Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 125 of 328
Found at i:35836280 original size:46 final size:46
Alignment explanation
Indices: 35836105--35836280 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35836095 TGTAACCCGC
* * *
35836105 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35836151 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
35836201 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
35836244 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35836281 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35838700 original size:29 final size:29
Alignment explanation
Indices: 35838661--35838748 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
35838651 CAAAGATAAC
*
35838661 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
35838690 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
35838719 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
35838749 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:35838719 original size:15 final size:15
Alignment explanation
Indices: 35838661--35838739 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
35838651 CAAAGATAAC
*
35838661 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35838675 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
35838690 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
35838704 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
35838719 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
35838734 AAGAAA
1 AAGAAA
35838740 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35838748 original size:15 final size:15
Alignment explanation
Indices: 35838672--35838748 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
35838662 AGAAAACCGA
35838672 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
35838687 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
35838701 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
35838715 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35838731 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35838746 ATA
1 ATA
35838749 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35841806 original size:93 final size:93
Alignment explanation
Indices: 35841694--35841865 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35841684 GCCCATAAGT
* *
35841694 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35841759 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35841787 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35841852 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
35841866 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35841861 original size:46 final size:46
Alignment explanation
Indices: 35841686--35841861 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35841676 TGTAACCCGC
* * *
35841686 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35841732 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
35841782 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
35841825 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35841862 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35847144 original size:55 final size:55
Alignment explanation
Indices: 35847085--35847214 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 55
35847075 GCCGTGTTAA
* *
35847085 TTTAACAGGTTCGACCACGGGTAC-TAGACACGGGCGTGTTGCACGCCCGTGCTGT
1 TTTAACAGGTTCGACCACGGAT-CTTAGACACGGGCGTGTTGCACACCCGTGCTGT
* ** * * *
35847140 TTTAACAGGTTC-ACCCATGGATCTTCTATACGGGCGTGTTGCGCACCCGTGTTGT
1 TTTAACAGGTTCGA-CCACGGATCTTAGACACGGGCGTGTTGCACACCCGTGCTGT
**
35847195 TTTGGCAGGTTCGACCACGG
1 TTTAACAGGTTCGACCACGG
35847215 CCATGTCGCA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
54 2 0.03
55 58 0.95
56 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (55 bp):
TTTAACAGGTTCGACCACGGATCTTAGACACGGGCGTGTTGCACACCCGTGCTGT
Found at i:35851974 original size:20 final size:20
Alignment explanation
Indices: 35851949--35851990 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
35851939 CGTGCTTTGT
35851949 TATTCGAATGGTATCCGGGC
1 TATTCGAATGGTATCCGGGC
35851969 TATTCGAATGGTATCCGGGC
1 TATTCGAATGGTATCCGGGC
35851989 TA
1 TA
35851991 AGTCACGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (20 bp):
TATTCGAATGGTATCCGGGC
Found at i:35852084 original size:40 final size:40
Alignment explanation
Indices: 35851983--35852175 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
35851973 CGAATGGTAT
* * * * *
35851983 CCGGGCTAAGTCACGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
35852024 CTGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
35852064 CCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
35852104 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
35852144 CCGGGCTATGTCCCGAAGACAATTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
35852176 CGCTATATCC
Statistics
Matches: 125, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
40 102 0.82
41 23 0.18
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:35852130 original size:80 final size:81
Alignment explanation
Indices: 35851983--35852161 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 81
35851973 CGAATGGTAT
* * * * *
35851983 CCGGGCTAAGTCACGAAGGCTTTTGTGCTAAGTGACTAAATCTGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
*
35852048 GTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAA
* * *
35852064 CCGGGTTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTACTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* *
35852127 TGTGCGAATTACTATAA
65 TGTGCGAATTACCAAAA
*
35852144 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
35852162 ACAATTGAGC
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.70
81 24 0.29
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAA
Found at i:35852182 original size:40 final size:40
Alignment explanation
Indices: 35852104--35852187 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
35852094 GTTACTAAAT
* * *
35852104 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGCTAATTCCCGAAGACAATTGAGCGAATCACTATAA
* * *
35852144 CCGGGCT-ATGTCCCGAAGACAATTGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATTGAGCGAATCACTATAA
35852184 CCGG
1 CCGG
35852188 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATTGAGCGAATCACTATAA
Found at i:35858944 original size:29 final size:29
Alignment explanation
Indices: 35858911--35858985 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
35858901 TACTCGATTT
*
35858911 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACATAGTGCCATGCGATTTAAGCC
*
35858940 CGCACACATAGTGCCACGCGATTTAAGCC
1 CGCACACATAGTGCCATGCGATTTAAGCC
35858969 CGCACACATAGTGCCAT
1 CGCACACATAGTGCCAT
35858986 ACCCTTCGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (29 bp):
CGCACACATAGTGCCATGCGATTTAAGCC
Found at i:35859033 original size:29 final size:29
Alignment explanation
Indices: 35858999--35859100 Score: 195
Period size: 29 Copynumber: 3.5 Consensus size: 29
35858989 CTTCGAGCTC
35858999 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
35859028 GGACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35859057 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35859086 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
35859101 ATCTCGTCAC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:35859039 original size:58 final size:58
Alignment explanation
Indices: 35858970--35859100 Score: 192
Period size: 58 Copynumber: 2.3 Consensus size: 58
35858960 ATTTAAGCCC
* * *
35858970 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACTTAGTGCCATATATTTCCAGCAT
* * *
35859028 GGACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
35859086 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
35859101 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 64 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
Found at i:35859228 original size:2 final size:2
Alignment explanation
Indices: 35859221--35859245 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35859211 CATTTTCATT
35859221 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35859246 CATCCCATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35866761 original size:29 final size:29
Alignment explanation
Indices: 35866727--35866886 Score: 103
Period size: 29 Copynumber: 5.6 Consensus size: 29
35866717 TACTCGATTT
* * *
35866727 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
35866756 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
35866785 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * * *
35866814 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *
35866843 TGCACACTTAGTGCCATA-TATTTC-AGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
35866871 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
35866887 ATCTCGTCAC
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
28 20 0.17
29 97 0.83
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:35866819 original size:58 final size:58
Alignment explanation
Indices: 35866726--35866886 Score: 200
Period size: 58 Copynumber: 2.8 Consensus size: 58
35866716 ATACTCGATT
** * ** * * *
35866726 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACATAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCAGCATGCACACTTAGTGCCATACACTTCCAGCA
* *
35866784 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 TCGCACACTTAGTGCCATATATTT-CAGCATGCACACTTAGTGCCATACACTTCCAGCA
35866843 T-GCACACTTAGTGCCATATATTTCAGCATGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCAGCATGCACACTTAGTGCCA
35866887 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
57 25 0.27
58 65 0.71
59 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATATATTTCAGCATGCACACTTAGTGCCATACACTTCCAGCA
Found at i:35871377 original size:40 final size:40
Alignment explanation
Indices: 35871280--35871472 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 40
35871270 CGAATGGTAT
** * * *
35871280 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAAA
* * * *
35871321 TCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTACTAAAA
* * * *
35871361 CCGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAA
* * * * *
35871401 CTGGGCTAATTCCTGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAA
* * * *
35871441 CCAGGCTATGTCCCGAAGACAATTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGT
35871473 CGCTATATCC
Statistics
Matches: 121, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
40 97 0.80
41 24 0.20
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAA
Found at i:35871427 original size:80 final size:80
Alignment explanation
Indices: 35871280--35871472 Score: 210
Period size: 80 Copynumber: 2.4 Consensus size: 80
35871270 CGAATGGTAT
* * *
35871280 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATTCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAATTCGGGTCAATTCCCGAAGGCAATT
*
35871345 GTGCGAGTTACCAAAA
65 GTGCGAATTACCAAAA
* * * *
35871361 CCGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTACTAAA-TCTGGG-CTAATTCCTGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATTC-GGGTC-AATTCCCGAAGGCAAT
* *
35871424 TGTGCGAATTACTATAA
64 TGTGCGAATTACCAAAA
* * * * *
35871441 CCAGGCTATGTCCCGAAGACAATTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
35871473 CGCTATATCC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 66 0.70
81 25 0.27
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATTCGGGTCAATTCCCGAAGGCAATTG
TGCGAATTACCAAAA
Found at i:35871492 original size:80 final size:79
Alignment explanation
Indices: 35871314--35871498 Score: 176
Period size: 80 Copynumber: 2.3 Consensus size: 79
35871304 GTGCTAAGTG
* * * * *
35871314 ACTAAAT-TCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAGGTCCCGAA
1 ACTAAATCTCGGCT-AATT-CCGAAGGCAATTGTGCGAATTACCAAAACCAGGCTAGGTCCCGAA
* * * *
35871378 GGCATTTGTGCGAGTT
64 GACAATTGAGCGAGTC
* * * *
35871394 ACTAAATCTGGGCTAATTCCTGAAGGCAATTGTGCGAATTACTATAACCAGGCTATGTCCCGAAG
1 ACTAAATCTCGGCTAATTCC-GAAGGCAATTGTGCGAATTACCAAAACCAGGCTAGGTCCCGAAG
35871459 ACAATTGAGCGAGTC
65 ACAATTGAGCGAGTC
* * *
35871474 GCTATATC-CGGTTAAATTCCGAAGG
1 ACTAAATCTCGGCT-AATTCCGAAGG
35871499 TACGTGATTC
Statistics
Matches: 85, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
79 10 0.12
80 71 0.84
81 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (79 bp):
ACTAAATCTCGGCTAATTCCGAAGGCAATTGTGCGAATTACCAAAACCAGGCTAGGTCCCGAAGA
CAATTGAGCGAGTC
Found at i:35876978 original size:25 final size:25
Alignment explanation
Indices: 35876950--35877013 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
35876940 TTTTCTCCTA
* *
35876950 AATTTTTAATTTTATTTAATTATT-T
1 AATTTTTAA-TTTATTGAATCATTAT
35876975 AATTTTTCAATTTATTGAATCATTAAT
1 AATTTTT-AATTTATTGAATCATT-AT
35877002 AATTTTT-ATTTA
1 AATTTTTAATTTA
35877014 ATTAAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 24 0.71
26 2 0.06
27 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (25 bp):
AATTTTTAATTTATTGAATCATTAT
Found at i:35886817 original size:58 final size:56
Alignment explanation
Indices: 35886755--35886887 Score: 135
Period size: 58 Copynumber: 2.3 Consensus size: 56
35886745 ATTAAAACTT
** ** *
35886755 ATAATTTCTATATCAATTTTATTTTTTAATAA-TATTTAATGAAATTTTAATAGTTTAA
1 ATAATTTCTATAT-AATTTTATAATTT-ATAATTATTTAAACAAATTATAATA-TTTAA
* * * *
35886813 ATAATTTTTTCTATAATTTTCTAATTTATAATTATTTAAACAAATTATAATATTTTA
1 ATAA-TTTCTATATAATTTTATAATTTATAATTATTTAAACAAATTATAATATTTAA
35886870 ATAATTTCTA-ATAATTTT
1 ATAATTTCTATATAATTTT
35886888 TAAAAATTGT
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
55 8 0.13
56 4 0.06
57 12 0.19
58 31 0.50
59 7 0.11
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (56 bp):
ATAATTTCTATATAATTTTATAATTTATAATTATTTAAACAAATTATAATATTTAA
Found at i:35886883 original size:10 final size:9
Alignment explanation
Indices: 35886778--35886887 Score: 53
Period size: 10 Copynumber: 11.4 Consensus size: 9
35886768 CAATTTTATT
35886778 TTTTAATAA
1 TTTTAATAA
35886787 TATTTAATGAAA
1 T-TTTAAT--AA
*
35886799 TTTTAATAG
1 TTTTAATAA
*
35886808 TTTAAATAA
1 TTTTAATAA
*
35886817 TTTTTTCTATAA
1 --TTTT-AATAA
*
35886829 TTTT-CTAA
1 TTTTAATAA
*
35886837 TTTATAATTA
1 TTT-TAATAA
* *
35886847 TTTAAACAAA
1 TTTTAA-TAA
*
35886857 TTATAAT-A
1 TTTTAATAA
35886865 TTTTAATAA
1 TTTTAATAA
35886874 TTTCTAATAA
1 TTT-TAATAA
35886884 TTTT
1 TTTT
35886888 TAAAAATTGT
Statistics
Matches: 75, Mismatches: 15, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
8 13 0.17
9 17 0.23
10 29 0.39
11 9 0.12
12 7 0.09
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (9 bp):
TTTTAATAA
Found at i:35887266 original size:9 final size:9
Alignment explanation
Indices: 35887254--35887414 Score: 87
Period size: 9 Copynumber: 16.7 Consensus size: 9
35887244 ATTTTATTTG
35887254 TTTTTATAA
1 TTTTTATAA
35887263 TTTTTAATAA
1 TTTTT-ATAA
35887273 TTTTTATATAA
1 -TTTT-TATAA
* *
35887284 TTTATAAAA
1 TTTTTATAA
**
35887293 AATTTA-AA
1 TTTTTATAA
35887301 GTTTTTATAA
1 -TTTTTATAA
35887311 TTATTTCAT-A
1 TT-TTT-ATAA
35887321 TTTTTCATAA
1 TTTTT-ATAA
35887331 TATTTTATAA
1 T-TTTTATAA
35887341 TTTAATTA-AA
1 TTT--TTATAA
*
35887351 -TTTTATAGT
1 TTTTTATA-A
*
35887360 TTTTCTATCA
1 TTTT-TATAA
35887370 TTTTTATAA
1 TTTTTATAA
*
35887379 TTTTTAAAA
1 TTTTTATAA
35887388 TTTATTATAA
1 TTT-TTATAA
*
35887398 TATATTAATAA
1 T-T-TTTATAA
35887409 TTTTTA
1 TTTTTA
35887415 GATTTAAATA
Statistics
Matches: 119, Mismatches: 15, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
7 3 0.03
8 3 0.03
9 46 0.39
10 38 0.32
11 27 0.23
12 2 0.02
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:35887267 original size:10 final size:10
Alignment explanation
Indices: 35887254--35887413 Score: 68
Period size: 10 Copynumber: 16.4 Consensus size: 10
35887244 ATTTTATTTG
35887254 TTTTTATAAT
1 TTTTTATAAT
*
35887264 TTTTAATAAT
1 TTTTTATAAT
35887274 TTTTATATAA-
1 TTTT-TATAAT
* *
35887284 TTTATA-AAA
1 TTTTTATAAT
** *
35887293 AATTTA-AAG
1 TTTTTATAAT
35887302 TTTTTATAAT
1 TTTTTATAAT
*
35887312 TATTTCAT-AT
1 T-TTTTATAAT
*
35887322 TTTTCATAAT
1 TTTTTATAAT
*
35887332 ATTTTATAAT
1 TTTTTATAAT
*
35887342 TTAATTA-AA-
1 TT-TTTATAAT
*
35887351 -TTTTATAGT
1 TTTTTATAAT
*
35887360 TTTTCTATCA-
1 TTTT-TATAAT
35887370 TTTTTATAA-
1 TTTTTATAAT
*
35887379 TTTTTAAAAT
1 TTTTTATAAT
*
35887389 TTATTATAAT
1 TTTTTATAAT
* *
35887399 ATATTAATAAT
1 -TTTTTATAAT
35887410 TTTT
1 TTTT
35887414 AGATTTAAAT
Statistics
Matches: 111, Mismatches: 27, Indels: 24
0.69 0.17 0.15
Matches are distributed among these distances:
7 3 0.03
8 4 0.04
9 29 0.26
10 53 0.48
11 22 0.20
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:35887343 original size:20 final size:19
Alignment explanation
Indices: 35887255--35887398 Score: 77
Period size: 19 Copynumber: 7.5 Consensus size: 19
35887245 TTTTATTTGT
*
35887255 TTTTATAATTTTTAATAATT
1 TTTTATAATTTTT-ATAATA
* *
35887275 TTTATATAATTTATA-AAAA
1 TTT-TATAATTTTTATAATA
*
35887294 ATTTA-AAGTTTTTATAATTA
1 TTTTATAA-TTTTTATAA-TA
*
35887314 TTTCAT-ATTTTTCATAATA
1 TTTTATAATTTTT-ATAATA
*
35887333 TTTTATAA-TTTAATTAA-A
1 TTTTATAATTTTTA-TAATA
* *
35887351 TTTTATAGTTTTTCT-ATCA
1 TTTTATAATTTTTATAAT-A
*
35887370 TTTTTATAATTTTTAAAAT-
1 -TTTTATAATTTTTATAATA
35887389 TTATTATAAT
1 TT-TTATAAT
35887399 ATATTAATAA
Statistics
Matches: 94, Mismatches: 16, Indels: 29
0.68 0.12 0.21
Matches are distributed among these distances:
17 3 0.03
18 19 0.20
19 35 0.37
20 26 0.28
21 11 0.12
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (19 bp):
TTTTATAATTTTTATAATA
Found at i:35887396 original size:57 final size:54
Alignment explanation
Indices: 35887254--35887398 Score: 132
Period size: 57 Copynumber: 2.5 Consensus size: 54
35887244 ATTTTATTTG
35887254 TTTTTATAATTTTTAATAATTTTTATATAATTTATAAAAAATTTAAAGTTTTTATAA
1 TTTTTATAATTTTTAA-AA-TTTT-TATAATTTATAAAAAATTTAAAGTTTTTATAA
* * * * *
35887311 TTATTTCAT-ATTTTTCATAATATTTTATAATTTA-ATTAAATTTTATAGTTTTTCTATCA
1 TT-TTT-ATAATTTTT-AAAAT-TTTTATAATTTATA-AAAAATTTAAAG-TTTT-TATAA
35887370 TTTTTATAATTTTTAAAATTTATTATAAT
1 TTTTTATAATTTTTAAAATTT-TTATAAT
35887399 ATATTAATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
56 3 0.04
57 34 0.47
58 27 0.37
59 9 0.12
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (54 bp):
TTTTTATAATTTTTAAAATTTTTATAATTTATAAAAAATTTAAAGTTTTTATAA
Found at i:35889749 original size:22 final size:22
Alignment explanation
Indices: 35889724--35889793 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
35889714 TTTTAGTGCT
* *
35889724 TACTGTTCTACATTTCGATGCC
1 TACTGTTCTACACTACGATGCC
* * *
35889746 TACTGTTTTGCACTACGGTGCC
1 TACTGTTCTACACTACGATGCC
35889768 TACTGTTCTACACTAC-AGTGCC
1 TACTGTTCTACACTACGA-TGCC
35889790 TACT
1 TACT
35889794 AATTACTACG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.37
Consensus pattern (22 bp):
TACTGTTCTACACTACGATGCC
Found at i:35889790 original size:44 final size:41
Alignment explanation
Indices: 35889719--35889813 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 41
35889709 CTGCATTTTA
* * * **
35889719 GTGCTTACTGTTCTACATTTCGATGCCTACTGTTTTGCACTACG
1 GTGCCTACTGTTCTACACTACGATGCCTACT-AATT--ACTACG
35889763 GTGCCTACTGTTCTACACTAC-AGTGCCTACTAATTACTACG
1 GTGCCTACTGTTCTACACTACGA-TGCCTACTAATTACTACG
35889804 GTGCCTACTG
1 GTGCCTACTG
35889814 ATACGCACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 16 0.36
43 3 0.07
44 26 0.58
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (41 bp):
GTGCCTACTGTTCTACACTACGATGCCTACTAATTACTACG
Found at i:35889830 original size:41 final size:41
Alignment explanation
Indices: 35889757--35889835 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
35889747 ACTGTTTTGC
*
35889757 ACTACGGTGCCTACTGTTCTACACTACAGTGCCTACTAATT
1 ACTACGGTGCCTACTGTACTACACTACAGTGCCTACTAATT
* * *
35889798 ACTACGGTGCCTACTGATAC-GCACTTCGGTGCCTACTA
1 ACTACGGTGCCTACTG-TACTACACTACAGTGCCTACTA
35889836 GTGTGGTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (41 bp):
ACTACGGTGCCTACTGTACTACACTACAGTGCCTACTAATT
Found at i:35894373 original size:108 final size:107
Alignment explanation
Indices: 35894251--35894450 Score: 330
Period size: 108 Copynumber: 1.9 Consensus size: 107
35894241 GTTTTTTTAA
35894251 AATGATATCTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAAATTT
1 AATGATATCTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATT-AAATTT
* *
35894316 TTGTTAATTACTTTGATAAATTTTTTGATTAGTTTAACAAAAC
65 TTGTTAATTACTCTGATAAAATTTTTGATTAGTTTAACAAAAC
* * *
35894359 AATGATATGC-TAAGTTGGAATAAGTTTTAAATAATAAAATTTTTTACAAAATTGTATTAAATTT
1 AATGATAT-CTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAATTT
35894423 TTGTTAATTACTCTGATAAAATTTTTGA
65 TTGTTAATTACTCTGATAAAATTTTTGA
35894451 CGTGTTTTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
107 32 0.37
108 53 0.62
109 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (107 bp):
AATGATATCTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACAAAATTGTATTAAATTTT
TGTTAATTACTCTGATAAAATTTTTGATTAGTTTAACAAAAC
Found at i:35894814 original size:27 final size:27
Alignment explanation
Indices: 35894774--35894825 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
35894764 TGTGCAGGGT
* *
35894774 GTTGTGCCTGCCTGTCAGGCACGACTA
1 GTTGTGCCTACCTGACAGGCACGACTA
*
35894801 GTTGTGCCTACCTGACAGGCTCGAC
1 GTTGTGCCTACCTGACAGGCACGAC
35894826 CCGTTTCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.31, G:0.29, T:0.25
Consensus pattern (27 bp):
GTTGTGCCTACCTGACAGGCACGACTA
Found at i:35898314 original size:11 final size:11
Alignment explanation
Indices: 35898296--35898333 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
35898286 TGCTCTCAAC
35898296 TCTCTCTTAAT
1 TCTCTCTTAAT
35898307 TCTCTCTTAAT
1 TCTCTCTTAAT
*
35898318 TCT-TACTCAAT
1 TCTCT-CTTAAT
35898329 TCTCT
1 TCTCT
35898334 TAGTTCACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (11 bp):
TCTCTCTTAAT
Found at i:35902560 original size:23 final size:25
Alignment explanation
Indices: 35902533--35902587 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
35902523 AATATTTACG
*
35902533 AAGTTAAGTG-AGTG-ATTAATTTA
1 AAGTTAAGTGAAGTGAATTAACTTA
35902556 AAGTTTAA-TGAAGTGAATTAACTTA
1 AAG-TTAAGTGAAGTGAATTAACTTA
35902581 AA-TTAAG
1 AAGTTAAG
35902588 GATAATTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 9 0.33
24 8 0.30
25 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (25 bp):
AAGTTAAGTGAAGTGAATTAACTTA
Found at i:35908760 original size:3 final size:3
Alignment explanation
Indices: 35908754--35908803 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
35908744 GACGTCCTCC
35908754 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
35908802 CT
1 CT
35908804 AGTTATTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:35913355 original size:20 final size:20
Alignment explanation
Indices: 35913289--35913355 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
35913279 GAATATATAT
*
35913289 ATAATAATAATGGT-ATAGTA
1 ATAATAAT-ATGATAATAGTA
* *
35913309 AAAATGATA--ATAATA-TA
1 ATAATAATATGATAATAGTA
*
35913326 TTAATGAATATGATAATAGTA
1 ATAAT-AATATGATAATAGTA
35913347 ATAATAATA
1 ATAATAATA
35913356 ACAGTTAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
17 6 0.17
18 6 0.17
19 1 0.03
20 16 0.46
21 6 0.17
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (20 bp):
ATAATAATATGATAATAGTA
Found at i:35917980 original size:14 final size:14
Alignment explanation
Indices: 35917963--35918015 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
35917953 CAAAATTTGG
35917963 AACCCTAAATCTTA
1 AACCCTAAATCTTA
* * *
35917977 AA-CCAAAAACCTA
1 AACCCTAAATCTTA
35917990 AACCCTAAAT-TATA
1 AACCCTAAATCT-TA
35918004 AACCCTAAATCT
1 AACCCTAAATCT
35918016 CGAACTATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 10 0.33
14 19 0.63
15 1 0.03
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTAAATCTTA
Found at i:35919789 original size:17 final size:17
Alignment explanation
Indices: 35919767--35919804 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
35919757 ATTTTATAAT
35919767 AAATAAATCAT-AAAATA
1 AAATAAAT-ATAAAAATA
*
35919784 AAATAACTATAAAAATA
1 AAATAAATATAAAAATA
35919801 AAAT
1 AAAT
35919805 CAATTCTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAATATAAAAATA
Found at i:35922312 original size:17 final size:16
Alignment explanation
Indices: 35922287--35922318 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
35922277 CATATAAATT
35922287 CATATTATATATATAA
1 CATATTATATATATAA
35922303 CATATATATATATATA
1 CATAT-TATATATATA
35922319 TATTTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
CATATTATATATATAA
Found at i:35924620 original size:18 final size:20
Alignment explanation
Indices: 35924584--35924630 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
35924574 AGTTGTAAGT
35924584 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
35924604 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
35924623 ATGATATA
1 AT-ATATA
35924631 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Found at i:35925049 original size:27 final size:27
Alignment explanation
Indices: 35925014--35925073 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
35925004 GGTACTACGT
* *
35925014 GTACCAGATTGATAGGTCGCATGTGTA
1 GTACTAGATGGATAGGTCGCATGTGTA
35925041 GTACTAGATGGATAGGTCGCATGTGTA
1 GTACTAGATGGATAGGTCGCATGTGTA
35925068 GTACTA
1 GTACTA
35925074 ACTACAGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (27 bp):
GTACTAGATGGATAGGTCGCATGTGTA
Found at i:35925176 original size:50 final size:50
Alignment explanation
Indices: 35925113--35925400 Score: 310
Period size: 50 Copynumber: 5.7 Consensus size: 50
35925103 TTCAATCGCG
* * *
35925113 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACA
* * * * *
35925163 TATGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACA
* * ** * **
35925213 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTGTTAACTTCAA-TCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTT-AAGTCACA
* **
35925264 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATTAGATGGTTAAGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACA
* * * **
35925314 TGTGTAGTACTAAGTGCTA-GCTACTACGTGTACCAGATTGATAGGTTGCA
1 TGTGTAGTACTAAGTGC-AGGCTACTACGTGTACCAGATGGTTAAGTCACA
* *
35925364 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
35925401 GAGCTTCGGT
Statistics
Matches: 197, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.02
50 155 0.79
51 38 0.19
52 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACA
Found at i:35925295 original size:26 final size:26
Alignment explanation
Indices: 35925265--35925345 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
35925255 TCAATCACAT
35925265 GTGTAGTACTAAGTGCAAGCTACTAC
1 GTGTAGTACTAAGTGCAAGCTACTAC
* * * * *
35925291 GTGTATTA-GATG-GTTAAG-TCAC-AT
1 GTGTAGTACTAAGTG-CAAGCT-ACTAC
*
35925315 GTGTAGTACTAAGTGCTAGCTACTAC
1 GTGTAGTACTAAGTGCAAGCTACTAC
35925341 GTGTA
1 GTGTA
35925346 CCAGATTGAT
Statistics
Matches: 38, Mismatches: 11, Indels: 12
0.62 0.18 0.20
Matches are distributed among these distances:
24 10 0.26
25 13 0.34
26 15 0.39
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAAGCTACTAC
Found at i:35925325 original size:151 final size:151
Alignment explanation
Indices: 35925041--35925397 Score: 572
Period size: 151 Copynumber: 2.4 Consensus size: 151
35925031 CGCATGTGTA
* * * * *
35925041 GTACTAGATGGATAGGTCGCATGTGTAGTACTAACTACAGGCTATTATGCGTACCTGTTAACTTC
1 GTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTC
* * * * *
35925106 AATCGCGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTATGTAGT
66 AATCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAAGTCACATATGTAGT
35925171 ACTAAGTGC-AGGCTACTACGT
131 ACTAAGTGCTA-GCTACTACGT
*
35925192 GTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTGTTAACTTC
1 GTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTC
* *
35925257 AATCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATTAGATGGTTAAGTCACATGTGTAGT
66 AATCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAAGTCACATATGTAGT
35925322 ACTAAGTGCTAGCTACTACGT
131 ACTAAGTGCTAGCTACTACGT
*
35925343 GTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
35925398 AGAGAGCTTC
Statistics
Matches: 190, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
151 189 0.99
152 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (151 bp):
GTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGTTAACTTC
AATCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAAGTCACATATGTAGT
ACTAAGTGCTAGCTACTACGT
Found at i:35926248 original size:180 final size:179
Alignment explanation
Indices: 35925941--35926296 Score: 491
Period size: 180 Copynumber: 2.0 Consensus size: 179
35925931 TCCGAGAGTT
* *
35925941 GTACCATGAGAAAAATAATTTTTAGTGAAGAGAGTCAGAACTGTTAGACAGTGAAATAGGGGTAT
1 GTACCATGAGAAAAATAATTTTTAGTGAAGAGAGTCAGAACTGTCAAACAGTGAAATAGGGGTAT
* * * *
35926006 CTTTAATGAATAAACTGTACTAATTGGCTGAACAAAATATTCTGAAAATTTTATGATAAGAATAC
66 ATTTAATGAATAAAATGTACTAATTGGATGAACAAAATATTATGAAAATTTTATGATAAGAATAC
* ** *
35926071 ATGTAAGTCTAGTTTCTAGA-AAAATTAGTAGTTCTCAATTTGGAGTCTA
131 ATATAAGTCTAGTTTC-AGATAAAATTAACAGATCTCAATTTGGAGTCTA
* * **
35926120 GTACCATGAGATAAATAATTTTTAGTTAAGAGAGGTTGGAACTGTCAAACAGTGAAATAGGGGTA
1 GTACCATGAGAAAAATAATTTTTAGTGAAGAGA-GTCAGAACTGTCAAACAGTGAAATAGGGGTA
* * *
35926185 TATTTAATGAATAAAATGTACTTATTGGATAGACCAAAA-ATTATGAAAATTTTATGGTAAGAAT
65 TATTTAATGAATAAAATGTACTAATTGGAT-GAACAAAATATTATGAAAATTTTATGATAAGAAT
* * *
35926249 ATATATGAGTCTAGTTTCAGATAAAATTAACAGATCTTAATTTGGAGT
129 ACATATAAGTCTAGTTTCAGATAAAATTAACAGATCTCAATTTGGAGT
35926297 TTCGTAGCTC
Statistics
Matches: 154, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
179 34 0.22
180 113 0.73
181 7 0.05
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (179 bp):
GTACCATGAGAAAAATAATTTTTAGTGAAGAGAGTCAGAACTGTCAAACAGTGAAATAGGGGTAT
ATTTAATGAATAAAATGTACTAATTGGATGAACAAAATATTATGAAAATTTTATGATAAGAATAC
ATATAAGTCTAGTTTCAGATAAAATTAACAGATCTCAATTTGGAGTCTA
Found at i:35928588 original size:47 final size:46
Alignment explanation
Indices: 35928433--35928785 Score: 208
Period size: 47 Copynumber: 7.6 Consensus size: 46
35928423 GATTTGTGCT
* * *
35928433 CCAGTGTAAGACATGTC-GGGACATGCTTCGGCCACATTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAG
* * * ** * *
35928478 CCAGTGTAAGACCATGTCTAGGACATGGCA-CCGGCAT-CCAGGCGATGG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATATTATGAGA--G
* *
35928526 CTAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATAAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAG
* * *
35928572 CCAGTGTAAGACCATGTCTGGGACATGGCATC-GACACAGA-GATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-C-CATATTATGAGAG
* * *
35928620 CTAGAGTAAGACATGTCTGGGACATGCATCAG-C-T-TTGACAGAGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATT-A-TGAG--AG
* * * * ** * *
35928667 CCAATGTAAGACGTGTCTGGGACACGCATC-GGC-TAAGA-GTTGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATG-AGAG
* *
35928711 CTAGTGTAAGACATGTCTGGGACATGCATTAGCACGCATA-TATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATATTATGAGAG
*
35928759 CCATTGTAAGACCATGTCTGGGACATG
1 CCAGTGTAAGA-CATGTCTGGGACATG
35928786 GGATCGGCAA
Statistics
Matches: 232, Mismatches: 49, Indels: 50
0.70 0.15 0.15
Matches are distributed among these distances:
44 28 0.12
45 16 0.07
46 31 0.13
47 87 0.38
48 49 0.21
49 21 0.09
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAG
Found at i:35928596 original size:94 final size:93
Alignment explanation
Indices: 35928435--35928794 Score: 380
Period size: 94 Copynumber: 3.9 Consensus size: 93
35928425 TTTGTGCTCC
* * * * *
35928435 AGTGTAAGACATGTC-GGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATAAGAGCCAGTGTAAGACCATGTCTGG
* *
35928499 GACATGGCACCGGCATCCAGGCGATG-GCT
66 GACATGGCATCGGCAT-CA-GAGATGTGCT
35928528 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATAAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATAAGAGCCAGTGTAAGACCATGTCTGG
*
35928593 GACATGGCATCGACA-CAGAGATGAGTGCT
66 GACATGGCATCGGCATCAGAGAT--GTGCT
* * * *
35928622 AGAGTAAGACATGTCTGGGACATGCATCAG-C-T-TTGACAGAGATAGCCAATGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATT-ATA-AG--AGCCAGTGTAAGACCATGT
* * *
35928683 CTGGGACA-CGCATCGGC-TAAGAGTTGTGCT
62 CTGGGACATGGCATCGGCATCAGAGATGTGCT
* * *
35928713 AGTGTAAGACATGTCTGGGACATGCATTAGCACGCATA-TATGAGAGCCATTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATATTATAAGAGCCAGTGTAAGACCATGTC
*
35928777 TGGGACATGGGATCGGCA
63 TGGGACATGGCATCGGCA
35928795 ATATATCCCA
Statistics
Matches: 225, Mismatches: 24, Indels: 34
0.80 0.08 0.12
Matches are distributed among these distances:
91 39 0.17
92 17 0.08
93 43 0.19
94 110 0.49
95 14 0.06
96 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATAAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAGAGATGTGCT
Found at i:35940465 original size:17 final size:17
Alignment explanation
Indices: 35940445--35940480 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
35940435 CTGGTATAAG
35940445 TATGAAAATGGTTCAGC
1 TATGAAAATGGTTCAGC
35940462 TATGAAAATGGTTCAGC
1 TATGAAAATGGTTCAGC
35940479 TA
1 TA
35940481 GGCTTGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (17 bp):
TATGAAAATGGTTCAGC
Found at i:35940961 original size:42 final size:42
Alignment explanation
Indices: 35940902--35941061 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 42
35940892 TTAGGGTTAC
*
35940902 TGAGATTACGTGCAAGACCATATCTGGGATATGACATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGACATCGATA
*
35940944 TGAGACTT-CGTGTAAGACCATATCTGGGATATGACATCAATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATATGACATCGATA
** * * *
35940986 TGAGACTT-TTTGTAAGACTATAGT-TGGGCTATTGGCATCGATA
1 TGAGA-TTACGTGTAAGACCATA-TCTGGGATA-TGACATCGATA
* * **
35941029 CGAGATTACATGTAAGTTCATATCTGGGATATG
1 TGAGATTACGTGTAAGACCATATCTGGGATATG
35941062 GCATTGGTAT
Statistics
Matches: 98, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 67 0.68
43 31 0.32
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGACATCGATA
Found at i:35941776 original size:23 final size:22
Alignment explanation
Indices: 35941746--35941789 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
35941736 TTGGTCATGG
35941746 TTGAATTGGTGGTATGTGTATGC
1 TTGAATTGGTGGTATGT-TATGC
*
35941769 TTGAATTGGTGTTATGTTATG
1 TTGAATTGGTGGTATGTTATG
35941790 TTGTGTAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.18, C:0.02, G:0.32, T:0.48
Consensus pattern (22 bp):
TTGAATTGGTGGTATGTTATGC
Found at i:35951752 original size:18 final size:18
Alignment explanation
Indices: 35951729--35951771 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
35951719 GTGCCCCAAG
35951729 CCACACGACCGTGTGAGT
1 CCACACGACCGTGTGAGT
**
35951747 CCACACGGGCGTGTGAGT
1 CCACACGACCGTGTGAGT
35951765 CCACACG
1 CCACACG
35951772 GGCGTGTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.35, G:0.30, T:0.14
Consensus pattern (18 bp):
CCACACGACCGTGTGAGT
Found at i:35951772 original size:18 final size:18
Alignment explanation
Indices: 35951738--35951780 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
35951728 GCCACACGAC
35951738 CGTGTGAGTCCACACGGG
1 CGTGTGAGTCCACACGGG
35951756 CGTGTGAGTCCACACGGG
1 CGTGTGAGTCCACACGGG
35951774 CGTGTGA
1 CGTGTGA
35951781 CACTCCTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.26, G:0.40, T:0.19
Consensus pattern (18 bp):
CGTGTGAGTCCACACGGG
Found at i:35956883 original size:13 final size:13
Alignment explanation
Indices: 35956863--35956901 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
35956853 CATTCATTTT
*
35956863 AAGGCACACGGCC
1 AAGGCACACGCCC
*
35956876 ATGGCACACGCCC
1 AAGGCACACGCCC
*
35956889 AAGGCACATGCCC
1 AAGGCACACGCCC
35956902 GTATCCTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.28, C:0.41, G:0.26, T:0.05
Consensus pattern (13 bp):
AAGGCACACGCCC
Found at i:35963151 original size:29 final size:29
Alignment explanation
Indices: 35963112--35963191 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
35963102 CTTAATAATC
*
35963112 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
35963142 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
35963171 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
35963192 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:35963744 original size:2 final size:2
Alignment explanation
Indices: 35963737--35963764 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35963727 ATATGCATAC
35963737 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35963765 CAACTATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35971067 original size:29 final size:29
Alignment explanation
Indices: 35971028--35971107 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
35971018 CTTAATAATC
*
35971028 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
35971058 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
35971087 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
35971108 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:35978368 original size:29 final size:29
Alignment explanation
Indices: 35978267--35978353 Score: 174
Period size: 29 Copynumber: 3.0 Consensus size: 29
35978257 GTGACGAGAT
35978267 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
35978296 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
35978325 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
35978354 CAGCACTGGG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:35978385 original size:58 final size:58
Alignment explanation
Indices: 35978263--35978397 Score: 166
Period size: 58 Copynumber: 2.3 Consensus size: 58
35978253 TACGGTGACG
** *
35978263 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACAGCACTAAGTGTGCATGCTCGAA
* **
35978320 ATATATGGCACTAAGTGTGCATGCTGGAAATATACAGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATACAGCACTAAGTGTGC-ATGCTCGAA
* * *
35978378 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
35978398 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
57 3 0.05
58 62 0.94
59 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATACAGCACTAAGTGTGCATGCTCGAA
Found at i:35985543 original size:13 final size:13
Alignment explanation
Indices: 35985525--35985549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35985515 AGGCCGTGTA
35985525 AAGGACACGGGCC
1 AAGGACACGGGCC
35985538 AAGGACACGGGC
1 AAGGACACGGGC
35985550 TTGTTCTTGG
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:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AAGGACACGGGCC
Found at i:35987346 original size:21 final size:21
Alignment explanation
Indices: 35987320--35987403 Score: 78
Period size: 21 Copynumber: 3.8 Consensus size: 21
35987310 GCCTAAGATG
*
35987320 TGAATTGGATTGAATTGAGTA
1 TGAATTGGATTAAATTGAGTA
* *
35987341 TGAATTGTATTAAATTAAGCTAAA
1 TGAATTGGATTAAATTGAG-T--A
*
35987365 CTTGAATTGGATTGAATTGAGTA
1 --TGAATTGGATTAAATTGAGTA
*
35987388 TGAATTGTATTAAATT
1 TGAATTGGATTAAATT
35987404 AAGCTAAACT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
21 30 0.60
22 1 0.02
23 1 0.02
24 1 0.02
25 1 0.02
26 16 0.32
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.40
Consensus pattern (21 bp):
TGAATTGGATTAAATTGAGTA
Found at i:35987389 original size:47 final size:47
Alignment explanation
Indices: 35987320--35987414 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
35987310 GCCTAAGATG
35987320 TGAATTGGATTGAATTGAGTATGAATTGTATTAAATTAAGCTAAACT
1 TGAATTGGATTGAATTGAGTATGAATTGTATTAAATTAAGCTAAACT
35987367 TGAATTGGATTGAATTGAGTATGAATTGTATTAAATTAAGCTAAACT
1 TGAATTGGATTGAATTGAGTATGAATTGTATTAAATTAAGCTAAACT
35987414 T
1 T
35987415 ACTCGCATAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.39
Consensus pattern (47 bp):
TGAATTGGATTGAATTGAGTATGAATTGTATTAAATTAAGCTAAACT
Found at i:35987932 original size:26 final size:25
Alignment explanation
Indices: 35987903--35987964 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
35987893 GCTCTTCGAA
*
35987903 AGCTTCCCGATTAAAGGCTCTTTGTG
1 AGCTTCCCGATTAAAGGCTCTCTG-G
* ** *
35987929 AGCTTTCTAATTAATGGCTCTCTGG
1 AGCTTCCCGATTAAAGGCTCTCTGG
35987954 AGCTTCCCGAT
1 AGCTTCCCGAT
35987965 ATGGCTCGCT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (25 bp):
AGCTTCCCGATTAAAGGCTCTCTGG
Found at i:35987970 original size:23 final size:23
Alignment explanation
Indices: 35987942--35987989 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
35987932 TTTCTAATTA
* *
35987942 ATGGCTCTCTGGAGCTTCCCGAT
1 ATGGCTCGCTGGAACTTCCCGAT
* *
35987965 ATGGCTCGCTTGAACTTTCCGAT
1 ATGGCTCGCTGGAACTTCCCGAT
35987988 AT
1 AT
35987990 ATGGCTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (23 bp):
ATGGCTCGCTGGAACTTCCCGAT
Found at i:36007741 original size:29 final size:29
Alignment explanation
Indices: 36007708--36007789 Score: 164
Period size: 29 Copynumber: 2.8 Consensus size: 29
36007698 TGACGAGATA
36007708 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
36007737 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
36007766 GGCACTAAGTGTGCATGCTGGAAA
1 GGCACTAAGTGTGCATGCTGGAAA
36007790 AAAAAAATAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAATATAT
Found at i:36015052 original size:40 final size:40
Alignment explanation
Indices: 36015007--36015174 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
36014997 CGGAATATAA
36015007 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
36015047 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** *
36015087 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * *
36015127 CCAGATATAATTTCTAGCATAACTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
36015167 CCGGATAT
1 CCGGATAT
36015175 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:36017383 original size:29 final size:29
Alignment explanation
Indices: 36017350--36017431 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
36017340 TGACGAGATA
*
36017350 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
36017379 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAATATAT
*
36017408 GACACTAAGTGTGCATGCTGGAAA
1 GGCACTAAGTGTGCATGCTGGAAA
36017432 AAAAAAATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAATATAT
Found at i:36020573 original size:17 final size:18
Alignment explanation
Indices: 36020553--36020600 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
36020543 TCAAACTCAT
36020553 ATAA-TTACATATTCAAC
1 ATAATTTACATATTCAAC
36020570 ATAATTTTTACATATTCAAC
1 ATAA--TTTACATATTCAAC
*
36020590 ATCATTT-CATA
1 ATAATTTACATA
36020601 ATATAAGACA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 8 0.30
18 3 0.11
20 16 0.59
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATTTACATATTCAAC
Found at i:36020582 original size:20 final size:20
Alignment explanation
Indices: 36020557--36020596 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
36020547 ACTCATATAA
36020557 TTACATATTCAACATAATTT
1 TTACATATTCAACATAATTT
*
36020577 TTACATATTCAACATCATTT
1 TTACATATTCAACATAATTT
36020597 CATAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (20 bp):
TTACATATTCAACATAATTT
Found at i:36029394 original size:46 final size:46
Alignment explanation
Indices: 36029327--36029501 Score: 316
Period size: 46 Copynumber: 3.8 Consensus size: 46
36029317 TGTAACCCGC
* *
36029327 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGCTCGCAT
36029373 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
36029419 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
36029465 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36029502 TGCCCAAATA
Statistics
Matches: 126, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
45 2 0.02
46 124 0.98
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:36031401 original size:15 final size:14
Alignment explanation
Indices: 36031367--36031410 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
36031357 TATGTGTTTA
*
36031367 TTATGTGTGAATTT
1 TTATGTGTTAATTT
*
36031381 ATATGTGTTAATTT
1 TTATGTGTTAATTT
*
36031395 TTCATGTTTTAATTT
1 TT-ATGTGTTAATTT
36031410 T
1 T
36031411 ACTATTTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.23, C:0.02, G:0.14, T:0.61
Consensus pattern (14 bp):
TTATGTGTTAATTT
Found at i:36032148 original size:56 final size:56
Alignment explanation
Indices: 36032075--36032209 Score: 225
Period size: 56 Copynumber: 2.4 Consensus size: 56
36032065 CCATGGCATT
*
36032075 GATATATGTGTGCGAGTAGGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
* *
36032131 GATATATATGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
* *
36032187 AATTTATGTGTGCGAGTAAGACC
1 GATATATGTGTGCGAGTAAGACC
36032210 CTGTCTGGGA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
Found at i:36032227 original size:56 final size:56
Alignment explanation
Indices: 36032076--36032240 Score: 181
Period size: 56 Copynumber: 2.9 Consensus size: 56
36032066 CATGGCATTG
* * * * *
36032076 ATATATGTGTGCGAGTAGGACCACGTTTAATACGTTGGCATCGATATGTGATTCCG
1 ATATATATGTGCGAGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGATTCCA
* * *
36032132 ATATATATGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCA
1 ATATATATGTGCGAGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGATTCCA
* * ** *
36032188 ATTTATGTGTGCGAGTAAGACC-CTGTCTGGGACAG-TGGCATCCATATGTGATT
1 ATATATATGTGCGAGTAAGACCAC-GTCTAAGAC-GTTGGCATCGATATGTGATT
36032241 ACATGTAAGA
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
55 1 0.01
56 93 0.98
57 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (56 bp):
ATATATATGTGCGAGTAAGACCACGTCTAAGACGTTGGCATCGATATGTGATTCCA
Found at i:36036722 original size:22 final size:22
Alignment explanation
Indices: 36036696--36036738 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
36036686 TGAAATGTCA
36036696 CACGGGCGTGTTGCCCCTCCCC
1 CACGGGCGTGTTGCCCCTCCCC
36036718 CACGGGCGTGTTGCCCCTCCC
1 CACGGGCGTGTTGCCCCTCCC
36036739 ACATAGTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.05, C:0.49, G:0.28, T:0.19
Consensus pattern (22 bp):
CACGGGCGTGTTGCCCCTCCCC
Found at i:36036749 original size:22 final size:22
Alignment explanation
Indices: 36036694--36036756 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
36036684 GTTGAAATGT
*
36036694 CACACGGGCGTGTTGCCCCTCC
1 CACACAGGCGTGTTGCCCCTCC
* *
36036716 CCCACGGGCGTGTTGCCCCTCC
1 CACACAGGCGTGTTGCCCCTCC
* *
36036738 CACATAGTCGTG-TGCCCCT
1 CACACAGGCGTGTTGCCCCT
36036757 GTGTTAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 7 0.19
22 29 0.81
ACGTcount: A:0.10, C:0.44, G:0.25, T:0.21
Consensus pattern (22 bp):
CACACAGGCGTGTTGCCCCTCC
Found at i:36039082 original size:21 final size:20
Alignment explanation
Indices: 36039056--36039095 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36039046 GCCGTGTTGA
36039056 TTTCGTACTTTGGCCCATTTT
1 TTTCGT-CTTTGGCCCATTTT
*
36039077 TTTCGTTTTTGGCCCATTT
1 TTTCGTCTTTGGCCCATTT
36039096 CTTGTCCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.07, C:0.23, G:0.15, T:0.55
Consensus pattern (20 bp):
TTTCGTCTTTGGCCCATTTT
Found at i:36047813 original size:46 final size:46
Alignment explanation
Indices: 36047758--36047891 Score: 225
Period size: 46 Copynumber: 2.9 Consensus size: 46
36047748 TAGGATGGTT
*
36047758 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
36047804 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *
36047850 GAACG-CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCGTCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36047892 GCGGGTTACA
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
45 2 0.02
46 82 0.98
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:36050854 original size:15 final size:15
Alignment explanation
Indices: 36050834--36050902 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
36050824 GTATCTTGGG
36050834 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
36050849 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
36050864 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
36050879 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
36050894 TTTCTTTAT
1 TTTCTTTAT
36050903 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:36050903 original size:30 final size:30
Alignment explanation
Indices: 36050825--36050912 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
36050815 CATAGTATCG
* * * *
36050825 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
36050855 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
36050885 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
36050913 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:36053347 original size:46 final size:46
Alignment explanation
Indices: 36053294--36053422 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
36053284 GATATTGGCA
*
36053294 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
36053340 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
36053386 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36053423 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:36056409 original size:15 final size:15
Alignment explanation
Indices: 36056389--36056457 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
36056379 GTATCTTGGG
36056389 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
36056404 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
36056419 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
36056434 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
36056449 TTTCTTTAT
1 TTTCTTTAT
36056458 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:36056458 original size:30 final size:30
Alignment explanation
Indices: 36056380--36056467 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
36056370 CATAGTATCG
* * * *
36056380 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
36056410 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
36056440 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
36056468 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:36058903 original size:46 final size:46
Alignment explanation
Indices: 36058848--36058981 Score: 225
Period size: 46 Copynumber: 2.9 Consensus size: 46
36058838 TAGGATGGTT
*
36058848 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
36058894 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *
36058940 GAACG-CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCGTCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36058982 GCGGGTTACA
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
45 2 0.02
46 82 0.98
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:36063848 original size:27 final size:27
Alignment explanation
Indices: 36063795--36063848 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
36063785 ATGACCAAAA
* *
36063795 TACCCCTATAGGGTAAAATGGCTATTT
1 TACCCCTAGAGGGTAAAATGACTATTT
*
36063822 TACCCCTCGAGGGT-AAATGACTGATTT
1 TACCCCTAGAGGGTAAAATGACT-ATTT
36063849 GTGCTATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (27 bp):
TACCCCTAGAGGGTAAAATGACTATTT
Found at i:36063986 original size:27 final size:27
Alignment explanation
Indices: 36063954--36064005 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
36063944 AAGTGTATTA
36063954 TACTGGTGGCTTCGCCACATATATTTT
1 TACTGGTGGCTTCGCCACATATATTTT
**
36063981 TACTGGTGGCTTTTCCACATATATT
1 TACTGGTGGCTTCGCCACATATATT
36064006 GATACTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (27 bp):
TACTGGTGGCTTCGCCACATATATTTT
Found at i:36064011 original size:27 final size:26
Alignment explanation
Indices: 36063949--36064013 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 26
36063939 GGAGGAAGTG
36063949 TATTATACTGGTGGCTTCGCCACATA
1 TATTATACTGGTGGCTTCGCCACATA
* **
36063975 TATTTTTACTGGTGGCTTTTCCACATA
1 TA-TTATACTGGTGGCTTCGCCACATA
36064002 TATTGATACTGG
1 TATT-ATACTGG
36064014 CAGTTTTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (26 bp):
TATTATACTGGTGGCTTCGCCACATA
Found at i:36068967 original size:26 final size:26
Alignment explanation
Indices: 36068938--36068988 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
36068928 GAAATTAAAT
36068938 GAGTTAATTTTGATTTCATATAGATC
1 GAGTTAATTTTGATTTCATATAGATC
36068964 GAGTTAATTTTGATTTCATATAGAT
1 GAGTTAATTTTGATTTCATATAGAT
36068989 TGAGAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (26 bp):
GAGTTAATTTTGATTTCATATAGATC
Found at i:36073895 original size:40 final size:40
Alignment explanation
Indices: 36073851--36073933 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
36073841 AAGGCACACG
36073851 TCTGCTTACACGGGCGTGTGATCTATGAACATAAAATTTT
1 TCTGCTTACACGGGCGTGTGATCTATGAACATAAAATTTT
*
36073891 TCTGCTTACACGGGCGTGTGATCTATGAACGTAAAATTTT
1 TCTGCTTACACGGGCGTGTGATCTATGAACATAAAATTTT
36073931 TCT
1 TCT
36073934 AAGTGTTCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (40 bp):
TCTGCTTACACGGGCGTGTGATCTATGAACATAAAATTTT
Found at i:36078810 original size:15 final size:15
Alignment explanation
Indices: 36078790--36078820 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36078780 ATATTTTAAC
*
36078790 TATATTATAATATGT
1 TATATTATAACATGT
36078805 TATATTATAACATGT
1 TATATTATAACATGT
36078820 T
1 T
36078821 TTTTTTAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (15 bp):
TATATTATAACATGT
Found at i:36096700 original size:28 final size:28
Alignment explanation
Indices: 36096668--36096744 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
36096658 CCCTACTCCA
*
36096668 GCCACTATTACCCAGATTCTCTACTCTG
1 GCCACCATTACCCAGATTCTCTACTCTG
*
36096696 GCCACCATTCCCCAGATTCTCTACTCTG
1 GCCACCATTACCCAGATTCTCTACTCTG
* *
36096724 GCCACCATTTCCTAGATTCTC
1 GCCACCATTACCCAGATTCTC
36096745 ACTTCCCCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.19, C:0.39, G:0.10, T:0.31
Consensus pattern (28 bp):
GCCACCATTACCCAGATTCTCTACTCTG
Found at i:36098537 original size:13 final size:13
Alignment explanation
Indices: 36098521--36098553 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
36098511 TTTAATTAAA
*
36098521 TTAGTTAATTAGT
1 TTAGATAATTAGT
36098534 TTAGATAATTAGT
1 TTAGATAATTAGT
36098547 TTA-ATAA
1 TTAGATAA
36098554 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:36104101 original size:39 final size:39
Alignment explanation
Indices: 36104051--36104130 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
36104041 GACATTCCGG
*
36104051 TCTTTCTATAAGCTATACTACTGTTTGATAGGTGCTCTT
1 TCTTTCTATAAGCTATACTACTGTTCGATAGGTGCTCTT
36104090 TCTTTCTATAAGCTATACTACTGTTCGATAGGTGCTCTT
1 TCTTTCTATAAGCTATACTACTGTTCGATAGGTGCTCTT
36104129 TC
1 TC
36104131 CTTCATCATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (39 bp):
TCTTTCTATAAGCTATACTACTGTTCGATAGGTGCTCTT
Found at i:36105531 original size:44 final size:42
Alignment explanation
Indices: 36105479--36105587 Score: 138
Period size: 37 Copynumber: 2.7 Consensus size: 42
36105469 ACATCTAAGT
* * *
36105479 CGATGCCATGTCCCAGACAGGTCTTACATTGACACATGTCAAGC
1 CGATGCCATATCCTAGATAGGTCTTACA-T-ACACATGTCAAGC
36105523 CGATGCCATATCCTAGATAGG---T-C-TACACATGTCAAGC
1 CGATGCCATATCCTAGATAGGTCTTACATACACATGTCAAGC
36105560 CGATGCCATATCCTAGATAGGTCTTACA
1 CGATGCCATATCCTAGATAGGTCTTACA
36105588 CTAGCTTGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
37 34 0.60
38 1 0.02
40 2 0.04
41 2 0.04
44 18 0.32
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
CGATGCCATATCCTAGATAGGTCTTACATACACATGTCAAGC
Found at i:36105560 original size:37 final size:38
Alignment explanation
Indices: 36105510--36105588 Score: 151
Period size: 37 Copynumber: 2.1 Consensus size: 38
36105500 TCTTACATTG
36105510 ACACATGTCAAGCCGATGCCATATCCTAGATAGGTC-T
1 ACACATGTCAAGCCGATGCCATATCCTAGATAGGTCTT
36105547 ACACATGTCAAGCCGATGCCATATCCTAGATAGGTCTT
1 ACACATGTCAAGCCGATGCCATATCCTAGATAGGTCTT
36105585 ACAC
1 ACAC
36105589 TAGCTTGCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 36 0.88
38 5 0.12
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (38 bp):
ACACATGTCAAGCCGATGCCATATCCTAGATAGGTCTT
Found at i:36105680 original size:48 final size:46
Alignment explanation
Indices: 36105580--36105734 Score: 143
Period size: 48 Copynumber: 3.3 Consensus size: 46
36105570 TCCTAGATAG
* * * *
36105580 GTCTTACACTAGCT-TGCATATCTCAAGGCTGATGCATGTCCCAGATAT
1 GTCTTACACTAGCTCT-CATA-AT-AAGGCCGATGCATGTCCCAAACAT
* ** *
36105628 GTCTTACACTAGCTCTCGTCTTAATGCCGATGCCAT-TCTCCAAACAT
1 GTCTTACACTAGCTCTCATAATAAGGCCGATG-CATGTC-CCAAACAT
* * *
36105675 GGTCTTACACTACCTCTCATAATGAGGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTAGCTCTCATAATAAGGCCGATGCATGTCCCAAACAT
36105722 GTCTTACACTAGC
1 GTCTTACACTAGC
36105735 ACACATCCAT
Statistics
Matches: 87, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
46 22 0.25
47 20 0.23
48 44 0.51
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
GTCTTACACTAGCTCTCATAATAAGGCCGATGCATGTCCCAAACAT
Found at i:36110215 original size:40 final size:40
Alignment explanation
Indices: 36110160--36110367 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
36110150 TGAATGATAC
* * *
36110160 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
**
36110200 CCGGGCTAAGACCCGAAGGCATCCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
36110240 TCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
36110280 CCGGGCTAAGACTCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
36110320 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
36110360 CC-GGCTAA
1 CCGGGCTAA
36110368 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 5 0.03
40 139 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:36113906 original size:16 final size:15
Alignment explanation
Indices: 36113866--36113912 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
36113856 AGATGATAAT
36113866 TATTAATATATAATTA
1 TATTAAT-TATAATTA
36113882 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
*
36113898 TATTAATTATTATTA
1 TATTAATTATAATTA
36113913 ACTTTATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 9 0.33
16 17 0.63
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:36113911 original size:10 final size:11
Alignment explanation
Indices: 36113864--36113913 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
36113854 AAAGATGATA
36113864 ATTATTAATAT
1 ATTATTAATAT
* *
36113875 ATAATTATATCT
1 ATTATTA-ATAT
36113887 ATTA-TAATAT
1 ATTATTAATAT
36113897 A-TATTAAT-T
1 ATTATTAATAT
36113906 ATTATTAA
1 ATTATTAA
36113914 CTTTATATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
9 4 0.12
10 14 0.44
11 8 0.25
12 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTATTAATAT
Found at i:36113911 original size:22 final size:23
Alignment explanation
Indices: 36113864--36113913 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
36113854 AAAGATGATA
36113864 ATTATTAATATATAATTATATCT
1 ATTATTAATATATAATTATATCT
36113887 ATTA-TAATATAT-ATTA-AT-T
1 ATTATTAATATATAATTATATCT
36113906 ATTATTAA
1 ATTATTAA
36113914 CTTTATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.19
20 5 0.19
21 4 0.15
22 8 0.31
23 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTATTAATATATAATTATATCT
Found at i:36114125 original size:17 final size:18
Alignment explanation
Indices: 36114099--36114132 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36114089 TTTTTGTTTA
36114099 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
36114116 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
36114133 ATATTTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:36114427 original size:17 final size:17
Alignment explanation
Indices: 36114405--36114437 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36114395 ATGCACCTGC
36114405 GCACGTCCAGCTCCAGT
1 GCACGTCCAGCTCCAGT
36114422 GCACGTCCAGCTCCAG
1 GCACGTCCAGCTCCAG
36114438 CACTCACCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.42, G:0.24, T:0.15
Consensus pattern (17 bp):
GCACGTCCAGCTCCAGT
Found at i:36122588 original size:30 final size:30
Alignment explanation
Indices: 36122554--36122614 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36122544 TCCTTAACTC
36122554 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
36122584 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
36122614 A
1 A
36122615 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:36144519 original size:26 final size:26
Alignment explanation
Indices: 36144486--36144595 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
36144476 TGATAGAAAT
36144486 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
36144512 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
36144538 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
36144564 TGATAATGGGTTAGGTAAATGTTACA
1 TGATAATGGGTTAGGTAAATGTTTCA
36144590 TGATAA
1 TGATAA
36144596 GAATTTCATG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:36149243 original size:22 final size:22
Alignment explanation
Indices: 36149174--36149252 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 22
36149164 TTGTATGAGT
* * *
36149174 TTAGCACTTCTGTATTATCTAC
1 TTAGCACTTCAGTATTCTCTGC
* * * *
36149196 TTAGCACTTCAATGTTCTTTGT
1 TTAGCACTTCAGTATTCTCTGC
*
36149218 TTAGCACTTCAGTACTCTCTGC
1 TTAGCACTTCAGTATTCTCTGC
36149240 TTAGCACTTCAGT
1 TTAGCACTTCAGT
36149253 GCTTCCTGGT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (22 bp):
TTAGCACTTCAGTATTCTCTGC
Found at i:36152937 original size:17 final size:15
Alignment explanation
Indices: 36152907--36152940 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
36152897 CGGGTAAATC
36152907 ATTTTTTTATTTTTT
1 ATTTTTTTATTTTTT
36152922 ATTTTCTTTCATTTTTT
1 ATTTT-TTT-ATTTTTT
36152939 AT
1 AT
36152941 CATGAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 3 0.18
17 9 0.53
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTTTTATTTTTT
Found at i:36154714 original size:2 final size:2
Alignment explanation
Indices: 36154703--36154734 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
36154693 TTTTCTATTC
36154703 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36154735 TTTGTTTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36155012 original size:25 final size:26
Alignment explanation
Indices: 36154978--36155048 Score: 96
Period size: 25 Copynumber: 2.8 Consensus size: 26
36154968 AATTAAAATT
36154978 AAATTATGTTTGA-TCTGTCA-CTTATA
1 AAATT-TGTTTGACT-TGTCATCTTATA
36155004 AAATTTG-TTGACTTGTCATCTTATA
1 AAATTTGTTTGACTTGTCATCTTATA
36155029 AAATTTG-TTGACTTGTCATC
1 AAATTTGTTTGACTTGTCATC
36155049 ACATAAATTC
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
24 9 0.21
25 29 0.67
26 5 0.12
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (26 bp):
AAATTTGTTTGACTTGTCATCTTATA
Found at i:36155054 original size:25 final size:25
Alignment explanation
Indices: 36155001--36155055 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
36154991 TCTGTCACTT
**
36155001 ATAAAATTTGTTGACTTGTCATCTT
1 ATAAAATTTGTTGACTTGTCATCAC
36155026 ATAAAATTTGTTGACTTGTCATCAC
1 ATAAAATTTGTTGACTTGTCATCAC
36155051 ATAAA
1 ATAAA
36155056 TTCTAAGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (25 bp):
ATAAAATTTGTTGACTTGTCATCAC
Found at i:36156547 original size:21 final size:21
Alignment explanation
Indices: 36156506--36156546 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36156496 GAGATTTTTT
*
36156506 TCATAAAAATTATATATAAAA
1 TCATAAAAATTATATAAAAAA
36156527 TCATAAAAATT-TATAAAAAA
1 TCATAAAAATTATATAAAAAA
36156547 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
TCATAAAAATTATATAAAAAA
Found at i:36156548 original size:22 final size:21
Alignment explanation
Indices: 36156506--36156549 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
36156496 GAGATTTTTT
* *
36156506 TCATAAAAATTATATATAAAA
1 TCATAAAAATTATAAAAAAAA
36156527 TCATAAAAATTTATAAAAAAAA
1 TCATAAAAA-TTATAAAAAAAA
36156549 T
1 T
36156550 TTTTTTTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
TCATAAAAATTATAAAAAAAA
Found at i:36156848 original size:17 final size:17
Alignment explanation
Indices: 36156814--36156864 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
36156804 AATTTTAAAA
36156814 TAATTTATTTATATTTTA-
1 TAATTT-TTTA-ATTTTAC
*
36156832 TGAGTTTTTTAATTTTAC
1 T-AATTTTTTAATTTTAC
36156850 TAATTTTTTAATTTT
1 TAATTTTTTAATTTT
36156865 TAGATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 19 0.66
18 6 0.21
19 4 0.14
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (17 bp):
TAATTTTTTAATTTTAC
Found at i:36156873 original size:17 final size:17
Alignment explanation
Indices: 36156836--36156890 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
36156826 ATTTTATGAG
36156836 TTTTTTAATTTTACTA-A-
1 TTTTTTAATTTT--TAGAT
36156853 TTTTTTAATTTTTAGAT
1 TTTTTTAATTTTTAGAT
*
36156870 TTTTTATAA-ATTTAGAT
1 TTTTT-TAATTTTTAGAT
36156887 TTTT
1 TTTT
36156891 ATATATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
15 2 0.06
16 1 0.03
17 28 0.82
18 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (17 bp):
TTTTTTAATTTTTAGAT
Found at i:36156888 original size:25 final size:23
Alignment explanation
Indices: 36156856--36156906 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
36156846 TTACTAATTT
*
36156856 TTTAATTTTTAGATTTTTTATAAA
1 TTTAATTTTTAGATATTTTA-AAA
*
36156880 TTTAGATTTTTATATATTTTAAAA
1 TTTA-ATTTTTAGATATTTTAAAA
36156904 TTT
1 TTT
36156907 TCCATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTAATTTTTAGATATTTTAAAA
Found at i:36156898 original size:16 final size:17
Alignment explanation
Indices: 36156852--36156898 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
36156842 AATTTTACTA
*
36156852 ATTTTTTA-ATTTTTAG
1 ATTTTTTATATATTTAG
*
36156868 ATTTTTTATAAATTTAG
1 ATTTTTTATATATTTAG
36156885 A-TTTTTATATATTT
1 ATTTTTTATATATTT
36156899 TAAAATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (17 bp):
ATTTTTTATATATTTAG
Found at i:36156900 original size:17 final size:17
Alignment explanation
Indices: 36156854--36156900 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
36156844 TTTTACTAAT
36156854 TTTTTA-AT-TTTTAGA
1 TTTTTATATATTTTAGA
*
36156869 TTTTT-TATAAATTTAGA
1 TTTTTATAT-ATTTTAGA
36156886 TTTTTATATATTTTA
1 TTTTTATATATTTTA
36156901 AAATTTTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 7 0.27
17 16 0.62
18 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTTATATATTTTAGA
Found at i:36158973 original size:46 final size:48
Alignment explanation
Indices: 36158827--36159187 Score: 234
Period size: 46 Copynumber: 7.6 Consensus size: 48
36158817 TTTGTGTGCT
* * * *
36158827 AGTGTAAGA-CATGTCTAGAACATGCATCGGCCA-GATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCACGA-GATGTAGAGCC
* * * * *
36158873 AGTGTAAGACCATGTCTGGGACAAGGAATCGG-CATTGAGATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGAC-ATGCATTGGCCA-CGAGATGTAGAGCC
*
36158921 AGTGTAAGA-CATGTCTGGGACATGCATTGGCCCCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCACGAGATGTAGAGCC
* *
36158967 AGTGTAAGA-CATGTCTGGGACATGCATTGGCTACGAGATGT---GTC
1 AGTGTAAGACCATGTCTGGGACATGCATTGGCCACGAGATGTAGAGCC
* * * * *
36159011 AGCGTAAGACCATGTCCGGGACATGGCATTGG-CATGAATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCACG-AGATGT-AGAGCC
* * * * * *
36159061 AGTGTAAGACCATGTCTGGGACATGGCCTCGGCCTC-A-ATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCACGAGATGT--AGAGCC
* * *** *
36159110 AGTGTAAGACCGTGTCTGGGACATGGCA-T--CGAATTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATTGGCCACGAGATGTA-GAGCC
36159157 AGTGTAAGACCATGTCTGGGACATGGCATTG
1 AGTGTAAGACCATGTCTGGGACAT-GCATTG
36159188 ACATTATACC
Statistics
Matches: 251, Mismatches: 44, Indels: 37
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.04
45 15 0.06
46 77 0.31
47 56 0.22
48 30 0.12
49 33 0.13
50 29 0.12
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGCATTGGCCACGAGATGTAGAGCC
Found at i:36159131 original size:99 final size:96
Alignment explanation
Indices: 36159008--36159183 Score: 241
Period size: 96 Copynumber: 1.8 Consensus size: 96
36158998 TACGAGATGT
*
36159008 GTCAGCGTAAGACCATGTCCGGGACATGGCATTGGCATGAA-T-ATGTGA-GAGCTAGTGTAAGA
1 GTCAGCGTAAGACCATGTCCGGGACATGGCA-T--C--GAATTGATG-GATGAGCCAGTGTAAGA
36159070 CCATGTCTGGGACATGGCCTCGGCCTCAATTTCGATA
60 CCATGTCTGGGACATGGCCTCGGCCTCAATTTCGATA
* * *
36159107 GTCAGTGTAAGACCGTGTCTGGGACATGGCATCGAATTGATGGATGAGCCAGTGTAAGACCATGT
1 GTCAGCGTAAGACCATGTCCGGGACATGGCATCGAATTGATGGATGAGCCAGTGTAAGACCATGT
36159172 CTGGGACATGGC
66 CTGGGACATGGC
36159184 ATTGACATTA
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
94 3 0.04
95 3 0.04
96 35 0.50
98 1 0.01
99 28 0.40
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (96 bp):
GTCAGCGTAAGACCATGTCCGGGACATGGCATCGAATTGATGGATGAGCCAGTGTAAGACCATGT
CTGGGACATGGCCTCGGCCTCAATTTCGATA
Found at i:36163471 original size:111 final size:111
Alignment explanation
Indices: 36163291--36163501 Score: 316
Period size: 111 Copynumber: 1.9 Consensus size: 111
36163281 TCATTTGGCC
** *
36163291 GAGTCTTAATAACACTGAAATGATTGTATACATGTTTTTAAGTGTAGTAACGCCTCGTATCTCGT
1 GAGTCTTAATAACACTGAAATGATTGTATACATGTGATTAAGTGTAGTAACGCCTCGTATCTCAT
* * *
36163356 CTCGACGTAGGGCTCGGGTTTGGGGTGTTACATTTTTAATTTGATT
66 CTCGACGTAGGGCTCAGGTGTGGGGTCTTACATTTTTAATTTGATT
* * * *
36163402 GAGTCTTAATGACA-TCGCAATGATTGTATGCATGTGATTAAGTGTGGTAACGCCTCGTATCTCA
1 GAGTCTTAATAACACT-GAAATGATTGTATACATGTGATTAAGTGTAGTAACGCCTCGTATCTCA
36163466 TCTCGACGTAGGGCTCAGGTGTGGGGTCTTACATTT
65 TCTCGACGTAGGGCTCAGGTGTGGGGTCTTACATTT
36163502 AGTGGTATCA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
110 1 0.01
111 88 0.99
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (111 bp):
GAGTCTTAATAACACTGAAATGATTGTATACATGTGATTAAGTGTAGTAACGCCTCGTATCTCAT
CTCGACGTAGGGCTCAGGTGTGGGGTCTTACATTTTTAATTTGATT
Found at i:36166950 original size:40 final size:40
Alignment explanation
Indices: 36166905--36167072 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
36166895 CGGAATATAA
36166905 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
36166945 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
36166985 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
36167025 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
36167065 CCGGATAT
1 CCGGATAT
36167073 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:36174931 original size:40 final size:40
Alignment explanation
Indices: 36174886--36175053 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
36174876 CGGAATATAA
36174886 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
36174926 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
36174966 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
36175006 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
36175046 CCGGATAT
1 CCGGATAT
36175054 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:36189331 original size:28 final size:28
Alignment explanation
Indices: 36189276--36189331 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
36189266 ATTCTGTTAA
*
36189276 GCACTATAGTGCTCACTGCTACGCGAAT
1 GCACTATAGTGCTCACTGCTACACGAAT
* * *
36189304 GCACTATGGTGCTCATTGCTACATGAAT
1 GCACTATAGTGCTCACTGCTACACGAAT
36189332 ACACCTCGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (28 bp):
GCACTATAGTGCTCACTGCTACACGAAT
Done.