Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 23 of 427
Found at i:6237475 original size:10 final size:9
Alignment explanation
Indices: 6237424--6237490 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
6237414 TTTATTCTAA
6237424 TATTATA-T
1 TATTATATT
6237432 TATTAT-TAT
1 TATTATAT-T
6237441 TATTATA-T
1 TATTATATT
6237449 TATTAT-TAT
1 TATTATAT-T
6237458 TATTATATT
1 TATTATATT
*
6237467 TAGTTATATA
1 TA-TTATATT
6237477 TATGTATATT
1 TAT-TATATT
6237487 TATT
1 TATT
6237491 TTAAATGTCT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
8 13 0.27
9 19 0.39
10 17 0.35
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (9 bp):
TATTATATT
Found at i:6237736 original size:16 final size:16
Alignment explanation
Indices: 6237717--6237776 Score: 66
Period size: 16 Copynumber: 3.6 Consensus size: 16
6237707 TTTTTTTAAA
6237717 ATATTATATTTTTCAT
1 ATATTATATTTTTCAT
*
6237733 ATATTATGTATTTTTTAT
1 ATATTA--TATTTTTCAT
* *
6237751 ATATTATATTATTCGT
1 ATATTATATTTTTCAT
*
6237767 ATATTTTATT
1 ATATTATATT
6237777 ATATTATGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 22 0.59
18 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (16 bp):
ATATTATATTTTTCAT
Found at i:6237744 original size:18 final size:18
Alignment explanation
Indices: 6237723--6237757 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6237713 TAAAATATTA
6237723 TATTTTTCATATATTATG
1 TATTTTTCATATATTATG
*
6237741 TATTTTTTATATATTAT
1 TATTTTTCATATATTAT
6237758 ATTATTCGTA
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:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTTTTCATATATTATG
Found at i:6237755 original size:34 final size:36
Alignment explanation
Indices: 6237696--6237771 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 36
6237686 TTAATACTCT
*
6237696 TATATTAAGTATTTTTTTAAAATATTATATTTTTCA
1 TATATTAAGTATTTTTTTAAAATATTATATTATTCA
* * *
6237732 TATATTATGTA-TTTTTT-ATATATTATATTATTCG
1 TATATTAAGTATTTTTTTAAAATATTATATTATTCA
6237766 TATATT
1 TATATT
6237772 TTATTATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 20 0.56
35 6 0.17
36 10 0.28
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.61
Consensus pattern (36 bp):
TATATTAAGTATTTTTTTAAAATATTATATTATTCA
Found at i:6237758 original size:23 final size:23
Alignment explanation
Indices: 6237732--6237810 Score: 78
Period size: 23 Copynumber: 3.5 Consensus size: 23
6237722 ATATTTTTCA
6237732 TATATTATGTATTTTTTATATAT
1 TATATTATGTATTTTTTATATAT
*
6237755 TATATTATTCGTA--TATT-T-TAT
1 TATATTA-T-GTATTTTTTATATAT
*
6237776 TATATTATGT-TTTTTTAAATAAT
1 TATATTATGTATTTTTTATAT-AT
6237799 TATATTATGTAT
1 TATATTATGTAT
6237811 ATATTTGTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
19 2 0.04
20 4 0.09
21 10 0.22
22 2 0.04
23 22 0.49
24 2 0.04
25 3 0.07
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (23 bp):
TATATTATGTATTTTTTATATAT
Found at i:6237773 original size:26 final size:23
Alignment explanation
Indices: 6237732--6237783 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 23
6237722 ATATTTTTCA
6237732 TATATTATGTATTTTT-TATATAT
1 TATATTATGTATTTTTAT-TATAT
6237755 TATATTATTCGTATATTTTATTATAT
1 TATATTA-T-GTAT-TTTTATTATAT
6237781 TAT
1 TAT
6237784 GTTTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 7 0.28
24 1 0.04
25 4 0.16
26 12 0.48
27 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (23 bp):
TATATTATGTATTTTTATTATAT
Found at i:6237814 original size:44 final size:44
Alignment explanation
Indices: 6237732--6237816 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 44
6237722 ATATTTTTCA
* *
6237732 TATATTATGTATTTTTTATATATTATATTATTCGTATATTTTAT
1 TATATTATGTATTTTTTAAATATTATATTATTCATATATTTTAT
6237776 TATATTATGT-TTTTTTAAATAATTATATTATGT-ATATATTT
1 TATATTATGTATTTTTTAAAT-ATTATATTAT-TCATATATTT
6237817 GTAAATATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 9 0.24
44 27 0.73
45 1 0.03
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (44 bp):
TATATTATGTATTTTTTAAATATTATATTATTCATATATTTTAT
Found at i:6237883 original size:22 final size:24
Alignment explanation
Indices: 6237835--6237926 Score: 96
Period size: 26 Copynumber: 3.7 Consensus size: 24
6237825 CATACTATTC
*
6237835 ATATATTTTTATGTTATTTCATAT
1 ATATATTTTTATATTATTTCATAT
*
6237859 ATATATTTTTATATTATTAGTTATAT
1 ATATATTTTTATATTATT--TCATAT
*
6237885 ATATA-TTTTATACTATTTCATGTAT
1 ATATATTTTTATATTATTTCA--TAT
* *
6237910 GTATTTTTTTATATTAT
1 ATATATTTTTATATTAT
6237927 CCTTATTATT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 2 0.04
24 17 0.30
25 17 0.30
26 20 0.36
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.62
Consensus pattern (24 bp):
ATATATTTTTATATTATTTCATAT
Found at i:6239413 original size:22 final size:22
Alignment explanation
Indices: 6239385--6239430 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6239375 GAGGGTAAAG
6239385 TATAATTCTATCATTACTAATT
1 TATAATTCTATCATTACTAATT
6239407 TATAATTCTATCATTACTAATT
1 TATAATTCTATCATTACTAATT
6239429 TA
1 TA
6239431 AAATATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (22 bp):
TATAATTCTATCATTACTAATT
Found at i:6240237 original size:23 final size:25
Alignment explanation
Indices: 6240194--6240274 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
6240184 CATTTTCAAT
6240194 AATTTTTATTATTAATAAATATTAG
1 AATTTTTATTATTAATAAATATTAG
* *
6240219 AATTTTATATT-TT-ATAATATTTTCAAT
1 AATTTT-TATTATTAATAA-ATATT--AG
*
6240246 AATTTTTATTATTAA-AAATTATTTG
1 AATTTTTATTATTAATAAA-TATTAG
6240271 AATT
1 AATT
6240275 AATCCACGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
24 4 0.09
25 16 0.36
26 9 0.20
27 14 0.32
28 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTTTTATTATTAATAAATATTAG
Found at i:6247314 original size:122 final size:122
Alignment explanation
Indices: 6247097--6247337 Score: 437
Period size: 122 Copynumber: 2.0 Consensus size: 122
6247087 TGTCCCGTTA
* *
6247097 AGTTGTTGTAGGAGACATTGAAGTGATTCAAGAAATTCAAATTGGAGAAACTTGGAAAGATTTCA
1 AGTTGTTGTAGGAGACATTGAAGTGATTCAAAAAATTCAAATTGGAGAAACTTGGAAAGATTTAA
*
6247162 CCATTCAATTGATTCATCGACAAATCAAGAGATTCTATTAACTCCATGTTGCCATTG
66 CCATTCAATTGATTCATCAACAAATCAAGAGATTCTATTAACTCCATGTTGCCATTG
*
6247219 AGTTGTTGTAGGAGACATTGAAGTGATTCAAAAAATTCAAATTGGAGAAACTTGGAAGGATTTAA
1 AGTTGTTGTAGGAGACATTGAAGTGATTCAAAAAATTCAAATTGGAGAAACTTGGAAAGATTTAA
*
6247284 CCATTCAATTGATTCATCAACAAATCAAGAGATTCTATTAACTTCATGTTGCCA
66 CCATTCAATTGATTCATCAACAAATCAAGAGATTCTATTAACTCCATGTTGCCA
6247338 ATGTTGTCTG
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 114 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (122 bp):
AGTTGTTGTAGGAGACATTGAAGTGATTCAAAAAATTCAAATTGGAGAAACTTGGAAAGATTTAA
CCATTCAATTGATTCATCAACAAATCAAGAGATTCTATTAACTCCATGTTGCCATTG
Found at i:6250268 original size:2 final size:2
Alignment explanation
Indices: 6250261--6250306 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
6250251 GGAAACATTC
*
6250261 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6250303 TA TA
1 TA TA
6250307 CTACATTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6250743 original size:31 final size:31
Alignment explanation
Indices: 6250658--6250752 Score: 104
Period size: 31 Copynumber: 2.9 Consensus size: 31
6250648 GTCCCCCCAA
*
6250658 AAAAACCTAACCCCCAAAAAAAAGAAAAAAG
1 AAAAACCTAACCCCAAAAAAAAAGAAAAAAG
*
6250689 AAAAACCTAACCCCAAAAAAAAAAGAAGAAGAAAAA
1 AAAAACCTAACCCC---AAAAAAA-AAGAA-AAAAG
6250725 AGAAAACCTAA-CCCAAAAAAAAA-AAAAA
1 A-AAAACCTAACCCCAAAAAAAAAGAAAAA
6250753 CCCTAGCCAC
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
30 3 0.05
31 16 0.29
32 2 0.04
33 7 0.12
34 6 0.11
35 5 0.09
36 8 0.14
37 9 0.16
ACGTcount: A:0.72, C:0.19, G:0.06, T:0.03
Consensus pattern (31 bp):
AAAAACCTAACCCCAAAAAAAAAGAAAAAAG
Found at i:6251852 original size:3 final size:3
Alignment explanation
Indices: 6251846--6251874 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6251836 TAAAAGTATG
6251846 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6251875 TCTACAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6252008 original size:29 final size:27
Alignment explanation
Indices: 6251956--6252009 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 27
6251946 AAAATAATGA
*
6251956 TATGTACAAAATATATATATATATACG
1 TATGTACAAAATATACATATATATACG
6251983 TATGTACATAAAATATACACTA-ATATA
1 TATGTAC--AAAATATACA-TATATATA
6252010 ATAATAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 7 0.30
29 14 0.61
30 2 0.09
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (27 bp):
TATGTACAAAATATACATATATATACG
Found at i:6252100 original size:25 final size:25
Alignment explanation
Indices: 6252072--6252130 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
6252062 CACAATATGG
6252072 TATTTTATATA-CATATATATATATA
1 TATTTTATATACCATAT-TATATATA
* * *
6252097 TATTTTAAATACCATATTGTGTATA
1 TATTTTATATACCATATTATATATA
6252122 TATTATTAT
1 TATT-TTAT
6252131 TAAATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (25 bp):
TATTTTATATACCATATTATATATA
Found at i:6252344 original size:3 final size:3
Alignment explanation
Indices: 6252302--6252330 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6252292 TTATTGTAGA
6252302 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6252331 CATACTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6254104 original size:12 final size:12
Alignment explanation
Indices: 6254084--6254119 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6254074 AGTCATTTGA
6254084 CATTCATGCATT
1 CATTCATGCATT
*
6254096 CATTTATGCATT
1 CATTCATGCATT
*
6254108 CATTCATTCATT
1 CATTCATGCATT
6254120 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:6257836 original size:22 final size:23
Alignment explanation
Indices: 6257808--6257854 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
6257798 GGCAAACGAT
6257808 GAGTCAGGAAAG-AAGAAAATGC
1 GAGTCAGGAAAGAAAGAAAATGC
6257830 GAGTCAGGAAAGAAAGAAAATGC
1 GAGTCAGGAAAGAAAGAAAATGC
6257853 GA
1 GA
6257855 TCTACTACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.51, C:0.09, G:0.32, T:0.09
Consensus pattern (23 bp):
GAGTCAGGAAAGAAAGAAAATGC
Found at i:6260042 original size:45 final size:44
Alignment explanation
Indices: 6259942--6260056 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 44
6259932 AATATTATGC
*
6259942 TTAA-GATGAAAACCCGAAAAGGGCATCTTAAAAAAAAAAAGGA
1 TTAAGGATGAAAACCCGAAAAGGGCGTCTTAAAAAAAAAAAGGA
* * ** *
6259985 TTAAGG-CGAAAACCCGAAAAGGGCGTCTTGATTAGTACAAAAGGA
1 TTAAGGATGAAAACCCGAAAAGGGCGTCTT-A-AAAAAAAAAAGGA
*
6260030 TT-AGGATGAAAACCCG-AGAGGGCGTCT
1 TTAAGGATGAAAACCCGAAAAGGGCGTCT
6260057 AATGAAACAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 25 0.42
44 15 0.25
45 20 0.33
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.17
Consensus pattern (44 bp):
TTAAGGATGAAAACCCGAAAAGGGCGTCTTAAAAAAAAAAAGGA
Found at i:6261106 original size:111 final size:111
Alignment explanation
Indices: 6260872--6261121 Score: 375
Period size: 111 Copynumber: 2.2 Consensus size: 111
6260862 CGTTGAGGTA
*
6260872 TTTTTAATTGTTGTTTTCAAAATCAAACTCATATTGTGAGAAGTAGTTGAGCCTCGGGCACGCTG
1 TTTTT-ATTTTTGTTTTCAAAATC-AACTCATATTGTGAGAAGTAGTTGAGCCTCGGGCACGCTG
6260937 AGGTATTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
64 AGGTATTTTAGTTTTAAATT-ACTCATATTGCGAGAGGTGAGTTAAGCC
*
6260986 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCT-AG-AGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTTATTTTTGTTTTCAAAATCAACTCATATTG-TGAGAAGT-AGTTGAGCCTC-GGGCACGCT
6261049 GAGGTATTTTTAGTTTTAAA-T-CTCATATTGCGAGAGGTGAGTTAAGCC
63 GAGGTA-TTTTAGTTTTAAATTACTCATATTGCGAGAGGTGAGTTAAGCC
6261097 TTTTTA-TTTTGTTTTTCAAAATCAA
1 TTTTTATTTTTG-TTTTCAAAATCAA
6261122 NCCAATTTTC
Statistics
Matches: 128, Mismatches: 3, Indels: 13
0.89 0.02 0.09
Matches are distributed among these distances:
110 5 0.04
111 48 0.38
112 24 0.19
113 34 0.27
114 17 0.13
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (111 bp):
TTTTTATTTTTGTTTTCAAAATCAACTCATATTGTGAGAAGTAGTTGAGCCTCGGGCACGCTGAG
GTATTTTAGTTTTAAATTACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:6261410 original size:25 final size:25
Alignment explanation
Indices: 6261381--6261482 Score: 158
Period size: 25 Copynumber: 4.2 Consensus size: 25
6261371 TGATACAAAT
6261381 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
6261406 TGATAATGATTAGGTAAA--TTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
6261429 TGATAA-GGTTAGGTAAATGTT-CA
1 TGATAATGGTTAGGTAAATGTTCCA
*
6261452 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTCCA
6261477 TGATAA
1 TGATAA
6261483 GAATTTCATG
Statistics
Matches: 71, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
22 10 0.14
23 19 0.27
24 17 0.24
25 25 0.35
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:6261431 original size:23 final size:23
Alignment explanation
Indices: 6261381--6261470 Score: 128
Period size: 23 Copynumber: 3.8 Consensus size: 23
6261371 TGATACAAAT
6261381 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAA--TTCCA
*
6261406 TGATAATGATTAGGTAAATTCCA
1 TGATAATGGTTAGGTAAATTCCA
*
6261429 TGATAA-GGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAAT-TCCA
6261452 TGATAATGGTTAGGTAAAT
1 TGATAATGGTTAGGTAAAT
6261471 GTTTCATGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
22 11 0.18
23 20 0.33
24 12 0.20
25 17 0.28
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (23 bp):
TGATAATGGTTAGGTAAATTCCA
Found at i:6261466 original size:46 final size:48
Alignment explanation
Indices: 6261381--6261470 Score: 157
Period size: 46 Copynumber: 1.9 Consensus size: 48
6261371 TGATACAAAT
6261381 TGATAATGGTTAGGTAAATGTTCCATGATAATGATTAGGTAAATTCCA
1 TGATAATGGTTAGGTAAATGTTCCATGATAATGATTAGGTAAATTCCA
*
6261429 TGATAA-GGTTAGGTAAATGTT-CATGATAATGGTTAGGTAAAT
1 TGATAATGGTTAGGTAAATGTTCCATGATAATGATTAGGTAAAT
6261471 GTTTCATGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
46 20 0.49
47 15 0.37
48 6 0.15
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (48 bp):
TGATAATGGTTAGGTAAATGTTCCATGATAATGATTAGGTAAATTCCA
Found at i:6262981 original size:26 final size:26
Alignment explanation
Indices: 6262952--6263004 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6262942 TTTACAGTTT
*
6262952 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
6262978 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
6263004 T
1 T
6263005 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:6264295 original size:11 final size:10
Alignment explanation
Indices: 6264273--6264302 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
6264263 TCTGTAAGTA
6264273 TTCTGAATTT
1 TTCTGAATTT
6264283 TTCTGAATATT
1 TTCTGAAT-TT
6264294 TTCTGAATT
1 TTCTGAATT
6264303 ATCTGTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (10 bp):
TTCTGAATTT
Found at i:6267116 original size:25 final size:26
Alignment explanation
Indices: 6267075--6267182 Score: 175
Period size: 25 Copynumber: 4.2 Consensus size: 26
6267065 TGATACAAAT
6267075 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6267101 TGATAAT-GGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6267126 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6267152 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6267177 TGATAA
1 TGATAA
6267183 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
25 48 0.62
26 30 0.38
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6267130 original size:51 final size:51
Alignment explanation
Indices: 6267075--6267182 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 51
6267065 TGATACAAAT
6267075 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
* * *
6267126 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
6267177 TGATAA
1 TGATAA
6267183 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATATTCCA
Found at i:6268690 original size:26 final size:26
Alignment explanation
Indices: 6268661--6268713 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
6268651 TTTACAGTTT
6268661 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
6268687 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
6268713 T
1 T
6268714 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:6270940 original size:2 final size:2
Alignment explanation
Indices: 6270933--6270963 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6270923 CATATTATTA
6270933 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 A
6270964 CACAATTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6273192 original size:2 final size:2
Alignment explanation
Indices: 6273187--6273213 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6273177 GCCTATTAAG
6273187 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 T
6273214 CCAGCTAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6274679 original size:25 final size:23
Alignment explanation
Indices: 6274627--6274681 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
6274617 CAAACGCCTC
*
6274627 CAAAATAATAACAAAATTAACAA
1 CAAAATAATAACAAAAATAACAA
* *
6274650 TAAAATAATATCCAAACAATAACAA
1 CAAAATAATA-ACAAA-AATAACAA
6274675 CAAAATA
1 CAAAATA
6274682 GTAGCAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 9 0.35
24 4 0.15
25 13 0.50
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (23 bp):
CAAAATAATAACAAAAATAACAA
Found at i:6277586 original size:14 final size:15
Alignment explanation
Indices: 6277569--6277597 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6277559 AAATATTTAC
6277569 AATAAAAAA-ATAAA
1 AATAAAAAATATAAA
6277583 AATAAAAAATATAAA
1 AATAAAAAATATAAA
6277598 TAATGATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AATAAAAAATATAAA
Found at i:6277637 original size:22 final size:22
Alignment explanation
Indices: 6277590--6277640 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
6277580 AAAAATAAAA
* *
6277590 AATATAAATAATGATATGCTAAT
1 AATAT-AATAATGATAAGCAAAT
6277613 AATATAATAA-GATAAGCAAACT
1 AATATAATAATGATAAGCAAA-T
6277635 AATATA
1 AATATA
6277641 GAATGGGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 8 0.32
22 12 0.48
23 5 0.20
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (22 bp):
AATATAATAATGATAAGCAAAT
Found at i:6280312 original size:38 final size:38
Alignment explanation
Indices: 6280256--6280335 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
6280246 GATGTGTATT
* * *
6280256 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
* *
6280294 CGGGATAAATCCTGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
6280332 CGGG
1 CGGG
6280336 CCTTCGTGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:6280405 original size:43 final size:43
Alignment explanation
Indices: 6280328--6280409 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
6280318 GCTGGTATTA
* **
6280328 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
*
6280371 TATTCGGGCCTTCGTGTCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
6280410 AATGATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:6280800 original size:45 final size:43
Alignment explanation
Indices: 6280726--6280852 Score: 134
Period size: 45 Copynumber: 2.9 Consensus size: 43
6280716 TTGACTTGAT
* * **
6280726 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-AC
*
6280771 TATTTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGT-AAAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
* *
6280813 TGATATCGGGCC-TCGAGCCTAACAGGC-AAAATGCCGGTGA
1 T-AT-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
6280853 TTTGAGAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
42 13 0.18
43 18 0.25
44 7 0.10
45 33 0.46
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (43 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
Found at i:6281813 original size:2 final size:2
Alignment explanation
Indices: 6281808--6281832 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6281798 CGTAAAAAAA
6281808 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6281833 AATAGTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6281936 original size:19 final size:21
Alignment explanation
Indices: 6281894--6281944 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
6281884 TAAAATAGTA
*
6281894 AAAATATATAACTAGTAATGTT
1 AAAATATAT-ACTAGTAATATT
6281916 AAAATATATAC-A-TAATATT
1 AAAATATATACTAGTAATATT
*
6281935 AATATATATA
1 AAAATATATA
6281945 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 15 0.56
20 1 0.04
21 2 0.07
22 9 0.33
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAATATATACTAGTAATATT
Found at i:6281954 original size:17 final size:17
Alignment explanation
Indices: 6281918--6281956 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6281908 GTAATGTTAA
* *
6281918 AATATATACATAATATT
1 AATATATACATAAAAAT
*
6281935 AATATATATATAAAAAT
1 AATATATACATAAAAAT
6281952 AATAT
1 AATAT
6281957 TGAAAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AATATATACATAAAAAT
Found at i:6282527 original size:25 final size:22
Alignment explanation
Indices: 6282491--6282544 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 22
6282481 CATTAATAAT
*
6282491 ATATATAAAATACAATATTGAAAA
1 ATATATAAAATA-AATA-CGAAAA
*
6282515 CATATATATAATAAATACGAAAA
1 -ATATATAAAATAAATACGAAAA
6282538 ATATATA
1 ATATATA
6282545 GATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 7 0.26
23 5 0.19
24 4 0.15
25 11 0.41
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (22 bp):
ATATATAAAATAAATACGAAAA
Found at i:6283513 original size:28 final size:26
Alignment explanation
Indices: 6283470--6283530 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
6283460 AAAAAATTTC
* *
6283470 TTCTTTTTTTATTTATTTATTTTTTA
1 TTCTTTTTTTATTTATATATTCTTTA
6283496 GTTCTTTTTTTATTTTATATATTCTTTA
1 -TTCTTTTTTTA-TTTATATATTCTTTA
6283524 TT-TTTTT
1 TTCTTTTT
6283531 AAATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 5 0.16
27 13 0.42
28 13 0.42
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (26 bp):
TTCTTTTTTTATTTATATATTCTTTA
Found at i:6283530 original size:19 final size:20
Alignment explanation
Indices: 6283497--6283536 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6283487 TATTTTTTAG
* *
6283497 TTCTTTTTTTATTTTATATA
1 TTCTTTATTTATTTTAAATA
6283517 TTCTTTATTT-TTTTAAATA
1 TTCTTTATTTATTTTAAATA
6283536 T
1 T
6283537 ATATACGCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCTTTATTTATTTTAAATA
Found at i:6283693 original size:33 final size:33
Alignment explanation
Indices: 6283656--6283721 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
6283646 ACTGCTTACT
6283656 ATTTTTCTCTATATTAGATCTGATCTGGTATTG
1 ATTTTTCTCTATATTAGATCTGATCTGGTATTG
6283689 ATTTTTCTCTATATTAGATCTGATCTGGTATTG
1 ATTTTTCTCTATATTAGATCTGATCTGGTATTG
6283722 CTGGAGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (33 bp):
ATTTTTCTCTATATTAGATCTGATCTGGTATTG
Found at i:6287458 original size:2 final size:2
Alignment explanation
Indices: 6287453--6287477 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6287443 TAAATACCTT
6287453 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
6287478 GTATGTATGT
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:6294670 original size:2 final size:2
Alignment explanation
Indices: 6294663--6294692 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6294653 AAGAGGGGTT
*
6294663 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6294693 AGGAGATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6299083 original size:16 final size:16
Alignment explanation
Indices: 6299062--6299097 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6299052 AATCCCTAAC
* *
6299062 AATCTTCAAGTCCCTA
1 AATCTTCAAATACCTA
6299078 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
6299094 AATC
1 AATC
6299098 GATAACATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:6299190 original size:32 final size:33
Alignment explanation
Indices: 6299118--6299192 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 33
6299108 CGAAATCTTC
* *
6299118 TTGAAATCCCTAAAATTTTTACGAATCAAATCG
1 TTGAAATCCCTAAAACTATTACGAATCAAATCG
* *
6299151 TTG-AATCCTTAAAACTATTAGGAA-CGAAATCG
1 TTGAAATCCCTAAAACTATTACGAATC-AAATCG
6299183 -TGAAATCCCT
1 TTGAAATCCCT
6299193 TAGAACCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
31 3 0.09
32 29 0.83
33 3 0.09
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (33 bp):
TTGAAATCCCTAAAACTATTACGAATCAAATCG
Found at i:6300196 original size:22 final size:22
Alignment explanation
Indices: 6300166--6300207 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6300156 TAAGCATATG
*
6300166 ATTTGGATAAATGTACTTTACA
1 ATTTCGATAAATGTACTTTACA
*
6300188 ATTTCGATAAATGTTCTTTA
1 ATTTCGATAAATGTACTTTA
6300208 TAAAAGTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (22 bp):
ATTTCGATAAATGTACTTTACA
Found at i:6303018 original size:51 final size:51
Alignment explanation
Indices: 6302958--6303107 Score: 246
Period size: 51 Copynumber: 2.9 Consensus size: 51
6302948 TTATGTGTAG
* *
6302958 CAGCAACATTATCCAGTCCATCTGATGTTGCAAAGTCACCAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
* *
6303009 CAGCAACATTATCCACTCTATCTGATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
* *
6303060 CAGCAACATTATCCACTCCATCTGATGTTGTAAAATCACTAGCATATT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATT
6303108 TATTACCAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 91 1.00
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCAT
Found at i:6304394 original size:18 final size:16
Alignment explanation
Indices: 6304351--6304386 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6304341 GAATGCTATC
* *
6304351 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
6304367 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
6304383 GATT
1 GATT
6304387 GTTAGGGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Found at i:6311106 original size:3 final size:3
Alignment explanation
Indices: 6311069--6311097 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6311059 CATAAATGTT
6311069 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6311098 TTATAATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6311309 original size:36 final size:36
Alignment explanation
Indices: 6311269--6311337 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
6311259 GTTTAGTTCA
*
6311269 ACATGTTTAAGTTGTTTTTTAAATATATATTTACAT
1 ACATGTTTAAGTTGTTTTTTAAAAATATATTTACAT
6311305 ACATGTTTAAGTTGTTTTTTAAAAATATATTTA
1 ACATGTTTAAGTTGTTTTTTAAAAATATATTTA
6311338 TATATATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (36 bp):
ACATGTTTAAGTTGTTTTTTAAAAATATATTTACAT
Found at i:6312024 original size:25 final size:25
Alignment explanation
Indices: 6311975--6312025 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6311965 CTTAGCTAAC
* ***
6311975 AGGGGTGAAGCTAGAATAGTCTTTT
1 AGGGGTAAAGCTAGAATAAAATTTT
6312000 AGGGGTAAAGCTAGAATAAAATTTT
1 AGGGGTAAAGCTAGAATAAAATTTT
6312025 A
1 A
6312026 AATTTTTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.29
Consensus pattern (25 bp):
AGGGGTAAAGCTAGAATAAAATTTT
Found at i:6312095 original size:29 final size:31
Alignment explanation
Indices: 6312042--6312106 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
6312032 TATAGTTTAT
*
6312042 ATTTTTATAATTTTTAAAGAATTAAATTA-A
1 ATTTTTATAATTTTTAAAGAATTAAAGTATA
* **
6312072 ATTTTTATAA-TTTTAGAGGGTTAAAGTATA
1 ATTTTTATAATTTTTAAAGAATTAAAGTATA
6312102 ATTTT
1 ATTTT
6312107 AATTTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAGAATTAAAGTATA
Found at i:6312107 original size:29 final size:30
Alignment explanation
Indices: 6312039--6312107 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
6312029 TTTTATAGTT
* *
6312039 TATATTTTTATAATTTTTAAAGAATTAAAT
1 TATAATTTTATAATTTTTAAAGAATTAAAG
* **
6312069 TA-AATTTTTATAA-TTTTAGAGGGTTAAAG
1 TATAA-TTTTATAATTTTTAAAGAATTAAAG
6312098 TATAATTTTA
1 TATAATTTTA
6312108 ATTTTATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.51
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAGAATTAAAG
Found at i:6314246 original size:119 final size:120
Alignment explanation
Indices: 6314051--6314268 Score: 312
Period size: 119 Copynumber: 1.8 Consensus size: 120
6314041 CATTGATAGC
* * * *
6314051 AGTGATTAATTTTCTAACCGTGGATACTTACCAAAAAGTTAAATGAGTGACAATAAAATGTGTTC
1 AGTGATTAATCTTCAAACCGTGGATACTTACCAAAAAGATAAATGAGTGACAATAAAATGTATTC
**
6314116 CATTTTTGTGAGCGG-GATTAAAAATTATTTTTTTCGGTATCCATCATCAGTAAT
66 CATTTCCGTGAGCGGAGATTAAAAATTATTTTTTTCGGTATCCATCATCAGTAAT
* * * * *
6314170 AGTGATTAATCTTCAAACTGTGGATGCTTTCCGAAAAGATAAATGATTGACAATAAAATGTATTC
1 AGTGATTAATCTTCAAACCGTGGATACTTACCAAAAAGATAAATGAGTGACAATAAAATGTATTC
* *
6314235 TATTTCCGTGAGGGGAGATTAAAAATTATTTTTT
66 CATTTCCGTGAGCGGAGATTAAAAATTATTTTTT
6314269 AATTACTTGA
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
119 67 0.79
120 18 0.21
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (120 bp):
AGTGATTAATCTTCAAACCGTGGATACTTACCAAAAAGATAAATGAGTGACAATAAAATGTATTC
CATTTCCGTGAGCGGAGATTAAAAATTATTTTTTTCGGTATCCATCATCAGTAAT
Found at i:6317604 original size:78 final size:78
Alignment explanation
Indices: 6317472--6317623 Score: 250
Period size: 78 Copynumber: 1.9 Consensus size: 78
6317462 GAGTCACATC
* * * *
6317472 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCCT
1 TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
6317537 AATGAATCATATA
66 AATGAATCATATA
*
6317550 TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCTACCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
6317615 AGTGAATCA
66 AATGAATCA
6317624 GGAATAAATC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGAATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:6317636 original size:40 final size:40
Alignment explanation
Indices: 6317588--6317676 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
6317578 CTTTTCAGGT
6317588 CAAATCCTA-TCTAC-CTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATTC-ACTCTTAA-TTACCATAGTGAATCAGGAA
* * *
6317628 TAAATCCTATTCACTTTTAATTACCATTGTGAATCAGGAA
1 CAAATCCTATTCACTCTTAATTACCATAGTGAATCAGGAA
*
6317668 CAAAACCTA
1 CAAATCCTA
6317677 ACCACTTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 36 0.86
41 6 0.14
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (40 bp):
CAAATCCTATTCACTCTTAATTACCATAGTGAATCAGGAA
Found at i:6317683 original size:40 final size:41
Alignment explanation
Indices: 6317603--6317724 Score: 113
Period size: 40 Copynumber: 3.0 Consensus size: 41
6317593 CCTATCTACC
* * **
6317603 TTAAGTTACCATAGTGAATCAGGAATAAATCCTATTCACTT
1 TTAAGTTACCATAGTGAATCAGGAACAAAACCTAACCACTT
*
6317644 TTAA-TTACCATTGTGAATCAGGAACAAAACCTAACCAC-T
1 TTAAGTTACCATAGTGAATCAGGAACAAAACCTAACCACTT
* * ** * * * *
6317683 TTGAGGTATTATAGTGAATCATGAACGAATCCTATCCACTT
1 TTAAGTTACCATAGTGAATCAGGAACAAAACCTAACCACTT
6317724 T
1 T
6317725 ATATTTTCGA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
39 4 0.06
40 55 0.85
41 6 0.09
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (41 bp):
TTAAGTTACCATAGTGAATCAGGAACAAAACCTAACCACTT
Found at i:6319398 original size:10 final size:10
Alignment explanation
Indices: 6319383--6319409 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6319373 TATATACTAG
6319383 ATAAATAATA
1 ATAAATAATA
6319393 ATAAATAATA
1 ATAAATAATA
6319403 ATAAATA
1 ATAAATA
6319410 TCTCATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAAATAATA
Found at i:6322246 original size:72 final size:72
Alignment explanation
Indices: 6322129--6322367 Score: 370
Period size: 72 Copynumber: 3.3 Consensus size: 72
6322119 GAGGAAAAGT
6322129 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
6322194 GAATTTG
66 GAATTTG
* * * *
6322201 ACCATTTAATTGATTTTCTGAAACATCAAAAAACTCCAAAGATGATAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
6322266 GAATTTG
66 GAATTTG
* * * * * *
6322273 GCCGTTTAACTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
*
6322338 GAATCTG
66 GAATTTG
*
6322345 ACCAGTTAATTGATTTTCTGAAA
1 ACCATTTAATTGATTTTCTGAAA
6322368 GATAAAGGTG
Statistics
Matches: 148, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 148 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
GAATTTG
Found at i:6324558 original size:8 final size:8
Alignment explanation
Indices: 6324545--6324570 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6324535 ATTGCCAAAC
6324545 TTATTACT
1 TTATTACT
6324553 TTATTACT
1 TTATTACT
6324561 TTATTACT
1 TTATTACT
6324569 TT
1 TT
6324571 TCACAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTACT
Found at i:6324669 original size:22 final size:22
Alignment explanation
Indices: 6324641--6324682 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6324631 TTTTTTTCCC
*
6324641 TATATTGGTACCTAAATTTTCT
1 TATATTGGTACATAAATTTTCT
*
6324663 TATATTGGTACATAATTTTT
1 TATATTGGTACATAAATTTT
6324683 TTTTGTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (22 bp):
TATATTGGTACATAAATTTTCT
Found at i:6325329 original size:16 final size:16
Alignment explanation
Indices: 6325308--6325341 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6325298 TAGTTTTCTC
6325308 TATTTTTA-AAATATTT
1 TATTTTTATAAA-ATTT
6325324 TATTTTTATAAAATTT
1 TATTTTTATAAAATTT
6325340 TA
1 TA
6325342 ATATCAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTTATAAAATTT
Found at i:6327208 original size:14 final size:13
Alignment explanation
Indices: 6327191--6327256 Score: 55
Period size: 14 Copynumber: 4.9 Consensus size: 13
6327181 TAAAAAGTTT
6327191 AAATAAAAAAATGA
1 AAATAAAAAAAT-A
**
6327205 AAATAAGCAAAT-
1 AAATAAAAAAATA
6327217 AAATAAAAGAAA-A
1 AAATAAAA-AAATA
*
6327230 AAATTAAATAAAACA
1 AAA-TAAA-AAAATA
6327245 AAATAAAAAAAT
1 AAATAAAAAAAT
6327257 GGTAGTAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
12 6 0.14
13 10 0.24
14 21 0.50
15 5 0.12
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:6327238 original size:22 final size:21
Alignment explanation
Indices: 6327189--6327256 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 21
6327179 AATAAAAAGT
*
6327189 TTAAATAAAAAAATGAAAATAA
1 TTAAATAAAAAAA-GAAAAAAA
**
6327211 GCAAATAAATAAAAGAAAAAAA
1 TTAAATAAA-AAAAGAAAAAAA
*
6327233 TTAAATAAAACAAAATAAAAAAA
1 TTAAAT-AAA-AAAAGAAAAAAA
6327256 T
1 T
6327257 GGTAGTAAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 18 0.49
23 19 0.51
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (21 bp):
TTAAATAAAAAAAGAAAAAAA
Found at i:6327386 original size:3 final size:3
Alignment explanation
Indices: 6327378--6327444 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
6327368 TAAACATATT
*
6327378 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6327426 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
6327445 GTATTATGTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6332899 original size:72 final size:72
Alignment explanation
Indices: 6332782--6333056 Score: 399
Period size: 72 Copynumber: 3.8 Consensus size: 72
6332772 CCAGATACTC
* ** *
6332782 CAAAGATGATAACTCCCCTGTAGACAATGGAA-AAGTACCATTTAATTGATTTTCTAAAACATCA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTG-ACCATTTAATTGATTTTCTGAAACATCA
6332846 AACAACTT
65 AACAACTT
**
6332854 CAAAGATGATAACTCCCCTATCCACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
* *
6332919 ATAACTC
66 ACAACTT
* * * * * *
6332926 CAAAGATGATAACTGCCCTATAGACAAGGGAATTTGGCCGTTTAACTGATTTTTTGAAACATCAA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
6332991 ACAACTT
66 ACAACTT
*
6332998 CAAAGATGATAACTCTCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAA
1 CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAA
6333057 GATAGAGATG
Statistics
Matches: 177, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
72 176 0.99
73 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (72 bp):
CAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACATCAA
ACAACTT
Found at i:6340026 original size:28 final size:30
Alignment explanation
Indices: 6339959--6340026 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 30
6339949 CATTTGTAAC
*
6339959 AATTAATTAATTTTTAAAATTTAAAAAATTCT
1 AATT-ATT-ATTTTTAAAATTTAAAAAATTCA
** *
6339991 AACAATTATTTTTAAAA-TT-AAAAATTGA
1 AATTATTATTTTTAAAATTTAAAAAATTCA
6340019 AATTATTA
1 AATTATTA
6340027 AAAAAATATG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
28 13 0.43
29 2 0.07
30 10 0.33
31 3 0.10
32 2 0.07
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.44
Consensus pattern (30 bp):
AATTATTATTTTTAAAATTTAAAAAATTCA
Found at i:6340313 original size:4 final size:4
Alignment explanation
Indices: 6340304--6340337 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
6340294 TAGCTTGTAT
* *
6340304 ATAA ATAA ATCA ATAA ATAA ATAA ATCA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
6340338 GTTGTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:6340323 original size:16 final size:16
Alignment explanation
Indices: 6340304--6340337 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6340294 TAGCTTGTAT
6340304 ATAAATAAATCAATAA
1 ATAAATAAATCAATAA
6340320 ATAAATAAATCAATAA
1 ATAAATAAATCAATAA
6340336 AT
1 AT
6340338 GTTGTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (16 bp):
ATAAATAAATCAATAA
Found at i:6343709 original size:16 final size:16
Alignment explanation
Indices: 6343688--6343719 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6343678 AGAGAAAAAC
*
6343688 CAAAAATAAAAATAAA
1 CAAAAACAAAAATAAA
6343704 CAAAAACAAAAATAAA
1 CAAAAACAAAAATAAA
6343720 TTAAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (16 bp):
CAAAAACAAAAATAAA
Found at i:6345518 original size:20 final size:22
Alignment explanation
Indices: 6345475--6345538 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
6345465 ATATTATTAT
6345475 TATA-TTTATTATATAGTAGTG
1 TATATTTTATTATATAGTAGTG
* *
6345496 TATATTTTATTATCTATGT-GTA
1 TATATTTTATTATATA-GTAGTG
6345518 TATATATTTATATATATAGTA
1 TATAT-TTTAT-TATATAGTA
6345539 TGATTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 4 0.11
22 17 0.49
23 9 0.26
24 5 0.14
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
TATATTTTATTATATAGTAGTG
Found at i:6345562 original size:18 final size:19
Alignment explanation
Indices: 6345541--6345580 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
6345531 ATATAGTATG
6345541 ATTTTTAAT-TACTTTATT
1 ATTTTTAATATACTTTATT
* *
6345559 ATTTTTATTATATTTTATT
1 ATTTTTAATATACTTTATT
6345578 ATT
1 ATT
6345581 CTTTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTAATATACTTTATT
Found at i:6345569 original size:3 final size:3
Alignment explanation
Indices: 6345554--6345626 Score: 55
Period size: 3 Copynumber: 25.3 Consensus size: 3
6345544 TTTAATTACT
* * * *
6345554 TTA TTA TTT TTA TTA -TA TT- TTA TTA TTC TT- TTT TTT TGTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* *
6345596 TTA ATA TTA TTA CTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6345627 CATTGTTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
2 8 0.14
3 47 0.82
4 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:6345574 original size:11 final size:10
Alignment explanation
Indices: 6345465--6345579 Score: 51
Period size: 9 Copynumber: 11.2 Consensus size: 10
6345455 TCGTATTTCA
6345465 ATATTATTATT
1 ATATT-TTATT
6345476 ATA-TTTATT
1 ATATTTTATT
**
6345485 ATATAGTAGTGT
1 ATATTTTA-T-T
6345497 ATATTTTATT
1 ATATTTTATT
*
6345507 ATCTATGTGTA-T
1 A--TAT-TTTATT
6345519 ATATATTTATAT
1 ATAT-TTTAT-T
** *
6345531 ATATAGTATG
1 ATATTTTATT
*
6345541 AT-TTTTAAT
1 ATATTTTATT
*
6345550 -TACTTTATT
1 ATATTTTATT
6345559 AT-TTTTATT
1 ATATTTTATT
6345568 ATATTTTATT
1 ATATTTTATT
6345578 AT
1 AT
6345580 TCTTTTTTTT
Statistics
Matches: 76, Mismatches: 17, Indels: 23
0.66 0.15 0.20
Matches are distributed among these distances:
8 1 0.01
9 24 0.32
10 23 0.30
11 8 0.11
12 17 0.22
13 3 0.04
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (10 bp):
ATATTTTATT
Found at i:6345595 original size:23 final size:23
Alignment explanation
Indices: 6345560--6345603 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6345550 TACTTTATTA
*
6345560 TTTTTATTATATTTTATTATTCT
1 TTTTTATTATATTTTAATATTCT
* *
6345583 TTTTTTTTGTATTTTAATATT
1 TTTTTATTATATTTTAATATT
6345604 ATTACTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTTATTATATTTTAATATTCT
Found at i:6345679 original size:16 final size:16
Alignment explanation
Indices: 6345654--6345689 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6345644 ATATTTTTGT
*
6345654 TATATGTATGTATATA
1 TATATATATGTATATA
*
6345670 TATATATATGTATTTA
1 TATATATATGTATATA
6345686 TATA
1 TATA
6345690 ATAGTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (16 bp):
TATATATATGTATATA
Found at i:6346099 original size:23 final size:24
Alignment explanation
Indices: 6346073--6346122 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
6346063 TTATATGTAG
* *
6346073 TATGTACATA-TTTTCAATGCTAT
1 TATGTAAATACTTTTCAATCCTAT
*
6346096 TATGTAAATACTTTTCATTCCTAT
1 TATGTAAATACTTTTCAATCCTAT
6346120 TAT
1 TAT
6346123 TACGTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.50
Consensus pattern (24 bp):
TATGTAAATACTTTTCAATCCTAT
Found at i:6346143 original size:2 final size:2
Alignment explanation
Indices: 6346138--6346168 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6346128 ATATACTTTA
6346138 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 A
6346169 GTACTATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6347558 original size:25 final size:27
Alignment explanation
Indices: 6347521--6347573 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6347511 TCAAACATGC
6347521 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
6347547 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
6347573 A
1 A
6347574 AAACTGTAAA
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:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:6349094 original size:26 final size:26
Alignment explanation
Indices: 6349058--6349192 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
6349048 CATGAAATTC
*
6349058 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
6349084 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
6349110 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
6349136 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
6349162 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
6349187 TTATCA
1 TTATCA
6349193 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 23 0.21
26 84 0.79
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:6354905 original size:26 final size:26
Alignment explanation
Indices: 6354869--6355004 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
6354859 CATGAAATTC
*
6354869 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
6354895 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
6354921 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
6354947 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
6354973 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
6354999 TTATCA
1 TTATCA
6355005 ATTTATATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:6359221 original size:13 final size:13
Alignment explanation
Indices: 6359205--6359230 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6359195 TTTATGGTAC
6359205 AAATTGATACAAA
1 AAATTGATACAAA
6359218 AAATTGATACAAA
1 AAATTGATACAAA
6359231 TTGATAATAG
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:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AAATTGATACAAA
Found at i:6359269 original size:26 final size:26
Alignment explanation
Indices: 6359232--6359315 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6359222 TGATACAAAT
* *
6359232 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6359258 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6359284 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6359310 TGATAA
1 TGATAA
6359316 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6361553 original size:3 final size:3
Alignment explanation
Indices: 6361547--6361665 Score: 64
Period size: 3 Copynumber: 38.0 Consensus size: 3
6361537 TCATTTCTAA
* ** *
6361547 TAT TAT TAA TAT TAT TAT GTA- TAT TAT TAT TGC TAT TAT TAAT TTT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT T-AT TAT
* * * *
6361593 CTAGT TAT TAA CA- TAT TAT TAT TTT TAAT GTAT TAT TAT TACT AAT
1 -TA-T TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TA-T TAT
*
6361639 TAT TAT TAT T-T CTAG TAT TAT TAT TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT
6361666 ATATAACATT
Statistics
Matches: 88, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
2 4 0.05
3 69 0.78
4 13 0.15
5 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:6361586 original size:15 final size:14
Alignment explanation
Indices: 6361556--6361663 Score: 57
Period size: 14 Copynumber: 7.7 Consensus size: 14
6361546 ATATTATTAA
*
6361556 TATTATTA-TGTA-
1 TATTATTATTCTAT
6361568 TATTATTATTGCTAT
1 TATTATTATT-CTAT
6361583 TATTAATT-TTCTAGT
1 TATT-ATTATTCTA-T
**
6361598 TATTAACATAT-TAT
1 TATTATTAT-TCTAT
* * *
6361612 TATTTTTAATGTAT
1 TATTATTATTCTAT
6361626 TATTATTA--CTAAT
1 TATTATTATTCT-AT
*
6361639 TATTATTATTTCTAG
1 TATTATTA-TTCTAT
6361654 TATTATTATT
1 TATTATTATT
6361664 ATATATAACA
Statistics
Matches: 74, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
12 9 0.12
13 12 0.16
14 24 0.32
15 23 0.31
16 6 0.08
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (14 bp):
TATTATTATTCTAT
Found at i:6361728 original size:30 final size:29
Alignment explanation
Indices: 6361692--6361765 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 29
6361682 TATTGTATTA
6361692 TATGTATGTATATGTATT-TTTTATATATGT
1 TATGTAT-TATATGTATTCTTTTA-ATATGT
* *
6361722 TATGTA-TATATGTTTTCTTTTAATATTT
1 TATGTATTATATGTATTCTTTTAATATGT
*
6361750 TATATATTATTATGTA
1 TATGTATTA-TATGTA
6361766 CATATTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 19 0.51
29 7 0.19
30 11 0.30
ACGTcount: A:0.28, C:0.01, G:0.09, T:0.61
Consensus pattern (29 bp):
TATGTATTATATGTATTCTTTTAATATGT
Found at i:6361729 original size:13 final size:13
Alignment explanation
Indices: 6361685--6361735 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
6361675 TAGTGCATAT
6361685 TGTATTATATG-TA
1 TGTA-TATATGTTA
* * *
6361698 TGTATATGTATTT
1 TGTATATATGTTA
*
6361711 TTTATATATGTTA
1 TGTATATATGTTA
6361724 TGTATATATGTT
1 TGTATATATGTT
6361736 TTCTTTTAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
12 4 0.14
13 25 0.86
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (13 bp):
TGTATATATGTTA
Found at i:6361796 original size:26 final size:23
Alignment explanation
Indices: 6361744--6361813 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 23
6361734 TTTTCTTTTA
*
6361744 ATATTTTATATATTATTATGTAC
1 ATATTTTATATATTATTATATAC
*
6361767 ATATTTTAATATCATTAGTTATATAT
1 ATATTTT-ATAT-ATTA-TTATATAC
6361793 ATA-TTTATATATTATGTATAT
1 ATATTTTATATATTAT-TATAT
6361814 TTCTAATACT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 1 0.02
23 16 0.39
24 8 0.20
25 7 0.17
26 9 0.22
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (23 bp):
ATATTTTATATATTATTATATAC
Found at i:6362088 original size:25 final size:24
Alignment explanation
Indices: 6361996--6362093 Score: 83
Period size: 25 Copynumber: 3.9 Consensus size: 24
6361986 TATTCCATGC
* *
6361996 ATATATTTTTATA-TCATCTTATGT
1 ATATATTTTAATACT-ATTTTATGT
* * *
6362020 ATAAATTCTTGAATACTATGTTATAT
1 ATATATT-TT-AATACTATTTTATGT
6362046 ATATACTTTTAATACTATTTTATGT
1 ATATA-TTTTAATACTATTTTATGT
6362071 ATATATTATT-ATATCTATTTTAT
1 ATATATT-TTAATA-CTATTTTAT
6362094 CCCTATTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
24 11 0.18
25 31 0.51
26 16 0.26
27 3 0.05
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (24 bp):
ATATATTTTAATACTATTTTATGT
Found at i:6362306 original size:3 final size:3
Alignment explanation
Indices: 6362254--6362291 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
6362244 CATACATCTT
* *
6362254 TTA TCA TTA TTA TTA -TA TAA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6362292 GTATATGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:6362315 original size:37 final size:37
Alignment explanation
Indices: 6362263--6362333 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
6362253 TTTATCATTA
* *
6362263 TTATTATATAATTATTATTATTATTATTA-GTATATGT
1 TTATTATATAATTATT-TTAATATTACTATGTATATGT
* *
6362300 TTATTATGTATTTATTTTAATATTACTATGTATA
1 TTATTATATAATTATTTTAATATTACTATGTATA
6362334 CATATATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 10 0.34
37 19 0.66
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (37 bp):
TTATTATATAATTATTTTAATATTACTATGTATATGT
Found at i:6362507 original size:27 final size:26
Alignment explanation
Indices: 6362477--6362541 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
6362467 GTATATATTG
6362477 TTATTTTCTATTATTATTA-TAAATACA
1 TTATTTTCTATTA-TATTAGT-AATACA
*
6362504 TTATTTTCTTATTATATTAGTAGTACA
1 TTATTTTC-TATTATATTAGTAATACA
6362531 TTATTTT-TATT
1 TTATTTTCTATT
6362542 TTCTTGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 4 0.11
27 25 0.71
28 6 0.17
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (26 bp):
TTATTTTCTATTATATTAGTAATACA
Found at i:6366318 original size:19 final size:20
Alignment explanation
Indices: 6366296--6366339 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
6366286 CTTTTATAAC
*
6366296 TTTCTCTTTCTTTTTAT-TT
1 TTTCTCATTCTTTTTATATT
*
6366315 TTTCTCATTCTTTTTTTATT
1 TTTCTCATTCTTTTTATATT
6366335 TTTCT
1 TTTCT
6366340 TCTTCTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCTCATTCTTTTTATATT
Found at i:6370899 original size:72 final size:72
Alignment explanation
Indices: 6370782--6370994 Score: 320
Period size: 72 Copynumber: 3.0 Consensus size: 72
6370772 AAACCCAGAT
**
6370782 ACTCCAAAGATGATAACTCCCCTATAGACAATGGAA-AAGTACCATTTAATTGATTTTCTGAAAC
1 ACTCCAAAGATGATAACTCCCCTATAGACAATGGAATTTG-ACCATTTAATTGATTTTCTGAAAC
*
6370846 ATCAAATA
65 ATCAAACA
*
6370854 ACTCCAAAGATGATAACTCCCCTATCGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACA
1 ACTCCAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACA
6370919 TCAAACA
66 TCAAACA
* * * * * *
6370926 ACTCCAAAGATGATAACTGCCCTATAGACAAGGGAATTTGGCCGTTTAGTTGATTTTCTGAAAGA
1 ACTCCAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACA
6370991 TCAA
66 TCAA
6370995 GGTAGGTAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
72 128 0.99
73 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (72 bp):
ACTCCAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCATTTAATTGATTTTCTGAAACA
TCAAACA
Found at i:6372274 original size:26 final size:26
Alignment explanation
Indices: 6372237--6372293 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
6372227 TTTAGGTCTT
*
6372237 AAAAGCTGAAGGAGAAAAAAAGAAAG
1 AAAAGCTAAAGGAGAAAAAAAGAAAG
* *
6372263 AAAAGCTAAAGGAGATAAAAAGAAGG
1 AAAAGCTAAAGGAGAAAAAAAGAAAG
6372289 AAAAG
1 AAAAG
6372294 AAAATGGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.65, C:0.04, G:0.26, T:0.05
Consensus pattern (26 bp):
AAAAGCTAAAGGAGAAAAAAAGAAAG
Found at i:6374363 original size:3 final size:3
Alignment explanation
Indices: 6374355--6374420 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
6374345 ATTTAAGTAA
6374355 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6374403 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
6374421 GTAACACCCC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6377089 original size:25 final size:25
Alignment explanation
Indices: 6377060--6377189 Score: 235
Period size: 25 Copynumber: 5.2 Consensus size: 25
6377050 TGAAATGCCC
6377060 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
6377085 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATT
*
6377111 ATCATGGAATATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
6377136 ATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATT
6377161 ATCATGGAACATTTACCTAA-CATT
1 ATCATGGAACATTTACCTAACCATT
6377185 ATCAT
1 ATCAT
6377190 CATTATCAAT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
24 9 0.09
25 69 0.68
26 24 0.24
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (25 bp):
ATCATGGAACATTTACCTAACCATT
Found at i:6377130 original size:51 final size:50
Alignment explanation
Indices: 6377060--6377189 Score: 235
Period size: 51 Copynumber: 2.6 Consensus size: 50
6377050 TGAAATGCCC
6377060 ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAA-CCATT
*
6377111 ATCATGGAATATTTACCTAACCATTATCATGGAACATTTACCTAACCATT
1 ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCATT
6377161 ATCATGGAACATTTACCTAA-CATTATCAT
1 ATCATGGAACATTTACCTAACCATTATCAT
6377190 CATTATCAAT
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
49 9 0.12
50 24 0.31
51 44 0.57
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (50 bp):
ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCATT
Found at i:6384142 original size:26 final size:26
Alignment explanation
Indices: 6384111--6384270 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
6384101 TGAAATGCCC
*
6384111 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
6384137 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
6384163 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6384189 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
6384215 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
6384241 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6384267 ATCA
1 ATCA
6384271 ATTTGTACCA
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 127 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6384188 original size:52 final size:52
Alignment explanation
Indices: 6384111--6384270 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
6384101 TGAAATGCCC
* *
6384111 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
*
6384163 ATCATGGAATATTTACCTAATCCATTATCATGGAATATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
6384215 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
6384267 ATCA
1 ATCA
6384271 ATTTGTACCA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 104 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:6385586 original size:43 final size:43
Alignment explanation
Indices: 6385531--6385653 Score: 104
Period size: 43 Copynumber: 2.8 Consensus size: 43
6385521 AGTTCTTATA
* * **
6385531 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTGC
1 TTATATATTTCAAATTATTATATATTATTTATTTTGAAATCAC
** * * *** *
6385574 TTATATATTTCAAGCTGTTATATTTTATTTCCCTTGAAATCAT
1 TTATATATTTCAAATTATTATATATTATTTATTTTGAAATCAC
*
6385617 TTATATACTTT-AAATTTTATATATATTATTTATTTTG
1 TTATATA-TTTCAAATTAT-TATATATTATTTATTTTG
6385654 GATTATTTAT
Statistics
Matches: 60, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
43 43 0.72
44 17 0.28
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (43 bp):
TTATATATTTCAAATTATTATATATTATTTATTTTGAAATCAC
Found at i:6385679 original size:17 final size:15
Alignment explanation
Indices: 6385656--6385724 Score: 67
Period size: 13 Copynumber: 4.7 Consensus size: 15
6385646 TTATTTTGGA
6385656 TTATTTATATACTTAT
1 TTATTTATATA-TTAT
6385672 TTATTT-TATATT-T
1 TTATTTATATATTAT
6385685 TTATTT-TATA-TAT
1 TTATTTATATATTAT
*
6385698 ATTATTTATTTACTTAT
1 -TTATTTATATA-TTAT
6385715 TTATTT-TATA
1 TTATTTATATA
6385725 CATATATACA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.02
13 12 0.26
14 8 0.17
15 10 0.22
16 12 0.26
17 3 0.07
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTATATATTAT
Found at i:6385687 original size:25 final size:24
Alignment explanation
Indices: 6385625--6385688 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
6385615 ATTTATATAC
6385625 TTTAAATTTTATATATATTATTTAT
1 TTTAAATTTT-TATATATTATTTAT
**
6385650 TTTGGATTATTTATATACTTATTTAT
1 TTTAAATT-TTTATATA-TTATTTAT
*
6385676 TTTATATTTTTAT
1 TTTAAATTTTTAT
6385689 TTTATATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 17 0.52
26 16 0.48
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (24 bp):
TTTAAATTTTTATATATTATTTAT
Found at i:6385689 original size:43 final size:44
Alignment explanation
Indices: 6385615--6385729 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 44
6385605 CCTTGAAATC
** *
6385615 ATTTATATACTT-TAAATTTTATATATATTA-TTTAT-TTTGGATT
1 ATTTATATACTTATTTATTTTATATATATTATTTTATATAT--ATT
*
6385658 ATTTATATACTTATTTATTTTATAT-TTTTATTTTATATATATT
1 ATTTATATACTTATTTATTTTATATATATTATTTTATATATATT
* *
6385701 ATTTATTTACTTATTTATTTTATACATAT
1 ATTTATATACTTATTTATTTTATATATAT
6385730 ATACATGTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
43 42 0.69
44 17 0.28
45 2 0.03
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.63
Consensus pattern (44 bp):
ATTTATATACTTATTTATTTTATATATATTATTTTATATATATT
Found at i:6385693 original size:30 final size:30
Alignment explanation
Indices: 6385661--6385729 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
6385651 TTGGATTATT
*
6385661 TATATACTTATTTATTTTA-TATTTTTATTTTA
1 TATATA-TTATTTA-TTTACT-TATTTATTTTA
6385693 TATATATTATTTATTTACTTATTTATTTTA
1 TATATATTATTTATTTACTTATTTATTTTA
*
6385723 TACATAT
1 TATATAT
6385730 ATACATGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 20 0.59
31 8 0.24
32 6 0.18
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (30 bp):
TATATATTATTTATTTACTTATTTATTTTA
Found at i:6385833 original size:3 final size:3
Alignment explanation
Indices: 6385825--6385883 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
6385815 TATTTTACTT
6385825 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6385873 TTA TTA TTA TT
1 TTA TTA TTA TT
6385884 TTTGTTGTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6386446 original size:2 final size:2
Alignment explanation
Indices: 6386441--6386474 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6386431 ATATACATGC
6386441 AT AT AT 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 AT AT AT
6386475 TTTCTATTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6388028 original size:14 final size:14
Alignment explanation
Indices: 6388009--6388059 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
6387999 TGTAGGTTTG
*
6388009 AATTTTAGTTTCAT
1 AATTTTAATTTCAT
*
6388023 AATTTTAATTTCAA
1 AATTTTAATTTCAT
* *
6388037 AAATATAATTTC-T
1 AATTTTAATTTCAT
6388050 ATATTTTAAT
1 A-ATTTTAAT
6388060 AGTATGATAC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
13 1 0.03
14 28 0.97
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (14 bp):
AATTTTAATTTCAT
Found at i:6393951 original size:47 final size:47
Alignment explanation
Indices: 6393846--6394034 Score: 173
Period size: 47 Copynumber: 3.9 Consensus size: 47
6393836 TGTGATTTCT
* * * *
6393846 GTATAAGACCATAGCTGGGCTATGGCTTCAGAGAAATGTGATATGTGCTTCC
1 GTATAAGACCATATCTGGGATATGGCATC-G-G---TGTGATATGTGCTACC
* *
6393898 GTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACC
* * * *
6393945 GTATAAGACCATTTATGGGATATGGCATCAGTGTGATATGTGAT-CC
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACC
* ** * *
6393991 GTGTAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 GTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG
6394035 ACTATGTGCA
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
46 25 0.22
47 53 0.46
48 11 0.09
50 1 0.01
51 1 0.01
52 25 0.22
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACC
Found at i:6396022 original size:21 final size:21
Alignment explanation
Indices: 6395997--6396061 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
6395987 TAGCCTTCGG
*
6395997 GCTTCCGTTTAGCACTTATAT
1 GCTTCCGTTTAGCACTTATGT
* * * *
6396018 GCTTCAG-TTAG-GCTT-CGG
1 GCTTCCGTTTAGCACTTATGT
6396036 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
6396057 GCTTC
1 GCTTC
6396062 AGTTAGACTT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 6 0.19
19 7 0.22
20 7 0.22
21 12 0.38
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:6396034 original size:39 final size:39
Alignment explanation
Indices: 6395979--6396079 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
6395969 GCTCTGGTGA
*
6395979 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATAT
1 GCTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATAT
* *
6396018 GCTTCAGTTAGGCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATAT
6396057 GCTTCAGTTAGACTTCGGGCTTC
1 GCTTCAGTTAGACTTCGGGCTTC
6396080 AGATCACGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATAT
Found at i:6396080 original size:18 final size:18
Alignment explanation
Indices: 6395979--6396081 Score: 71
Period size: 18 Copynumber: 5.4 Consensus size: 18
6395969 GCTCTGGTGA
*
6395979 GCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGACTTCGG
* ***
6395997 GCTTCCGTTTAGCACTTATAT
1 GCTTCAG-TTAG-ACTT-CGG
*
6396018 GCTTCAGTTAGGCTTCGG
1 GCTTCAGTTAGACTTCGG
* * *
6396036 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAG-ACTT-CGG
6396057 GCTTCAGTTAGACTTCGG
1 GCTTCAGTTAGACTTCGG
6396075 GCTTCAG
1 GCTTCAG
6396082 ATCACGATGT
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
18 20 0.32
19 15 0.24
20 14 0.23
21 13 0.21
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (18 bp):
GCTTCAGTTAGACTTCGG
Found at i:6398706 original size:122 final size:123
Alignment explanation
Indices: 6398535--6398773 Score: 363
Period size: 122 Copynumber: 2.0 Consensus size: 123
6398525 CGATAATCAG
* * *
6398535 GGTATTCATCATTGATAGCAGTGATTAATTTTCTAACCGTGGATACTTTCTGAAAAGTTAAATGA
1 GGTATCCATCATCGATAGCAGTGATTAATCTTCTAACCGTGGATACTTTCTGAAAAGTTAAATGA
* *
6398600 ATGACAATAAAATGTGTTCCATTTTCGTGAGCAGGA-TTAAAAATTATTTTTCTTGTC
66 ATGACAATAAAATGTATTCCATTTTCATGAGCAGGAGTTAAAAATTATTTTTCTTGTC
* ** * *
6398657 GGTATCCATCATCGGTAGCAGTGATTAATCTTCTAATTGTGGATGCTTTCTGAAAAGTTAAATGG
1 GGTATCCATCATCGATAGCAGTGATTAATCTTCTAACCGTGGATACTTTCTGAAAAGTTAAATGA
* *
6398722 TTGACAATAAAATGTATTCCATTTTCATGAGCGGGAGTTAAAAATTATTTTT
66 ATGACAATAAAATGTATTCCATTTTCATGAGCAGGAGTTAAAAATTATTTTT
6398774 AAATTATTCG
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
122 89 0.86
123 15 0.14
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (123 bp):
GGTATCCATCATCGATAGCAGTGATTAATCTTCTAACCGTGGATACTTTCTGAAAAGTTAAATGA
ATGACAATAAAATGTATTCCATTTTCATGAGCAGGAGTTAAAAATTATTTTTCTTGTC
Found at i:6400912 original size:14 final size:15
Alignment explanation
Indices: 6400893--6400921 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6400883 ATAAAGCCAA
6400893 TTCACT-TTACTTCC
1 TTCACTATTACTTCC
6400907 TTCACTATTACTTCC
1 TTCACTATTACTTCC
6400922 ATTATTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.48
Consensus pattern (15 bp):
TTCACTATTACTTCC
Found at i:6402476 original size:71 final size:72
Alignment explanation
Indices: 6402359--6402566 Score: 260
Period size: 71 Copynumber: 2.9 Consensus size: 72
6402349 CCAGATACTT
* ** * *
6402359 CAAAGATGATAACTCCCCTATAGACAATGGAA-AAGTACTATTTAATTGATTTTCTGAAACATCA
1 CAAAGATGATAACTCCCCTATCGACAATGGAATTTG-ACCATTTAATTGATTTTCTGAAAAATCA
*
6402423 AATAACTC
65 AACAACTC
*
6402431 CAAAGATGATAACT-CCCTATCGACAATGGAATTTGACCATTTAATTGATTTTCTGAAATATCAA
1 CAAAGATGATAACTCCCCTATCGACAATGGAATTTGACCATTTAATTGATTTTCTGAAAAATCAA
6402495 ACAACTC
66 ACAACTC
* * ** * *
6402502 CAAAGATGATAACTGCCCTA-CAGACAAGGGAATTTGGTCGTTTACTTGATTTTCTGAAAAATCA
1 CAAAGATGATAACTCCCCTATC-GACAATGGAATTTGACCATTTAATTGATTTTCTGAAAAATCA
6402566 A
65 A
6402567 GGTGAGTAGC
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
71 64 0.53
72 57 0.47
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (72 bp):
CAAAGATGATAACTCCCCTATCGACAATGGAATTTGACCATTTAATTGATTTTCTGAAAAATCAA
ACAACTC
Found at i:6405494 original size:21 final size:22
Alignment explanation
Indices: 6405465--6405510 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
6405455 TATTCAGACA
* *
6405465 AGTGATACTCCACAGCAGGTGG
1 AGTGATACTCCAAAACAGGTGG
6405487 AGTG-TACTCCAAAACAGGTGG
1 AGTGATACTCCAAAACAGGTGG
6405508 AGT
1 AGT
6405511 TTGAGCAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTGATACTCCAAAACAGGTGG
Found at i:6411625 original size:18 final size:17
Alignment explanation
Indices: 6411601--6411648 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
6411591 CAAACAAACC
*
6411601 ATTTTAACAATTAATTAA
1 ATTTTAACAATTAA-AAA
*
6411619 TTTTTAA-AATTTAAAAA
1 ATTTTAACAA-TTAAAAA
6411636 ATTTTAACAATTA
1 ATTTTAACAATTA
6411649 TTTTTAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTAACAATTAAAAA
Done.