTCGGTTAGT
1 AAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCTTCAGTTTGT
* *** *
57996644 AAAATTACCAAAATACCCTAGTCTGTAAAATTGGTAAAATACCCTT-GGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATA-CCTTCAGTTTGT
* * *
57996697 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACC-CCTAGTTT-T
1 AAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCTTC-AGTTTGT
* * * * *
57996750 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAATACCTTCAGTTTGT
57996804 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
57996822 CTGATTTACA
Statistics
Matches: 147, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
52 3 0.02
53 98 0.67
54 46 0.31
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCTTCAGTTTGT
Found at i:57996822 original size:80 final size:80
Alignment explanation
Indices: 57996591--57996823 Score: 319
Period size: 80 Copynumber: 2.9 Consensus size: 80
57996581 CTCGATTTAC
* * * ** *
57996591 AAAATTACTAAAATACCCTCGGTTT-AAAAATTACCAAAATACCTTCGGTTAGTAAAATTACCAA
1 AAAATTACTAAAATACCCT-GGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
57996655 AATA-CCCTAGTCTGT
65 AATACCCCTAGTCTGT
**
57996670 AAAATTGGTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
57996735 AATACCCCTAGT-TTT
65 AATACCCCTAGTCTGT
* *
57996750 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
57996815 AATACCCCT
65 AATACCCCT
57996824 GATTTACAAA
Statistics
Matches: 137, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
79 21 0.15
80 108 0.79
81 8 0.06
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAGTCTGT
Found at i:57996844 original size:54 final size:54
Alignment explanation
Indices: 57996591--57996931 Score: 189
Period size: 53 Copynumber: 6.3 Consensus size: 54
57996581 CTCGATTTAC
* * * * *
57996591 AAAATTACTAAAATA-CCCTCGGTTTA-AAAATTACCA-AAATACCTTCGGTTAGT
1 AAAATTACCAAAATACCCCT-GATTTACAAAATTA-CAGAAATACCCTCAGTTTGT
* ** ** **
57996644 AAAATTACCAAAATA-CCCT-AGTCTGTAAAATTGGTA-AAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTACAAAATT-ACAGAAATACCCTCAGTTTGT
* * **
57996697 AAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCA-AAATACCC-CTAGTTT-T
1 AAAATTACCAAAATACCCCT-GATTTACAAAATTA-CAGAAATACCCTC-AGTTTGT
* * *** * *
57996750 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTCAGTTTGT
* * * *
57996804 AAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCC-TCAGTTTGT
*** ** * * *
57996859 AAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTAGTTTGT
1 -AAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTCAGTTTGT
* * *
57996914 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
57996932 TTGTAGGATG
Statistics
Matches: 225, Mismatches: 50, Indels: 25
0.75 0.17 0.08
Matches are distributed among these distances:
52 3 0.01
53 95 0.42
54 77 0.34
55 13 0.06
56 37 0.16
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTCAGTTTGT
Found at i:57996911 original size:27 final size:27
Alignment explanation
Indices: 57996586--57996933 Score: 215
Period size: 27 Copynumber: 12.9 Consensus size: 27
57996576 TTACCCTCGA
* * **
57996586 TTTACAAAATTACTAAAATACCCTCGG
1 TTTATAAAATTACCAAAATACCCTTAG
*
57996613 TTTA-AAAATTACCAAAATA-CCTTCG
1 TTTATAAAATTACCAAAATACCCTTAG
*
57996638 GTTAGTAAAATTACCAAAATACCC-TAG
1 TTTA-TAAAATTACCAAAATACCCTTAG
* * *** *
57996665 TCTGTAAAATTGGTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTAG
* * * *
57996692 TTTGTAAAATTACCGAAATACCCTCAA
1 TTTATAAAATTACCAAAATACCCTTAG
* *
57996719 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCTTAG
*
57996746 TTT-TAAAATTACCAAAATACCAC-TGG
1 TTTATAAAATTACCAAAATACC-CTTAG
* * * * *
57996772 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTATAAAATTACCAAAATACCCTTAG
* *
57996799 TTTGTAAAATTACCAAAATACCCCT-G
1 TTTATAAAATTACCAAAATACCCTTAG
* * *
57996825 ATTTACAAAGTTA-CAGAAATACCCTTGAC
1 -TTTATAAAATTACCA-AAATACCCTT-AG
* *** * *
57996854 TTTCTAAAAATTATGGAAATACCATTGG
1 TTTAT-AAAATTACCAAAATACCCTTAG
* **
57996882 TTTACAAAATTACTGAAATACCCTTAG
1 TTTATAAAATTACCAAAATACCCTTAG
* * * *
57996909 TTTGTAGATTTACCAAAACACCCTT
1 TTTATAAAATTACCAAAATACCCTT
57996934 GTAGGATGAA
Statistics
Matches: 247, Mismatches: 61, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
25 7 0.03
26 56 0.23
27 161 0.65
28 8 0.03
29 15 0.06
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTAG
Found at i:57997056 original size:27 final size:27
Alignment explanation
Indices: 57996965--57997056 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
57996955 ACCCCTATTA
* *
57996965 GGTAAAAAGACTGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
57996992 GGTAAAGA-GACCGTAAAGCTCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
57997019 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
57997046 GGTAAAATGAC
1 GGTAAAATGAC
57997057 GAATATGCCC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:57997917 original size:52 final size:51
Alignment explanation
Indices: 57997839--57997974 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
57997829 GAGGAAGTGC
57997839 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
57997891 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
*
57997942 AAAAGGGCTT-TGCCCTAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
57997975 AGGCCTCCAG
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 7 0.09
51 25 0.30
52 36 0.44
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:57997936 original size:25 final size:26
Alignment explanation
Indices: 57997839--57997974 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
57997829 GAGGAAGTGC
57997839 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
57997865 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
57997891 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
57997917 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
57997942 AAAAGGGCTT-TGCCCTAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
57997965 AAAAGAGGCT
1 AAAAG-GGCT
57997975 AGGCCTCCAG
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 30 0.30
26 58 0.58
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:57999106 original size:38 final size:38
Alignment explanation
Indices: 57999012--57999179 Score: 192
Period size: 38 Copynumber: 4.4 Consensus size: 38
57999002 CAAGGTATAA
* * *
57999012 AACCCAAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCAGATATAATACCAGCACGAAGCCTACGGGA-TTT
* * * *
57999051 AAACTCAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCAGATATAATACCAGCACGAAGCCTACGGGATTT
* *
57999090 AACCCAGATATAATACCAACACGAAGCCTGCGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTACGGGATTT
* * *
57999128 AACCCGGATATATTACCAGCACAAAGCCTACGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTACGGGATTT
**
57999166 AACCTGGATATAAT
1 AACCCAGATATAAT
57999180 TCCAACATAT
Statistics
Matches: 110, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
38 79 0.72
39 3 0.03
40 28 0.25
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACGAAGCCTACGGGATTT
Found at i:57999163 original size:76 final size:78
Alignment explanation
Indices: 57999012--57999229 Score: 219
Period size: 76 Copynumber: 2.8 Consensus size: 78
57999002 CAAGGTATAA
* * * * * * * *
57999012 AACCCAAACATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAG
1 AACCCAGATATAATACCAACACGAAGCCTGCGGGACTTTAAACCCAGATATAATACCAGCACAAA
*
57999077 GCCTGCGGGATTT
66 GCCTACGGGATTT
* *
57999090 AACCCAGATATAATACCAACACGAAGCCTGCGGGA-TTT-AACCCGGATATATTACCAGCACAAA
1 AACCCAGATATAATACCAACACGAAGCCTGCGGGACTTTAAACCCAGATATAATACCAGCACAAA
57999153 GCCTACGGGATTT
66 GCCTACGGGATTT
** * * * * * *
57999166 AACCTGGATATAATTCCAACA-TATAGCCTGCGGGTCATTAAGCCCAGATACAAT-CTCAGCACA
1 AACCCAGATATAATACCAACACGA-AGCCTGCGGGACTTTAAACCCAGATATAATAC-CAGCACA
57999229 A
64 A
57999230 TTTATTTTAT
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
75 1 0.01
76 60 0.52
77 6 0.05
78 48 0.42
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.20
Consensus pattern (78 bp):
AACCCAGATATAATACCAACACGAAGCCTGCGGGACTTTAAACCCAGATATAATACCAGCACAAA
GCCTACGGGATTT
Found at i:57999194 original size:38 final size:38
Alignment explanation
Indices: 57999012--57999199 Score: 180
Period size: 38 Copynumber: 4.9 Consensus size: 38
57999002 CAAGGTATAA
* * * * * *
57999012 AACCCAAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCAGATATAATACCAACACTAAGCCTGCGGGA-TTT
* * *
57999051 AAACTCAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCAGATATAATACCAACACTAAGCCTGCGGGATTT
*
57999090 AACCCAGATATAATACCAACACGAAGCCTGCGGGATTT
1 AACCCAGATATAATACCAACACTAAGCCTGCGGGATTT
* * * * *
57999128 AACCCGGATATATTACCAGCACAAAGCCTACGGGATTT
1 AACCCAGATATAATACCAACACTAAGCCTGCGGGATTT
** *
57999166 AACCTGGATATAATTCCAACA-TATAGCCTGCGGG
1 AACCCAGATATAATACCAACACTA-AGCCTGCGGG
57999200 TCATTAAGCC
Statistics
Matches: 125, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 93 0.74
39 3 0.02
40 28 0.22
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.20
Consensus pattern (38 bp):
AACCCAGATATAATACCAACACTAAGCCTGCGGGATTT
Found at i:58006819 original size:55 final size:53
Alignment explanation
Indices: 58006732--58006941 Score: 201
Period size: 55 Copynumber: 3.9 Consensus size: 53
58006722 ATTAGCGTTT
58006732 AAGGATACCATGTAAGACCATGCCAATG-CATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * ** *
58006787 AAGGATATCATGTACGACCATGTCAAGACATGGCATTAATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
58006842 AAAGG-TCCCGTGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * * * *
58006895 AAGAATACCAAGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC
58006942 AAAAGGATAC
Statistics
Matches: 123, Mismatches: 25, Indels: 15
0.75 0.15 0.09
Matches are distributed among these distances:
52 4 0.03
53 39 0.32
54 11 0.09
55 65 0.53
56 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:58007200 original size:16 final size:16
Alignment explanation
Indices: 58007179--58007209 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58007169 ATAAATTTCA
58007179 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
58007195 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
58007210 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:58027264 original size:47 final size:46
Alignment explanation
Indices: 58027138--58027275 Score: 152
Period size: 48 Copynumber: 2.9 Consensus size: 46
58027128 AAGAGTCTCG
* * *
58027138 CACACTAAGTGCCAATATCATGGCCTGAAGCCAACTCAAT-ATATCT
1 CACACTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGA-AGCT
* * * * *
58027184 CAAACCCAAAGTGCTAATATCATGACCCAAAGCCAAATCAATGAAGCT
1 C--ACACTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCT
*
58027232 CGCACTGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAA
1 CACACT-AAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAA
58027276 TCCCCTATTA
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
46 3 0.04
47 34 0.46
48 36 0.49
49 1 0.01
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (46 bp):
CACACTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAGCT
Found at i:58030452 original size:335 final size:337
Alignment explanation
Indices: 58029806--58030466 Score: 1137
Period size: 335 Copynumber: 2.0 Consensus size: 337
58029796 ATTAAAATGA
* *
58029806 TAACGATTCACATGAACTTACCTCAACAACTAAAGGCATGAAGGTTAAATTGAGCTATTCTGAAG
1 TAACGATTCACATGAACTAACCTCAACAACT-AA-GCATGAAGGTTAAATCGAGCTATTCTGAAG
* *
58029871 CTTTAGTTTTGCCTCAATCTAGGTCCATACTTTGTCTATCTTGATCTAAATAGACAATTTCAATC
64 CTTTAGTTTTGCCTCAATCTAGGTCCATACTTTGTCTATCTTAATCTAAATAAACAATTTCAATC
58029936 CATTCAATAGTTATAGTATTCAATTTAGTCCATATTTCATATTTATGCAAAATTACTATTTTACC
129 CATTCAATAGTTATAGTATTCAATTTAGTCCATATTTCATATTTATGCAAAATTACTATTTTACC
*
58030001 CCTAACATATTAACTTTTTCACAAATTAGTCCTTAAGCTCATAAATTGAAATCTAAGCCTTTTAA
194 CCTAACATATTAACTTTTTCACAAATTAGTCCTTAAACTCATAAATTGAAATCTAAGCCTTTTAA
*
58030066 TCCCCCAATAAAGCTAACAAAATTCCTTAGGAACTTAATCCAACCTAAACAAATCATCATCTCAT
259 TCCCCCAATAAAGCTAACAAAATTCCTTAGGAACTCAATCCAACCTAAACAAATCATCATCTCAT
58030131 ATGAAATTAGTCCT
324 ATGAAATTAGTCCT
* * * *
58030145 TAACTATTCACATGAACTAACTTCGACAACT-A-CATGAAGGTTAAATCGAGCTATTTTGAAGCT
1 TAACGATTCACATGAACTAACCTCAACAACTAAGCATGAAGGTTAAATCGAGCTATTCTGAAGCT
*
58030208 TTAGTTTTGCCTCAATCTAGGTCCATACTTTGTCTGTCTTAATCTAAATAAACAATTTCAATCCA
66 TTAGTTTTGCCTCAATCTAGGTCCATACTTTGTCTATCTTAATCTAAATAAACAATTTCAATCCA
*
58030273 TTTAATAGTTATAGTATTCAATTTAGTCCATATTTCATATTTATGCAAAATTACTATTTTACCCC
131 TTCAATAGTTATAGTATTCAATTTAGTCCATATTTCATATTTATGCAAAATTACTATTTTACCCC
* *
58030338 TAACATTTTAACTTTTTCACAAATTAGTCTTTAAACTCATAAATTGAAATCTAAGCCTTTTAATC
196 TAACATATTAACTTTTTCACAAATTAGTCCTTAAACTCATAAATTGAAATCTAAGCCTTTTAATC
* * *
58030403 CCCCAATCAAGCTAACAGAATTCCTTAGGGACTCAATCCAACCTAAACAAATCATCATCTCATA
261 CCCCAATAAAGCTAACAAAATTCCTTAGGAACTCAATCCAACCTAAACAAATCATCATCTCATA
58030467 AATTTGTCAT
Statistics
Matches: 305, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
335 277 0.91
337 1 0.00
339 27 0.09
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (337 bp):
TAACGATTCACATGAACTAACCTCAACAACTAAGCATGAAGGTTAAATCGAGCTATTCTGAAGCT
TTAGTTTTGCCTCAATCTAGGTCCATACTTTGTCTATCTTAATCTAAATAAACAATTTCAATCCA
TTCAATAGTTATAGTATTCAATTTAGTCCATATTTCATATTTATGCAAAATTACTATTTTACCCC
TAACATATTAACTTTTTCACAAATTAGTCCTTAAACTCATAAATTGAAATCTAAGCCTTTTAATC
CCCCAATAAAGCTAACAAAATTCCTTAGGAACTCAATCCAACCTAAACAAATCATCATCTCATAT
GAAATTAGTCCT
Found at i:58038003 original size:19 final size:20
Alignment explanation
Indices: 58037979--58038016 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58037969 GGTACCACCA
58037979 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
58037998 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
58038017 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:58038824 original size:30 final size:30
Alignment explanation
Indices: 58038790--58038849 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
58038780 ATTTAATACG
58038790 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
58038820 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
58038850 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:58040667 original size:23 final size:23
Alignment explanation
Indices: 58040621--58040670 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
58040611 AGCTCTATTA
* *
58040621 AGCTGAAACGGTAAGCTCTGACG
1 AGCTGAAACAGTAAGCCCTGACG
58040644 AGCTGAAACAGTAAGCCCAT-ACG
1 AGCTGAAACAGTAAGCCC-TGACG
58040667 AGCT
1 AGCT
58040671 AAGAATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (23 bp):
AGCTGAAACAGTAAGCCCTGACG
Found at i:58043127 original size:16 final size:17
Alignment explanation
Indices: 58043096--58043130 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
58043086 ATAGTTTCAC
58043096 CTCTTTTCGATTTTTCTT
1 CTCTTTTC-ATTTTTCTT
58043114 CTCTTTTC-TTTTTCTT
1 CTCTTTTCATTTTTCTT
58043130 C
1 C
58043131 ATTTGCCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
18 8 0.47
ACGTcount: A:0.03, C:0.26, G:0.03, T:0.69
Consensus pattern (17 bp):
CTCTTTTCATTTTTCTT
Found at i:58044799 original size:34 final size:33
Alignment explanation
Indices: 58044726--58044800 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
58044716 TTGTACTAAA
* ***
58044726 ATGGGCTTAGGCCCACACTGACACTGTTACTGT
1 ATGGGCTAAGGCCCACACTGACACTACGACTGT
*
58044759 ATTGGGCTAAGGCCCACACTGATACTACGACTGAT
1 A-TGGGCTAAGGCCCACACTGACACTACGACTG-T
58044794 ATGGGCT
1 ATGGGCT
58044801 TAAGCTCGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
33 1 0.03
34 32 0.91
35 2 0.06
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (33 bp):
ATGGGCTAAGGCCCACACTGACACTACGACTGT
Found at i:58046665 original size:50 final size:50
Alignment explanation
Indices: 58046551--58046688 Score: 181
Period size: 50 Copynumber: 2.8 Consensus size: 50
58046541 CTGGTACGCA
* * ** * *
58046551 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTACTCGATATATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAACTCGATACACG
*
58046600 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCAACT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAACTCGATACACG
*
58046650 TAGTAGCCTGCACTTAGTACTACACACGTGACCTTACAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
58046689 TAGATCATTC
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
49 33 0.42
50 42 0.54
51 3 0.04
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAACTCGATACACG
Found at i:58051372 original size:50 final size:50
Alignment explanation
Indices: 58051265--58051397 Score: 187
Period size: 50 Copynumber: 2.7 Consensus size: 50
58051255 CTGGTATGCA
* * * * ** *
58051265 TAGTAGTCTGCACTTAGTACTAGACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACG
*
58051314 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACG
58051364 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
58051398 CACAATAGAT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 29 0.39
50 46 0.61
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCCGATACACG
Found at i:58062073 original size:47 final size:47
Alignment explanation
Indices: 58061979--58062085 Score: 124
Period size: 47 Copynumber: 2.3 Consensus size: 47
58061969 TGTCTGAACA
* * * *
58061979 AAGACACATTAAAATGCTATACTAAGTAAGACATAATTAATAGACTT
1 AAGACACATTAAAATGCTATACTAAATAAGACACAATTAACAAACTT
* * * *
58062026 AAGACACATTAAAATGTTGTACTAAATAGGACACAATTAGCAAACTT
1 AAGACACATTAAAATGCTATACTAAATAAGACACAATTAACAAACTT
* *
58062073 ATGACACAATAAA
1 AAGACACATTAAA
58062086 GATTTTCAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (47 bp):
AAGACACATTAAAATGCTATACTAAATAAGACACAATTAACAAACTT
Found at i:58062136 original size:17 final size:16
Alignment explanation
Indices: 58062105--58062138 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58062095 ATTAATGCAT
58062105 ATTTAAGACCAAATTA
1 ATTTAAGACCAAATTA
*
58062121 ATTTATGACACAAATTA
1 ATTTAAGAC-CAAATTA
58062138 A
1 A
58062139 AGACTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (16 bp):
ATTTAAGACCAAATTA
Found at i:58063230 original size:16 final size:17
Alignment explanation
Indices: 58063211--58063248 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
58063201 AATGTAACGC
*
58063211 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCAAAAT
58063227 CCC-AAAATCCCAAAAT
1 CCCAAAAATCCCAAAAT
58063243 CCCAAA
1 CCCAAA
58063249 CTTTCTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 11 0.58
16 6 0.32
17 2 0.11
ACGTcount: A:0.50, C:0.39, G:0.03, T:0.08
Consensus pattern (17 bp):
CCCAAAAATCCCAAAAT
Found at i:58063240 original size:8 final size:8
Alignment explanation
Indices: 58063215--58063248 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
58063205 TAACGCCCCA
58063215 AAAATCCC
1 AAAATCCC
*
58063223 GAAA-CCC
1 AAAATCCC
58063230 AAAATCCC
1 AAAATCCC
58063238 AAAATCCC
1 AAAATCCC
58063246 AAA
1 AAA
58063249 CTTTCTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.53, C:0.35, G:0.03, T:0.09
Consensus pattern (8 bp):
AAAATCCC
Found at i:58064750 original size:16 final size:17
Alignment explanation
Indices: 58064721--58064752 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
58064711 TTATAAACAC
58064721 ATATCAATTATTTCATT
1 ATATCAATTATTTCATT
58064738 ATATCAA-TATTTCAT
1 ATATCAATTATTTCAT
58064753 ATACCATAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATCAATTATTTCATT
Found at i:58065387 original size:63 final size:63
Alignment explanation
Indices: 58065317--58065444 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
58065307 GATGAAGATA
58065317 GACTCATTAAGCTTTAATTTGATATCTCATTCAGTCTCTGATTCAATTTATACTATTTTTGGT
1 GACTCATTAAGCTTTAATTTGATATCTCATTCAGTCTCTGATTCAATTTATACTATTTTTGGT
*
58065380 GACTCATTAAGCTTTAATTTGATATCTCATTCAGTCTCTGATTCAATTTATATTATTTTTGGT
1 GACTCATTAAGCTTTAATTTGATATCTCATTCAGTCTCTGATTCAATTTATACTATTTTTGGT
58065443 GA
1 GA
58065445 TTTTTCAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.48
Consensus pattern (63 bp):
GACTCATTAAGCTTTAATTTGATATCTCATTCAGTCTCTGATTCAATTTATACTATTTTTGGT
Found at i:58066768 original size:30 final size:30
Alignment explanation
Indices: 58066732--58066792 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
58066722 TCCTTAACTC
58066732 AAACTTTGGAA-ATATTACAATTTTGCCCCT
1 AAACTTTGGAATAT-TTACAATTTTGCCCCT
* * *
58066762 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAATATTTACAATTTTGCCCCT
58066792 A
1 A
58066793 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAATATTTACAATTTTGCCCCT
Found at i:58068120 original size:16 final size:16
Alignment explanation
Indices: 58068101--58068155 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
58068091 GGAAAAAGTT
* *
58068101 GAAATGCCAAAATGTC
1 GAAAAGCCAAAATGCC
*
58068117 GAAAAGCTAAAATGCC
1 GAAAAGCCAAAATGCC
**
58068133 GAAAAGCTGAAATGCC
1 GAAAAGCCAAAATGCC
58068149 GAAAAGC
1 GAAAAGC
58068156 TGAAAGTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (16 bp):
GAAAAGCCAAAATGCC
Found at i:58068156 original size:16 final size:16
Alignment explanation
Indices: 58068110--58068160 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
58068100 TGAAATGCCA
* *
58068110 AAATGTCGAAAAGCTA
1 AAATGCCGAAAAGCTG
58068126 AAATGCCGAAAAGCTG
1 AAATGCCGAAAAGCTG
58068142 AAATGCCGAAAAGCTG
1 AAATGCCGAAAAGCTG
58068158 AAA
1 AAA
58068161 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.49, C:0.16, G:0.22, T:0.14
Consensus pattern (16 bp):
AAATGCCGAAAAGCTG
Found at i:58068481 original size:28 final size:29
Alignment explanation
Indices: 58068371--58068485 Score: 155
Period size: 29 Copynumber: 4.0 Consensus size: 29
58068361 GTGAGCATGA
*
58068371 ATATGAATGTGA-CTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
58068399 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
58068428 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
58068457 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
58068485 A
1 A
58068486 GATACATGTA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
28 28 0.36
29 49 0.63
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:58069587 original size:17 final size:18
Alignment explanation
Indices: 58069554--58069588 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58069544 TTTTAAGAAG
58069554 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
58069572 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
58069589 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:58071034 original size:47 final size:47
Alignment explanation
Indices: 58070963--58071414 Score: 719
Period size: 47 Copynumber: 9.6 Consensus size: 47
58070953 CCCTTCGGGA
* * * * * *
58070963 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58071010 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58071057 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58071104 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58071151 CTTATCACATATATACAGTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58071197 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58071244 CTTATCACATATATATACACTTTCACATTCATCACAT-GGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58071292 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58071339 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58071388 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
58071415 TATTCAAATA
Statistics
Matches: 382, Mismatches: 17, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
46 72 0.19
47 221 0.58
48 18 0.05
49 71 0.19
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58071041 original size:25 final size:25
Alignment explanation
Indices: 58071013--58071091 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
58071003 ACTCGGCCCT
58071013 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
58071038 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
58071060 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
58071085 ATCACAT
1 ATCACAT
58071092 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:58076860 original size:25 final size:25
Alignment explanation
Indices: 58076811--58076861 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
58076801 TCATTACACT
*
58076811 ACCAAACTGCCATAACTCAAGCCAA
1 ACCAAACTGCCATAACACAAGCCAA
58076836 ACCAAA-TGACCATAACAACAA-CCAA
1 ACCAAACTG-CCATAAC-ACAAGCCAA
58076861 A
1 A
58076862 ACACATATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.09
25 18 0.78
26 3 0.13
ACGTcount: A:0.51, C:0.33, G:0.06, T:0.10
Consensus pattern (25 bp):
ACCAAACTGCCATAACACAAGCCAA
Found at i:58086538 original size:37 final size:37
Alignment explanation
Indices: 58086488--58086564 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
58086478 AAATAACCCT
58086488 ACACGCCCGTGTGCCAAGCTATGTGTTAGGCCGTGCA
1 ACACGCCCGTGTGCCAAGCTATGTGTTAGGCCGTGCA
58086525 ACACGCCCGTGTGCCAAGCTATGTGTTAGGCCGTGCA
1 ACACGCCCGTGTGCCAAGCTATGTGTTAGGCCGTGCA
58086562 ACA
1 ACA
58086565 GCCTGACTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.21
Consensus pattern (37 bp):
ACACGCCCGTGTGCCAAGCTATGTGTTAGGCCGTGCA
Found at i:58088241 original size:39 final size:40
Alignment explanation
Indices: 58088196--58088363 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
58088186 CGGGGTTTAG
* * *
58088196 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
58088235 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
58088275 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
58088315 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
58088356 CCGGATAT
1 CCGGATAT
58088364 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:58088346 original size:41 final size:40
Alignment explanation
Indices: 58088219--58088363 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
58088209 CTCGCACAAG
* * * * *
58088219 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
58088259 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
58088299 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
58088340 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
58088364 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:58096297 original size:41 final size:41
Alignment explanation
Indices: 58096245--58096380 Score: 170
Period size: 41 Copynumber: 3.3 Consensus size: 41
58096235 GCCTTCGAGT
* * * *
58096245 CTTAACCCGGATATGGTCACTAGCATAAATGCCTTCGCGGA
1 CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGCGGA
58096286 CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTT--CGGA
1 CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGCGGA
* * *
58096325 TCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCCTTCG-GGA
1 -CTTAGCCCGGATATAGTCGC-TAGCACAAATGCCTTCGCGGA
58096367 CTTAGCCCGGATAT
1 CTTAGCCCGGATAT
58096381 CATTCGAGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
39 4 0.05
40 18 0.22
41 57 0.70
42 3 0.04
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
CTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGCGGA
Found at i:58097632 original size:38 final size:38
Alignment explanation
Indices: 58097587--58097662 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
58097577 CAAGAATTCC
*
58097587 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
58097625 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
58097663 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
Found at i:58106475 original size:19 final size:19
Alignment explanation
Indices: 58106451--58106492 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
58106441 TAATGGTATG
58106451 GATTGTGCATTTGGTTGAT
1 GATTGTGCATTTGGTTGAT
58106470 GATTGTGCATTTGGTTGAT
1 GATTGTGCATTTGGTTGAT
58106489 GATT
1 GATT
58106493 TTGGCAGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.17, C:0.05, G:0.31, T:0.48
Consensus pattern (19 bp):
GATTGTGCATTTGGTTGAT
Found at i:58119083 original size:19 final size:21
Alignment explanation
Indices: 58119055--58119103 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
58119045 TCCAATATTG
58119055 TATTTATTA-T-ATTTTTTTT
1 TATTTATTATTAATTTTTTTT
* *
58119074 TATTTTTTATTAATTTTTTTA
1 TATTTATTATTAATTTTTTTT
*
58119095 TAATTATTA
1 TATTTATTA
58119104 AGTATTTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 1 0.04
21 15 0.62
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
TATTTATTATTAATTTTTTTT
Found at i:58119570 original size:14 final size:14
Alignment explanation
Indices: 58119551--58119577 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58119541 TTCGTCTATT
58119551 TATTTATTTTTATA
1 TATTTATTTTTATA
58119565 TATTTATTTTTAT
1 TATTTATTTTTAT
58119578 TTGTTATTTG
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTATTTTTATA
Found at i:58123523 original size:37 final size:37
Alignment explanation
Indices: 58123422--58123530 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
58123412 AGCTCAGACG
* * *
58123422 AAATCTCCACACGAAGTTATCGGGTCTCACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58123459 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
58123496 TAATCTCCACACGTAGTCAACGGGTCTTACACGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
58123531 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.21
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58123847 original size:50 final size:48
Alignment explanation
Indices: 58123680--58123861 Score: 294
Period size: 48 Copynumber: 3.8 Consensus size: 48
58123670 CATCGCCTAC
*
58123680 ATATTTCACACTAGCCATTCGGCTTTACTACATATACATATCTCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
58123728 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
58123776 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATAT
* * *
58123826 ATATTTCACA-TTGACCGTTCGGCTTTATCACATATA
1 ATATTTCACACTAG-CCATTCGGCTTTACCACATATA
58123862 TGCATGTTCA
Statistics
Matches: 127, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
48 91 0.72
49 2 0.02
50 34 0.27
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (48 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
Found at i:58123901 original size:47 final size:47
Alignment explanation
Indices: 58123831--58124020 Score: 281
Period size: 47 Copynumber: 4.0 Consensus size: 47
58123821 TATATATATT
* * * *
58123831 TCACATTGACCGTTCGGCTTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
58123878 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCCCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58123925 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
58123972 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58124019 TC
1 TC
58124021 GCATGAAATC
Statistics
Matches: 129, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:58123952 original size:22 final size:22
Alignment explanation
Indices: 58123877--58123995 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
58123867 GTTCATATTC
58123877 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
58123899 ATCACACATAT-G-CATGC-CCACATT
1 AT--CACAT-TGGCCATTCGGC-C-TT
58123923 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
58123946 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
58123970 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58123993 ATC
1 ATC
58123996 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 17 0.24
23 20 0.28
24 20 0.28
25 14 0.20
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58128177 original size:40 final size:40
Alignment explanation
Indices: 58128133--58128521 Score: 586
Period size: 40 Copynumber: 9.8 Consensus size: 40
58128123 CCAACATGAT
* * * * * *
58128133 TGCTCTTCGGGGCCTAGCCCGGAGATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
58128173 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
58128213 T-CCCTTTGGAACTTAGCCCGGATACATCGCTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
58128252 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
58128292 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
58128332 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
58128372 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
58128412 TGCTCTTC--GACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
58128450 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
58128490 TGCTCTCCGGGACTTAGCCCGGGTATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
58128522 CTCAATTCTC
Statistics
Matches: 322, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
38 38 0.12
39 31 0.10
40 253 0.79
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:58128473 original size:158 final size:158
Alignment explanation
Indices: 58128133--58128521 Score: 591
Period size: 158 Copynumber: 2.5 Consensus size: 158
58128123 CCAACATGAT
* * * * * * ** *
58128133 TGCTCTTCGGGGCCTAGCCCGGAGATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
58128198 TATCACTAGCACGAATCCCTTTGGAACTTAGCCCGGATACATCGCTAGCACGAATGCTCTTCGGG
66 TATCACTAGCACGAATCCCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-GG
*
58128263 ACTTAGTCCGGATACATCACTAGCACGAA
130 ACTTAGCCCGGATACATCACTAGCACGAA
58128292 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* * *
58128357 CATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTC-G
66 TATCACTAGCACGAAT-CCCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGG
58128421 ACTTAGCCCGGATACATCACTAGCACGAA
130 ACTTAGCCCGGATACATCACTAGCACGAA
* * *
58128450 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAATGCTCTCCGGGACTTAGCCCGGGTA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
58128515 TATCACT
66 TATCACT
58128522 CTCAATTCTC
Statistics
Matches: 210, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
158 97 0.46
159 71 0.34
160 42 0.20
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (158 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACGAATCCCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGA
CTTAGCCCGGATACATCACTAGCACGAA
Found at i:58129849 original size:37 final size:37
Alignment explanation
Indices: 58129790--58129897 Score: 173
Period size: 36 Copynumber: 2.9 Consensus size: 37
58129780 AGCTCAGACG
* *
58129790 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58129827 AAATCTCCACACGTAGTCATCGGGTCTTA-CCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
58129863 TAATCTCCACACGTAGTCATCAGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
58129898 ATATATTTCC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
36 34 0.52
37 32 0.48
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58130100 original size:48 final size:48
Alignment explanation
Indices: 58130046--58130221 Score: 281
Period size: 46 Copynumber: 3.8 Consensus size: 48
58130036 CATCACCTAC
*
58130046 ATATTTCACACTAGCCATTCGGCTTTACTACATATACATATCTCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
58130094 ATATTT--CACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
58130140 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
* *
58130188 ATA--TCACA-TTGACCATTCGGCTTTATCACATATA
1 ATATTTCACACTAG-CCATTCGGCTTTACCACATATA
58130222 TGCATGTTCA
Statistics
Matches: 122, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
45 2 0.02
46 71 0.58
48 49 0.40
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAT
Found at i:58130152 original size:94 final size:94
Alignment explanation
Indices: 58130046--58130221 Score: 293
Period size: 94 Copynumber: 1.9 Consensus size: 94
58130036 CATCACCTAC
*
58130046 ATATTTCACACTAGCCATTCGGCTTTACTACATATACATATCTCATATATATTTCAC-TAG-CCA
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATA--TCACATAGACCA
58130109 TTCGGCTTTACCACATATACATATCTCATAT
64 TTCGGCTTTACCACATATACATATCTCATAT
*
58130140 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATCACATTGACCATT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATCACATAGACCATT
*
58130205 CGGCTTTATCACATATA
66 CGGCTTTACCACATATA
58130222 TGCATGTTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
92 4 0.05
93 2 0.03
94 71 0.92
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (94 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATCACATAGACCATT
CGGCTTTACCACATATACATATCTCATAT
Found at i:58130251 original size:47 final size:47
Alignment explanation
Indices: 58130153--58130363 Score: 275
Period size: 47 Copynumber: 4.5 Consensus size: 47
58130143 TTTCACACTA
* * *
58130153 GCCATTCGGCTTTACCACATATA--CATATCTCATATAT-ATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGT-TCATAT-TCATCACATTG
* *
58130199 ACCATTCGGCTTTATCACATATATGCATGTTCATATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCATCACATTG
* * * *
58130246 GCCATTCGGCCTTATCACACATACGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCATCACATTG
* *
58130293 GCCATTCAGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCATCACATTG
*
58130340 GCCATTCGGCCTTATCTCATATAT
1 GCCATTCGGCCTTATCACATATAT
58130364 ACACATTCAC
Statistics
Matches: 147, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
46 22 0.15
47 121 0.82
48 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCATATTCATCACATTG
Found at i:58130311 original size:22 final size:22
Alignment explanation
Indices: 58130284--58130355 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
58130274 GCTCACATTC
58130284 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* *
58130306 ATCACATATATG-CATGTTCA-CATT
1 ATCACAT-T-GGCCA--TTCAGCCTT
*
58130330 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
58130353 ATC
1 ATC
58130356 TCATATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 13 0.34
23 7 0.18
24 7 0.18
25 11 0.29
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:58130334 original size:25 final size:25
Alignment explanation
Indices: 58130212--58130337 Score: 65
Period size: 25 Copynumber: 5.3 Consensus size: 25
58130202 ATTCGGCTTT
* *
58130212 ATCACATATATGCATGTTCATATTC
1 ATCACATATAGGCATGTTCACATTC
* *
58130237 ATCACAT-T-GGCCA--TTCGGCCTT-
1 ATCACATATAGG-CATGTTC-ACATTC
* * *
58130259 ATCACACATACGCATGCTCACATTC
1 ATCACATATAGGCATGTTCACATTC
*
58130284 ATCACAT-T-GGCCA--TTCAGCCTT-
1 ATCACATATAGG-CATGTTCA-CATTC
*
58130306 ATCACATATATGCATGTTCACATTC
1 ATCACATATAGGCATGTTCACATTC
58130331 ATCACAT
1 ATCACAT
58130338 TGGCCATTCG
Statistics
Matches: 72, Mismatches: 15, Indels: 28
0.63 0.13 0.24
Matches are distributed among these distances:
22 19 0.26
23 13 0.18
24 14 0.19
25 26 0.36
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (25 bp):
ATCACATATAGGCATGTTCACATTC
Found at i:58140311 original size:36 final size:36
Alignment explanation
Indices: 58140270--58140344 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
58140260 GCATGTATAG
* *
58140270 GTTAATTGATTAAGGGAAACCTATATGTTTTGTTAT
1 GTTAATTGATTAAGAGAAACCTATATATTTTGTTAT
*
58140306 GTTAATTGATTAATAGAAACCTATATATTTTGTTAT
1 GTTAATTGATTAAGAGAAACCTATATATTTTGTTAT
58140342 GTT
1 GTT
58140345 TTAGCCATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (36 bp):
GTTAATTGATTAAGAGAAACCTATATATTTTGTTAT
Found at i:58141868 original size:46 final size:45
Alignment explanation
Indices: 58141712--58141879 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 45
58141702 GCCCATAAAC
* * * *
58141712 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCAT-AGT
* * * * *
58141758 GAATTCGGAATCAACTCAACGAGCTCGGATGCCTAGTTACATCTC-T--C
1 GAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATC-CATAGT
*
58141805 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCAT-AGT
*
58141851 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
58141880 TGCCCAAACA
Statistics
Matches: 98, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 54 0.55
47 26 0.27
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAGT
Found at i:58141870 original size:93 final size:93
Alignment explanation
Indices: 58141711--58141883 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
58141701 CGCCCATAAA
* * * *
58141711 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAATTCGGAATCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
58141776 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * * *
58141804 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
*
58141869 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
58141884 CAAACATCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:58141898 original size:46 final size:46
Alignment explanation
Indices: 58141712--58141898 Score: 136
Period size: 46 Copynumber: 4.0 Consensus size: 46
58141702 GCCCATAAAC
* * * *
58141712 GAACTCAGACTCAACTCAACGAGCTCGG--GCGT-TCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAT-ACATCC-T-AGT
* * * *
58141758 GAATTCGGAATCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CTAGT
* * *
58141805 GAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T-AGT
* *
58141851 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGT
58141897 GA
1 GA
58141899 CATGTCACTT
Statistics
Matches: 111, Mismatches: 18, Indels: 24
0.73 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 6 0.05
45 2 0.02
46 59 0.53
47 27 0.24
48 9 0.08
50 5 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCTAGT
Found at i:58142316 original size:30 final size:29
Alignment explanation
Indices: 58142282--58142339 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
58142272 AAAATCATAT
*
58142282 TTTTGCAAAATTACAGTTTTGCCCCTAAAC
1 TTTTGCAAAATTACACTTTTG-CCCTAAAC
* *
58142312 TTTTGCATATTTACACTTTTGCCCTAAA
1 TTTTGCAAAATTACACTTTTGCCCTAAA
58142340 GCTCGTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (29 bp):
TTTTGCAAAATTACACTTTTGCCCTAAAC
Found at i:58144268 original size:15 final size:15
Alignment explanation
Indices: 58144248--58144286 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
58144238 AGAAAACATT
58144248 ATAAAGAAATCCAGA
1 ATAAAGAAATCCAGA
* *
58144263 ATAAAGAGATCCAGG
1 ATAAAGAAATCCAGA
58144278 ATAAAGAAA
1 ATAAAGAAA
58144287 CCCAAGATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.59, C:0.10, G:0.18, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAGA
Found at i:58144295 original size:15 final size:15
Alignment explanation
Indices: 58144248--58144295 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
58144238 AGAAAACATT
58144248 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
58144262 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
58144278 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
58144293 ATA
1 ATA
58144296 CGATACTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:58148855 original size:27 final size:28
Alignment explanation
Indices: 58148770--58148893 Score: 164
Period size: 27 Copynumber: 4.5 Consensus size: 28
58148760 CATGAGATTG
* * * *
58148770 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
58148799 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58148827 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58148854 GCACTAAGTGTGCGAG-TTGATTATAT-
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58148880 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58148894 GACTTAATAT
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
26 13 0.15
27 36 0.41
28 21 0.24
29 18 0.20
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58148866 original size:55 final size:55
Alignment explanation
Indices: 58148770--58148893 Score: 162
Period size: 55 Copynumber: 2.3 Consensus size: 55
58148760 CATGAGATTG
* * *
58148770 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGT
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATAT
* *
58148826 AGCACTAAGTGTGCGAG-TT-GATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 -GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATAT
*
58148880 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58148894 GACTTAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 13 0.21
54 9 0.15
55 22 0.36
56 2 0.03
57 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (55 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATAT
Found at i:58148904 original size:26 final size:27
Alignment explanation
Indices: 58148798--58148906 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
58148788 TAAATTGTAC
* * *
58148798 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
58148826 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
* *
58148853 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
58148880 -GCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
58148906 A
1 A
58148907 CTTTTGAATC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
26 18 0.24
27 40 0.54
28 16 0.22
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:58156718 original size:28 final size:28
Alignment explanation
Indices: 58156650--58156774 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
58156640 CATGAGATTG
* * * *
58156650 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
58156679 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58156707 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58156735 GCACT-AGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58156761 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58156775 GACTTAATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
26 16 0.18
27 18 0.20
28 37 0.42
29 18 0.20
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58156764 original size:54 final size:57
Alignment explanation
Indices: 58156650--58156774 Score: 175
Period size: 54 Copynumber: 2.2 Consensus size: 57
58156640 CATGAGATTG
* * *
58156650 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
* *
58156707 GCACTAAGTGTGCGAGTTT-GATTATATAGCACT-AGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
*
58156761 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58156775 GACTTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
54 23 0.37
55 10 0.16
56 11 0.18
57 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58156785 original size:27 final size:26
Alignment explanation
Indices: 58156678--58156787 Score: 96
Period size: 28 Copynumber: 4.0 Consensus size: 26
58156668 TAAATTGTAC
* * *
58156678 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACT-AGTGTGCGA-CTTGAATATAT
* *
58156706 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACT-AGTGTGCGA-CTTGAATATAT
* *
58156734 AGCACTAGTGTGCGAGTTGATTATAT
1 AGCACTAGTGTGCGACTTGAATATAT
58156760 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACT-AGTGTGC-GACTTGAATATAT
58156787 A
1 A
58156788 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
26 16 0.21
27 23 0.30
28 37 0.49
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (26 bp):
AGCACTAGTGTGCGACTTGAATATAT
Found at i:58169093 original size:16 final size:16
Alignment explanation
Indices: 58169072--58169108 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
58169062 GGCAAGAAGC
58169072 CATTTTTCATCCTTCA
1 CATTTTTCATCCTTCA
58169088 CATTTTTCATCCTTCA
1 CATTTTTCATCCTTCA
58169104 CATTT
1 CATTT
58169109 GGCCAAGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (16 bp):
CATTTTTCATCCTTCA
Found at i:58170977 original size:43 final size:43
Alignment explanation
Indices: 58170930--58171031 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 43
58170920 CACAGGTAGA
* *
58170930 GACACAATCGTGTGTCTCAGCCGTGTGTGACACACGGTTAGGT
1 GACACAACCGTGTGTCTCAGCCGTGTGTGACACACGATTAGGT
* *
58170973 GACACAGCCGTGTGTCTCAGCCGTGTGTGACACATGATTAGGT
1 GACACAACCGTGTGTCTCAGCCGTGTGTGACACACGATTAGGT
**
58171016 GACACGGCCGTGTGTC
1 GACACAACCGTGTGTC
58171032 CCTTAGTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.25
Consensus pattern (43 bp):
GACACAACCGTGTGTCTCAGCCGTGTGTGACACACGATTAGGT
Found at i:58175447 original size:30 final size:29
Alignment explanation
Indices: 58175413--58175469 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
58175403 TTCATATACA
*
58175413 ATTATCATCATCTCAT-ATTTCCATGTATCC
1 ATTATCAT-ATATCATCATTT-CATGTATCC
58175443 ATTATCATATATCATCATTTCATGTAT
1 ATTATCATATATCATCATTTCATGTAT
58175470 TTCAGGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.30, C:0.21, G:0.04, T:0.46
Consensus pattern (29 bp):
ATTATCATATATCATCATTTCATGTATCC
Found at i:58185426 original size:68 final size:68
Alignment explanation
Indices: 58185312--58185438 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
58185302 CAGATGGTAT
* * *
58185312 GTAGCTAGGTCACATGTGTAATACGGGATGTATACCATGTGTACAAGAGAGCTACGAGACATTAT
1 GTAGCTAGGTCACATGGGTAATACAGGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
58185377 GAG
66 GAG
* * *
58185380 GTAGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTATGAGA
1 GTAGCTAGGTCACATGGGTAATAC-AGGATGTACACCATGT-GTACAAGAGAGCTACGAGA
58185439 TAAATGTAGC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
68 49 0.96
69 2 0.04
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (68 bp):
GTAGCTAGGTCACATGGGTAATACAGGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
GAG
Found at i:58188022 original size:26 final size:26
Alignment explanation
Indices: 58187993--58188073 Score: 99
Period size: 26 Copynumber: 3.1 Consensus size: 26
58187983 AACACACTAG
* *
58187993 TATCGCAGCATAGCTGCCAGTAATAA
1 TATCGCAGCATAGCTACCAGTAACAA
*
58188019 TATCGCAGCATAGCTACCAGTAACAG
1 TATCGCAGCATAGCTACCAGTAACAA
* * * *
58188045 TAACGCAGGAAAGCTTCCAGTAACAA
1 TATCGCAGCATAGCTACCAGTAACAA
58188071 TAT
1 TAT
58188074 ATGGCACAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (26 bp):
TATCGCAGCATAGCTACCAGTAACAA
Found at i:58188125 original size:20 final size:20
Alignment explanation
Indices: 58188075--58188212 Score: 168
Period size: 20 Copynumber: 6.9 Consensus size: 20
58188065 TAACAATATA
* *
58188075 TGGCACAAAGCCATGAGTAG
1 TGGCACAAAGCCATCAATAG
* *
58188095 CGGCACGAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
* *
58188115 TGGTAGAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
58188135 TGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
* *
58188155 TGACATAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
**
58188175 CAGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
* *
58188195 TGGTACAAAGCTATCAAT
1 TGGCACAAAGCCATCAAT
58188213 TAATAGCGGC
Statistics
Matches: 98, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 98 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (20 bp):
TGGCACAAAGCCATCAATAG
Found at i:58188125 original size:40 final size:40
Alignment explanation
Indices: 58188079--58188239 Score: 187
Period size: 40 Copynumber: 3.9 Consensus size: 40
58188069 AATATATGGC
* * *
58188079 ACAAAGCCATGAGTAGCGGCACGAAGCCATCAATAGTGGT
1 ACAAAGCCATCAATAGCGGCACAAAGCCATCAATAGTGGT
* * **
58188119 AGAAAGCCATCAATAGTGGCACAAAGCCATCAATAGTGAC
1 ACAAAGCCATCAATAGCGGCACAAAGCCATCAATAGTGGT
* *
58188159 ATAAAGCCATCAATAGCAGCACAAAGCCATCAATAGTGGT
1 ACAAAGCCATCAATAGCGGCACAAAGCCATCAATAGTGGT
* *
58188199 ACAAAGCTATCAATTAATAGCGGCACAAAGCCATCAGTAGT
1 ACAAAGC---C-ATCAATAGCGGCACAAAGCCATCAATAGT
58188240 TCCACAATTG
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
40 74 0.73
43 1 0.01
44 26 0.26
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.17
Consensus pattern (40 bp):
ACAAAGCCATCAATAGCGGCACAAAGCCATCAATAGTGGT
Found at i:58188894 original size:16 final size:16
Alignment explanation
Indices: 58188856--58188905 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
58188846 GGTCATTCTC
58188856 TCGA-ATTTCAGCTTT
1 TCGACATTTCAGCTTT
* *
58188871 TTGGCATTTCAGCTTT
1 TCGACATTTCAGCTTT
**
58188887 TCGACATTTTGGCTTT
1 TCGACATTTCAGCTTT
58188903 TCG
1 TCG
58188906 GCTCTTGCCG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 2 0.07
16 26 0.93
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (16 bp):
TCGACATTTCAGCTTT
Found at i:58202592 original size:729 final size:728
Alignment explanation
Indices: 58200581--58202770 Score: 4082
Period size: 729 Copynumber: 3.0 Consensus size: 728
58200571 ATGGTTATAA
*
58200581 TTAAATGACATTGACAGGCATTAGTTAGTGGAATTTTAAATGATAATAATAAGATTATTTTCGTA
1 TTAAATGACATTGACAGGCATTAGTTAGTGGAATTTTAAATGATAATAATAAG-TTATTTTGGTA
58200646 AAGTATGTATTAATGTTATGTTAAATAAAACAAAATGAATCAAGTTGTTATTCTTTCACCATATT
65 AAGTATGTATTAATGTTATGTTAAATAAAACAAAATGAATCAAGTTGTTATTCTTTCACCATATT
58200711 GCTGAAAATACAAGAGAAAAGAAAGCTTTTTCTTTCAACTAGGTTTCGGCTATTACTCATCTTAA
130 GCTGAAAATACAAGAGAAAAGAAAGCTTTTTCTTTCAACTAGGTTTCGGCTATTACTCATCTTAA
* * *
58200776 TTAAGGTATGATTTTTGATCTATTTTTTTATAATTTCTACATTTTTTTGATTGTTACTTTATGTT
195 TTAAGGTATGATTTTTGATCTATTTTTTT-T-ATTTCTACGTTTTTGTGATCGTTACTTTATGTT
58200841 CTATCAAGACCATGTCTCAATTTTTGAACTTGATGATGATTTTGAATTATTCCATTGATGCTTTT
258 CTATCAAGACCATGTCTCAATTTTTGAACTTGATGATGATTTTGAATTATTCCATTGATGCTTTT
58200906 ATGAGCTTTGTGATGATAGTTGATGAAAAATGAAAGATATGTTTTAGATTACTATGTTTTGTATT
323 ATGAGCTTTGTGATGATAGTTGATGAAAAATGAAAGATATGTTTTAGATTACTATGTTTTGTATT
*
58200971 GAGATTTTTGATGAATTTGAGTACCTTGGGCTAAATTGTGAAAATAATAAATTGAAGGACTAAAA
388 GAGATTTTTGATGAATTTGAGTACCTTGGGCTAAATTGTGAAAATAAGAAATTGAAGGACTAAAA
*
58201036 TGTGAAATAAATGAAATATGTAGGCTTCTATGAGCTAAAGGAATATTCGACCAAGCATATGTCTA
453 TGTGAAATAAATGAAATATGTAGGCTTGTATGAGCTAAAGGAATATTCGACCAAGCATATGTCTA
*
58201101 AAGAAATTTTGTGTATTTTATGATTTTATGAATTAGGGACTAAATTGTTAAAATGTGAAAATGTG
518 AAGAAATTTTGTGTATTTTGTGATTTTATGAATTAGGGACTAAATTGTTAAAATGTGAAAATGTG
58201166 AGGGCTAATTTGTAAAATGCCCTAAATA--TGTATATGGATTTATTTGAATGAATGTGAGATTGA
583 AGGGCTAATTTGTAAAATGCCCTAAATATGTGTATATGGATTTATTTGAATGAATGTGAGATTGA
* *
58201229 ATAAGTCAAATTTGAATATGTTTAGATCAAGAACCAAACAAAATAGAATTAGATCGGGAAAAGTC
648 ATAAGTCAAATTTGAATGTGTTTAGATCAAGAACCAAACAAAACAGAATTAGATCGGGAAAAGTC
*
58201294 GAAAGTCGTTGAATAG
713 AAAAGTCGTTGAATAG
58201310 TTAAATGACATTGACAGGCATTAGTTAGTGGAATTTTAAATGATAATAATAAGGTTATTTTGGTA
1 TTAAATGACATTGACAGGCATTAGTTAGTGGAATTTTAAATGATAATAATAA-GTTATTTTGGTA
*
58201375 AAGTAGGTATTAATGTTATGTTAAATAAAACAAAATGAATCAAGTTGTTATTCTTTCACCATATT
65 AAGTATGTATTAATGTTATGTTAAATAAAACAAAATGAATCAAGTTGTTATTCTTTCACCATATT
58201440 GCT-AAAGATACAAGAGAAAAGAAAGCTTTTTCTTTCAACTAGGTTTCGGCTATTACTCATCTTA
130 GCTGAAA-ATACAAGAGAAAAGAAAGCTTTTTCTTTCAACTAGGTTTCGGCTATTACTCATCTTA
* *
58201504 ATTAAGGTATGATTTTTGATCTATTTTTTATAATTTCTACGTTTTTGTGATCATTACTTTATGTT
194 ATTAAGGTATGATTTTTGATCTATTTTTT-TTATTTCTACGTTTTTGTGATCGTTACTTTATGTT
*
58201569 CTATCAAGACCATGTCTCAATTTTTGAACTTGATGATGATGTTGAATTATTCCATTGATGCTTTT
258 CTATCAAGACCATGTCTCAATTTTTGAACTTGATGATGATTTTGAATTATTCCATTGATGCTTTT
58201634 ATGAGCTTTGTGATGATAGTTGATGAAAAATGAAAGATATGTTTTAGATTACTATGTTTTGTATT
323 ATGAGCTTTGTGATGATAGTTGATGAAAAATGAAAGATATGTTTTAGATTACTATGTTTTGTATT
58201699 GAGATTTTTGATGAATTTGAGTACCTTGGGCTAAATTGTGAAAATAAGAAATTGAAGGACTAAAA
388 GAGATTTTTGATGAATTTGAGTACCTTGGGCTAAATTGTGAAAATAAGAAATTGAAGGACTAAAA
58201764 TGTGAAATAAATGAAATATGTAGGCTTGTATGAGCTAAAGGAATATTCGACCAAGCATATGTCTA
453 TGTGAAATAAATGAAATATGTAGGCTTGTATGAGCTAAAGGAATATTCGACCAAGCATATGTCTA
58201829 AAGAAATTTTGTGTA-TTTGTTGATTTTATGAATTAGGGACTAAATTGTTAAAATGTGAAAATGT
518 AAGAAATTTTGTGTATTTTG-TGATTTTATGAATTAGGGACTAAATTGTTAAAATGTGAAAATGT
*
58201893 GAGGGCTAATTTGTAAAATACCCTAAATATGTGTATATGGATTTATTTGAATGAATGTGAGATTG
582 GAGGGCTAATTTGTAAAATGCCCTAAATATGTGTATATGGATTTATTTGAATGAATGTGAGATTG
*
58201958 AATAAGTCAAATTTGAATGTGTTTGGATCAAGAACCAAACAAAACAGAATTAGATCGGGAAAAGT
647 AATAAGTCAAATTTGAATGTGTTTAGATCAAGAACCAAACAAAACAGAATTAGATCGGGAAAAGT
58202023 CAAAAGTCGTTGAATAG
712 CAAAAGTCGTTGAATAG
58202040 TTAAATGACATTGACAGGCATTAGTTAGTGGAATTTTAAATGATAATAATAATGTTATTTTGGTA
1 TTAAATGACATTGACAGGCATTAGTTAGTGGAATTTTAAATGATAATAATAA-GTTATTTTGGTA
58202105 AAGTATGTATTAATGTTATGTTAAATAAAACAAAATGAATCAAGTTGTTATTCTTTCACCATATT
65 AAGTATGTATTAATGTTATGTTAAATAAAACAAAATGAATCAAGTTGTTATTCTTTCACCATATT
58202170 GCTGAAAATACAAGAGAAAAGAAAGCTTTTTCTTTCAACTAGGTTTCGGCTATTACTCATCTTAA
130 GCTGAAAATACAAGAGAAAAGAAAGCTTTTTCTTTCAACTAGGTTTCGGCTATTACTCATCTTAA
*
58202235 TTAAGGTATGATTTTTGATCTGTTTTTTTTATTTCTACGTTTTTGTGATCGTTACTTTATGTTCT
195 TTAAGGTATGATTTTTGATCTATTTTTTTTATTTCTACGTTTTTGTGATCGTTACTTTATGTTCT
*
58202300 ATCAAGACCATGTCTCAATTTCTGAACTTGATGATGATTTTGAATTATTCCATTGATGCTTTTAT
260 ATCAAGACCATGTCTCAATTTTTGAACTTGATGATGATTTTGAATTATTCCATTGATGCTTTTAT
* *
58202365 GAGCTTTGTGATGATAGTTGATGAAAAATGAAAGATATGTGTTAGATTACTATGTTTTGTATTGG
325 GAGCTTTGTGATGATAGTTGATGAAAAATGAAAGATATGTTTTAGATTACTATGTTTTGTATTGA
*
58202430 GATTTTTGATGAATTTGAGTACCTTGGGCTAAATTGTGAAAATAAGAAATTCAAGGACTAAAATG
390 GATTTTTGATGAATTTGAGTACCTTGGGCTAAATTGTGAAAATAAGAAATTGAAGGACTAAAATG
58202495 TGAAATAAATGAAATATGTAGGCTTGTATGAGCTAAAGGAATATTCGACCAAGCATATGTCTAAA
455 TGAAATAAATGAAATATGTAGGCTTGTATGAGCTAAAGGAATATTCGACCAAGCATATGTCTAAA
58202560 GAAATTTTGTGTATTTTGTGATTTTATGAATTAGGGACTAAATTGTTAAAATGTGAAAATGTGAG
520 GAAATTTTGTGTATTTTGTGATTTTATGAATTAGGGACTAAATTGTTAAAATGTGAAAATGTGAG
58202625 GGCTAATTTGTAAAATGCCCTAAATATGTGTATATGGATTTATTTGAATGAATGTGAGATTGAAT
585 GGCTAATTTGTAAAATGCCCTAAATATGTGTATATGGATTTATTTGAATGAATGTGAGATTGAAT
*
58202690 AAGTCAAATTTGAATGTGTTTAGATCAAGAACCAAACAAAACAGAATTATATCGGGAAAAGTCAA
650 AAGTCAAATTTGAATGTGTTTAGATCAAGAACCAAACAAAACAGAATTAGATCGGGAAAAGTCAA
58202755 AAGTCGTTGAATAG
715 AAGTCGTTGAATAG
58202769 TT
1 TT
58202771 TCTCATTTTC
Statistics
Matches: 1424, Mismatches: 29, Indels: 16
0.97 0.02 0.01
Matches are distributed among these distances:
727 3 0.00
728 376 0.26
729 708 0.50
730 334 0.23
731 3 0.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (728 bp):
TTAAATGACATTGACAGGCATTAGTTAGTGGAATTTTAAATGATAATAATAAGTTATTTTGGTAA
AGTATGTATTAATGTTATGTTAAATAAAACAAAATGAATCAAGTTGTTATTCTTTCACCATATTG
CTGAAAATACAAGAGAAAAGAAAGCTTTTTCTTTCAACTAGGTTTCGGCTATTACTCATCTTAAT
TAAGGTATGATTTTTGATCTATTTTTTTTATTTCTACGTTTTTGTGATCGTTACTTTATGTTCTA
TCAAGACCATGTCTCAATTTTTGAACTTGATGATGATTTTGAATTATTCCATTGATGCTTTTATG
AGCTTTGTGATGATAGTTGATGAAAAATGAAAGATATGTTTTAGATTACTATGTTTTGTATTGAG
ATTTTTGATGAATTTGAGTACCTTGGGCTAAATTGTGAAAATAAGAAATTGAAGGACTAAAATGT
GAAATAAATGAAATATGTAGGCTTGTATGAGCTAAAGGAATATTCGACCAAGCATATGTCTAAAG
AAATTTTGTGTATTTTGTGATTTTATGAATTAGGGACTAAATTGTTAAAATGTGAAAATGTGAGG
GCTAATTTGTAAAATGCCCTAAATATGTGTATATGGATTTATTTGAATGAATGTGAGATTGAATA
AGTCAAATTTGAATGTGTTTAGATCAAGAACCAAACAAAACAGAATTAGATCGGGAAAAGTCAAA
AGTCGTTGAATAG
Found at i:58203123 original size:43 final size:43
Alignment explanation
Indices: 58202988--58203160 Score: 181
Period size: 43 Copynumber: 4.0 Consensus size: 43
58202978 TAGAATTTTC
* * *
58202988 GATATGTGATTTCGTGTAAGACCACATCTGGGACGTTGGCATC
1 GATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATT
* * * *
58203031 GAT-TTGAGATTTACGTGTAAGACTATGTCTGGGACATTGGCA-T
1 GATATT-TGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATT
* * **
58203074 CATATTTGATTTCGTGTGAGACCTTGTCTGGGACAG-TGGCATT
1 GATATTTGATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATT
* *
58203117 GATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCATT
1 GATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATT
58203160 G
1 G
58203161 TACGACCTTT
Statistics
Matches: 105, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
42 26 0.25
43 52 0.50
44 27 0.26
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.34
Consensus pattern (43 bp):
GATATTTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATT
Found at i:58206053 original size:68 final size:63
Alignment explanation
Indices: 58205937--58206195 Score: 220
Period size: 68 Copynumber: 3.9 Consensus size: 63
58205927 TGGATGATAC
* ** * *
58205937 AGATAGTATGTAGCTAGGTCACATGTATGGTGCT-GAGTGCACATCATGT-GTACAAGAGAGCTA
1 AGATA-TATGTAGCTAGGTCGCATGGGTGGTACTAGTGTGCAC--CATGTAG-ACAAGAGAGCTA
58206000 CAAG
62 C--G
* *
58206004 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTGCACCATGTAGACAAGAGAGCTAC
1 AGA-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGTGCACCATGTAGACAAGAGAGCTAC
58206069 G
63 G
* * * *
58206070 GGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 AGATATATGTAGCTAGGTCGCATGGGTGGTACTA-GTG--TG-CACCATGTAGACAAGAGAGCTA
58206135 CG
62 CG
* * * *
58206137 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCGCATGGGTGGTACT-AGTGTGCACCATGTAG-ACAAGAGAGC
58206196 CGAACTCTAT
Statistics
Matches: 160, Mismatches: 22, Indels: 24
0.78 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.11
64 28 0.17
65 3 0.02
66 26 0.16
67 34 0.21
68 42 0.26
69 1 0.01
70 7 0.04
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (63 bp):
AGATATATGTAGCTAGGTCGCATGGGTGGTACTAGTGTGCACCATGTAGACAAGAGAGCTACG
Found at i:58206093 original size:64 final size:63
Alignment explanation
Indices: 58206012--58206195 Score: 210
Period size: 67 Copynumber: 2.8 Consensus size: 63
58206002 AGACATTATG
* * *
58206012 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTGCACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGTGCACCATGTAGACAAGAGAGCTACGAGATAA
* * *
58206076 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA-GTG--TG-CACCATGTAGACAAGAGAGCTACGAGAT
58206141 AA
62 AA
* * *
58206143 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-AGTGTGCACCATGTAG-ACAAGAGAGC
58206196 CGAACTCTAT
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.18
64 28 0.27
66 24 0.24
67 31 0.30
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTAGTGTGCACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:58209309 original size:31 final size:31
Alignment explanation
Indices: 58209271--58209331 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
58209261 TGGAAATGTT
58209271 TGATCTGATCGACCTGAGTGTGGATATTGTC
1 TGATCTGATCGACCTGAGTGTGGATATTGTC
58209302 TGATCTGATCGACCTGAGTGTGGATATTGT
1 TGATCTGATCGACCTGAGTGTGGATATTGT
58209332 GGTAAAAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.36
Consensus pattern (31 bp):
TGATCTGATCGACCTGAGTGTGGATATTGTC
Found at i:58213534 original size:58 final size:58
Alignment explanation
Indices: 58213469--58213584 Score: 187
Period size: 58 Copynumber: 2.0 Consensus size: 58
58213459 TTAATTAAGG
* * * *
58213469 TATGATTTTTTATCGGTTTTTGATAATTTCTACGTTTTTGTGATCGTTTCTTTGTGTT
1 TATGATTTTTTATCGATTGTTGATAATTTCTACGTTTTTGTGATCGTTGCTTTATGTT
*
58213527 TATGATTTTTTATCGATTGTTGATAATTTTTACGTTTTTGTGATCGTTGCTTTATGTT
1 TATGATTTTTTATCGATTGTTGATAATTTCTACGTTTTTGTGATCGTTGCTTTATGTT
58213585 CTATCAAGCC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.16, C:0.08, G:0.17, T:0.59
Consensus pattern (58 bp):
TATGATTTTTTATCGATTGTTGATAATTTCTACGTTTTTGTGATCGTTGCTTTATGTT
Found at i:58214369 original size:43 final size:42
Alignment explanation
Indices: 58214283--58214405 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
58214273 GATTTGAGAT
* * * *
58214283 TTACCTGTAGGACCATGTCTGGGACATTAGCATCGTACTTGA
1 TTACATGTAAGACCCTGTCTGGGACATTGGCATCGTACTTGA
* * * *
58214325 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACATGTAAGACCCTGTCTGGGACATTGGCATCG-TACTTGA
* *
58214368 TTACATGTAAGACCAC-GTCTAGGACATTGGCATTGTAC
1 TTACATGTAAGACC-CTGTCTGGGACATTGGCATCGTAC
58214406 ATCCTTTCCA
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 31 0.47
43 34 0.52
44 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCCTGTCTGGGACATTGGCATCGTACTTGA
Found at i:58215157 original size:23 final size:22
Alignment explanation
Indices: 58215126--58215171 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
58215116 TTATGAATCA
*
58215126 TATGTTTTGGTATGACTTTGGTT
1 TATGATTTGGTATGA-TTTGGTT
58215149 TATGATTTGGTATGATTTGGTT
1 TATGATTTGGTATGATTTGGTT
58215171 T
1 T
58215172 GAATATAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.15, C:0.02, G:0.26, T:0.57
Consensus pattern (22 bp):
TATGATTTGGTATGATTTGGTT
Found at i:58215164 original size:10 final size:10
Alignment explanation
Indices: 58215126--58215169 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
58215116 TTATGAATCA
*
58215126 TATGTTTTGG
1 TATGATTTGG
58215136 TATGACTTTGG
1 TATGA-TTTGG
58215147 TTTATGATTTGG
1 --TATGATTTGG
58215159 TATGATTTGG
1 TATGATTTGG
58215169 T
1 T
58215170 TTGAATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 15 0.50
11 5 0.17
12 5 0.17
13 5 0.17
ACGTcount: A:0.16, C:0.02, G:0.27, T:0.55
Consensus pattern (10 bp):
TATGATTTGG
Found at i:58216639 original size:51 final size:48
Alignment explanation
Indices: 58216481--58216703 Score: 211
Period size: 50 Copynumber: 4.5 Consensus size: 48
58216471 ATATGTATAA
* *
58216481 TAGCCTGCACTTAGTACTACACATGCGATCAA-CAATTCGATACACGTAG
1 TAGCCTGCACTTAGTACTACACATGTGATCAATC-ATTAG-TACACGTAG
* * *
58216530 TAGCCTACACTTAGTACTATACACGTGAACTC-ATCATCT-GATACACGTAG
1 TAGCCTGCACTTAGTACTACACATGTG-A-TCAATCAT-TAG-TACACGTAG
* *
58216580 TAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTAAGTACGCATAG
1 TAGCCTGCACTTAGTACTACACATGTGATC-AA-TCATT-AGTACACGTAG
* * *
58216631 TAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGTATGATACACGTAG
1 TAGCCTGCACTTAGTACTACACATGTGA-TCAATCATTA-G-TACACGTAG
*
58216681 TAGCCTACACTTAGTACTACACA
1 TAGCCTGCACTTAGTACTACACA
58216704 CGTGTATTCA
Statistics
Matches: 147, Mismatches: 15, Indels: 23
0.79 0.08 0.12
Matches are distributed among these distances:
48 3 0.02
49 28 0.19
50 70 0.48
51 44 0.30
52 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (48 bp):
TAGCCTGCACTTAGTACTACACATGTGATCAATCATTAGTACACGTAG
Found at i:58216677 original size:101 final size:99
Alignment explanation
Indices: 58216481--58216703 Score: 272
Period size: 101 Copynumber: 2.2 Consensus size: 99
58216471 ATATGTATAA
* *
58216481 TAGCCTGCACTTAGTACTACACATGCGATCAACAATTCGATACACGTAGTAGCCTACACTTAGTA
1 TAGCCTGCACTTAGTACTACACATGCGATCAACAATTAGATACACATAGTAGCCTACACTTAGTA
* * * *
58216546 CTATACACGTGAACTCATCATCTGATACACGTAG
66 CTACACACGCGAACTCAACATATGATACACGTAG
* * *
58216580 TAGCCTGCACTTAGTACTACACATGTGATCGAAGTC-ATTA-AGTACGCATAGTAGCCTGCACTT
1 TAGCCTGCACTTAGTACTACACATGCGATC-AA--CAATTAGA-TACACATAGTAGCCTACACTT
* *
58216643 AGTACTACACATGCG-ACTTAACAGTATGATACACGTAG
62 AGTACTACACACGCGAACTCAACA-TATGATACACGTAG
*
58216681 TAGCCTACACTTAGTACTACACA
1 TAGCCTGCACTTAGTACTACACA
58216704 CGTGTATTCA
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
99 29 0.27
100 9 0.08
101 68 0.64
102 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (99 bp):
TAGCCTGCACTTAGTACTACACATGCGATCAACAATTAGATACACATAGTAGCCTACACTTAGTA
CTACACACGCGAACTCAACATATGATACACGTAG
Found at i:58224177 original size:46 final size:48
Alignment explanation
Indices: 58224090--58224186 Score: 135
Period size: 48 Copynumber: 2.1 Consensus size: 48
58224080 TACATAAATT
* *
58224090 ATTCCTGTCTCCAATGCCATATATATATAATATGGGCTTACATAGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATAATATGGACTTACATAGCTC
* * *
58224138 ATTCCTGTCTCCAAAGCCATATA-A-CTGATATGGACTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCATATATATATAATATGGACTTACATAGCTC
58224184 ATT
1 ATT
58224187 TATGTCCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
46 21 0.48
47 1 0.02
48 22 0.50
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (48 bp):
ATTCCTGTCTCCAAAGCCATATATATATAATATGGACTTACATAGCTC
Found at i:58230916 original size:44 final size:43
Alignment explanation
Indices: 58230769--58230927 Score: 191
Period size: 43 Copynumber: 3.7 Consensus size: 43
58230759 AGCTCATACA
* *
58230769 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATAT-G
* *
58230812 ATGCC-ACTGTCCTAGACAGGGTCTTACACG-AAATCAAATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAATATG
* *
58230854 ATACCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-TG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAA--TCAAATATG
*
58230898 ATGCCAACGTCCCAGACATGTTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
58230928 AAAACACATA
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
42 27 0.27
43 37 0.37
44 29 0.29
45 6 0.06
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATATG
Found at i:58247842 original size:18 final size:17
Alignment explanation
Indices: 58247801--58247845 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
58247791 ACAGTGGAAT
*
58247801 AAAATAATTTAAACAAA
1 AAAATTATTTAAACAAA
*
58247818 AAAATTATTTGAACAAA
1 AAAATTATTTAAACAAA
58247835 ACAAATTATTT
1 A-AAATTATTT
58247846 TTGAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAATTATTTAAACAAA
Found at i:58249507 original size:21 final size:21
Alignment explanation
Indices: 58249483--58249522 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
58249473 GAGTTCGAAT
* *
58249483 TTAAAATTTATATTTAATTAA
1 TTAAAATTTAAATATAATTAA
58249504 TTAAAATTTAAATATAATT
1 TTAAAATTTAAATATAATT
58249523 TATTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAAATTTAAATATAATTAA
Found at i:58249820 original size:22 final size:22
Alignment explanation
Indices: 58249792--58249861 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
58249782 ACAATTTAAT
58249792 AAGAGAATCAGTTTTTCAGTAA
1 AAGAGAATCAGTTTTTCAGTAA
* * *
58249814 AAGAG-A--AGGTTTTAAGCT-T
1 AAGAGAATCAGTTTTTCAG-TAA
58249833 AAGAGAATCAGTTTTTCAGTAA
1 AAGAGAATCAGTTTTTCAGTAA
58249855 AAGAGAA
1 AAGAGAA
58249862 GGTTTTAAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
19 13 0.35
20 2 0.05
21 2 0.05
22 20 0.54
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (22 bp):
AAGAGAATCAGTTTTTCAGTAA
Found at i:58249840 original size:41 final size:41
Alignment explanation
Indices: 58249791--58249873 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
58249781 TACAATTTAA
58249791 TAAGAGAATCAGTTTTTCAGTAAAAGAGAAGGTTTTAAGCT
1 TAAGAGAATCAGTTTTTCAGTAAAAGAGAAGGTTTTAAGCT
58249832 TAAGAGAATCAGTTTTTCAGTAAAAGAGAAGGTTTTAAGCT
1 TAAGAGAATCAGTTTTTCAGTAAAAGAGAAGGTTTTAAGCT
58249873 T
1 T
58249874 CATACATTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.33
Consensus pattern (41 bp):
TAAGAGAATCAGTTTTTCAGTAAAAGAGAAGGTTTTAAGCT
Found at i:58251187 original size:41 final size:41
Alignment explanation
Indices: 58251130--58251212 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
58251120 GGTGACTTTG
58251130 ATTATCATTTACCCTAGCTTTTTCTCCACATTCCCAAAACA
1 ATTATCATTTACCCTAGCTTTTTCTCCACATTCCCAAAACA
58251171 ATTATCATTTACCCTAGCTTTTTCTCCACATTCCCAAAACA
1 ATTATCATTTACCCTAGCTTTTTCTCCACATTCCCAAAACA
58251212 A
1 A
58251213 GGCATTTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.30, C:0.31, G:0.02, T:0.36
Consensus pattern (41 bp):
ATTATCATTTACCCTAGCTTTTTCTCCACATTCCCAAAACA
Found at i:58254351 original size:26 final size:26
Alignment explanation
Indices: 58254322--58254373 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
58254312 CAAAAATTCA
58254322 TGGTAACTGAAACAAA-ACATAAGACT
1 TGGTAACTGAAACAAACA-ATAAGACT
58254348 TGGTAACTGAAACAAACAATAAGACT
1 TGGTAACTGAAACAAACAATAAGACT
58254374 ATCTTTGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.19
Consensus pattern (26 bp):
TGGTAACTGAAACAAACAATAAGACT
Found at i:58259887 original size:22 final size:21
Alignment explanation
Indices: 58259718--58259887 Score: 69
Period size: 22 Copynumber: 7.3 Consensus size: 21
58259708 ACATGCAAAT
*
58259718 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGG-TGAATGGCCA
*
58259740 ATGTGATGAATGTGAACAT-G-CA
1 ATGTGAT-AAGGTG-A-ATGGCCA
*
58259762 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGG-TGAATGGCCA
* *
58259787 ATGTGATGAATGTGAACAT-GCAAA
1 ATGTGAT-AAGGTG-A-ATGGC-CA
*
58259811 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGG-TGAATGGCCA
*
58259834 ATGTGATGAATGTGAACAT-GCACA
1 ATGTGAT-AAGGTG-A-ATGGC-CA
58259858 TATGTGATAAGGTAGAATGGCCA
1 -ATGTGATAAGGT-GAATGGCCA
58259881 ATGTGAT
1 ATGTGAT
58259888 GAACGTGGAA
Statistics
Matches: 112, Mismatches: 13, Indels: 46
0.65 0.08 0.27
Matches are distributed among these distances:
22 32 0.29
23 27 0.24
24 28 0.25
25 25 0.22
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (21 bp):
ATGTGATAAGGTGAATGGCCA
Found at i:58259920 original size:141 final size:141
Alignment explanation
Indices: 58259603--58259930 Score: 480
Period size: 141 Copynumber: 2.3 Consensus size: 141
58259593 GATTTTATGA
* * *
58259603 GATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * *
58259668 TATGTGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCAAATATGTGATAAGGCCGA
66 AATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCAAATATGTGATAAGGCAGA
58259733 ATGGCCAATGT
131 ATGGCCAATGT
* * *
58259744 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * *
58259809 AATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCACATATGTGATAAGGTAGA
66 AATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCAAATATGTGATAAGGCAGA
58259874 ATGGCCAATGT
131 ATGGCCAATGT
* * * *
58259885 GATGAACGTGGAA-GTGTATATATGTGGCGAA-GCCGAATGGCTAATG
1 GATGAACGT-GAACATGCATATATGT-GAGAAGGCCGAATGGCCAATG
58259931 CGAGATGTGT
Statistics
Matches: 170, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
141 164 0.96
142 6 0.04
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (141 bp):
GATGAACGTGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
AATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCAAATATGTGATAAGGCAGA
ATGGCCAATGT
Found at i:58259925 original size:47 final size:47
Alignment explanation
Indices: 58259603--58259890 Score: 495
Period size: 47 Copynumber: 6.1 Consensus size: 47
58259593 GATTTTATGA
*
58259603 GATGAATGTGAACGTGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
58259650 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGACCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
58259697 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
58259744 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
58259791 GATGAATGTGAACATGCAAATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* **
58259838 GATGAATGTGAACATGCACATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
58259885 GATGAA
1 GATGAA
58259891 CGTGGAAGTG
Statistics
Matches: 228, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 228 1.00
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:58259964 original size:46 final size:46
Alignment explanation
Indices: 58259914--58260040 Score: 182
Period size: 46 Copynumber: 2.8 Consensus size: 46
58259904 ATATGTGGCG
58259914 AAGCCGAATGGCTAATGCGAGATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAGATGTGTATGAGATGGATATGAGGTA
* * *
58259960 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGTGGTA
1 AAGCCGAATGGCTAATGCGAGATGTGTATGAGATGGATATGAGGTA
** * * *
58260006 AAGCTAAATGGCTAATGTGAGATATGCATGAGATG
1 AAGCCGAATGGCTAATGCGAGATGTGTATGAGATG
58260041 TGTTTATATA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.24
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAGATGTGTATGAGATGGATATGAGGTA
Found at i:58266294 original size:33 final size:34
Alignment explanation
Indices: 58266227--58266294 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
58266217 CTGTTCCAAT
* *
58266227 ATGGGCTAAGGCCCAGACTGATTTTATCAGTGAA
1 ATGGGCTAAGGCCCAGACTGATATTATCACTGAA
* * *
58266261 ATGGGCTAAGG-CCAGACTGCTATTGTTACTGAA
1 ATGGGCTAAGGCCCAGACTGATATTATCACTGAA
58266294 A
1 A
58266295 AGGGGTTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (34 bp):
ATGGGCTAAGGCCCAGACTGATATTATCACTGAA
Done.