Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 292 of 410
Found at i:89938414 original size:14 final size:15
Alignment explanation
Indices: 89938395--89938424 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89938385 GTTTATTATA
89938395 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
89938409 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
89938424 T
1 T
89938425 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:89940189 original size:43 final size:45
Alignment explanation
Indices: 89940098--89940211 Score: 130
Period size: 43 Copynumber: 2.6 Consensus size: 45
89940088 TTCGAGCCTC
* * * *
89940098 GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTATCGGGCTTCG
1 GGCCTAGCAGGCTATAATGCCGGTGAATAATATTATCGGGCTTCA
89940142 GGCCTAGCAGGCTATAATGCCGGTGAGATAATA-T-T-GGGCTTCA
1 GGCCTAGCAGGCTATAATGCCGGTGA-ATAATATTATCGGGCTTCA
* *
89940185 GGCCTAGCAGGCGA-AATGTCGGTGAAT
1 GGCCTAGCAGGCTATAATGCCGGTGAAT
89940212 GAGTTCAGAC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
41 2 0.03
42 10 0.16
43 20 0.32
44 16 0.26
45 8 0.13
46 6 0.10
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
GGCCTAGCAGGCTATAATGCCGGTGAATAATATTATCGGGCTTCA
Found at i:89943814 original size:40 final size:40
Alignment explanation
Indices: 89943717--89943892 Score: 194
Period size: 40 Copynumber: 4.4 Consensus size: 40
89943707 CGAATGGTAT
* * *
89943717 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
89943758 TCCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
89943798 ACCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
89943838 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
89943879 -CCGGGCTATGTCCC
1 TCCGGGCTAAGTCCC
89943893 AAAGACAATC
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 86 0.75
41 28 0.25
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:89943858 original size:80 final size:81
Alignment explanation
Indices: 89943718--89943892 Score: 237
Period size: 80 Copynumber: 2.2 Consensus size: 81
89943708 GAATGGTATT
* *
89943718 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
89943783 GTGCGAGTTACCAAAA
66 GTGCGAGTTACCAAAA
* * *
89943799 CCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * * *
89943862 TGTGCGAATCACTATAA
65 TGTGCGAGTTACCAAAA
*
89943879 CCGGGCTATGTCCC
1 CCGGGCTAAGTCCC
89943893 AAAGACAATC
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
79 1 0.01
80 56 0.68
81 25 0.30
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAGTTACCAAAA
Found at i:89945542 original size:32 final size:32
Alignment explanation
Indices: 89945474--89945535 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
89945464 AAAATAAGCT
* * * *
89945474 CACACGGCCTACCTAACCTACTCGTGTGATCC
1 CACACAGCCTACCTAAACTACCCGTGTAATCC
*
89945506 CACACAGCCTACCTAAATTACCCGTGTAAT
1 CACACAGCCTACCTAAACTACCCGTGTAAT
89945536 TGCACACGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.27, C:0.37, G:0.13, T:0.23
Consensus pattern (32 bp):
CACACAGCCTACCTAAACTACCCGTGTAATCC
Found at i:89953241 original size:16 final size:16
Alignment explanation
Indices: 89953220--89953261 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
89953210 TTTTTTGTTT
89953220 TTTTTAATATTAAATA
1 TTTTTAATATTAAATA
*
89953236 TTTTTAAGATTAAATA
1 TTTTTAATATTAAATA
* *
89953252 ATATTAATAT
1 TTTTTAATAT
89953262 AACCAATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTTTAATATTAAATA
Found at i:89953458 original size:31 final size:31
Alignment explanation
Indices: 89953423--89953492 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
89953413 ATTACAAAAT
*
89953423 AGTCATTGAATTATTCGAAAA-TTTTCATTTA
1 AGTCATTGAACTATTC-AAAAGTTTTCATTTA
* *
89953454 AGTCATTAAACTATTCAAAAGTTTTTATTTA
1 AGTCATTGAACTATTCAAAAGTTTTCATTTA
89953485 AGTCATTG
1 AGTCATTG
89953493 GGCTATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (31 bp):
AGTCATTGAACTATTCAAAAGTTTTCATTTA
Found at i:89965330 original size:12 final size:11
Alignment explanation
Indices: 89965311--89965341 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
89965301 TGTATAAAAC
89965311 TTATTTTATTA
1 TTATTTTATTA
89965322 TTAATTTTATTA
1 TT-ATTTTATTA
89965334 TTATTTTA
1 TTATTTTA
89965342 AAGGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:89965358 original size:30 final size:30
Alignment explanation
Indices: 89965322--89965380 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
89965312 TATTTTATTA
89965322 TTAATTTTATTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
89965352 TTAATTTTATTATTATTTTAGAGGTATTT
1 TTAATTTTATTATTATTTTAAAGGCATTT
89965381 TCTTGTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:89969813 original size:39 final size:39
Alignment explanation
Indices: 89969729--89969885 Score: 174
Period size: 39 Copynumber: 4.0 Consensus size: 39
89969719 CAAATCCAAT
* * *
89969729 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCAGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TT-AGCCCGGATATAA
* *
89969769 TACCAGCAC-AAAGCCTGCAGGACTTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGAC-TTAGCCCGGATATAA
** * *
89969808 CACCAGCACGAATTCCTTCGTGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
* *
89969847 CACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
89969886 TTCTCCATTA
Statistics
Matches: 103, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
39 72 0.70
40 31 0.30
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAA
Found at i:89973185 original size:33 final size:33
Alignment explanation
Indices: 89973146--89973216 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
89973136 AATTGACCGA
89973146 AATGCCCTTCTTTATTAAACTTTCAAATTTCTC
1 AATGCCCTTCTTTATTAAACTTTCAAATTTCTC
89973179 AATGCCCTTCTTTATTAAACTTTCAAATTTCTC
1 AATGCCCTTCTTTATTAAACTTTCAAATTTCTC
89973212 AATGC
1 AATGC
89973217 ATGCCCATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.28, C:0.24, G:0.04, T:0.44
Consensus pattern (33 bp):
AATGCCCTTCTTTATTAAACTTTCAAATTTCTC
Found at i:89984123 original size:29 final size:28
Alignment explanation
Indices: 89984090--89984188 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 28
89984080 AGTGAATCCA
*
89984090 CACACTTAGTGCTATATACATTC-AGCTCG
1 CACACTTAGTGCTATATA-A-TCAAACTCG
89984119 CACACTTAGTGCTATATAATCAAACTCG
1 CACACTTAGTGCTATATAATCAAACTCG
* * * * *
89984147 CACGCTTAGTGCTGTACAATTTTAAACCCG
1 CACACTTAGTGCTATATAA--TCAAACTCG
89984177 CACACTTAGTGC
1 CACACTTAGTGC
89984189 CAATCTTGTC
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.37
29 18 0.30
30 18 0.30
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CACACTTAGTGCTATATAATCAAACTCG
Found at i:89985635 original size:40 final size:40
Alignment explanation
Indices: 89985591--89985775 Score: 298
Period size: 40 Copynumber: 4.6 Consensus size: 40
89985581 AACCCAATTA
* * ** *
89985591 CCTTCGGGATTTAGCCCGGATGTAACAACCAGCACAAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
89985631 CCTTCGGGACTTAACCCGGAAATAGCAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
89985671 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
89985711 CCTTCGGGACTTAACCCGGGAATAACAACCAGCACGAATG
1 CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
*
89985751 CCTTCGGGACTTAACCCGGATATAA
1 CCTTCGGGACTTAACCCGGAAATAA
89985776 TCCTCAATTG
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 135 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGAAATAACAACCAGCACGAATG
Found at i:89989128 original size:25 final size:25
Alignment explanation
Indices: 89989100--89989158 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
89989090 CTACCTATAG
*
89989100 TAGTTTCATAATATACTATCCATAA
1 TAGTTTCAGAATATACTATCCATAA
89989125 TAGTTTCAGAATATACTATCCATAA
1 TAGTTTCAGAATATACTATCCATAA
89989150 TAGTTTCAG
1 TAGTTTCAG
89989159 TTTAAAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.39
Consensus pattern (25 bp):
TAGTTTCAGAATATACTATCCATAA
Found at i:89990964 original size:49 final size:49
Alignment explanation
Indices: 89990765--89991029 Score: 192
Period size: 49 Copynumber: 5.5 Consensus size: 49
89990755 TGTGTGTGCT
* *
89990765 AGTGTAAGACCTGTCTGGGACATGGTATCGACACCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAGATGAGAGCC
* * * *
89990814 AATGTAAGACCTATCTGGGACATGGCATCGGCCTCAAGAT--ATGCA-A-CC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACAC-AGATAGATG-AGAGCC
* * * * * * * *
89990862 TAGTGTAAGACTTGTCTGGGACATGGCATTG-----GCTTGAGGTGTGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAGATGAGAGCC
* * *
89990907 AGTGTAAGACCTATCTGAGACATGGCATCGACACAGATAAATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAGATGAGAGCC
* **
89990956 AGTGTAAGACCTGTCTGGGACATGGCATCAACTTAGAT-G-TGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAGATGAGAGCC
* * * *
89991003 AGTATAAAACCATGTTTGGAACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
89991030 GTCGGCATCG
Statistics
Matches: 166, Mismatches: 36, Indels: 29
0.72 0.16 0.13
Matches are distributed among these distances:
42 2 0.01
44 28 0.17
45 1 0.01
47 17 0.10
48 16 0.10
49 95 0.57
50 4 0.02
51 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAGATGAGAGCC
Found at i:90007117 original size:24 final size:24
Alignment explanation
Indices: 90007058--90007198 Score: 112
Period size: 23 Copynumber: 5.8 Consensus size: 24
90007048 TCACTGCAAT
* *
90007058 TCGTATGAGCTTACTGATATATGAGC
1 TCGTATGAGCTTACTG-T-TCTCAGC
* * *
90007084 TCATAAGAGCTTACTATTCTCAGC
1 TCGTATGAGCTTACTGTTCTCAGC
90007108 TCGTATGAGCTTACTGTTC-CAGC
1 TCGTATGAGCTTACTGTTCTCAGC
*
90007131 TCGT-TAGAGCTTACCGTT-TCAGC
1 TCGTAT-GAGCTTACTGTTCTCAGC
*
90007154 TC-AATAGAGCTTACTGTTCATCAGC
1 TCGTAT-GAGCTTACTGTTC-TCAGC
*
90007179 TCAGGA-GAAGCTTACTGTTC
1 TC-GTATG-AGCTTACTGTTC
90007199 ATAGCTTGAA
Statistics
Matches: 95, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
22 1 0.01
23 38 0.40
24 21 0.22
25 9 0.09
26 25 0.26
27 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (24 bp):
TCGTATGAGCTTACTGTTCTCAGC
Found at i:90007140 original size:23 final size:23
Alignment explanation
Indices: 90007089--90007198 Score: 116
Period size: 23 Copynumber: 4.6 Consensus size: 23
90007079 TGAGCTCATA
*
90007089 AGAGCTTACTATTCTCAGCTCGT
1 AGAGCTTACTGTTCTCAGCTCGT
90007112 ATGAGCTTACTGTTC-CAGCTCGTT
1 A-GAGCTTACTGTTCTCAGCTCG-T
* *
90007136 AGAGCTTACCGTT-TCAGCTCAAT
1 AGAGCTTACTGTTCTCAGCTC-GT
*
90007159 AGAGCTTACTGTTCATCAGCTCAGG
1 AGAGCTTACTGTTC-TCAGCTC-GT
90007184 AGAAGCTTACTGTTC
1 AG-AGCTTACTGTTC
90007199 ATAGCTTGAA
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
23 38 0.51
24 14 0.19
25 10 0.14
26 12 0.16
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTGTTCTCAGCTCGT
Found at i:90011254 original size:28 final size:28
Alignment explanation
Indices: 90011173--90011259 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
90011163 ATTAGGGCAT
**
90011173 TTTAGGCACT-AGTTGCTAGTGATTATAG
1 TTTAGGCACTCAG-TGCCGGTGATTATAG
* *
90011201 TTTCAGGTACTTCA-TACCGGTG-TTATAG
1 TTT-AGGCAC-TCAGTGCCGGTGATTATAG
90011229 TTTAGGCACTCAGTGCCGGTGATTATAG
1 TTTAGGCACTCAGTGCCGGTGATTATAG
90011257 TTT
1 TTT
90011260 CAAGTACTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
26 3 0.06
27 12 0.25
28 21 0.44
29 10 0.21
30 1 0.02
31 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (28 bp):
TTTAGGCACTCAGTGCCGGTGATTATAG
Found at i:90014193 original size:38 final size:38
Alignment explanation
Indices: 90014142--90014235 Score: 170
Period size: 38 Copynumber: 2.5 Consensus size: 38
90014132 TATGGTATAT
*
90014142 ATAAAAGTTCACTGGTATCGATATCTTTAGCTCCAACG
1 ATAAAAGTCCACTGGTATCGATATCTTTAGCTCCAACG
*
90014180 ATAAAAGTCCACTGGTATCGATATCTTTAGCTCCAACT
1 ATAAAAGTCCACTGGTATCGATATCTTTAGCTCCAACG
90014218 ATAAAAGTCCACTGGTAT
1 ATAAAAGTCCACTGGTAT
90014236 AGTATTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (38 bp):
ATAAAAGTCCACTGGTATCGATATCTTTAGCTCCAACG
Found at i:90015940 original size:13 final size:13
Alignment explanation
Indices: 90015924--90015966 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
90015914 ATTTCAATTT
90015924 TATTTTAATAATA
1 TATTTTAATAATA
*
90015937 TATTTTAAAAATAA
1 TATTTTAATAAT-A
90015951 TAATTTTAAATAATA
1 T-ATTTT-AATAATA
90015966 T
1 T
90015967 TATTCACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 11 0.44
14 2 0.08
15 7 0.28
16 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTTTAATAATA
Found at i:90015951 original size:16 final size:16
Alignment explanation
Indices: 90015929--90015965 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
90015919 AATTTTATTT
90015929 TAATAATATATTTTAAA
1 TAATAATA-ATTTTAAA
90015946 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
90015961 TAATA
1 TAATA
90015966 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:90016516 original size:14 final size:14
Alignment explanation
Indices: 90016497--90016534 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
90016487 CCAGAAAAAT
90016497 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
90016511 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
90016525 AAGTCATTTT
1 AAATCATTTT
90016535 AAGTTAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:90018080 original size:30 final size:30
Alignment explanation
Indices: 90018017--90018080 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
90018007 CACACGGCTG
* * *
90018017 TGTGGGATGGCCATGTGTGGCATACGACCA
1 TGTGGGATGGCCATGGGTGGCACACAACCA
* * *
90018047 TGTGGGGTGGTCATGGGTGGCACACAACTA
1 TGTGGGATGGCCATGGGTGGCACACAACCA
90018077 TGTG
1 TGTG
90018081 ACAGCTCATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.39, T:0.25
Consensus pattern (30 bp):
TGTGGGATGGCCATGGGTGGCACACAACCA
Found at i:90019525 original size:16 final size:16
Alignment explanation
Indices: 90019504--90019535 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
90019494 GTAACGCCCC
90019504 AAAAATCTCGAAATCT
1 AAAAATCTCGAAATCT
90019520 AAAAATCTCGAAATCT
1 AAAAATCTCGAAATCT
90019536 CAAATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (16 bp):
AAAAATCTCGAAATCT
Found at i:90020412 original size:41 final size:41
Alignment explanation
Indices: 90020346--90020430 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
90020336 CGAGTATTCA
90020346 GTCCCTCATTTCTTTCTAATAGACTTTGGTAGGGAATTAGT
1 GTCCCTCATTTCTTTCTAATAGACTTTGGTAGGGAATTAGT
* * *
90020387 GTCCCTCATTTCTTTTTAATCGACTTTGGTTGGGAATTAGT
1 GTCCCTCATTTCTTTCTAATAGACTTTGGTAGGGAATTAGT
90020428 GTC
1 GTC
90020431 AGATCTCGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.44
Consensus pattern (41 bp):
GTCCCTCATTTCTTTCTAATAGACTTTGGTAGGGAATTAGT
Found at i:90020710 original size:16 final size:16
Alignment explanation
Indices: 90020689--90020719 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90020679 ATCGTCAAAA
90020689 GCCGAAAAGCTGAAAT
1 GCCGAAAAGCTGAAAT
*
90020705 GCCGAAAAGTTGAAA
1 GCCGAAAAGCTGAAA
90020720 GTTTGGCTAC
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:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (16 bp):
GCCGAAAAGCTGAAAT
Found at i:90021011 original size:28 final size:28
Alignment explanation
Indices: 90020930--90021015 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
90020920 GTGAGCATGA
*
90020930 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
* *
90020958 ATATGCAGGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
90020987 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
90021015 A
1 A
90021016 GATATAGGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
28 26 0.52
29 24 0.48
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:90028553 original size:29 final size:29
Alignment explanation
Indices: 90028513--90028609 Score: 124
Period size: 29 Copynumber: 3.4 Consensus size: 29
90028503 AATGTGACTA
*
90028513 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
90028542 GGCCTAATGGGCCATATACAGGTGATTTT
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
90028571 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
90028599 GGCTTAATGGG
1 GGCCTAATGGG
90028610 ACAGATACAC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 12 0.21
29 46 0.79
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:90045370 original size:40 final size:40
Alignment explanation
Indices: 90045305--90045380 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
90045295 TATACATAAA
90045305 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACACT
1 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACACT
* * *
90045345 TAGCCGAAGCTATTTCGAA-CAGCACACTAAGTGCCA
1 TAGCCGAAGCTATCTCCAATC-GCACACCAAGTGCCA
90045381 TTTTTTTAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 31 0.97
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACACT
Found at i:90049503 original size:26 final size:26
Alignment explanation
Indices: 90049467--90049576 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
90049457 CATGAAATTC
90049467 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90049493 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90049519 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
90049545 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90049571 TTATCA
1 TTATCA
90049577 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90051968 original size:42 final size:41
Alignment explanation
Indices: 90051921--90052211 Score: 173
Period size: 42 Copynumber: 6.7 Consensus size: 41
90051911 TCTTTTACTT
90051921 GATGCCATAGTCCA-ACTATGGTCTTACACAAAGTCTCATATC
1 GATGCCATA-TCCAGACTATGGTCTTACACAAA-TCTCATATC
* * * * * *
90051963 GATGCCATGTCCTAGA-AATGGTCTTATAGAAATCACATATT
1 GATGCCATATCC-AGACTATGGTCTTACACAAATCTCATATC
* * * *
90052004 GATGCCGTATCCTAGAC-ACGGTCTTACATGAAATCTCATACC
1 GATGCCATATCC-AGACTATGGTCTTACA-CAAATCTCATATC
*
90052046 GAAGCCATATCCCAGA-TATGGTCTTACACATAATCTCATATCGATCTC
1 GATGCCATAT-CCAGACTATGGTCTTACACA-AATCTC--AT--A--TC
* *
90052094 GATGCCATATCC-CACTATGGTATTACACAAGATCTCATATC
1 GATGCCATATCCAGACTATGGTCTTACACAA-ATCTCATATC
* *
90052135 GATGCTGATGGCATATCCTAGA-TATGGTCTTACGCAGGATCTCATATC
1 GATGC------CATATCC-AGACTATGGTCTTACACA-AATCTCATATC
* *
90052183 GATGCCATGTCTCAGGC-ATGGTCTTACAC
1 GATGCCATATC-CAGACTATGGTCTTACAC
90052212 GTATCACAAT
Statistics
Matches: 195, Mismatches: 28, Indels: 52
0.71 0.10 0.19
Matches are distributed among these distances:
41 41 0.21
42 77 0.39
43 5 0.03
44 2 0.01
45 2 0.01
46 3 0.02
47 27 0.14
48 37 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (41 bp):
GATGCCATATCCAGACTATGGTCTTACACAAATCTCATATC
Found at i:90052120 original size:47 final size:47
Alignment explanation
Indices: 90052049--90052187 Score: 174
Period size: 48 Copynumber: 2.9 Consensus size: 47
90052039 TCATACCGAA
90052049 GCCATATCCCAGATATGGTCTTACACATAATCTCATATCGAT-CTCGAT
1 GCCATATCCCAGATATGGTCTTACACA-AATCTCATATCGATGCT-GAT
* *
90052097 GCCATATCCCA-CTATGGTATTACACAAGATCTCATATCGATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACAA-ATCTCATATCGATGCTGAT
* * * *
90052144 GGCATATCCTAGATATGGTCTTACGCAGGATCTCATATCGATGC
1 GCCATATCCCAGATATGGTCTTACACA-AATCTCATATCGATGC
90052188 CATGTCTCAG
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
46 1 0.01
47 38 0.48
48 40 0.51
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (47 bp):
GCCATATCCCAGATATGGTCTTACACAAATCTCATATCGATGCTGAT
Found at i:90052240 original size:36 final size:36
Alignment explanation
Indices: 90052200--90052502 Score: 407
Period size: 37 Copynumber: 8.4 Consensus size: 36
90052190 TGTCTCAGGC
*
90052200 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCT
1 ATGGTCTTACACGTATCACGATGCCATAGCCCAGCT
*
90052236 ATGGTCTTACATGTCATCACGATGCCATAGCCCAGCT
1 ATGGTCTTACACGT-ATCACGATGCCATAGCCCAGCT
* **
90052273 ATGGTCTTACACGAATCATAATGCCATAGCCCAGCT
1 ATGGTCTTACACGTATCACGATGCCATAGCCCAGCT
* *
90052309 ATGGTCTTACATGTCATCACGATGCCATAGCCTAGCT
1 ATGGTCTTACACGT-ATCACGATGCCATAGCCCAGCT
*
90052346 ATAGTCTTACACGTATCACGATGCCATAGCCCAGCT
1 ATGGTCTTACACGTATCACGATGCCATAGCCCAGCT
*
90052382 ATGGTCTTGCACG----ACGATGCCATAGCCCAGCT
1 ATGGTCTTACACGTATCACGATGCCATAGCCCAGCT
* *
90052414 ATGGTCTTGCAGGTCATCACGATGCCATAGCCCAGCT
1 ATGGTCTTACACGT-ATCACGATGCCATAGCCCAGCT
* * * *
90052451 ATGGTCTTACACGCTATTACAATGCAATAGCCCAGCA
1 ATGGTCTTACACG-TATCACGATGCCATAGCCCAGCT
90052488 ATGGTCTTACACGTA
1 ATGGTCTTACACGTA
90052503 CCACATGTAT
Statistics
Matches: 236, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
32 31 0.13
36 79 0.33
37 125 0.53
38 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (36 bp):
ATGGTCTTACACGTATCACGATGCCATAGCCCAGCT
Found at i:90052281 original size:73 final size:72
Alignment explanation
Indices: 90052200--90052507 Score: 410
Period size: 73 Copynumber: 4.3 Consensus size: 72
90052190 TGTCTCAGGC
90052200 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATGTCATCACGATGCCATA
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATG-CATCACGATGCCATA
90052265 GCCCAGCT
65 GCCCAGCT
* *
90052273 ATGGTCTTACACGAATCATAATGCCATAGCCCAGCTATGGTCTTACATGTCATCACGATGCCATA
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATG-CATCACGATGCCATA
*
90052338 GCCTAGCT
65 GCCCAGCT
* *
90052346 ATAGTCTTACACGTATCACGATGCCATAGCCCAGCTATGGTC-T---TGCA-CGACGATGCCATA
1 ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATGCATC-ACGATGCCATA
90052406 GCCCAGCT
65 GCCCAGCT
* * * * * * *
90052414 ATGGTCTTGCAGGTCATCACGATGCCATAGCCCAGCTATGGTCTTACACGCTATTACAATGCAAT
1 ATGGTCTTACACGT-ATCACAATGCCATAGCCCAGCTATGGTCTTACATGC-ATCACGATGCCAT
*
90052479 AGCCCAGCA
64 AGCCCAGCT
*
90052488 ATGGTCTTACACGTACCACA
1 ATGGTCTTACACGTATCACA
90052508 TGTATTACCA
Statistics
Matches: 207, Mismatches: 20, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
67 1 0.00
68 31 0.15
69 30 0.14
70 1 0.00
72 1 0.00
73 114 0.55
74 29 0.14
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (72 bp):
ATGGTCTTACACGTATCACAATGCCATAGCCCAGCTATGGTCTTACATGCATCACGATGCCATAG
CCCAGCT
Found at i:90055283 original size:40 final size:40
Alignment explanation
Indices: 90055222--90055297 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
90055212 TATACATATA
* *
90055222 TAGCCGAAGCTATCTCCAATCGTACACCAAGTGCCACATT
1 TAGCAGAAGCTATCTCCAATCGTACACCAAATGCCACATT
* * *
90055262 TAGCAGAAGCTATTTCGAATCGTACACTAAATGCCA
1 TAGCAGAAGCTATCTCCAATCGTACACCAAATGCCA
90055298 TTTTATTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (40 bp):
TAGCAGAAGCTATCTCCAATCGTACACCAAATGCCACATT
Found at i:90056687 original size:13 final size:13
Alignment explanation
Indices: 90056669--90056703 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
90056659 GCTTGGGACA
90056669 CGCCCGTGTCTCT
1 CGCCCGTGTCTCT
90056682 CGCCCGTGTCTCT
1 CGCCCGTGTCTCT
*
90056695 CACCCGTGT
1 CGCCCGTGT
90056704 TGAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.03, C:0.46, G:0.23, T:0.29
Consensus pattern (13 bp):
CGCCCGTGTCTCT
Found at i:90059531 original size:24 final size:24
Alignment explanation
Indices: 90059491--90059554 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
90059481 AATAAAGTTC
*
90059491 AAAATAGAAAAACAAAAAAAAACAT
1 AAAA-AGAAAAATAAAAAAAAACAT
* *
90059516 AAAAAGAAAAATAAAAATAAAGAT
1 AAAAAGAAAAATAAAAAAAAACAT
*
90059540 AAAAATAAAAATAAA
1 AAAAAGAAAAATAAA
90059555 CATAAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
24 31 0.89
25 4 0.11
ACGTcount: A:0.81, C:0.03, G:0.05, T:0.11
Consensus pattern (24 bp):
AAAAAGAAAAATAAAAAAAAACAT
Found at i:90059533 original size:6 final size:6
Alignment explanation
Indices: 90059498--90059566 Score: 86
Period size: 6 Copynumber: 11.5 Consensus size: 6
90059488 TTCAAAATAG
* * *
90059498 AAAAAC AAAAA- AAAACAT AAAAAG AAAAAT AAAAAT AAAGAT AAAAAT
1 AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
90059546 AAAAAT AAACAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAA
90059567 TGGACTCAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
5 4 0.07
6 47 0.85
7 4 0.07
ACGTcount: A:0.81, C:0.04, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:90061187 original size:3 final size:3
Alignment explanation
Indices: 90061170--90061247 Score: 122
Period size: 3 Copynumber: 26.0 Consensus size: 3
90061160 GTAAAGGATT
90061170 ATA ATA A-A ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
90061215 ATA ATA ATA ATA ATA ATA ATG ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90061248 GTAAAAGAGT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 64 0.93
4 3 0.04
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:90074766 original size:47 final size:48
Alignment explanation
Indices: 90074715--90074834 Score: 138
Period size: 47 Copynumber: 2.5 Consensus size: 48
90074705 GAATTGACGG
90074715 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCATT-GA
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCATTAGA
** ** *
90074762 TTAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCATTAAGA
1 TTAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATCGGCATT-AGA
* *
90074811 -CAAGGATACCATGTAATACCATGT
1 TTAAGGATACCATGTAAGACCATGT
90074835 TTGGAACATG
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
47 39 0.65
48 19 0.32
49 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (48 bp):
TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCATTAGA
Found at i:90074866 original size:47 final size:47
Alignment explanation
Indices: 90074806--90074903 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
90074796 GCATTGGCAT
* *
90074806 TAAGACAAGGATACCATGTAATACCATGTTTGGAACATGGAATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
*
90074853 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
90074900 TAAG
1 TAAG
90074904 TTAAGTCAGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (47 bp):
TAAGACAAAGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
Found at i:90076333 original size:164 final size:164
Alignment explanation
Indices: 90076062--90076389 Score: 656
Period size: 164 Copynumber: 2.0 Consensus size: 164
90076052 TCAATTAAGG
90076062 GTAAAGAAAAACTATCCTTTGGGCATGCCTTATTGAGATTGGTAAGATGAATGCACATTCTCCAT
1 GTAAAGAAAAACTATCCTTTGGGCATGCCTTATTGAGATTGGTAAGATGAATGCACATTCTCCAT
90076127 TTTTCATTAGCTTTCTTTACCATGACGATGTTCGATTCCCAGTCAGGGTATGCCACTTCCCTAAT
66 TTTTCATTAGCTTTCTTTACCATGACGATGTTCGATTCCCAGTCAGGGTATGCCACTTCCCTAAT
90076192 AAACCATGTTGAAAACAATTTATTTACTTTCTGT
131 AAACCATGTTGAAAACAATTTATTTACTTTCTGT
90076226 GTAAAGAAAAACTATCCTTTGGGCATGCCTTATTGAGATTGGTAAGATGAATGCACATTCTCCAT
1 GTAAAGAAAAACTATCCTTTGGGCATGCCTTATTGAGATTGGTAAGATGAATGCACATTCTCCAT
90076291 TTTTCATTAGCTTTCTTTACCATGACGATGTTCGATTCCCAGTCAGGGTATGCCACTTCCCTAAT
66 TTTTCATTAGCTTTCTTTACCATGACGATGTTCGATTCCCAGTCAGGGTATGCCACTTCCCTAAT
90076356 AAACCATGTTGAAAACAATTTATTTACTTTCTGT
131 AAACCATGTTGAAAACAATTTATTTACTTTCTGT
90076390 CTGATGGCCT
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 164 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (164 bp):
GTAAAGAAAAACTATCCTTTGGGCATGCCTTATTGAGATTGGTAAGATGAATGCACATTCTCCAT
TTTTCATTAGCTTTCTTTACCATGACGATGTTCGATTCCCAGTCAGGGTATGCCACTTCCCTAAT
AAACCATGTTGAAAACAATTTATTTACTTTCTGT
Found at i:90081457 original size:6 final size:6
Alignment explanation
Indices: 90081446--90081479 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
90081436 AGGTTTCCAA
* *
90081446 AAATGG AAATGG AAATGA AAATGA AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
90081480 TATCCATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:90081468 original size:18 final size:18
Alignment explanation
Indices: 90081445--90081479 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
90081435 TAGGTTTCCA
*
90081445 AAAATGGAAATGGAAATG
1 AAAATGAAAATGGAAATG
90081463 AAAATGAAAATGGAAAT
1 AAAATGAAAATGGAAAT
90081480 TATCCATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
AAAATGAAAATGGAAATG
Found at i:90092370 original size:36 final size:36
Alignment explanation
Indices: 90092323--90092395 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
90092313 AGACATTCTT
90092323 ACATGGTAACTTATAAAAGAAACTATTTTTTAATCA
1 ACATGGTAACTTATAAAAGAAACTATTTTTTAATCA
** * *
90092359 ACATGGTAACTTATAAGGGAAAGTATTTTTTGATCA
1 ACATGGTAACTTATAAAAGAAACTATTTTTTAATCA
90092395 A
1 A
90092396 TCACCTGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (36 bp):
ACATGGTAACTTATAAAAGAAACTATTTTTTAATCA
Found at i:90096204 original size:27 final size:25
Alignment explanation
Indices: 90096176--90096239 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 25
90096166 ATAAAATAAT
90096176 TTTAAAATAAATAATAAATAAGTTAA
1 TTTAAAATAAATAATAAATAAG-TAA
*
90096202 TTT--AA-AAGTAATAAATAAG-AA
1 TTTAAAATAAATAATAAATAAGTAA
*
90096223 GTTTAAAATATATAATA
1 -TTTAAAATAAATAATA
90096240 CGTAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
21 2 0.06
22 3 0.10
23 13 0.42
24 4 0.13
25 6 0.19
26 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (25 bp):
TTTAAAATAAATAATAAATAAGTAA
Found at i:90096237 original size:22 final size:21
Alignment explanation
Indices: 90096184--90096237 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 21
90096174 ATTTTAAAAT
90096184 AAATAATAAATAAGTTAATTTA
1 AAATAATAAATAAG-TAATTTA
90096206 AAAGTAATAAATAAG-AAGTTTA
1 AAA-TAATAAATAAGTAA-TTTA
90096228 AAATATATAA
1 AAATA-ATAA
90096238 TACGTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.14
22 14 0.48
23 11 0.38
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (21 bp):
AAATAATAAATAAGTAATTTA
Found at i:90109473 original size:26 final size:26
Alignment explanation
Indices: 90109437--90109490 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
90109427 AGGAATAAAG
90109437 ACCATGATATGTGTGACATGAAACTA
1 ACCATGATATGTGTGACATGAAACTA
90109463 ACCATGATATGTGTGACATGAAACTA
1 ACCATGATATGTGTGACATGAAACTA
90109489 AC
1 AC
90109491 TTCATATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.26
Consensus pattern (26 bp):
ACCATGATATGTGTGACATGAAACTA
Found at i:90113968 original size:13 final size:13
Alignment explanation
Indices: 90113952--90113987 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
90113942 TAATTCTTGT
90113952 AAATATTTATTAA
1 AAATATTTATTAA
90113965 AAATATTTATTAA
1 AAATATTTATTAA
90113978 AAATATTTAT
1 AAATATTTAT
90113988 GAATTCGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:90115302 original size:16 final size:17
Alignment explanation
Indices: 90115260--90115303 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
90115250 TTATTTAATC
*
90115260 AATTAATTTAATTAACTA
1 AATTAATTT-TTTAACTA
*
90115278 AATTAATTTTTTAATTA
1 AATTAATTTTTTAACTA
90115295 AA-TAATTTT
1 AATTAATTTT
90115304 CTCAACTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.29
17 8 0.33
18 9 0.38
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTAATTTTTTAACTA
Found at i:90121589 original size:6 final size:6
Alignment explanation
Indices: 90121578--90121611 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
90121568 AAACCCTTCT
90121578 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT- TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
90121612 AAAAAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTC
Found at i:90125640 original size:19 final size:18
Alignment explanation
Indices: 90125606--90125677 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 18
90125596 ATCCTATTAG
*
90125606 ATTTTTATATACTTTTTAGA
1 ATTTTTA-ATAATTTTTA-A
90125626 ATTTTTAATAATTTTTAA
1 ATTTTTAATAATTTTTAA
*
90125644 TATATTTT-ATATTTTTTAA
1 -AT-TTTTAATAATTTTTAA
* *
90125663 TTTTTTTATAATTTT
1 ATTTTTAATAATTTT
90125678 ACACTTGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.09
18 9 0.20
19 21 0.47
20 11 0.24
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (18 bp):
ATTTTTAATAATTTTTAA
Found at i:90125644 original size:10 final size:10
Alignment explanation
Indices: 90125606--90125677 Score: 55
Period size: 10 Copynumber: 7.5 Consensus size: 10
90125596 ATCCTATTAG
90125606 ATTTTTATATA
1 ATTTTTA-ATA
* *
90125617 CTTTTT-AGA
1 ATTTTTAATA
90125626 ATTTTTAATA
1 ATTTTTAATA
90125636 ATTTTTAAT-
1 ATTTTTAATA
90125645 ATATTTT-ATA
1 AT-TTTTAATA
*
90125655 TTTTTTAAT-
1 ATTTTTAATA
*
90125664 -TTTTTTATA
1 ATTTTTAATA
90125673 ATTTT
1 ATTTT
90125678 ACACTTGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
8 7 0.14
9 15 0.31
10 22 0.45
11 5 0.10
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:90125657 original size:18 final size:17
Alignment explanation
Indices: 90125636--90125678 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
90125626 ATTTTTAATA
90125636 ATTTTTAATATATTTTAT
1 ATTTTTAAT-TATTTTAT
*
90125654 ATTTTTTAATTTTTTTAT
1 A-TTTTTAATTATTTTAT
*
90125672 AATTTTA
1 ATTTTTA
90125679 CACTTGAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 9 0.41
19 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTAATTATTTTAT
Found at i:90125857 original size:16 final size:16
Alignment explanation
Indices: 90125826--90125860 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
90125816 ATTTTGAATG
**
90125826 TTTGTTATTTTTATTT
1 TTTGTTATTTCAATTT
90125842 TTTGTTATTTCAATTT
1 TTTGTTATTTCAATTT
90125858 TTT
1 TTT
90125861 TTTTATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTGTTATTTCAATTT
Found at i:90133401 original size:2 final size:2
Alignment explanation
Indices: 90133396--90133420 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90133386 ATCCGTTGTT
90133396 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
90133421 CGGTTACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:90134508 original size:6 final size:6
Alignment explanation
Indices: 90134498--90134537 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
90134488 TTCGATTTCA
* *
90134498 ATTTTA ATTTTG ATTCTG ATTTTG ATTTTG ATTTTG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
90134538 CAATTATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (6 bp):
ATTTTG
Found at i:90134512 original size:18 final size:19
Alignment explanation
Indices: 90134486--90134531 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
90134476 ATTTAGGGTT
*
90134486 ATTTCGATTTC-AATTTTA
1 ATTTTGATTTCTAATTTTA
* *
90134504 ATTTTGA-TTCTGATTTTG
1 ATTTTGATTTCTAATTTTA
90134522 ATTTTGATTT
1 ATTTTGATTT
90134532 TGATTTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.13
18 18 0.78
19 2 0.09
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.61
Consensus pattern (19 bp):
ATTTTGATTTCTAATTTTA
Found at i:90134535 original size:18 final size:18
Alignment explanation
Indices: 90134498--90134542 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
90134488 TTCGATTTCA
90134498 ATTTTAATTTTGATTCTG
1 ATTTTAATTTTGATTCTG
* *
90134516 ATTTTGATTTTGATTTTG
1 ATTTTAATTTTGATTCTG
*
90134534 ATTTCAATT
1 ATTTTAATT
90134543 ATGAAATACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.62
Consensus pattern (18 bp):
ATTTTAATTTTGATTCTG
Found at i:90134566 original size:6 final size:6
Alignment explanation
Indices: 90134556--90134627 Score: 54
Period size: 6 Copynumber: 12.0 Consensus size: 6
90134546 AAATACTCAC
* ** * * *
90134556 TGATTC TGATTT TGATTT TGATTT TGATTT CAATTT CGATTT CGATCT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
* * * *
90134604 CGATTT AGATTT TAATTT AGATTT
1 TGATTT TGATTT TGATTT TGATTT
90134628 CAATTTGGAT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.56
Consensus pattern (6 bp):
TGATTT
Found at i:90134577 original size:12 final size:12
Alignment explanation
Indices: 90134563--90134627 Score: 60
Period size: 12 Copynumber: 5.4 Consensus size: 12
90134553 CACTGATTCT
*
90134563 GATTTTGATTTT
1 GATTTTGATTTA
90134575 GATTTTGATTTCA
1 GATTTTGATTT-A
* *
90134588 -ATTTCGATTTC
1 GATTTTGATTTA
* *
90134599 GATCTCGATTTA
1 GATTTTGATTTA
*
90134611 GATTTTAATTTA
1 GATTTTGATTTA
90134623 GATTT
1 GATTT
90134628 CAATTTGGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.23, C:0.08, G:0.14, T:0.55
Consensus pattern (12 bp):
GATTTTGATTTA
Found at i:90134583 original size:18 final size:18
Alignment explanation
Indices: 90134556--90134627 Score: 63
Period size: 18 Copynumber: 4.0 Consensus size: 18
90134546 AAATACTCAC
* *
90134556 TGATTCTGATTTTGATTT
1 TGATTTTGATTTCGATTT
*
90134574 TGATTTTGATTTCAATTT
1 TGATTTTGATTTCGATTT
* * *
90134592 CGATTTCGATCTCGATTT
1 TGATTTTGATTTCGATTT
* * *
90134610 AGATTTTAATTTAGATTT
1 TGATTTTGATTTCGATTT
90134628 CAATTTGGAT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.56
Consensus pattern (18 bp):
TGATTTTGATTTCGATTT
Found at i:90134632 original size:12 final size:12
Alignment explanation
Indices: 90134606--90134641 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
90134596 TTCGATCTCG
*
90134606 ATTTAGATTTTA
1 ATTTAGATTTCA
90134618 ATTTAGATTTCA
1 ATTTAGATTTCA
*
90134630 ATTTGGATTTCA
1 ATTTAGATTTCA
90134642 GTTTGGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (12 bp):
ATTTAGATTTCA
Found at i:90137708 original size:47 final size:47
Alignment explanation
Indices: 90137649--90138324 Score: 1046
Period size: 47 Copynumber: 14.4 Consensus size: 47
90137639 GATGTACAAG
* * *
90137649 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
90137696 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * *
90137743 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTAAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
90137790 GTGTATATATGTAATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
90137837 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
90137884 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
90137931 GTGTATATATGTGATAAGGCCGAATGGCCCATGTGAAGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
90137978 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
90138025 GTGTATATATGTAATAAGGCCGAATGGCCAATGTGATGAATGTAAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
90138072 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
90138119 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
90138166 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * * *
90138213 GTGTATATATGAGATAAGACCTAATGGTCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
90138260 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
90138307 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
90138325 TCCCGAAGGG
Statistics
Matches: 579, Mismatches: 50, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 579 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:90139564 original size:15 final size:15
Alignment explanation
Indices: 90139544--90139584 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
90139534 AAGAAATATA
*
90139544 TGGTAGTGATGTGTC
1 TGGTAGTGATGTGAC
90139559 TGGTAGTGATGTGAC
1 TGGTAGTGATGTGAC
*
90139574 TAGTAGTGATG
1 TGGTAGTGATG
90139585 CATTTGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.05, G:0.39, T:0.37
Consensus pattern (15 bp):
TGGTAGTGATGTGAC
Found at i:90142080 original size:21 final size:21
Alignment explanation
Indices: 90142056--90142105 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
90142046 CTCAACAGGT
*
90142056 TGCCCTAACTTAGTT-ACAAAC
1 TGCCCTAACTCA-TTAACAAAC
* *
90142077 TGCCCCAACTCATTAACAAGC
1 TGCCCTAACTCATTAACAAAC
90142098 TGCCCTAA
1 TGCCCTAA
90142106 GAGAAAAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.32, C:0.34, G:0.10, T:0.24
Consensus pattern (21 bp):
TGCCCTAACTCATTAACAAAC
Found at i:90142753 original size:36 final size:36
Alignment explanation
Indices: 90142712--90142783 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
90142702 ATGATTTCGT
90142712 TAGCCATGTAAAACAACATAAGAAACAATATACCAG
1 TAGCCATGTAAAACAACATAAGAAACAATATACCAG
*
90142748 TAGCCATGTATAACAACATAAGAAACAATATACCAG
1 TAGCCATGTAAAACAACATAAGAAACAATATACCAG
90142784 CAACAATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.18
Consensus pattern (36 bp):
TAGCCATGTAAAACAACATAAGAAACAATATACCAG
Found at i:90142802 original size:36 final size:36
Alignment explanation
Indices: 90142726--90142804 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
90142716 CATGTAAAAC
* * * * *
90142726 AACATAAGAAACAATATACCAGTAGCCATGTATAAC
1 AACATAAGAAACAATATACCAGCAACAATATATAAA
90142762 AACATAAGAAACAATATACCAGCAACAATAT-TACAA
1 AACATAAGAAACAATATACCAGCAACAATATATA-AA
90142798 AACATAA
1 AACATAA
90142805 ACTGGTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 2 0.05
36 35 0.95
ACGTcount: A:0.56, C:0.19, G:0.08, T:0.18
Consensus pattern (36 bp):
AACATAAGAAACAATATACCAGCAACAATATATAAA
Found at i:90146141 original size:45 final size:45
Alignment explanation
Indices: 90146029--90146241 Score: 243
Period size: 45 Copynumber: 4.7 Consensus size: 45
90146019 GGGTGACATG
* * * *
90146029 TGAGCTAGTGTAAGACCATGTTGGACATGGCATCGGCCATATT-TCGTA
1 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAG---TGTTGAC-TA
* ** *
90146077 --AGCCAGTGTAAGACCATGTTGGACATGGTATTGGCGTTGACTA
1 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTGTTGACTA
* *
90146120 TGAGCCAGTGTAAGACTATGTTAGACATGGCATCAGTGTTGACTA
1 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTGTTGACTA
* *
90146165 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTGTTGATTG
1 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTGTTGACTA
90146210 TGAGCCAGTGTAAGACCATGTCTGGGACATGG
1 TGAGCCAGTGTAAGACCATGT-T-GGACATGG
90146242 TGTTGCCCAC
Statistics
Matches: 144, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
43 4 0.03
44 1 0.01
45 99 0.69
46 32 0.22
47 8 0.06
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (45 bp):
TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTGTTGACTA
Found at i:90146284 original size:93 final size:94
Alignment explanation
Indices: 90146166--90146335 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 94
90146156 TGTTGACTAT
* ** * *
90146166 GAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTGTTGA-TTGTGAGCCAGTGTAAGACCATG
1 GAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTATTGAGACGAGAGCCAGTATAAGACCATG
90146230 TCTGGGACATGGTGTTGCCCACCATATGA
66 TCTGGGACATGGTGTTGCCCACCATATGA
* * * *
90146259 GAGCCAGTGTAAGGCCATGTTGGACATGGCCTCGGTATTGAGACGAGAGCTAGTATAAGACCATG
1 GAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTATTGAGACGAGAGCCAGTATAAGACCATG
90146324 TCTGGGACATGG
66 TCTGGGACATGG
90146336 CATCGACCTC
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
93 37 0.55
94 30 0.45
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (94 bp):
GAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTATTGAGACGAGAGCCAGTATAAGACCATG
TCTGGGACATGGTGTTGCCCACCATATGA
Found at i:90146364 original size:94 final size:93
Alignment explanation
Indices: 90146165--90146389 Score: 252
Period size: 94 Copynumber: 2.4 Consensus size: 93
90146155 GTGTTGACTA
* * ** * *
90146165 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGTGTTGATTGTGAGCCAGTGTAAGACCATG
1 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGTATTGAACGAGAGCCAGTATAAGACCATG
** * * *
90146230 TCTGGGACATGGTGTTGCCCACCATATG
66 TCTGGGACATGGCATCGACCACCACATG
* * * *
90146258 AGAGCCAGTGTAAGGCCATGTTGGACATGGCCTCGGTATTGAGACGAGAGCTAGTATAAGACCAT
1 TGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGTATTGA-ACGAGAGCCAGTATAAGACCAT
* *
90146323 GTCTGGGACATGGCATCGACCTCGACATG
65 GTCTGGGACATGGCATCGACCACCACATG
* *
90146352 TGAGCCAATGTAAGATCATGTCTGGGACATGGCATCGG
1 TGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGG
90146390 CAATTCACCC
Statistics
Matches: 107, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
93 37 0.35
94 56 0.52
95 1 0.01
96 13 0.12
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (93 bp):
TGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGTATTGAACGAGAGCCAGTATAAGACCATG
TCTGGGACATGGCATCGACCACCACATG
Found at i:90146366 original size:48 final size:46
Alignment explanation
Indices: 90146022--90146388 Score: 242
Period size: 45 Copynumber: 7.9 Consensus size: 46
90146012 ACATTTGGGG
* * *
90146022 TGACATGTGAGCTAGTGTAAGACCATGTTGGACATGGCATCGGCCA
1 TGACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACCT
** * * * * *
90146068 T-ATTTCGTAAGCCAGTGTAAGACCATGTTGGACATGGTATTGGCGT
1 TGACAT-GTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACCT
* * * **
90146114 TGAC-TATGAGCCAGTGTAAGACTATGTTAGACATGGCATC-AGTGT
1 TGACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGA-CCT
* **
90146159 TGAC-TATGAGCCAGTGTAAGACCATGTTGGACATGGCATC-AGTGT
1 TGACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGA-CCT
* ** * * *
90146204 TGA-TTGTGAGCCAGTGTAAGACCATGTCTGGGACATGGTGTTGCCCA
1 TGACATGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGACCT
** * * * * ***
90146251 CCATATGAGAGCCAGTGTAAGGCCATGTTGGACATGGCCTCGGTAT
1 TGACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACCT
* * * * *
90146297 TGAGACGAGAGCTAGTATAAGACCATGTCTGGGACATGGCATCGACCT
1 TGACATGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGACCT
* * *
90146345 CGACATGTGAGCCAATGTAAGATCATGTCTGGGACATGGCATCG
1 TGACATGTGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCG
90146389 GCAATTCACC
Statistics
Matches: 253, Mismatches: 58, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
45 101 0.40
46 69 0.27
47 13 0.05
48 70 0.28
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (46 bp):
TGACATGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGACCT
Found at i:90146802 original size:26 final size:26
Alignment explanation
Indices: 90146773--90146828 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
90146763 TGATAAAAAT
90146773 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90146799 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90146825 TGAT
1 TGAT
90146829 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90148324 original size:26 final size:26
Alignment explanation
Indices: 90148295--90148347 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
90148285 TTTACAGTTT
90148295 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
90148321 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
90148347 T
1 T
90148348 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:90153700 original size:26 final size:26
Alignment explanation
Indices: 90153671--90153726 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
90153661 TGATAAAAAT
90153671 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90153697 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90153723 TGAT
1 TGAT
90153727 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90165522 original size:9 final size:9
Alignment explanation
Indices: 90165508--90165535 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
90165498 AAAGCCAAGC
90165508 AAATCGACT
1 AAATCGACT
90165517 AAATCGACT
1 AAATCGACT
90165526 AAATCGACT
1 AAATCGACT
90165535 A
1 A
90165536 GTCGCCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.21
Consensus pattern (9 bp):
AAATCGACT
Found at i:90165893 original size:46 final size:44
Alignment explanation
Indices: 90165843--90165967 Score: 164
Period size: 46 Copynumber: 2.8 Consensus size: 44
90165833 TGAGATGAGT
90165843 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAG--ATAA
* *
90165889 GCTAGTGTAAAACATGTCTGGGACATGCATCAGCTACGAGATGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATAA
90165933 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCAG
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCAG
90165968 TACATATATA
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
43 1 0.01
44 12 0.17
45 16 0.22
46 43 0.60
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATAA
Found at i:90173280 original size:278 final size:278
Alignment explanation
Indices: 90172783--90173300 Score: 991
Period size: 278 Copynumber: 1.9 Consensus size: 278
90172773 TTAAGTCCAA
* *
90172783 ATTCACATTGAATCAGGACAACCATTTGTCAATATTCATTCAAAATTATTTTTCTAAATTACATA
1 ATTCACATTGAATCAGGACAACCATTTGTCAACATTCAATCAAAATTATTTTTCTAAATTACATA
* *
90172848 AAATTTTAAAAAACATTTAAAAATAGTTTTCTTTAAAAACTTGATATGAATCTATGTTTTAATTC
66 AAATTTAAAAAAACATTTAAAAATAGTTTTCTTTAAAAACTTGATATGAATCAATGTTTTAATTC
90172913 TATTGGTACCTTCTAGGAAAAAATTAAATATATATTTTAGAAAATAAATAATATAAATAATTTTA
131 TATTGGTACCTTCTAGGAAAAAATTAAATATATATTTTAGAAAATAAATAATATAAATAATTTTA
*
90172978 ATTTTATTAATTGTGCGTGTAAATTTATTTTTTAAATGTATAAATATGTCCAATTAAAAAATGTG
196 ATTTTATTAATTGTGCATGTAAATTTATTTTTTAAATGTATAAATATGTCCAATTAAAAAATGTG
90173043 TATCAATTATCTTATTAT
261 TATCAATTATCTTATTAT
90173061 ATTCACATTGAATCAGGACAACCATTTGTCAACATTCAATCAAAATTATTTTTCTAAATTACATA
1 ATTCACATTGAATCAGGACAACCATTTGTCAACATTCAATCAAAATTATTTTTCTAAATTACATA
90173126 AAATTTAAAAAAACATTTAAAAATAGTTTTCTTTAAAAACTTGATATGAATCAATGTTTTAATTC
66 AAATTTAAAAAAACATTTAAAAATAGTTTTCTTTAAAAACTTGATATGAATCAATGTTTTAATTC
90173191 TATTGGTACCTTCTAGGAAAAAATTAAATATATATTTTAGAAAATAAATAATATAAATAATTTTA
131 TATTGGTACCTTCTAGGAAAAAATTAAATATATATTTTAGAAAATAAATAATATAAATAATTTTA
90173256 ATTTTATTAATTGTGCATGTAAATTTATTTTTTAAATGTATAAAT
196 ATTTTATTAATTGTGCATGTAAATTTATTTTTTAAATGTATAAAT
90173301 TAAAAAATGT
Statistics
Matches: 235, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
278 235 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (278 bp):
ATTCACATTGAATCAGGACAACCATTTGTCAACATTCAATCAAAATTATTTTTCTAAATTACATA
AAATTTAAAAAAACATTTAAAAATAGTTTTCTTTAAAAACTTGATATGAATCAATGTTTTAATTC
TATTGGTACCTTCTAGGAAAAAATTAAATATATATTTTAGAAAATAAATAATATAAATAATTTTA
ATTTTATTAATTGTGCATGTAAATTTATTTTTTAAATGTATAAATATGTCCAATTAAAAAATGTG
TATCAATTATCTTATTAT
Found at i:90173353 original size:37 final size:37
Alignment explanation
Indices: 90173304--90173384 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
90173294 TATAAATTAA
* *
90173304 AAAATGTGTATCAATTATCTTATTATATGTGTAGACT
1 AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
* * *
90173341 AAAAGGTGTATCAATTATTTTCTTACATGTGTAGCCT
1 AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
90173378 AAAAGGT
1 AAAAGGT
90173385 CTAAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (37 bp):
AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
Found at i:90179288 original size:12 final size:12
Alignment explanation
Indices: 90179271--90179306 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
90179261 TAATTTTTAA
90179271 TTTTTTCAATTT
1 TTTTTTCAATTT
90179283 TTTTTTCAA--T
1 TTTTTTCAATTT
90179293 TTTTTTCAATTT
1 TTTTTTCAATTT
90179305 TT
1 TT
90179307 ATAAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.45
12 12 0.55
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTTCAATTT
Found at i:90179295 original size:9 final size:10
Alignment explanation
Indices: 90179271--90179306 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
90179261 TAATTTTTAA
90179271 TTTTTTCAATTT
1 TTTTTTCAA--T
90179283 TTTTTTCAAT
1 TTTTTTCAAT
90179293 TTTTTTCAAT
1 TTTTTTCAAT
90179303 TTTT
1 TTTT
90179307 ATAAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 15 0.62
12 9 0.38
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTCAAT
Found at i:90179299 original size:22 final size:20
Alignment explanation
Indices: 90179264--90179306 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 20
90179254 TTTTTATTAA
90179264 TTTTTAATTTTTTCAATTTT
1 TTTTTAATTTTTTCAATTTT
90179284 TTTTTCAATTTTTTTCAATTTT
1 TTTTT-AA-TTTTTTCAATTTT
90179306 T
1 T
90179307 ATAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.24
21 2 0.10
22 14 0.67
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTAATTTTTTCAATTTT
Found at i:90179347 original size:29 final size:29
Alignment explanation
Indices: 90179315--90179370 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
90179305 TTATAAATTT
90179315 TAATAATGTTTTACAAAT-TTTTAAAAAGC
1 TAATAATGTTTTA-AAATATTTTAAAAAGC
* * *
90179344 TAATATTTTTTTAAATTATTTTAAAAA
1 TAATAATGTTTTAAAATATTTTAAAAA
90179371 ATTAAGCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (29 bp):
TAATAATGTTTTAAAATATTTTAAAAAGC
Found at i:90182121 original size:20 final size:20
Alignment explanation
Indices: 90182096--90182158 Score: 54
Period size: 23 Copynumber: 3.0 Consensus size: 20
90182086 TGATCAGTAT
90182096 ATGACACATAAGTGCCTGAA
1 ATGACACATAAGTGCCTGAA
* * * *
90182116 ATGACATACGAGGTGCTTGAA
1 ATGACACA-TAAGTGCCTGAA
90182137 ATACGACACATAGAGTGCCTGA
1 AT--GACACATA-AGTGCCTGA
90182159 TCGGCAAAGC
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
20 7 0.23
21 11 0.35
22 1 0.03
23 12 0.39
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (20 bp):
ATGACACATAAGTGCCTGAA
Found at i:90183237 original size:23 final size:24
Alignment explanation
Indices: 90183185--90183237 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
90183175 ACTATAAGTA
* *
90183185 ATTATATATTTATTTTACATTTGT
1 ATTATATATTTATATTACAATTGT
90183209 ACTTATA-ATTT-TATTACAATTGTT
1 A-TTATATATTTATATTACAATTG-T
90183233 ATTAT
1 ATTAT
90183238 TTAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (24 bp):
ATTATATATTTATATTACAATTGT
Found at i:90183510 original size:16 final size:16
Alignment explanation
Indices: 90183491--90183532 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
90183481 AATCTCATAA
90183491 TATAATTAATATAAAT
1 TATAATTAATATAAAT
*
90183507 TATAATTTA-ATAAAT
1 TATAATTAATATAAAT
90183522 TAATAA-TAATA
1 T-ATAATTAATA
90183533 ATACACTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATTAATATAAAT
Found at i:90185549 original size:71 final size:71
Alignment explanation
Indices: 90185463--90185626 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
90185453 CGATTTGTCT
90185463 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
90185528 CTTTCA
66 CTTTCA
90185534 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
90185599 CTTTCA
66 CTTTCA
90185605 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
90185627 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:90185664 original size:71 final size:70
Alignment explanation
Indices: 90185463--90185660 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
90185453 CGATTTGTCT
* * * *
90185463 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90185528 CTTTCA
65 CTTTCA
* * * *
90185534 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90185599 CTTTCA
65 CTTTCA
* *
90185605 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
90185661 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:90193118 original size:71 final size:71
Alignment explanation
Indices: 90193032--90193195 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
90193022 CGATTTGTCT
90193032 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
90193097 CTTTCA
66 CTTTCA
90193103 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
90193168 CTTTCA
66 CTTTCA
90193174 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
90193196 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:90193233 original size:71 final size:70
Alignment explanation
Indices: 90193032--90193229 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
90193022 CGATTTGTCT
* * * *
90193032 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90193097 CTTTCA
65 CTTTCA
* * * *
90193103 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
90193168 CTTTCA
65 CTTTCA
* *
90193174 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
90193230 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:90194791 original size:17 final size:18
Alignment explanation
Indices: 90194753--90194798 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
90194743 AAATTATGTA
90194753 CCCATATGCCCGTGGGGG
1 CCCATATGCCCGTGGGGG
*
90194771 CCCATATGCCCGT-GTGG
1 CCCATATGCCCGTGGGGG
*
90194788 CCCATACGCCC
1 CCCATATGCCC
90194799 AACTTGGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.13, C:0.41, G:0.28, T:0.17
Consensus pattern (18 bp):
CCCATATGCCCGTGGGGG
Found at i:90199796 original size:12 final size:12
Alignment explanation
Indices: 90199766--90199794 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
90199756 AATCGGAACC
90199766 CTCAAACTGTCT
1 CTCAAACTGTCT
90199778 CTCAAACTGT-T
1 CTCAAACTGTCT
90199789 CTCAAA
1 CTCAAA
90199795 ACAGACGCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (12 bp):
CTCAAACTGTCT
Found at i:90208616 original size:13 final size:13
Alignment explanation
Indices: 90208598--90208622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90208588 CTAGGATCTA
90208598 AAACACAAGCAAC
1 AAACACAAGCAAC
90208611 AAACACAAGCAA
1 AAACACAAGCAA
90208623 ATTCATCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.28, G:0.08, T:0.00
Consensus pattern (13 bp):
AAACACAAGCAAC
Found at i:90209274 original size:41 final size:41
Alignment explanation
Indices: 90209217--90209342 Score: 234
Period size: 41 Copynumber: 3.1 Consensus size: 41
90209207 AGTTCTTTAC
* *
90209217 CAAATAACCAATAGCAACATCATTTGAACTTACACTATCAA
1 CAAATAACTAATAGCAACGTCATTTGAACTTACACTATCAA
90209258 CAAATAACTAATAGCAACGTCATTTGAACTTACACTATCAA
1 CAAATAACTAATAGCAACGTCATTTGAACTTACACTATCAA
90209299 CAAATAACTAATAGCAACGTCATTTGAACTTACACTATCAA
1 CAAATAACTAATAGCAACGTCATTTGAACTTACACTATCAA
90209340 CAA
1 CAA
90209343 TGACAGTAAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.25
Consensus pattern (41 bp):
CAAATAACTAATAGCAACGTCATTTGAACTTACACTATCAA
Found at i:90209299 original size:24 final size:24
Alignment explanation
Indices: 90209272--90209340 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
90209262 TAACTAATAG
90209272 CAACGTCATTTGAACTTACACTAT
1 CAACGTCATTTGAACTTACACTAT
** *
90209296 CAA---CAAAT-AAC-TA-A-TAG
1 CAACGTCATTTGAACTTACACTAT
90209313 CAACGTCATTTGAACTTACACTAT
1 CAACGTCATTTGAACTTACACTAT
90209337 CAAC
1 CAAC
90209341 AATGACAGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 14
0.62 0.12 0.27
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
19 2 0.06
20 6 0.19
21 6 0.19
22 2 0.06
23 1 0.03
24 9 0.28
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.28
Consensus pattern (24 bp):
CAACGTCATTTGAACTTACACTAT
Found at i:90211852 original size:23 final size:23
Alignment explanation
Indices: 90211826--90211881 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
90211816 ATTTAAAAAG
*
90211826 TTAAATATTATTTTATCCTAATA
1 TTAAATATTATGTTATCCTAATA
90211849 TTAAATATTATGTTATCCTAATA
1 TTAAATATTATGTTATCCTAATA
90211872 TTAAATATTA
1 TTAAATATTA
90211882 ATTACAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAAATATTATGTTATCCTAATA
Found at i:90214461 original size:37 final size:37
Alignment explanation
Indices: 90214410--90214517 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 37
90214400 ATTCCAAAAA
*
90214410 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATTAAATTTAATAT
*
90214446 TAATACTTATCTTAATAGTATT-TTATT-AATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTTAATAT
90214483 TAAAGTGATTATCTTAAT-G-TTAA-ATTAAATTTAAT
1 T-AA-T-ATTATCTTAATAGTTTAATATTAAATTTAAT
90214518 GTTTATCTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
36 18 0.30
37 26 0.43
38 5 0.08
39 11 0.18
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTAATATTAAATTTAATAT
Found at i:90217207 original size:32 final size:32
Alignment explanation
Indices: 90217166--90217249 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 32
90217156 CCCATCATAG
* *
90217166 TATCAATTGGGCCTAGCCCATCTCAGAATCAA
1 TATCAATTGGGCCTAGCCCATATCAGAACCAA
90217198 TATCAATTGGGCCTAGCCCATATCAGAACCAA
1 TATCAATTGGGCCTAGCCCATATCAGAACCAA
* *
90217230 TATCAGTTGGGCCTTGCCCA
1 TATCAATTGGGCCTAGCCCA
90217250 ATTCAATTTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (32 bp):
TATCAATTGGGCCTAGCCCATATCAGAACCAA
Found at i:90225522 original size:2 final size:2
Alignment explanation
Indices: 90225515--90225553 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
90225505 TAAATTGGAA
90225515 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90225554 GGATCTATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90239209 original size:40 final size:40
Alignment explanation
Indices: 90239154--90239363 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
90239144 AACATTGGAA
90239154 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
90239194 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
90239234 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
90239274 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
90239313 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
90239354 CTATATCCGG
1 ATATATCCGG
90239364 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:90244390 original size:29 final size:27
Alignment explanation
Indices: 90244335--90244409 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 27
90244325 CATATTTTAT
* **
90244335 ACAAGTCTTTAATGTGTCTTAGCTTAAA
1 ACAAGT-TTTAATATGTCTTAAATTAAA
*
90244363 TACATGTTATTAATATGTCTTAAATTAAA
1 -ACAAGTT-TTAATATGTCTTAAATTAAA
90244392 ACAAGTTTCTAATATGTC
1 ACAAGTTT-TAATATGTC
90244410 CTAGCGCAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.03
28 16 0.41
29 22 0.56
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (27 bp):
ACAAGTTTTAATATGTCTTAAATTAAA
Found at i:90247802 original size:13 final size:13
Alignment explanation
Indices: 90247776--90247822 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
90247766 GAAAAACAAC
90247776 AAAAG-AAA-ATG
1 AAAAGAAAAGATG
90247787 AAAAGAAAACGA-G
1 AAAAGAAAA-GATG
90247800 AAAAGAAAAGATG
1 AAAAGAAAAGATG
90247813 AGAAAGAAAA
1 A-AAAGAAAA
90247823 AGAGTGTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.16
12 5 0.16
13 12 0.39
14 9 0.29
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.04
Consensus pattern (13 bp):
AAAAGAAAAGATG
Found at i:90251063 original size:29 final size:28
Alignment explanation
Indices: 90251008--90251082 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
90250998 CATATTTTAT
**
90251008 ACAAGTCT-TTAATATGTCTTAGCTTAAA
1 ACAAGT-TATTAATATGTCTTAAATTAAA
* *
90251036 TATATGTTATTAATATGTCTTAAATTAAA
1 -ACAAGTTATTAATATGTCTTAAATTAAA
*
90251065 ACAAGTTTTTAATATGTC
1 ACAAGTTATTAATATGTC
90251083 CTAGTGCAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 16 0.42
29 22 0.58
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (28 bp):
ACAAGTTATTAATATGTCTTAAATTAAA
Found at i:90253159 original size:33 final size:33
Alignment explanation
Indices: 90253073--90253166 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
90253063 TTGTGCTGAC
* * *
90253073 AGACTATCTTTATTCTATGTTTATTGTCCCGGT
1 AGACTATCTCTATTCTGTGTTTAATGTCCCGGT
* * * *
90253106 GGACTATCTCTGTTCCGTGTTTACTGTCCCGGT
1 AGACTATCTCTATTCTGTGTTTAATGTCCCGGT
*
90253139 AGACTATCTCTATTTTGTGTTTAATGTC
1 AGACTATCTCTATTCTGTGTTTAATGTC
90253167 TTAATGGATT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (33 bp):
AGACTATCTCTATTCTGTGTTTAATGTCCCGGT
Found at i:90253226 original size:33 final size:33
Alignment explanation
Indices: 90253140--90253227 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 33
90253130 TGTCCCGGTA
*
90253140 GACTATCTCTATT-TTGTGTTTAATGTCTTAATG
1 GACTATCTCTATTCTT-TGTTTAATGTCTTAACG
* * **
90253173 GATTATCTCTTTTCCATGTTTAATGTC-TAGACG
1 GACTATCTCTATTCTTTGTTTAATGTCTTA-ACG
*
90253206 GACTATCTCTGTTCTTTGTTTA
1 GACTATCTCTATTCTTTGTTTA
90253228 CTATCCAGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
32 2 0.05
33 42 0.95
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (33 bp):
GACTATCTCTATTCTTTGTTTAATGTCTTAACG
Found at i:90258768 original size:64 final size:64
Alignment explanation
Indices: 90258694--90258822 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
90258684 CGATTTAGAG
90258694 TTAGTCGCAGTGGTGTACACACTTAAAGTTTGGCGACACTACTTGTATGGTGAGAAGTGCACCA
1 TTAGTCGCAGTGGTGTACACACTTAAAGTTTGGCGACACTACTTGTATGGTGAGAAGTGCACCA
90258758 TTAGTCGCAGTGGTGTACACACTTAAAGTTTGGCGACACTACTTGTATGGTGAGAAGTGCACCA
1 TTAGTCGCAGTGGTGTACACACTTAAAGTTTGGCGACACTACTTGTATGGTGAGAAGTGCACCA
90258822 T
1 T
90258823 CTATACAAAC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (64 bp):
TTAGTCGCAGTGGTGTACACACTTAAAGTTTGGCGACACTACTTGTATGGTGAGAAGTGCACCA
Found at i:90259357 original size:13 final size:13
Alignment explanation
Indices: 90259339--90259364 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90259329 CATAAAAGAG
90259339 AACATAAATATAA
1 AACATAAATATAA
90259352 AACATAAATATAA
1 AACATAAATATAA
90259365 TTAATGTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
AACATAAATATAA
Found at i:90259521 original size:138 final size:138
Alignment explanation
Indices: 90259358--90259753 Score: 639
Period size: 138 Copynumber: 2.9 Consensus size: 138
90259348 ATAAAACATA
*
90259358 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTAT
1 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
* * *
90259423 TAGTATAAACAGTTATATTAATTAATTTCGGTCAAAATATGAAAGACATGGAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
90259488 TTAGAAAG
131 TTAGAAAG
* *
90259496 AATATAATTAATGCATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATTGAATTTAT
1 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
* * *
90259561 TAATATAACCAGTTATATGAATTAATTTATGTCAAAATATAAAAGACATGGAAATTAATATTCTT
66 TAATATAAACAGTTATATTAATTAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
*
90259626 TTGGAAAG
131 TTAGAAAG
*
90259634 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
1 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
** * * *
90259699 TAATATTTACAATTATATTAATTAATTTTGATCAAAATATAAAAGACATTGGAAA
66 TAATATAAACAGTTATATTAATTAATTTAGGTCAAAATATAAAAGACA-TGGAAA
90259754 AAATATAATT
Statistics
Matches: 236, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
138 230 0.97
139 6 0.03
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (138 bp):
AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTAT
TAATATAAACAGTTATATTAATTAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATTCTT
TTAGAAAG
Found at i:90259826 original size:75 final size:74
Alignment explanation
Indices: 90259747--90259886 Score: 219
Period size: 75 Copynumber: 1.9 Consensus size: 74
90259737 ATAAAAGACA
* *
90259747 TTGGAAAAAATATAATT-TTGCTTTCTAACTTTCCATTTGTCTTCTTTGTTAATAAGGGAATAAT
1 TTGGAAAAAATATAATTATT--TTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAAT
90259811 CATATATTCTT
64 CATATATTCTT
*
90259822 TTGGAAATAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAATC
1 TTGGAAAAAATATAATT-ATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAATC
90259887 CTAGTTTTCC
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
75 58 0.97
77 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (74 bp):
TTGGAAAAAATATAATTATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAATCA
TATATTCTT
Found at i:90266820 original size:27 final size:27
Alignment explanation
Indices: 90266786--90266842 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
90266776 TTACCAAGAC
90266786 CATAAGCTTAGTAAAAAACTATACAAG
1 CATAAGCTTAGTAAAAAACTATACAAG
90266813 CATAAGCTTAGTAAAAAACTATACAAG
1 CATAAGCTTAGTAAAAAACTATACAAG
90266840 CAT
1 CAT
90266843 CATCAAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.51, C:0.16, G:0.11, T:0.23
Consensus pattern (27 bp):
CATAAGCTTAGTAAAAAACTATACAAG
Found at i:90269650 original size:29 final size:28
Alignment explanation
Indices: 90269615--90269698 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 28
90269605 GAGTTATACC
*
90269615 GATTTGGCTTCGGGCCATGACTATCGGCT
1 GATTTGGCTTCGGGCCATGA-TATCAGCT
90269644 GATTTGGCTTCGGGCCATGAATATCAGCT
1 GATTTGGCTTCGGGCCATG-ATATCAGCT
90269673 GATTTGGCTTCGGGCCATGATATCAG
1 GATTTGGCTTCGGGCCATGATATCAG
90269699 TACTTCGAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
28 7 0.13
29 45 0.85
30 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (28 bp):
GATTTGGCTTCGGGCCATGATATCAGCT
Found at i:90282952 original size:22 final size:22
Alignment explanation
Indices: 90282924--90282966 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
90282914 TTGGAGATTT
90282924 TATTAATAAAAAATATTAAAAA
1 TATTAATAAAAAATATTAAAAA
**
90282946 TATTAATCTAAAATATTAAAA
1 TATTAATAAAAAATATTAAAA
90282967 TTTGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TATTAATAAAAAATATTAAAAA
Found at i:90284124 original size:15 final size:17
Alignment explanation
Indices: 90284096--90284130 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
90284086 TTTTTACGAA
90284096 TTCCTTTAAATCAA-TT
1 TTCCTTTAAATCAAGTT
90284112 TTCCTTT-AATCAAGTT
1 TTCCTTTAAATCAAGTT
90284128 TTC
1 TTC
90284131 GGATTGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.26, C:0.20, G:0.03, T:0.51
Consensus pattern (17 bp):
TTCCTTTAAATCAAGTT
Found at i:90292710 original size:167 final size:169
Alignment explanation
Indices: 90292429--90292794 Score: 486
Period size: 167 Copynumber: 2.2 Consensus size: 169
90292419 CTTTTATTGC
* * * * *
90292429 TATCATTTAAGTCACTTTGCTATAGGATTTTTGAAAAATTTTGTGCCTATACAAGGTCATTTGTA
1 TATCATTTAAGTCACTTTGCTATAGGACTTCTGAAAAACTTTGTACCTACACAAGGTCATTTGTA
* * * * * *
90292494 CTTCCATATATGGAGCATTTAAGTTCCTTATTAGAGTTTTGGTTTGAGGTTTCAGAGTATGTAAG
66 CCTCCATATATGCAACATGTAAGTTCCTTATTAGAGTTTTGGCTTGAGGTTTCAGAATATGTAAG
*
90292559 AAGTATTTACTGG-ATGCAAACATGTTATAGATTTTTGA
131 AAGTATTTACTGGAATGCAAACATGTTATAGAATTTTGA
* * *
90292597 TATCATTTAAGTCACTTTGTTATGGGACTTCTG-AAAACTTTGTACAC-ACACAAGTTCATTTGT
1 TATCATTTAAGTCACTTTGCTATAGGACTTCTGAAAAACTTTGTAC-CTACACAAGGTCATTTGT
* * * *
90292660 ACCTCCATATATGCAACATGTAAGTTGCTTATTAGATTTTTGGCTTGAGGTTTCAGAATTTTTAA
65 ACCTCCATATATGCAACATGTAAGTTCCTTATTAGAGTTTTGGCTTGAGGTTTCAGAATATGTAA
* * *
90292725 GAAGTATTTGCTGGAATGCAAACATGTTGTGGAATTTTGA
130 GAAGTATTTACTGGAATGCAAACATGTTATAGAATTTTGA
* *
90292765 AATCATTTTAGTCACTTTGCTATAGGACTT
1 TATCATTTAAGTCACTTTGCTATAGGACTT
90292795 TTGATGACTT
Statistics
Matches: 170, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
167 92 0.54
168 78 0.46
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (169 bp):
TATCATTTAAGTCACTTTGCTATAGGACTTCTGAAAAACTTTGTACCTACACAAGGTCATTTGTA
CCTCCATATATGCAACATGTAAGTTCCTTATTAGAGTTTTGGCTTGAGGTTTCAGAATATGTAAG
AAGTATTTACTGGAATGCAAACATGTTATAGAATTTTGA
Found at i:90294647 original size:14 final size:14
Alignment explanation
Indices: 90294623--90294657 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
90294613 TTTCAATATT
*
90294623 TAAAAAATAGAAAA
1 TAAAAATTAGAAAA
*
90294637 TGAAAATTAGAAAA
1 TAAAAATTAGAAAA
90294651 TAAAAAT
1 TAAAAAT
90294658 GAATATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (14 bp):
TAAAAATTAGAAAA
Found at i:90297111 original size:18 final size:19
Alignment explanation
Indices: 90297088--90297131 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
90297078 CTAAAGTTTT
90297088 ATTTTAATATTT-TTTT-AC
1 ATTTTAAT-TTTATTTTCAC
90297106 ATTTTAATTTTATTTTGCAC
1 ATTTTAATTTTATTTT-CAC
90297126 ATTTTA
1 ATTTTA
90297132 TAACATCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTAATTTTATTTTCAC
Found at i:90297254 original size:19 final size:19
Alignment explanation
Indices: 90297225--90297270 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
90297215 GTTAGAGAAG
** *
90297225 TTATT-AAAATATTTTTTC
1 TTATTCAAAATAAGTTTTA
90297243 TTATTCAAAATAAGTTTTA
1 TTATTCAAAATAAGTTTTA
90297262 TTATTCAAA
1 TTATTCAAA
90297271 GTTACTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTCAAAATAAGTTTTA
Found at i:90297565 original size:24 final size:25
Alignment explanation
Indices: 90297538--90297592 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
90297528 CAATCAAAAA
90297538 TTTATTTTAATATTT-TT-TATACAT
1 TTTATTTTAAT-TTTATTATATACAT
* *
90297562 TTTAATTTAATTTTATTATGTACAT
1 TTTATTTTAATTTTATTATATACAT
90297587 TTTATT
1 TTTATT
90297593 ACTTCCATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 3 0.12
24 12 0.46
25 11 0.42
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTATTTTAATTTTATTATATACAT
Found at i:90299614 original size:50 final size:50
Alignment explanation
Indices: 90299476--90299615 Score: 226
Period size: 50 Copynumber: 2.8 Consensus size: 50
90299466 AGTTTCGATA
*
90299476 TGTGATCCCATGTAAGACCATGTCTAAGACATGACATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCGATATG
90299526 TGTGATCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCGATATG
1 TGTGATCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCGATATG
* * * * *
90299576 TGTGAACCCATGTAAGACCATATCTGGGATATGGCATTGG
1 TGTGATCCCATGTAAGACCATGTCTGAGACATGACATTGG
90299616 TATCTCACTA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (50 bp):
TGTGATCCCATGTAAGACCATGTCTGAGACATGACATTGGCATCGATATG
Found at i:90301221 original size:29 final size:28
Alignment explanation
Indices: 90301187--90301289 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
90301177 TAATCGATCA
*
90301187 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* *
90301216 CGCACACATAGTGCCATATAATTTAAGTT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
90301245 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
90301274 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
90301290 ATCTTGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.05
29 61 0.94
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Done.