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 40 of 328
Found at i:11701825 original size:28 final size:30
Alignment explanation
Indices: 11701764--11701828 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
11701754 ATTGTTTATC
11701764 AATTTGATCATTATTATCTTTTTTAGCTAA
1 AATTTGATCATTATTATCTTTTTTAGCTAA
* *
11701794 AATTTG-TCTTTATTAT-TATTTTTAG-TTA
1 AATTTGATCATTATTATCT-TTTTTAGCTAA
11701822 AATTTGA
1 AATTTGA
11701829 CTCTTAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 9 0.29
29 16 0.52
30 6 0.19
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (30 bp):
AATTTGATCATTATTATCTTTTTTAGCTAA
Found at i:11702009 original size:26 final size:24
Alignment explanation
Indices: 11701978--11702027 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
11701968 ATTTTAAAAA
11701978 AAAATTATGAACTTTTTTTAATTTTT
1 AAAATT-T-AACTTTTTTTAATTTTT
* *
11702004 AAAATTTAATTTTTTTTTATTTTT
1 AAAATTTAACTTTTTTTAATTTTT
11702028 GAGTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 1 0.05
26 6 0.27
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
AAAATTTAACTTTTTTTAATTTTT
Found at i:11705576 original size:26 final size:25
Alignment explanation
Indices: 11705538--11705595 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
11705528 ATTTAGTTTC
*
11705538 TAAAAATATTTTTTATTTTCATTTT
1 TAAAAATAATTTTTATTTTCATTTT
*
11705563 TAAAAACTAATTTTTATTTTTATTTT
1 TAAAAA-TAATTTTTATTTTCATTTT
*
11705589 TTAAAAT
1 TAAAAAT
11705596 TGAAAAGCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TAAAAATAATTTTTATTTTCATTTT
Found at i:11705583 original size:27 final size:24
Alignment explanation
Indices: 11705529--11705595 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 24
11705519 TGAGGCTCCA
* *
11705529 TTTAGTTTCTAAAAATATTTTTTAT
1 TTTA-TTTTTAAAAATAATTTTTAT
11705554 TTTCATTTTTAAAAACTAATTTTTATT
1 TTT-ATTTTTAAAAA-TAATTTTTA-T
*
11705581 TTTATTTTTTAAAAT
1 TTTATTTTTAAAAAT
11705596 TGAAAAGCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 13 0.36
26 19 0.53
27 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (24 bp):
TTTATTTTTAAAAATAATTTTTAT
Found at i:11710768 original size:30 final size:30
Alignment explanation
Indices: 11710732--11710790 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
11710722 CTGAGCATTC
* *
11710732 CCACACGGGCTGGCCACACGCCCGTGTGAG
1 CCACACGAGCTGGCCACACGCCCATGTGAG
* *
11710762 CCACACGAGCTTGCTACACGCCCATGTGA
1 CCACACGAGCTGGCCACACGCCCATGTGA
11710791 CAACCCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.14
Consensus pattern (30 bp):
CCACACGAGCTGGCCACACGCCCATGTGAG
Found at i:11711019 original size:22 final size:24
Alignment explanation
Indices: 11710976--11711019 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
11710966 TCCCTCAAGA
*
11710976 TCGAAGATCTTTATTTAATTTCCT
1 TCGAAGATCTTTATTGAATTTCCT
*
11711000 TCGAAG-T-TTTATTGAGTTTC
1 TCGAAGATCTTTATTGAATTTC
11711020 TTTATGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 1 0.06
24 6 0.33
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.50
Consensus pattern (24 bp):
TCGAAGATCTTTATTGAATTTCCT
Found at i:11711663 original size:55 final size:55
Alignment explanation
Indices: 11711589--11711696 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
11711579 ATTTTCCTAT
11711589 TTTATTCTCTGTTGCGTTCTTAGTTAGATTAGTTTAGTAATTTTAGATTAAAACA
1 TTTATTCTCTGTTGCGTTCTTAGTTAGATTAGTTTAGTAATTTTAGATTAAAACA
11711644 TTTATTCTCTGTTGCGTTCTTAGTTAGATTAGTTTAGTAATTTTAGATTAAAA
1 TTTATTCTCTGTTGCGTTCTTAGTTAGATTAGTTTAGTAATTTTAGATTAAAA
11711697 ACAATCACTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (55 bp):
TTTATTCTCTGTTGCGTTCTTAGTTAGATTAGTTTAGTAATTTTAGATTAAAACA
Found at i:11715821 original size:13 final size:13
Alignment explanation
Indices: 11715814--11715847 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11715804 TTTTTTTGTT
11715814 TTTATTTTATTTA
1 TTTATTTTATTTA
*
11715827 TTTATTTTAGTTA
1 TTTATTTTATTTA
*
11715840 CTTATTTT
1 TTTATTTT
11715848 CTTGTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:11717344 original size:16 final size:16
Alignment explanation
Indices: 11717325--11717358 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11717315 CTATTTTTAA
* *
11717325 TTATTTTGTTTTATTT
1 TTATTTTCTTGTATTT
11717341 TTATTTTCTTGTATTT
1 TTATTTTCTTGTATTT
11717357 TT
1 TT
11717359 TAATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (16 bp):
TTATTTTCTTGTATTT
Found at i:11717674 original size:35 final size:35
Alignment explanation
Indices: 11717628--11717696 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
11717618 CTTAAGTGTG
11717628 GGGAGGTTAATTATAGAAAATCCCTAAATTATGTA
1 GGGAGGTTAATTATAGAAAATCCCTAAATTATGTA
11717663 GGGAGGTTAATTATAGAAAATCCCTAAATTATGT
1 GGGAGGTTAATTATAGAAAATCCCTAAATTATGT
11717697 TTTGTATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (35 bp):
GGGAGGTTAATTATAGAAAATCCCTAAATTATGTA
Found at i:11721154 original size:34 final size:35
Alignment explanation
Indices: 11721111--11721188 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
11721101 AGACCATATC
* *
11721111 AGAATGTCATATTACCATAAACATATATTAGAT-A
1 AGAATGTCATATTACCAGAAACATATATCAGATCA
* *
11721145 AGAATGTCATATTTCTAGAAACATATATCAGATCA
1 AGAATGTCATATTACCAGAAACATATATCAGATCA
11721180 A-AATGTCAT
1 AGAATGTCAT
11721189 TTCAAATCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (35 bp):
AGAATGTCATATTACCAGAAACATATATCAGATCA
Found at i:11721790 original size:49 final size:49
Alignment explanation
Indices: 11721737--11721889 Score: 137
Period size: 49 Copynumber: 3.1 Consensus size: 49
11721727 CCGTATGACT
* *
11721737 CACACGACCTATTTGATTTACCCGTGTAATCACACATGCCCATGTGCCC
1 CACACGACCTAATTGATTTACCCATGTAATCACACATGCCCATGTGCCC
* ** * * * *
11721786 CACACGGCCTACCTGATTTGCCCATGTAATCTCATATGTCCATGTGCCC
1 CACACGACCTAATTGATTTACCCATGTAATCACACATGCCCATGTGCCC
* * ** * * *
11721835 CATAC-AGCCTAATTGATTTATCCACATAATCACACACGGCCGTGTGCCC
1 CACACGA-CCTAATTGATTTACCCATGTAATCACACATGCCCATGTGCCC
11721884 TCACAC
1 -CACAC
11721890 AGCCGTGTGA
Statistics
Matches: 80, Mismatches: 22, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
49 76 0.95
50 4 0.05
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (49 bp):
CACACGACCTAATTGATTTACCCATGTAATCACACATGCCCATGTGCCC
Found at i:11723173 original size:90 final size:90
Alignment explanation
Indices: 11723020--11723212 Score: 280
Period size: 90 Copynumber: 2.1 Consensus size: 90
11723010 GGATGTGACA
* * * * * *
11723020 GGTGGTTCATTCC-CAAATTTTCTGGTAGCTCTTATCTGCAAATACGTTGTGCATTCACAACCTT
1 GGTGGTTCA-TCCAAAAATATTCTGGCAACTCTTATCTACAAAAACGTTGTGCATTCACAACCTT
*
11723084 CTGGCAGCGTAATAACCTACAACTTT
65 CTGGCAGCGTAATAACCTACAACTCT
*
11723110 GGTGGTTCATCCAAAAATATTCTGGCAACTTTTATCTACAAAAACGTTGTGCATTCACAACCTTC
1 GGTGGTTCATCCAAAAATATTCTGGCAACTCTTATCTACAAAAACGTTGTGCATTCACAACCTTC
* *
11723175 TGGCAGTGTAATAACCTGCAACTCT
66 TGGCAGCGTAATAACCTACAACTCT
11723200 GGTGGTTCATCCA
1 GGTGGTTCATCCA
11723213 CAACACAGTG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 3 0.03
90 89 0.97
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (90 bp):
GGTGGTTCATCCAAAAATATTCTGGCAACTCTTATCTACAAAAACGTTGTGCATTCACAACCTTC
TGGCAGCGTAATAACCTACAACTCT
Found at i:11726073 original size:49 final size:51
Alignment explanation
Indices: 11725856--11726160 Score: 264
Period size: 54 Copynumber: 5.7 Consensus size: 51
11725846 GTTGTGTGAT
*
11725856 GGCCATTGACAGGCCAGCACCAAAAAAATTTAATTTTTTTTTGTACTTGGTGCT
1 GGCCATTGACAGGCCAGCACC--AAAAATTT-ATTTTTTTTTGTACTTGGTGCC
* * *
11725910 GGCCATTGATAAGCCAGCACCAAAAACTTT-TTTTTTTGAAACTCGTACTCTGGTGCC
1 GGCCATTGACAGGCCAGCACCAAAAA-TTTATTTTTTT-----TTGTACT-TGGTGCC
** * *
11725967 GATCATTGACAAGG-CAGCATCAAAAAAATTTTATTTTTTTTTGTATTTGGTGCC
1 GGCCATTGAC-AGGCCAGCA-C-CAAAAA-TTTATTTTTTTTTGTACTTGGTGCC
*
11726021 GGCCATTGACAGGCCAGCACCAAAAA-TTATTTTTTTTT-TACTTGGTGTC
1 GGCCATTGACAGGCCAGCACCAAAAATTTATTTTTTTTTGTACTTGGTGCC
*
11726070 GGCCATTGACAGGCCAGCACCAAAAATAATT-TTTTTTTAGAAACTCGTACTCTGGTGCC
1 GGCCATTGACAGGCCAGCACCAAAAAT--TTATTTTTTT------TTGTACT-TGGTGCC
11726129 GGCCATTGACAGGCCAGCACC-AAAATTT-TTTT
1 GGCCATTGACAGGCCAGCACCAAAAATTTATTTT
11726161 AAATACTGAT
Statistics
Matches: 209, Mismatches: 19, Indels: 44
0.77 0.07 0.16
Matches are distributed among these distances:
49 35 0.17
50 12 0.06
51 14 0.07
52 12 0.06
53 7 0.03
54 39 0.19
55 5 0.02
56 12 0.06
57 19 0.09
58 12 0.06
59 35 0.17
60 7 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (51 bp):
GGCCATTGACAGGCCAGCACCAAAAATTTATTTTTTTTTGTACTTGGTGCC
Found at i:11726860 original size:2 final size:2
Alignment explanation
Indices: 11726853--11726889 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11726843 TTTTAGTGTA
11726853 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11726890 ATCTATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11727703 original size:77 final size:79
Alignment explanation
Indices: 11727609--11727767 Score: 250
Period size: 77 Copynumber: 2.0 Consensus size: 79
11727599 CCACCAAATG
* * * *
11727609 TGACGGAATTATTTGAGAACGTCATTTGACTCGATTCGTTACTGCTTTC-ATCGGCAATCAATGT
1 TGACGGAACTACTTGAGAACGCCATTTGACTCGATTCATTACTGCTTTCGATCGGCAATCAATGT
11727673 GTTTTGGCTATT-T
66 GTTTTGGCTATTCT
* *
11727686 TGACGGAACTACTTGAGAGCGCCATTTGACTCGATTCATTACTGCTTTCGATTGGCAATCAATGT
1 TGACGGAACTACTTGAGAACGCCATTTGACTCGATTCATTACTGCTTTCGATCGGCAATCAATGT
11727751 GTTTTGGCTATTCT
66 GTTTTGGCTATTCT
11727765 TGA
1 TGA
11727768 TATTAAGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
77 44 0.59
78 26 0.35
79 4 0.05
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (79 bp):
TGACGGAACTACTTGAGAACGCCATTTGACTCGATTCATTACTGCTTTCGATCGGCAATCAATGT
GTTTTGGCTATTCT
Found at i:11728656 original size:2 final size:2
Alignment explanation
Indices: 11728649--11728684 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11728639 GTATTAACAA
11728649 AT 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 AT
11728685 TTGAATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11730221 original size:216 final size:218
Alignment explanation
Indices: 11729847--11730280 Score: 854
Period size: 216 Copynumber: 2.0 Consensus size: 218
11729837 TTATTTCGAT
11729847 AAAAAAATAATATATTTTTTCTTTAAAACACCTTTCTACCACAAAAATTTTTTTTATATTGATCT
1 AAAAAAATAATATATTTTTTCTTTAAAACACCTTTCTACCACAAAAATTTTTTTTATATTGATCT
11729912 GCCTCAATAATTTAACTACAATAACTTTGATTTAACATTTATAGTATTTTATTAACTTATTTTAT
66 GCCTCAATAATTTAACTACAATAACTTTGATTTAACATTTATAGTATTTTATTAACTTATTTTAT
11729977 TTTAAAAATACATATTTAATGGCGACTGTATATTCCAACTTACAAATTGATAAATTTATTATTTA
131 TTTAAAAATACATATTTAATGGCGACTGTATATTCCAACTTACAAATTGATAAATTTATTATTTA
11730042 TTTTCCAACAACTTAGGAAAAAA
196 TTTTCCAACAACTTAGGAAAAAA
11730065 AAAAAAATAATATA-TTTTTCTTTAAAACACCTTTCTACCACAAAAA-TTTTTTTATATTGATCT
1 AAAAAAATAATATATTTTTTCTTTAAAACACCTTTCTACCACAAAAATTTTTTTTATATTGATCT
11730128 GCCTCAATAATTTAACTACAATAACTTTGATTTAACATTTATAGTATTTTATTAACTTATTTTAT
66 GCCTCAATAATTTAACTACAATAACTTTGATTTAACATTTATAGTATTTTATTAACTTATTTTAT
11730193 TTTAAAAATACATATTTAATGGCGACTGTATATTCCAACTTACAAATTGATAAATTTATTATTTA
131 TTTAAAAATACATATTTAATGGCGACTGTATATTCCAACTTACAAATTGATAAATTTATTATTTA
11730258 TTTTCCAACAACTTAGGAAAAAA
196 TTTTCCAACAACTTAGGAAAAAA
11730281 TTAAAAAACA
Statistics
Matches: 216, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
216 170 0.79
217 32 0.15
218 14 0.06
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (218 bp):
AAAAAAATAATATATTTTTTCTTTAAAACACCTTTCTACCACAAAAATTTTTTTTATATTGATCT
GCCTCAATAATTTAACTACAATAACTTTGATTTAACATTTATAGTATTTTATTAACTTATTTTAT
TTTAAAAATACATATTTAATGGCGACTGTATATTCCAACTTACAAATTGATAAATTTATTATTTA
TTTTCCAACAACTTAGGAAAAAA
Found at i:11731567 original size:11 final size:11
Alignment explanation
Indices: 11731536--11731577 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
11731526 CATGTTGTGC
11731536 TTGTATTTTTCT
1 TTGT-TTTTTCT
**
11731548 TTGCATTTTCT
1 TTGTTTTTTCT
11731559 TTGTTTTTT-T
1 TTGTTTTTTCT
11731569 TTGTTTTTT
1 TTGTTTTTT
11731578 TTGCATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 10 0.38
11 13 0.50
12 3 0.12
ACGTcount: A:0.05, C:0.07, G:0.10, T:0.79
Consensus pattern (11 bp):
TTGTTTTTTCT
Found at i:11731698 original size:22 final size:21
Alignment explanation
Indices: 11731638--11731699 Score: 52
Period size: 26 Copynumber: 2.7 Consensus size: 21
11731628 CTTTAATTCT
*
11731638 TTATTTTTATAATATTATTAA
1 TTATTTTAATAATATTATTAA
*
11731659 TTAATTTAAATAGTTAATATTATTAA
1 TT-ATTT---TA-ATAATATTATTAA
11731685 TTATTTTAACTAATA
1 TTATTTTAA-TAATA
11731700 ATTTGATGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
21 2 0.06
22 11 0.34
25 5 0.16
26 14 0.44
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TTATTTTAATAATATTATTAA
Found at i:11732707 original size:19 final size:20
Alignment explanation
Indices: 11732683--11732726 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
11732673 TTTCAATTTA
* *
11732683 AAAAT-AAATAAAAAGTTAC
1 AAAATAAAAAAAAAAATTAC
11732702 AAAATACAAAAAAAAAATTAC
1 AAAATA-AAAAAAAAAATTAC
11732723 AAAA
1 AAAA
11732727 GAGAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
21 16 0.76
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAATAAAAAAAAAAATTAC
Found at i:11733380 original size:5 final size:5
Alignment explanation
Indices: 11733370--11733397 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11733360 TGCTGCTTCC
11733370 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
11733398 TCCCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:11743297 original size:72 final size:71
Alignment explanation
Indices: 11743164--11743297 Score: 241
Period size: 72 Copynumber: 1.9 Consensus size: 71
11743154 TAAGGGCTTT
11743164 TGGACTTTTGACCTGACTTATATATTTTTGAACTCATTTATTATGTGTTTTACAACCCAATTACT
1 TGGACTTTTGACCTGACTTATATATTTTTGAACTCATTTATTATGTGTTTTACAACCCAATTACT
11743229 TAAGTG
66 TAAGTG
* *
11743235 TGGACTTTTGACCTGACTTATTTATTTTTGAAACTCATTTATTATGTTTTTTACAACCCAATT
1 TGGACTTTTGACCTGACTTATATATTTTTG-AACTCATTTATTATGTGTTTTACAACCCAATT
11743298 GAGTAATTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
71 29 0.48
72 31 0.52
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (71 bp):
TGGACTTTTGACCTGACTTATATATTTTTGAACTCATTTATTATGTGTTTTACAACCCAATTACT
TAAGTG
Found at i:11743866 original size:68 final size:67
Alignment explanation
Indices: 11743771--11743898 Score: 202
Period size: 68 Copynumber: 1.9 Consensus size: 67
11743761 AGACTTAAGT
* *
11743771 GTGGACTTTTGACCTGATTTATATATTTTTGGACTCATTTATTATGTGTTTTACAACCCAAGCTG
1 GTGGACTTTTGACCTGACTTATATATTTTTGAACTCATTTATTATGT-TTTTACAACCCAAGCTG
11743836 AGA
65 AGA
* * *
11743839 GTGGAGTTTTGACCTGACTTATTTATTTTTGAACTCATTTATTATGTTTTTACGACCCAA
1 GTGGACTTTTGACCTGACTTATATATTTTTGAACTCATTTATTATGTTTTTACAACCCAA
11743899 TTGAATAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
67 12 0.22
68 43 0.78
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (67 bp):
GTGGACTTTTGACCTGACTTATATATTTTTGAACTCATTTATTATGTTTTTACAACCCAAGCTGA
GA
Found at i:11744139 original size:14 final size:15
Alignment explanation
Indices: 11744112--11744140 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11744102 ATAGCACGTA
11744112 TATAATCAATTACAC
1 TATAATCAATTACAC
11744127 TATAATC-ATTACAC
1 TATAATCAATTACAC
11744141 CATTACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (15 bp):
TATAATCAATTACAC
Found at i:11744849 original size:46 final size:46
Alignment explanation
Indices: 11744781--11744883 Score: 197
Period size: 46 Copynumber: 2.2 Consensus size: 46
11744771 CCCATTCCAT
11744781 ATATTCTATAGCTCCTTACAGTGTTAATTATGAATTATTAGGTATTG
1 ATATTC-ATAGCTCCTTACAGTGTTAATTATGAATTATTAGGTATTG
11744828 ATATTCATAGCTCCTTACAGTGTTAATTATGAATTATTAGGTATTG
1 ATATTCATAGCTCCTTACAGTGTTAATTATGAATTATTAGGTATTG
11744874 ATATTCATAG
1 ATATTCATAG
11744884 GAAATAGCAA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 50 0.89
47 6 0.11
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.44
Consensus pattern (46 bp):
ATATTCATAGCTCCTTACAGTGTTAATTATGAATTATTAGGTATTG
Found at i:11750580 original size:36 final size:36
Alignment explanation
Indices: 11750533--11750677 Score: 134
Period size: 35 Copynumber: 4.1 Consensus size: 36
11750523 TACTTACATG
* * * *
11750533 TATGGCTGAATACACAAGGTTGATTATATCATCACA
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
* * *
11750569 TATGGCCGAATATAC-ATGTTCAATATGTCATCATA
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
* * * * *
11750604 TATGACCGAATATACAA-GTTAAATAGAACATCACT
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
* * *
11750639 TATAGCCAAATTTACAA-GTTCAATATATCATCACA
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
11750674 TATG
1 TATG
11750678 TACTTCCCTA
Statistics
Matches: 85, Mismatches: 23, Indels: 3
0.77 0.21 0.03
Matches are distributed among these distances:
35 71 0.84
36 14 0.16
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (36 bp):
TATGGCCGAATATACAAGGTTCAATATATCATCACA
Found at i:11751561 original size:15 final size:15
Alignment explanation
Indices: 11751538--11751567 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11751528 TTAAAAACTC
11751538 TAATACAAAACATAT
1 TAATACAAAACATAT
*
11751553 TAATCCAAAACATAT
1 TAATACAAAACATAT
11751568 CTGTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:11758414 original size:36 final size:36
Alignment explanation
Indices: 11758367--11758511 Score: 134
Period size: 35 Copynumber: 4.1 Consensus size: 36
11758357 TACTTACATG
* * * *
11758367 TATGGCTGAATACACAAGGTTGATTATATCATCACA
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
* * *
11758403 TATGGCCGAATATAC-ATGTTCAATATGTCATCATA
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
* * * * *
11758438 TATGACCGAATATACAA-GTTAAATAGAACATCACT
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
* * *
11758473 TATAGCCAAATTTACAA-GTTCAATATATCATCACA
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
11758508 TATG
1 TATG
11758512 TACTTCCCTA
Statistics
Matches: 85, Mismatches: 23, Indels: 3
0.77 0.21 0.03
Matches are distributed among these distances:
35 71 0.84
36 14 0.16
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (36 bp):
TATGGCCGAATATACAAGGTTCAATATATCATCACA
Found at i:11770746 original size:40 final size:41
Alignment explanation
Indices: 11770674--11770780 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 41
11770664 GTACAAATTG
* ** * *
11770674 TTACACTGGCACGAAGCCTAATACGCACTAAGCTCGATA-A
1 TTACACTAGCACGAAGCCTGCTAGGCACTAAGCCCGATAGA
* *
11770714 TTACACTAGCACGAAACCTGCTAGGCATTAAGCCCGATAGA
1 TTACACTAGCACGAAGCCTGCTAGGCACTAAGCCCGATAGA
*
11770755 -TACAC-CGACACGAAGCCTGCTAGGCA
1 TTACACTAG-CACGAAGCCTGCTAGGCA
11770781 GAAGGCCTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.02
40 54 0.96
41 1 0.02
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.18
Consensus pattern (41 bp):
TTACACTAGCACGAAGCCTGCTAGGCACTAAGCCCGATAGA
Found at i:11776648 original size:40 final size:40
Alignment explanation
Indices: 11776603--11776732 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
11776593 CGGAATATAA
11776603 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
11776643 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
11776683 CTGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
11776723 CCGGATATAA
1 CCGGATATAA
11776733 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 3 0.04
40 71 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:11784702 original size:40 final size:40
Alignment explanation
Indices: 11784657--11784786 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
11784647 CGGAATACAA
11784657 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
11784697 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
11784737 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
11784777 CCGGATATAA
1 CCGGATATAA
11784787 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:11784801 original size:40 final size:40
Alignment explanation
Indices: 11784657--11784820 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
11784647 CGGAATACAA
* **
11784657 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
11784697 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
11784737 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
11784777 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
11784817 CCGG
1 CCGG
11784821 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:11787641 original size:3 final size:3
Alignment explanation
Indices: 11787623--11787691 Score: 84
Period size: 3 Copynumber: 22.3 Consensus size: 3
11787613 AGATATTTAC
* * * *
11787623 TTA TTA TTTA TAA TTA TTA TAA TTA TAA TTA TTA TTT TTA TTA TTTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
11787670 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
11787692 GATTTCAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 50 0.89
4 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:11795339 original size:3 final size:3
Alignment explanation
Indices: 11795333--11795370 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
11795323 TGTCATCATC
*
11795333 ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11795371 AATTTACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:11799693 original size:30 final size:30
Alignment explanation
Indices: 11799658--11799717 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
11799648 TATTTGATTA
*
11799658 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
11799688 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
11799718 CTTGTTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:11799869 original size:11 final size:11
Alignment explanation
Indices: 11799843--11799872 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
11799833 TATATATATT
11799843 TAAAAATAATA
1 TAAAAATAATA
11799854 T-AAAATAATA
1 TAAAAATAATA
11799864 TAAAAATAA
1 TAAAAATAA
11799873 ATACGGGCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:11803346 original size:10 final size:10
Alignment explanation
Indices: 11803324--11803375 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
11803314 AAATCTGTCG
*
11803324 AAAA-TAATA
1 AAAATTAATT
*
11803333 AAAATTAATC
1 AAAATTAATT
11803343 AAAATTAATTAT
1 AAAATTAA-T-T
11803355 AAAATTAATT
1 AAAATTAATT
*
11803365 AAAATTCATT
1 AAAATTAATT
11803375 A
1 A
11803376 TGTTAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 23 0.62
11 2 0.05
12 8 0.22
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:11803360 original size:22 final size:22
Alignment explanation
Indices: 11803333--11803376 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11803323 GAAAATAATA
11803333 AAAATTAATCAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
* *
11803355 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTAATTAT
11803377 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:11807802 original size:17 final size:17
Alignment explanation
Indices: 11807780--11807835 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
11807770 TTTTGCTTTG
11807780 TTCTTTTTCTTTGTTTT
1 TTCTTTTTCTTTGTTTT
11807797 TTC--TTTCTTTCGTTTT
1 TTCTTTTTCTTT-GTTTT
* *
11807813 TTGTTTATCTTTGTTTT
1 TTCTTTTTCTTTGTTTT
11807830 TT-TTTT
1 TTCTTTT
11807836 ATGTTTATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 7 0.21
16 10 0.30
17 10 0.30
18 6 0.18
ACGTcount: A:0.02, C:0.11, G:0.07, T:0.80
Consensus pattern (17 bp):
TTCTTTTTCTTTGTTTT
Found at i:11807823 original size:18 final size:17
Alignment explanation
Indices: 11807787--11807837 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
11807777 TTGTTCTTTT
*
11807787 TCTTTGTTTTTT-CTT-
1 TCTTTGTTTTTTGTTTA
11807802 TCTTTCGTTTTTTGTTTA
1 TCTTT-GTTTTTTGTTTA
*
11807820 TCTTTGTTTTTTTTTTA
1 TCTTTGTTTTTTGTTTA
11807837 T
1 T
11807838 GTTTATTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 5 0.16
16 7 0.23
17 14 0.45
18 5 0.16
ACGTcount: A:0.04, C:0.10, G:0.08, T:0.78
Consensus pattern (17 bp):
TCTTTGTTTTTTGTTTA
Found at i:11807829 original size:16 final size:15
Alignment explanation
Indices: 11807785--11807852 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
11807775 CTTTGTTCTT
11807785 TTTCTTTGTTTTTTC
1 TTTCTTTGTTTTTTC
*
11807800 TTTCTTTCGTTTTTTGT
1 TTTCTTT-GTTTTTT-C
11807817 TTATCTTTGTTTTTT-
1 TT-TCTTTGTTTTTTC
* *
11807832 TTT-TATGTTTATTC
1 TTTCTTTGTTTTTTC
*
11807846 ATTCTTT
1 TTTCTTT
11807853 TTCCTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
13 8 0.19
14 3 0.07
15 11 0.26
16 7 0.16
17 9 0.21
18 5 0.12
ACGTcount: A:0.06, C:0.10, G:0.07, T:0.76
Consensus pattern (15 bp):
TTTCTTTGTTTTTTC
Found at i:11808704 original size:49 final size:48
Alignment explanation
Indices: 11808567--11808714 Score: 158
Period size: 49 Copynumber: 3.0 Consensus size: 48
11808557 TTTTCTCAGA
* *
11808567 TTAAACTTACTTATTTTATTTATTTTTAAATC-TCTCATATATTATTTATA
1 TTAAACTTACTTATTTTATTTA-CTTTAAATCTTC-CATAT-TTATTTATT
** * * *
11808617 TTAAACTTGTTTATTTTA-TTGCTTTAAGTCCTTTCATATGTTATTTATT
1 TTAAACTTACTTATTTTATTTACTTTAAAT-CTTCCATAT-TTATTTATT
*
11808666 TTAAACTTACTTATTTTATTTACTATAAATCTTCCATA-TTATTTATT
1 TTAAACTTACTTATTTTATTTACTTTAAATCTTCCATATTTATTTATT
11808713 TT
1 TT
11808715 GAACAGTTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
47 11 0.14
48 6 0.07
49 39 0.48
50 25 0.31
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58
Consensus pattern (48 bp):
TTAAACTTACTTATTTTATTTACTTTAAATCTTCCATATTTATTTATT
Found at i:11808730 original size:99 final size:99
Alignment explanation
Indices: 11808567--11808769 Score: 227
Period size: 99 Copynumber: 2.1 Consensus size: 99
11808557 TTTTCTCAGA
* * *
11808567 TTAAACTTACTTATTTTATTTATTTTTAAATCTCTCATATATTATTTATATTAAACTTGTTTATT
1 TTAAACTTACTTATTTTATTTATCTATAAATCTCTCACATATTATTTATATTAAACTTGTTTATT
* *
11808632 TTATTGCTTTAAG-TCCTTTCATAT-GTTATTTATT
66 AT-TTACTTTAAGTTCCTTTCATATAG-TATTTATT
* * *
11808666 TTAAACTTACTTATTTTATTTA-CTATAAATCT-TC-CATATTATTTATTTTGAACAGTTTTATT
1 TTAAACTTACTTATTTTATTTATCTATAAATCTCTCACATATTATTTATATT-AA-ACTTGT-TT
* **
11808728 ATTATTTATTTTAAGTTTTTTTCATATAGTATTTATT
63 ATTATTTACTTTAAGTTCCTTTCATATAGTATTTATT
11808765 TTAAA
1 TTAAA
11808770 TTGTTTTATC
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
96 13 0.15
97 4 0.05
98 20 0.23
99 50 0.57
100 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.58
Consensus pattern (99 bp):
TTAAACTTACTTATTTTATTTATCTATAAATCTCTCACATATTATTTATATTAAACTTGTTTATT
ATTTACTTTAAGTTCCTTTCATATAGTATTTATT
Found at i:11808762 original size:52 final size:52
Alignment explanation
Indices: 11808701--11809070 Score: 317
Period size: 52 Copynumber: 7.2 Consensus size: 52
11808691 TAAATCTTCC
* *
11808701 ATATTATTTATTTTGAACAGTTTTAT-TATTATTTATTTTAAGTTTTTTTCAT
1 ATATTATTTATTTTAAACAGTTTTATATATTATTTATTTTAAATTTTTTT-AT
* ** *
11808753 ATAGTATTTATTTTAAATTGTTTTATCATATTATTTATTTT-AATTTATTT-T
1 ATATTATTTATTTTAAACAGTTTTAT-ATATTATTTATTTTAAATTTTTTTAT
* ** * *
11808804 GTATTA-TTATTTTAAATTG-TTTATATATTATTTACTTTAAATTTCTTTAT
1 ATATTATTTATTTTAAACAGTTTTATATATTATTTATTTTAAATTTTTTTAT
* * * * * * * *
11808854 AAACTATTTATTTCAAACTGTTTTATATTTTATTTATGTTAAAATTTATGTAT
1 ATATTATTTATTTTAAACAGTTTTATATATTATTTAT-TTTAAATTTTTTTAT
* * * * * *
11808907 ATATTGTCTATTCTGAACCA-TTTTATATATTACTTATTTTAATTTTTTTTCAT
1 ATATTATTTATT-TTAAACAGTTTTATATATTATTTATTTTAAATTTTTTT-AT
* * * * *
11808960 ATATTATTTATTTTAAAC-TTTTTATAT-TTTTTTACTTTAAATTGTTTCAT
1 ATATTATTTATTTTAAACAGTTTTATATATTATTTATTTTAAATTTTTTTAT
* * * *
11809010 TTATTATTTATTTTAAA-ACTTTTTTATATTATTTATTTTTAAATTTTTATAT
1 ATATTATTTATTTTAAACAGTTTTATATATTATTTA-TTTTAAATTTTTTTAT
11809062 ATATTATTT
1 ATATTATTT
11809071 TAATTCATTT
Statistics
Matches: 253, Mismatches: 52, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
48 13 0.05
49 13 0.05
50 42 0.17
51 37 0.15
52 77 0.30
53 54 0.21
54 17 0.07
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (52 bp):
ATATTATTTATTTTAAACAGTTTTATATATTATTTATTTTAAATTTTTTTAT
Found at i:11808821 original size:24 final size:24
Alignment explanation
Indices: 11808701--11809073 Score: 258
Period size: 26 Copynumber: 14.7 Consensus size: 24
11808691 TAAATCTTCC
*
11808701 ATATTATTTATTTTGAACAGTTTTAT
1 ATATTATTTATTTT-AA-ATTTTTAT
*
11808727 -TATTATTTATTTTAAGTTTTTTTCAT
1 ATATTATTTATTTTAA--ATTTTT-AT
*
11808753 ATAGTATTTATTTTAAATTGTTTTAT
1 ATATTATTTATTTTAAA-T-TTTTAT
*
11808779 CATATTATTTATTTT-AATTTATTTT
1 -ATATTATTTATTTTAAATTT-TTAT
*
11808804 GTATTA-TTATTTTAAATTGTTTAT
1 ATATTATTTATTTTAAATT-TTTAT
*
11808828 ATATTATTTACTTTAAATTTCTTTAT
1 ATATTATTTATTTTAAA-TT-TTTAT
* * *
11808854 AAACTATTTATTTCAAACTGTTTTAT
1 ATATTATTTATTTTAAA-T-TTTTAT
* *
11808880 ATTTTATTTATGTTAAAATTTATGTAT
1 ATATTATTTAT-TTTAAATTT-T-TAT
* * *
11808907 ATATTGTCTATTCTGAACCA-TTTTAT
1 ATATTATTTATT-TTAA--ATTTTTAT
* *
11808933 ATATTACTTATTTTAATTTTTTTTCAT
1 ATATTATTTATTTTAA--ATTTTT-AT
11808960 ATATTATTTATTTTAAACTTTTTAT
1 ATATTATTTATTTTAAA-TTTTTAT
* *
11808985 AT-TTTTTTACTTTAAATTGTTTCAT
1 ATATTATTTATTTTAAATT-TTT-AT
*
11809010 TTATTATTTATTTTAAAACTTTTT-T
1 ATATTATTTATTTT-AAA-TTTTTAT
11809035 ATATTATTTATTTTTAAATTTTTAT
1 ATATTATTTA-TTTTAAATTTTTAT
11809060 ATA-TA-TTATTTTAA
1 ATATTATTTATTTTAA
11809074 TTCATTTGTC
Statistics
Matches: 279, Mismatches: 40, Indels: 60
0.74 0.11 0.16
Matches are distributed among these distances:
22 6 0.02
23 12 0.04
24 43 0.15
25 60 0.22
26 78 0.28
27 75 0.27
28 4 0.01
29 1 0.00
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (24 bp):
ATATTATTTATTTTAAATTTTTAT
Found at i:11813699 original size:18 final size:18
Alignment explanation
Indices: 11813678--11813722 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11813668 GGCATTCACA
*
11813678 AAAAAGAAAGAA-AGAAAG
1 AAAAA-AAAGAAGAAAAAG
*
11813696 AAAAAAAATAAGAAAAAG
1 AAAAAAAAGAAGAAAAAG
11813714 AAAAAAAAG
1 AAAAAAAAG
11813723 GATTATATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAAAAAGAAGAAAAAG
Found at i:11815311 original size:46 final size:46
Alignment explanation
Indices: 11815213--11815312 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 46
11815203 TAGATCAATG
* * * **
11815213 ATACAAATCCTATACCCCTGAGTTGCAGTGGGCTGGATTGAAGATG
1 ATACAAATCCTATACCCCAGAGTTGCAGTGGGATGGATGGAAGAAA
* *
11815259 ATACAAATCCTATAGCCCAGAGTTTCAGTGGGATGGATGGAA-AAA
1 ATACAAATCCTATACCCCAGAGTTGCAGTGGGATGGATGGAAGAAA
11815304 ATCACAAAT
1 AT-ACAAAT
11815313 TTTATCTCCC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
45 3 0.07
46 43 0.93
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (46 bp):
ATACAAATCCTATACCCCAGAGTTGCAGTGGGATGGATGGAAGAAA
Found at i:11815372 original size:50 final size:50
Alignment explanation
Indices: 11815308--11815440 Score: 203
Period size: 50 Copynumber: 2.7 Consensus size: 50
11815298 GAAAAAATCA
* * *
11815308 CAAATTTTATCTCCCTAAAGTTGCAGTGGAGTATATAGAAGTTACCATGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATAGAAGTTACCATGG
* * * *
11815358 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCGTGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATAGAAGTTACCATGG
11815408 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
11815441 GATTAAAGCC
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (50 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATAGAAGTTACCATGG
Found at i:11815476 original size:44 final size:43
Alignment explanation
Indices: 11815410--11816022 Score: 325
Period size: 44 Copynumber: 13.7 Consensus size: 43
11815400 TATCGTGGCA
*
11815410 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * *
11815453 GAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTAAA-CTTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-TAC
* * * * * * *
11815497 AAGTCTTATCTCCCAGAAGTTGCAATGGGGTAGATTGAAGATAATA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-A-C
* * * * *
11815543 AACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * *
11815586 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-C
* * ** *
11815631 AAATCTCATCTCCCTAAAGTTGCAGTGGAGTGGATTAAACCTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * ** * *
11815675 AGACCTTATCTACCTGAAGTAGCAGTGGAGCAGATGGAAGCCAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * *
11815719 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATAGTG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA--C
* * *
11815765 AATCTTATTTCCCCGAAGTTGCAGTGGAACAGATTAAAGCTACAAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT----A-C
* * *** ** * *
11815813 ATAAATCTTATCTTCCTAAAGTTGCTA-AAAATAAGATTGAAA-ATATG
1 ---AATCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATT-AAAGCTA-C
* * * * *
11815860 AGTCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * * *
11815903 AGATCTTATCTTCCT-AGAGTTGCAGCGGGAGTAAATTGAAGATAAC
1 A-ATCTTATCTCCCTGA-AGTTGCAG-TGGAGCAGATTAAAGCT-AC
** * * * * *
11815949 GAGCCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
*
11815993 GAGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAG
11816023 TGGATCAAAG
Statistics
Matches: 433, Mismatches: 107, Indels: 58
0.72 0.18 0.10
Matches are distributed among these distances:
43 12 0.03
44 240 0.55
45 123 0.28
46 25 0.06
47 3 0.01
49 1 0.00
51 25 0.06
52 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC
Found at i:11815554 original size:45 final size:45
Alignment explanation
Indices: 11815307--11816022 Score: 320
Period size: 44 Copynumber: 15.7 Consensus size: 45
11815297 GGAAAAAATC
* * * * *
11815307 ACAAATTTTATCTCCCTAAAGTTGCAGTGGAGTATATAGAAGTTA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * *
11815352 CCATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCGTG
1 --A---CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG--A---TA
* * * **
11815407 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CC
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * * * *
11815451 ACGAACCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTT-AA-ACTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGA-TA
* * * *
11815495 ACAAGTCTTATCTCCC-AGAAGTTGCAATGGGGTAGATTGAAGATA
1 ACAAATCTTATCTCCCTA-AAGTTGCAGTGGAGCAGATTGAAGATA
* * * *
11815540 ATAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAG-TT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
* * *
11815584 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
* * ** * **
11815629 GCAAATCTCATCTCCCTAAAGTTGCAGTGGAGTGGATTAAACCT-
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * * **
11815673 ACAGACCTTATCTACCTGAAGTAGCAGTGGAGCAGATGGAAG-CC
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
11815717 ATAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
*** * ** * * *
11815762 GTGAATCTTATTTCCCCGAAGTTGCAGTGGAACAGATTAAAGCTACAA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG--A-TA
* *** ** *
11815810 ACCATAAATCTTATCTTCCTAAAGTTGCTA-AAAATAAGATTGAAAAT-
1 A-C--AAATCTTATCTCCCTAAAGTTGC-AGTGGAGCAGATTGAAGATA
** * * * * *
11815857 ATGAGTCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAG-TT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
11815901 ACAGATCTTATCTTCCTAGAGTTGCAGCGGGAGTAAATTGAAGATA
1 ACAAATCTTATCTCCCTAAAGTTGCAG-TGGAGCAGATTGAAGATA
* ** * * * * *
11815947 ACGAGCCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTTGAAG-TT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
* * *
11815991 ACGAGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAG
11816023 TGGATCAAAG
Statistics
Matches: 498, Mismatches: 143, Indels: 59
0.71 0.20 0.08
Matches are distributed among these distances:
43 4 0.01
44 238 0.48
45 128 0.26
46 22 0.04
47 3 0.01
48 1 0.00
49 1 0.00
50 73 0.15
51 26 0.05
52 1 0.00
55 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:11815577 original size:89 final size:89
Alignment explanation
Indices: 11815412--11815751 Score: 294
Period size: 89 Copynumber: 3.8 Consensus size: 89
11815402 TCGTGGCAAA
* * * * ** * * *
11815412 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CCACGAACCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCAGAAGTTGCAATGGAGCAGACTGAAGATAACAAACCTTATCTCCCTAAAGTTGC
* *
11815476 AGTAGAGTAGGTTAAACTTACAAG
66 AGTGGAGCAGGTTAAACTTACAAG
* * * *
11815500 TCTTATCTCCCAGAAGTTGCAATGGGGTAGATTGAAGATAATAAACCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCAGAAGTTGCAATGGAGCAGACTGAAGATAACAAACCTTATCTCCCTAAAGTTGC
* *
11815565 AGTGGAGCAGGTTGAAGTTACAAG
66 AGTGGAGCAGGTTAAACTTACAAG
* * * * *
11815589 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTCATCTCCCTAAAGTTGC
1 TCTTATCTCCCAGAAGTTGCAATGGAGCAGACTGAAGATAACAAACCTTATCTCCCTAAAGTTGC
* *
11815654 AGTGGAG-TGGATTAAACCTAC-AG
66 AGTGGAGCAGG-TTAAACTTACAAG
* * * * * ** * ** *
11815677 ACCTTATCTACCTGAAGTAGCAGTGGAGCAGA-TGGAAG-CCATAAGTCTTATCTCCCTGAAGTT
1 -TCTTATCTCCCAGAAGTTGCAATGGAGCAGACT-GAAGATAACAAACCTTATCTCCCTAAAGTT
*
11815740 GTAGTGGAGCAG
64 GCAGTGGAGCAG
11815752 ACTAAAGATA
Statistics
Matches: 207, Mismatches: 40, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
88 63 0.30
89 144 0.70
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCAGAAGTTGCAATGGAGCAGACTGAAGATAACAAACCTTATCTCCCTAAAGTTGC
AGTGGAGCAGGTTAAACTTACAAG
Found at i:11815605 original size:133 final size:134
Alignment explanation
Indices: 11815408--11816023 Score: 467
Period size: 133 Copynumber: 4.6 Consensus size: 134
11815398 GTTATCGTGG
* * * * *
11815408 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACGAA-CCTTATCTCTCTGAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-AAGTCTTATCTCCCTGAAG
* ** ** * * *
11815472 TTGCAGTAGAGTAGGTTAAACTTA-CAAGTCTTATCTCCCAGAAGTTGCAATGGGGTAGATTGAA
65 TTGCAGTGGAGTAGACTAAAGATAGCAAGTCTTATCTCCCAGAAGTTGCAGTGGAGTAGATTAAA
11815536 GATAA
130 GATAA
* * * *
11815541 TAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGT
* * * * *
11815606 TGCAGTGGAGCAGACTGAAGATAGCAAATCTCATCTCCCTA-AAGTTGCAGTGGAGTGGATTAAA
66 TGCAGTGGAGTAGACTAAAGATAGCAAGTCTTATCTCCC-AGAAGTTGCAGTGGAGTAGATTAAA
**
11815670 CCT-A
130 GATAA
* * * * * *
11815674 CAGACCTTATCTACCTGAAGTAGCAGTGGAGCAGATGGAAGCCATAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGT
* * * * * **
11815739 TGTAGTGGAGCAGACTAAAGATAGTGAA-TCTTATTTCCCCGAAGTTGCAGTGGAACAGATTAAA
66 TGCAGTGGAGTAGACTAAAGATAG-CAAGTCTTATCTCCCAGAAGTTGCAGTGGAGTAGATTAAA
*
11815803 GCTACAAA
130 G--A-TAA
* * * *** ** ** ** *
11815811 CCATAAATCTTATCTTCCTAAAGTTGCTA-AAAATAAGATTGAAAATATGAGTCTTATCTTCCTG
1 -C--AAACCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTG
* * * * * *
11815875 AAGTTGCAGTGGAGTAGATTGAAGTTA-C-AGATCTTATCTTCCTAG-AGTTGCAGCGGGAGTAA
62 AAGTTGCAGTGGAGTAGACTAAAGATAGCAAG-TCTTATC-TCCCAGAAGTTGCAG-TGGAGTAG
*
11815937 ATTGAAGATAA
124 ATTAAAGATAA
* * * * * * *
11815948 CGAGCCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACGAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGT
11816013 TGCAGTGGAGT
66 TGCAGTGGAGT
11816024 GGATCAAAGC
Statistics
Matches: 371, Mismatches: 94, Indels: 35
0.74 0.19 0.07
Matches are distributed among these distances:
132 2 0.01
133 177 0.48
134 91 0.25
135 1 0.00
136 1 0.00
137 4 0.01
138 2 0.01
139 14 0.04
140 78 0.21
141 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (134 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGT
TGCAGTGGAGTAGACTAAAGATAGCAAGTCTTATCTCCCAGAAGTTGCAGTGGAGTAGATTAAAG
ATAA
Found at i:11817419 original size:50 final size:49
Alignment explanation
Indices: 11817365--11817517 Score: 182
Period size: 49 Copynumber: 3.1 Consensus size: 49
11817355 TCAGATACTG
*
11817365 TTTATATTAAACTTACTTATTTTATTTATTTTTAAATCTCTCATATATTA
1 TTTATATTAAACTTACTTATTTTATTTA-TTTTAAATCTTTCATATATTA
** ** * *
11817415 TTTATATTAAACTTGTTTATTTTA-TTGCTTTAAGTCCTTTCATATGTTA
1 TTTATATTAAACTTACTTATTTTATTTATTTTAAAT-CTTTCATATATTA
* *
11817464 TTTATTTTAAACTTACTTATTTTATTTATTATAAATCTTTCATATTATTTA
1 TTTATATTAAACTTACTTATTTTATTTATTTTAAATCTTTCATA-TA-TTA
11817515 TTT
1 TTT
11817518 TGAACAGTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
48 6 0.07
49 42 0.50
50 30 0.36
51 6 0.07
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (49 bp):
TTTATATTAAACTTACTTATTTTATTTATTTTAAATCTTTCATATATTA
Found at i:11817534 original size:99 final size:99
Alignment explanation
Indices: 11817365--11817574 Score: 241
Period size: 99 Copynumber: 2.1 Consensus size: 99
11817355 TCAGATACTG
* *
11817365 TTTATATTAAACTTACTTATTTTATTTATTTTTAAATCTCTCATATATTATTTATATTAAACTTG
1 TTTATTTTAAACTTACTTATTTTATTTATTTATAAATCTCTCA-ATATTATTTATATTAAACTTG
11817430 TTTA-T-TTTATTGCTTTAAGTCCTTTCATAT-GTTA
65 TTTATTATTTATT-CTTTAAGTCCTTTCATATAG-TA
* * *
11817464 TTTATTTTAAACTTACTTATTTTATTTA-TTATAAATCTTTC-ATATTATTTATTTTGAACAGTT
1 TTTATTTTAAACTTACTTATTTTATTTATTTATAAATCTCTCAATATTATTTATATT-AA-ACTT
* * * **
11817527 TTATTATTATTTATTTTTTCAGTTTTTTCATATAGTA
64 GT-TTATTATTTATTCTTTAAGTCCTTTCATATAGTA
11817564 TTTATTTTAAA
1 TTTATTTTAAA
11817575 TTGTTTTATC
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
96 13 0.14
97 2 0.02
98 15 0.16
99 30 0.32
100 28 0.29
101 7 0.07
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (99 bp):
TTTATTTTAAACTTACTTATTTTATTTATTTATAAATCTCTCAATATTATTTATATTAAACTTGT
TTATTATTTATTCTTTAAGTCCTTTCATATAGTA
Found at i:11817553 original size:25 final size:28
Alignment explanation
Indices: 11817505--11817598 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 28
11817495 TAAATCTTTC
11817505 ATATTATTTATTTTGAACAG-TTTT-AT
1 ATATTATTTATTTTGAACAGTTTTTCAT
**
11817531 -TATTATTTATTTT-TTCAGTTTTTTCAT
1 ATATTATTTATTTTGAACAG-TTTTTCAT
* *
11817558 ATAGTATTTATTTT-AA-A-TTGTTTTAT
1 ATATTATTTATTTTGAACAGTT-TTTCAT
11817584 CATATTATTTATTTT
1 -ATATTATTTATTTT
11817599 AATTTATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
24 3 0.05
25 15 0.27
26 9 0.16
27 16 0.29
28 12 0.22
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (28 bp):
ATATTATTTATTTTGAACAGTTTTTCAT
Found at i:11817766 original size:26 final size:25
Alignment explanation
Indices: 11817505--11817876 Score: 190
Period size: 26 Copynumber: 14.7 Consensus size: 25
11817495 TAAATCTTTC
***
11817505 ATATTATTTATTTTGAACAGTTTTAT
1 ATATTATTTATTTT-AATTTTTTTAT
* *
11817531 -TATTATTTATTTTTTCAGTTTTTTCAT
1 ATATTATTTA--TTTT-AATTTTTTTAT
* *
11817558 ATAGTATTTATTTTAAATTGTTTTAT
1 ATATTATTTATTTT-AATTTTTTTAT
*
11817584 CATATTATTTATTTTAATTTATTT-T
1 -ATATTATTTATTTTAATTTTTTTAT
* * * *
11817609 GTATTA-TAATTTTAAATTGTTTAT
1 ATATTATTTATTTTAATTTTTTTAT
* **
11817633 ATATTATTTACTTTAAATTGCTTTAT
1 ATATTATTTA-TTTTAATTTTTTTAT
* * * * *
11817659 AAACTATTTATTTCAAACTGTTTTAT
1 ATATTATTTATTT-TAATTTTTTTAT
* * ** * *
11817685 ATTTTATTTATGTTAAAATTTATGT
1 ATATTATTTATTTTAATTTTTTTAT
* **
11817710 ATA-TATTGTATTCTGAA-CATTTTAT
1 ATATTATT-TATT-TTAATTTTTTTAT
*
11817735 ATATTACTTATTTTAATTTTTTTCAT
1 ATATTATTTATTTTAATTTTTTT-AT
*
11817761 ATATTATTTATTTTAAACTTTTTT-T
1 ATATTATTTATTTT-AATTTTTTTAT
* ** *
11817786 AT-TT-TTTACTTTAAATAGTTTCAT
1 ATATTATTTA-TTTTAATTTTTTTAT
* *
11817810 TTATTATTTATTTTAAAATTTTTT-T
1 ATATTATTTATTTT-AATTTTTTTAT
11817835 ATATTATTTATTTTTAATTTTTTTAT
1 ATATTATTTA-TTTTAATTTTTTTAT
*
11817861 ATA-TA-GTATTTTAATT
1 ATATTATTTATTTTAATT
11817877 CATTTGTTTT
Statistics
Matches: 260, Mismatches: 65, Indels: 45
0.70 0.18 0.12
Matches are distributed among these distances:
23 30 0.12
24 27 0.10
25 69 0.27
26 95 0.37
27 31 0.12
28 8 0.03
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (25 bp):
ATATTATTTATTTTAATTTTTTTAT
Found at i:11817799 original size:49 final size:49
Alignment explanation
Indices: 11817405--11817864 Score: 183
Period size: 49 Copynumber: 9.2 Consensus size: 49
11817395 TTTAAATCTC
* * ** * **
11817405 TCATATATTATTTATATTAAAC-TTGTTTATTTTATTGCTTTAAGTCCTT
1 TCATATATTATTTATTTTAAACTTTTTTTATTTT-TTATTTTAATTTTTT
* * * * * *
11817454 TCATATGTTATTTATTTTAAACTTACTTATT-TTATTTATTATAA-ATCTT
1 TCATATATTATTTATTTTAAACTT--TTTTTATTTTTTATTTTAATTTTTT
* * * * *
11817503 TC--ATATTATTTATTTTGAACAGTTTTATTATTATTTATTTTTTCAGTTTTT
1 TCATATATTATTTATTTT-AA-ACTTTTTTTATT-TTT-TATTTTAATTTTTT
* *
11817554 TCATATAGTATTTATTTTAAA-TTGTTTTATCATATTATTTATTTTAATTTATT
1 TCATATATTATTTATTTTAAACTT-TTTT-T-AT-TT-TTTATTTTAATTTTTT
* * * * **
11817607 T--TGTATTA-TAATTTTAAA-TTGTTTATATATTATTTACTTTAAATTGCTT
1 TCATATATTATTTATTTTAAACTT-TTT-T-TATTTTTTA-TTTTAATTTTTT
* * * * * ** *
11817656 T-ATAAACTATTTATTTCAAACTGTTTTATATTTTATTTATGTTAAAATTTA
1 TCATATATTATTTATTTTAAACT-TTTTTTA-TTT-TTTATTTTAATTTTTT
* * * * **
11817707 T-GTATA-TATTGTATTCTGAACATTTTATATATTACTTATTTTAATTTTTT
1 TCATATATTATT-TATTTTAAAC-TTTT-TTTATTTTTTATTTTAATTTTTT
* * **
11817757 TCATATATTATTTATTTTAAACTTTTTTTATTTTTTACTTTAAATAGTT
1 TCATATATTATTTATTTTAAACTTTTTTTATTTTTTATTTTAATTTTTT
* *
11817806 TCATTTATTATTTATTTTAAAATTTTTTTATATTATTTATTTTTAATTTTTT
1 TCATATATTATTTATTTTAAACTTTTTTTAT-TT-TTTA-TTTTAATTTTTT
11817858 T-ATATAT
1 TCATATAT
11817865 AGTATTTTAA
Statistics
Matches: 306, Mismatches: 73, Indels: 62
0.69 0.17 0.14
Matches are distributed among these distances:
47 18 0.06
48 8 0.03
49 86 0.28
50 59 0.19
51 72 0.24
52 32 0.10
53 28 0.09
54 3 0.01
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (49 bp):
TCATATATTATTTATTTTAAACTTTTTTTATTTTTTATTTTAATTTTTT
Found at i:11817865 original size:102 final size:100
Alignment explanation
Indices: 11817452--11817871 Score: 314
Period size: 102 Copynumber: 4.2 Consensus size: 100
11817442 CTTTAAGTCC
* * *
11817452 TTTCATAT-GTTATTTATTTTAAACTTACTTAT-TTTATTTATTATAAATCTTTCA--TATTATT
1 TTTCATATAG-TATTTATTTTAAACTTATTTTTATTTATTTATT-TAAATATTT-ATGTATTATT
* * * *
11817513 TATTTTGAACAGTTTTAT-TATTATTTATTTTTTCAGTTT
63 TATTTT-AAAATTTTTATATATTATTTA-TTTTTAATTTT
* *
11817552 TTTCATATAGTATTTATTTTAAA-TTGTTTTATCATATTATTTATTTTAATTTATTT-TGTATTA
1 TTTCATATAGTATTTATTTTAAACTTATTTT-T-AT-TTATTTA-TTTAA-ATATTTATGTATTA
* * * **
11817615 -TAATTTT-AAATTGTTTATATATTATTTACTTTAAATTGC
61 TTTATTTTAAAATT-TTTATATATTATTTATTTTTAATTTT
* * * *
11817654 TTT-ATAAACTATTTATTTCAAACTGT-TTTATATTTTATTTATGTTAAA-ATTTATGTATATAT
1 TTTCATATAGTATTTATTTTAAACT-TATTTTTA-TTTATTTAT-TTAAATATTTATGTAT-TAT
* * *
11817716 TGTATTCTGAACA-TTTTATATATTACTTA-TTTTAATTTT
62 T-TATT-TTAAAATTTTTATATATTATTTATTTTTAATTTT
* *
11817755 TTTCATATATTATTTATTTTAAACTT-TTTTTATTT-TTTACTTTAAATAGTTTCATTTATTATT
1 TTTCATATAGTATTTATTTTAAACTTATTTTTATTTATTTA-TTTAAATA-TTT-ATGTATTATT
*
11817818 TATTTTAAAATTTTTTTATATTATTTATTTTTAATTTT
63 TATTTTAAAATTTTTATATATTATTTATTTTTAATTTT
*
11817856 TTTATATATAGTATTT
1 TTT-CATATAGTATTT
11817872 TAATTCATTT
Statistics
Matches: 254, Mismatches: 37, Indels: 56
0.73 0.11 0.16
Matches are distributed among these distances:
98 4 0.02
99 23 0.09
100 59 0.23
101 59 0.23
102 68 0.27
103 28 0.11
104 13 0.05
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (100 bp):
TTTCATATAGTATTTATTTTAAACTTATTTTTATTTATTTATTTAAATATTTATGTATTATTTAT
TTTAAAATTTTTATATATTATTTATTTTTAATTTT
Found at i:11817874 original size:75 final size:75
Alignment explanation
Indices: 11817505--11817874 Score: 229
Period size: 75 Copynumber: 4.9 Consensus size: 75
11817495 TAAATCTTTC
* * * * *
11817505 ATATTATTTATTTTGAACAGTTTTAT-TATTATTTATTTTTTCAGTTTTTTCATATAGTATTTAT
1 ATATTATTTATTTT-AAAATTTTTTTATATTATTTA-TTTTT-AATTTTTTTATATA-TA-TTAT
*
11817569 TTTAAATTGTTTTAT
61 TTTAAATAGTTTTAT
* * * * *
11817584 CATATTATTTATTTT--AATTTATTTTGTATTA--TAATTTTAAATTGTTTATATATTATTTACT
1 -ATATTATTTATTTTAAAATTT-TTTTATATTATTTATTTTTAATTTTTTTATATA-TA-TTATT
* *
11817645 TTAAATTGCTTTAT
62 TTAAATAGTTTTAT
* * * * * * ** * * *
11817659 AAACTATTTATTTCAAACTGTTTTATATTTTATTTATGTTAAAATTTATGTATATAT-TGTATTC
1 ATATTATTTATTTTAAAAT-TTTTTTATATTATTTAT-TTTTAATTTTTTTATATATAT-TATTT
* *
11817723 TGAACA-TTTTAT
63 TAAATAGTTTTAT
* * * * *
11817735 ATATTACTTATTTT-AATTTTTTTCATATATTATTTATTTTAAACTTTTTTTAT-T-TTTTACTT
1 ATATTATTTATTTTAAAATTTTTT--TATATTATTTATTTTTAA-TTTTTTTATATATATTATTT
*
11817797 TAAATAGTTTCAT
63 TAAATAGTTTTAT
* *
11817810 TTATTATTTATTTTAAAATTTTTTTATATTATTTATTTTTAATTTTTTTATATATAGTATTTTAA
1 ATATTATTTATTTTAAAATTTTTTTATATTATTTATTTTTAATTTTTTTATATATATTATTTTAA
11817875 TTCATTTGTT
Statistics
Matches: 221, Mismatches: 52, Indels: 39
0.71 0.17 0.12
Matches are distributed among these distances:
73 9 0.04
74 41 0.19
75 65 0.29
76 55 0.25
77 13 0.06
78 6 0.03
79 18 0.08
80 14 0.06
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (75 bp):
ATATTATTTATTTTAAAATTTTTTTATATTATTTATTTTTAATTTTTTTATATATATTATTTTAA
ATAGTTTTAT
Found at i:11826021 original size:10 final size:10
Alignment explanation
Indices: 11826008--11826038 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
11825998 TTACGAGTAA
11826008 TTATGCTTCC
1 TTATGCTTCC
11826018 TTATGCTTCC
1 TTATGCTTCC
*
11826028 TTATACTTCC
1 TTATGCTTCC
11826038 T
1 T
11826039 AAAAAGTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.13, C:0.29, G:0.06, T:0.52
Consensus pattern (10 bp):
TTATGCTTCC
Found at i:11832557 original size:55 final size:55
Alignment explanation
Indices: 11832491--11832599 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
11832481 TCTTTCAAAC
*
11832491 GGTATCATACCCCACAATATAGTGCAAGAAAACCTTTTCTATTTGCATAATTGGT
1 GGTATCATACCCCACAATATAGTGCAAGAAAAACTTTTCTATTTGCATAATTGGT
11832546 GGTATCATACCCCACAATATAGTGCAAGAAAAACTTTTCTATTTGCATAATTGG
1 GGTATCATACCCCACAATATAGTGCAAGAAAAACTTTTCTATTTGCATAATTGG
11832600 CATTGACCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (55 bp):
GGTATCATACCCCACAATATAGTGCAAGAAAAACTTTTCTATTTGCATAATTGGT
Found at i:11834266 original size:78 final size:78
Alignment explanation
Indices: 11834124--11834278 Score: 258
Period size: 78 Copynumber: 2.0 Consensus size: 78
11834114 TAGGTAATAG
* *
11834124 AATGATGTGAGAGGAAGGAAACTTCTTGTTTCTAGATTTTGTGCTATAGATTCTTGTGTACATGT
1 AATGATGTAAGAGGAAGGAAACTTCTTGTTTCTAGATTTTGTGCTATAGATTCTTGCGTACATGT
11834189 TAAGATTTGATAA
66 TAAGATTTGATAA
* *
11834202 AATGGTGTAAGAGGAAGGAAACTTCTTGTTTCTAGATTTTGTGCTATCA-ATTCTTGCGTTCATG
1 AATGATGTAAGAGGAAGGAAACTTCTTGTTTCTAGATTTTGTGCTAT-AGATTCTTGCGTACATG
11834266 TTAAGATTTGATA
65 TTAAGATTTGATA
11834279 GATTAATGAT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 71 0.99
79 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (78 bp):
AATGATGTAAGAGGAAGGAAACTTCTTGTTTCTAGATTTTGTGCTATAGATTCTTGCGTACATGT
TAAGATTTGATAA
Found at i:11835031 original size:27 final size:27
Alignment explanation
Indices: 11834993--11835046 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
11834983 ACACACTGAG
11834993 TTCGTATGAACTTACTCTATTATCTTT
1 TTCGTATGAACTTACTCTATTATCTTT
11835020 TTCGTATGAACTTACTCTATTATCTTT
1 TTCGTATGAACTTACTCTATTATCTTT
11835047 ACCTTCTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (27 bp):
TTCGTATGAACTTACTCTATTATCTTT
Found at i:11837363 original size:36 final size:36
Alignment explanation
Indices: 11837316--11837384 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
11837306 AAGTAAATAC
* *
11837316 TAAACTTACATGAATAAAAACGTCATTTTCTCCTAT
1 TAAACTTACATGAATAAAAACCTAATTTTCTCCTAT
11837352 TAAACTTACATGAATAAAAACCTAATTTTCTCC
1 TAAACTTACATGAATAAAAACCTAATTTTCTCC
11837385 ATTTAAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (36 bp):
TAAACTTACATGAATAAAAACCTAATTTTCTCCTAT
Found at i:11838902 original size:23 final size:23
Alignment explanation
Indices: 11838864--11838909 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11838854 GTCAATCTTT
*
11838864 AAGACTACGAGGATATTTAAGTA
1 AAGACTACGAGAATATTTAAGTA
*
11838887 AAGACTATGAGAATATTTAAGTA
1 AAGACTACGAGAATATTTAAGTA
11838910 CTATATAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (23 bp):
AAGACTACGAGAATATTTAAGTA
Found at i:11841772 original size:31 final size:32
Alignment explanation
Indices: 11841721--11841789 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
11841711 TTATTTATTT
*
11841721 TTTTAAATATATATAATTAAA-TCAAAATTAAAA
1 TTTTAAATATACAT-ATTAAACT-AAAATTAAAA
* *
11841754 TTTTAAATATACAT-TTAAACTATAATTAAAG
1 TTTTAAATATACATATTAAACTAAAATTAAAA
11841785 TTTTA
1 TTTTA
11841790 TGTGTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 18 0.56
32 1 0.03
33 13 0.41
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (32 bp):
TTTTAAATATACATATTAAACTAAAATTAAAA
Found at i:11844412 original size:33 final size:33
Alignment explanation
Indices: 11844370--11844433 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
11844360 ATGCAGTAAC
* *
11844370 AGTCTGGGCCTTAGCCCTATACAGTATCAGTGT
1 AGTCTGGGCCTTAGCCATATACAGTAACAGTGT
11844403 AGTCTGGGCCTTAGCCATATACAGTAACAGT
1 AGTCTGGGCCTTAGCCATATACAGTAACAGT
11844434 ATGGGCCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (33 bp):
AGTCTGGGCCTTAGCCATATACAGTAACAGTGT
Found at i:11844462 original size:28 final size:28
Alignment explanation
Indices: 11844363--11844446 Score: 78
Period size: 33 Copynumber: 2.8 Consensus size: 28
11844353 AAACAGAATG
* * *
11844363 CAGTAACAGTCTGGGCCTTAGCCCTATA
1 CAGTAACAGTATGGGCCTAAGCCATATA
* *
11844391 CAGTATCAGTGTAGTCTGGGCCTTAGCCATATA
1 CAGTAACA--GTA---TGGGCCTAAGCCATATA
11844424 CAGTAACAGTATGGGCCTAAGCC
1 CAGTAACAGTATGGGCCTAAGCC
11844447 TAATTCAGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
28 18 0.39
30 2 0.04
31 3 0.07
33 23 0.50
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTATGGGCCTAAGCCATATA
Found at i:11844667 original size:28 final size:26
Alignment explanation
Indices: 11844602--11844668 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 26
11844592 CAACAATGCT
*
11844602 ACTAATAACAGTAAATGTGGCAAAGCC
1 ACTAAT-ACAGTAAACGTGGCAAAGCC
*
11844629 ACCAA-AGCAGTAACTACGTGGCAAAGCC
1 ACTAATA-CAGTAA--ACGTGGCAAAGCC
11844657 ACTAATACAGTA
1 ACTAATACAGTA
11844669 CTTCCTCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 1 0.03
26 6 0.18
27 4 0.12
28 21 0.64
29 1 0.03
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.16
Consensus pattern (26 bp):
ACTAATACAGTAAACGTGGCAAAGCC
Found at i:11851638 original size:33 final size:33
Alignment explanation
Indices: 11851596--11851666 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
11851586 AAAACCCACT
* *
11851596 CCACAGTCGAGTTTTACAAACTTGGCTCTGATA
1 CCACTGTCGAGTTTTACAAACCTGGCTCTGATA
11851629 CCACTGTCGAGTTTTACAAACCTGGCTCTGATA
1 CCACTGTCGAGTTTTACAAACCTGGCTCTGATA
11851662 CCACT
1 CCACT
11851667 AAATGTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (33 bp):
CCACTGTCGAGTTTTACAAACCTGGCTCTGATA
Found at i:11852384 original size:376 final size:373
Alignment explanation
Indices: 11851691--11852423 Score: 1191
Period size: 376 Copynumber: 2.0 Consensus size: 373
11851681 GAACCCGGCT
* * *
11851691 CAGACGTTATGGCAAAATCCAGTGTGTCACATCGAAGTGTTTTTTAAAAATAAGACTTATCCCTA
1 CAGACGTTATGGCAAAATCCAGCGTGTCACATCGAAGTATTTTTCAAAAATAAGACTTATCCCTA
*
11851756 ACTAATCAAAATTAAGTTAAAACCCTTTCAATTTTTATTGCATGAGAATAATTCGGCAAATTAAG
66 ACTAATCAAAATTAAGTTAAAACCCTTTCAATTTTTATTGCATGAGAATAATTCGACAAATTAAG
*
11851821 TTGTTCCTATTTGAAATCTATTTGTCAAAACGATTGCCATATTTATCTCTGTTGATTCCTTAGAC
131 TTGTTCCTATTTGAAATATATTTGTCAAAACGATTGCCATATTTATCTCTGTTGATTCCTTAGAC
* * *
11851886 TGAATCAAATCGCAGAAGTTTGTAAAGACCTTGCAGTTTAAAATGTGAGTTTTCCTTGAAAACAA
196 TGAATAAAATCACAGAAGCTTGTAAAGACCTTGCAGTTTAAAATGTGAGTTTTCCTTGAAAACAA
*
11851951 TTATTATTTTGAAAACTCATCTTTTCCTAGTCTAGCAGTTTAAGGTAAGAAATCAAAGCCCAAAT
261 TTATTATTTTGAAAACTCATCCTTTCCTAGTCTAGCAGTTTAAGGTAAGAAATCAAAG-CC--AT
*
11852016 TAAATTTAAAACCACAAATGGTCTTATTACATAACTAAATAAAATCCAGCC
323 TAAAGTTAAAACCACAAATGGTCTTATTACATAACTAAATAAAATCCAGCC
* * * *
11852067 CAGACGTTATGGCCAAATTC-GACGTGTCACATCGAAGTATTTTTCGAAAATAGGACTTATCCCT
1 CAGACGTTATGGCAAAATCCAG-CGTGTCACATCGAAGTATTTTTCAAAAATAAGACTTATCCCT
* *
11852131 AA-TAAATCGAAATTAAGTTAAAACCCTTTTAATTTTTATTGCATGAGAATAATTCGACAAATTA
65 AACT-AATCAAAATTAAGTTAAAACCCTTTCAATTTTTATTGCATGAGAATAATTCGACAAATTA
11852195 AGTTGTTCCTATTTGAAATATATTTGTCAAAACGATTGCCATATTTATCTCTGTTGATTCCTTAG
129 AGTTGTTCCTATTTGAAATATATTTGTCAAAACGATTGCCATATTTATCTCTGTTGATTCCTTAG
* *
11852260 ATTGAATAAAATCACAGAAGCTTGTAAAGTCCTTGCAGTTTAAAATGTGAGTTTTCCTTGAAAAC
194 ACTGAATAAAATCACAGAAGCTTGTAAAGACCTTGCAGTTTAAAATGTGAGTTTTCCTTGAAAAC
* * ** *
11852325 AGTTATTGTTTTGAACCCTCATCCTTTCCTAGTCTAGCAGTTTAAGGTAAGAAATCAAAGCCTTT
259 AATTATTATTTTGAAAACTCATCCTTTCCTAGTCTAGCAGTTTAAGGTAAGAAATCAAAGCCATT
*
11852390 AAAGTTAAAATCACAAATGGTCTTATTACATAAC
324 AAAGTTAAAACCACAAATGGTCTTATTACATAAC
11852424 CAAAAACCCA
Statistics
Matches: 331, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
373 34 0.10
375 4 0.01
376 293 0.89
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (373 bp):
CAGACGTTATGGCAAAATCCAGCGTGTCACATCGAAGTATTTTTCAAAAATAAGACTTATCCCTA
ACTAATCAAAATTAAGTTAAAACCCTTTCAATTTTTATTGCATGAGAATAATTCGACAAATTAAG
TTGTTCCTATTTGAAATATATTTGTCAAAACGATTGCCATATTTATCTCTGTTGATTCCTTAGAC
TGAATAAAATCACAGAAGCTTGTAAAGACCTTGCAGTTTAAAATGTGAGTTTTCCTTGAAAACAA
TTATTATTTTGAAAACTCATCCTTTCCTAGTCTAGCAGTTTAAGGTAAGAAATCAAAGCCATTAA
AGTTAAAACCACAAATGGTCTTATTACATAACTAAATAAAATCCAGCC
Found at i:11852656 original size:28 final size:28
Alignment explanation
Indices: 11852612--11852691 Score: 124
Period size: 28 Copynumber: 2.9 Consensus size: 28
11852602 AAACAGAATG
*
11852612 CAGTAACAGTCTCGGCCTTAGCCCTATA
1 CAGTAACAGTCTGGGCCTTAGCCCTATA
11852640 CAGTAACAGTCTGGGCCTTAGCCCTATA
1 CAGTAACAGTCTGGGCCTTAGCCCTATA
* * *
11852668 TAGTAACAGTGTGGGCCTAAGCCC
1 CAGTAACAGTCTGGGCCTTAGCCC
11852692 AATTCAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTTAGCCCTATA
Found at i:11858195 original size:19 final size:18
Alignment explanation
Indices: 11858156--11858198 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
11858146 ACCAAAACAT
11858156 AAAATAACATTAAAATAC
1 AAAATAACATTAAAATAC
*
11858174 AAAATGAACTTTAAAACT-C
1 AAAAT-AACATTAAAA-TAC
11858193 AAAATA
1 AAAATA
11858199 CTTCTTAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 15 0.68
20 1 0.05
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAATAACATTAAAATAC
Found at i:11859216 original size:28 final size:28
Alignment explanation
Indices: 11859184--11859246 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
11859174 CTATAACATC
11859184 ACCATTTCAAAGTCAGTATTTACAGTTT
1 ACCATTTCAAAGTCAGTATTTACAGTTT
*
11859212 ACCATTTCAAAGTCAGTATTTGCAGTTT
1 ACCATTTCAAAGTCAGTATTTACAGTTT
11859240 ACCATTT
1 ACCATTT
11859247 ACTTCCCTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (28 bp):
ACCATTTCAAAGTCAGTATTTACAGTTT
Found at i:11859625 original size:11 final size:11
Alignment explanation
Indices: 11859609--11859660 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
11859599 CACAATTTTA
11859609 CAAAATCTTGC
1 CAAAATCTTGC
11859620 CAAAATCTTGC
1 CAAAATCTTGC
11859631 CAAATAT-TTG-
1 CAAA-ATCTTGC
* *
11859641 -ATAATATTGC
1 CAAAATCTTGC
11859651 CAAAATCTTG
1 CAAAATCTTG
11859661 ATATCAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
8 2 0.06
9 5 0.15
11 25 0.74
12 2 0.06
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (11 bp):
CAAAATCTTGC
Found at i:11861445 original size:23 final size:22
Alignment explanation
Indices: 11861419--11861483 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 22
11861409 TATCACATAT
*
11861419 TTTTATTTTTTTAAAATTTTTTG
1 TTTTATCTTTTT-AAATTTTTTG
11861442 TTTTATCTTTTTAAATTTTTAT-
1 TTTTATCTTTTTAAATTTTT-TG
*
11861464 TTATATATATTTTTAAATTT
1 TT-T-TATCTTTTTAAATTT
11861484 ATGCTTTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 10 0.27
23 13 0.35
24 14 0.38
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATCTTTTTAAATTTTTTG
Found at i:11861498 original size:24 final size:24
Alignment explanation
Indices: 11861449--11861500 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
11861439 TTGTTTTATC
*
11861449 TTTTTAAATTTTTATTTATATATA
1 TTTTTAAATTTTGATTTATATATA
* *
11861473 TTTTTAAATTTATGCTTTATCT-TA
1 TTTTTAAATTT-TGATTTATATATA
11861497 TTTT
1 TTTT
11861501 ATATTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTTAAATTTTGATTTATATATA
Found at i:11863036 original size:25 final size:26
Alignment explanation
Indices: 11862997--11863055 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
11862987 TAATATGCAT
*
11862997 ATATAAAATGGTTTAAAATAAATAAC
1 ATATAAAATGATTTAAAATAAATAAC
* *
11863023 ATATAAAAT-ATTTAGAATAAATAAT
1 ATATAAAATGATTTAAAATAAATAAC
*
11863048 ATGTAAAA
1 ATATAAAA
11863056 GAAACTTGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (26 bp):
ATATAAAATGATTTAAAATAAATAAC
Found at i:11863093 original size:25 final size:25
Alignment explanation
Indices: 11862998--11863093 Score: 61
Period size: 25 Copynumber: 3.7 Consensus size: 25
11862988 AATATGCATA
* **
11862998 TATAAAATGGTTTAAAATAAATAACA
1 TATAAAATCGTTT-AAATAAATAATG
*
11863024 TATAAAAT-ATTTAGAATAAATAATATG
1 TATAAAATCGTTTA-AATAAAT-A-ATG
* * **
11863051 TAAAAGAAAC-TTGGAATAAATAATG
1 TATAA-AATCGTTTAAATAAATAATG
11863076 TATAAAATCGTTTAAATA
1 TATAAAATCGTTTAAATA
11863094 GAAAGATATA
Statistics
Matches: 53, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
24 4 0.08
25 23 0.43
26 10 0.19
27 12 0.23
28 4 0.08
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.32
Consensus pattern (25 bp):
TATAAAATCGTTTAAATAAATAATG
Found at i:11864651 original size:3 final size:3
Alignment explanation
Indices: 11864643--11864704 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
11864633 TACTATTTCC
11864643 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11864691 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
11864705 ATATATACGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11864814 original size:53 final size:53
Alignment explanation
Indices: 11864749--11864857 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
11864739 ATATGTATTA
*
11864749 TATATATTACATAGTATTATTAATAGCTTTTAATATTATTGCTTTTGTTAATG
1 TATATATTACATAGTATTATTAATAGCTTTTAATATTATTGCTTTTATTAATG
11864802 TATATATTACATAGTATTATTAATAGCTTTTAATATTATTGCTTTTATTAATG
1 TATATATTACATAGTATTATTAATAGCTTTTAATATTATTGCTTTTATTAATG
11864855 TAT
1 TAT
11864858 TTGTATGTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (53 bp):
TATATATTACATAGTATTATTAATAGCTTTTAATATTATTGCTTTTATTAATG
Found at i:11865049 original size:21 final size:21
Alignment explanation
Indices: 11865016--11865072 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
11865006 ATATATATAT
* * * *
11865016 TATTATATCTATTTTTATTCC
1 TATTACATATATTTTTAATAC
* *
11865037 TATTACATTTATTATTAATAC
1 TATTACATATATTTTTAATAC
*
11865058 TAGTACATATATTTT
1 TATTACATATATTTT
11865073 ATTATACGTG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.56
Consensus pattern (21 bp):
TATTACATATATTTTTAATAC
Found at i:11877531 original size:79 final size:79
Alignment explanation
Indices: 11877421--11877574 Score: 263
Period size: 79 Copynumber: 1.9 Consensus size: 79
11877411 TTAATTTATA
*
11877421 CTTTTAAAAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGCTGAGGTAATTTC
1 CTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGCTGAGGTAATTTC
11877486 AATTTATGTTTCTG
66 AATTTATGTTTCTG
* * *
11877500 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 CTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGCTGAGGTAATTTC
*
11877565 AATTTCTGTT
66 AATTTATGTT
11877575 CTTCCAATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (79 bp):
CTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGCTGAGGTAATTTC
AATTTATGTTTCTG
Found at i:11877626 original size:99 final size:92
Alignment explanation
Indices: 11877483--11877812 Score: 391
Period size: 85 Copynumber: 3.7 Consensus size: 92
11877473 CTGAGGTAAT
* * **
11877483 TTCAATTTATGTTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTCAATTTCTGTTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
11877548 CACGCTGAGGTATTTTCAATTTCTGTTC
65 CACGCTGAGGTATTTTCAATTTCTGTTC
11877576 TTCCAATTTCTGTTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TT-CAATTTCTG-TTT--TT-AT-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
11877641 TCATGGCACGCTGAGGTATTTTCAATTTCT-ATC
60 TCA-GGCACGCTGAGGTATTTTCAATTTCTGTTC
* * *
11877674 TTTAATTTC------TATTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGC
1 TTCAATTTCTGTTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC
*
11877733 ACGCTGAGGTAATTTCAATTTCTGTT-
66 ACGCTGAGGTATTTTCAATTTCTGTTC
* *
11877759 TTCAATTTATG------TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTCAATTTCTGTTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
11877813 TTTAATTTTT
Statistics
Matches: 213, Mismatches: 14, Indels: 28
0.84 0.05 0.11
Matches are distributed among these distances:
85 73 0.34
86 43 0.20
87 2 0.01
88 1 0.00
93 2 0.01
94 8 0.04
95 3 0.01
97 7 0.03
98 4 0.02
99 68 0.32
100 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (92 bp):
TTCAATTTCTGTTTTTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC
ACGCTGAGGTATTTTCAATTTCTGTTC
Found at i:11877844 original size:54 final size:54
Alignment explanation
Indices: 11877757--11877918 Score: 227
Period size: 54 Copynumber: 3.0 Consensus size: 54
11877747 TCAATTTCTG
11877757 TTTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
1 TTTT-AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
* *
11877812 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
* * * * * *
11877866 TTTTAATATCTATTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTTAATTTATGTTTTTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGC
11877919 TCAAGATCAC
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 3 0.03
54 90 0.93
55 4 0.04
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (54 bp):
TTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
Found at i:11879020 original size:15 final size:15
Alignment explanation
Indices: 11879000--11879029 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11878990 TTACCGAATC
11879000 TGTTTTCTTTTCTTT
1 TGTTTTCTTTTCTTT
*
11879015 TGTTTTTTTTTCTTT
1 TGTTTTCTTTTCTTT
11879030 CTTCTACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (15 bp):
TGTTTTCTTTTCTTT
Found at i:11879865 original size:3 final size:3
Alignment explanation
Indices: 11879857--11879923 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
11879847 TACTATTTCC
11879857 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11879904 ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
11879924 ATATATACGT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11880394 original size:24 final size:21
Alignment explanation
Indices: 11880337--11880398 Score: 52
Period size: 24 Copynumber: 2.6 Consensus size: 21
11880327 TACTATTTTA
*
11880337 TTTTAATATTATTATGTATATAT
1 TTTTAATA-T-TTATGTATACAT
11880360 TTTTCATATATGTTATGTACATACAT
1 TTTT-A-ATAT-TTATGT--ATACAT
11880386 TTTTAATATTTAT
1 TTTTAATATTTAT
11880399 TTTATATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
23 8 0.24
24 12 0.36
25 4 0.12
26 9 0.27
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTTAATATTTATGTATACAT
Found at i:11883293 original size:6 final size:6
Alignment explanation
Indices: 11883282--11883312 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
11883272 TAGTTATTAG
11883282 TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
11883313 AATCAAGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTCTT
Found at i:11886730 original size:29 final size:30
Alignment explanation
Indices: 11886697--11886784 Score: 79
Period size: 31 Copynumber: 2.9 Consensus size: 30
11886687 AACCAAACTT
11886697 TTAAAAAAAAACCTT-AACAACTTAGTGAC
1 TTAAAAAAAAACCTTAAACAACTTAGTGAC
* * * *
11886726 TTAAACAAAAACTTTCAAATAATTTAGTGAC
1 TTAAAAAAAAACCTT-AAACAACTTAGTGAC
** * *
11886757 TTAAATGAAAACTTTCAAACAATTTAGT
1 TTAAAAAAAAACCTT-AAACAACTTAGT
11886785 AACCATTTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 13 0.26
31 37 0.74
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.31
Consensus pattern (30 bp):
TTAAAAAAAAACCTTAAACAACTTAGTGAC
Found at i:11886753 original size:31 final size:31
Alignment explanation
Indices: 11886712--11886784 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
11886702 AAAAAACCTT
*
11886712 AACAACTTAGTGACTTAAACAAAAACTTTCA
1 AACAATTTAGTGACTTAAACAAAAACTTTCA
* **
11886743 AATAATTTAGTGACTTAAATGAAAACTTTCA
1 AACAATTTAGTGACTTAAACAAAAACTTTCA
11886774 AACAATTTAGT
1 AACAATTTAGT
11886785 AACCATTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (31 bp):
AACAATTTAGTGACTTAAACAAAAACTTTCA
Found at i:11887161 original size:29 final size:31
Alignment explanation
Indices: 11887129--11887198 Score: 72
Period size: 36 Copynumber: 2.2 Consensus size: 31
11887119 GGAATTTATG
11887129 ATTT-TGATC-TTTGGTTGATGGAATATAAA
1 ATTTATGATCATTTGGTTGATGGAATATAAA
*
11887158 ATTTATTAAATTATCATTTGGTTGATGGAATATAAA
1 A--T-TT--ATGATCATTTGGTTGATGGAATATAAA
11887194 ATTTA
1 ATTTA
11887199 CTAAATTATC
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
29 1 0.03
31 2 0.06
32 2 0.06
33 2 0.06
34 1 0.03
35 4 0.12
36 21 0.64
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (31 bp):
ATTTATGATCATTTGGTTGATGGAATATAAA
Found at i:11887178 original size:36 final size:36
Alignment explanation
Indices: 11887138--11887211 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
11887128 GATTTTGATC
*
11887138 TTTGGTTGATGGAATATAAAATTTATTAAATTATCA
1 TTTGGTTGATGGAATATAAAATTTACTAAATTATCA
11887174 TTTGGTTGATGGAATATAAAATTTACTAAATTATCA
1 TTTGGTTGATGGAATATAAAATTTACTAAATTATCA
11887210 TT
1 TT
11887212 GTTATAGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.45
Consensus pattern (36 bp):
TTTGGTTGATGGAATATAAAATTTACTAAATTATCA
Found at i:11889373 original size:23 final size:23
Alignment explanation
Indices: 11889279--11889392 Score: 60
Period size: 23 Copynumber: 4.9 Consensus size: 23
11889269 AGTATTTGAG
* *
11889279 AATATATGCATAAGATGATAT-AA
1 AATATATACATAATAT-ATATAAA
* *
11889302 AATACATACATGGAATAGTATA-AGA
1 AATATATACAT--AATA-TATATAAA
**
11889327 AATATATA-ACTAATGGCATA-AAA
1 AATATATACA-TAAT-ATATATAAA
11889350 AATATATACATAATATATATAAA
1 AATATATACATAATATATATAAA
*
11889373 ATACATATA-AT-ATATATATA
1 A-ATATATACATAATATATATA
11889393 CGTATTAGAA
Statistics
Matches: 71, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
22 12 0.17
23 35 0.49
24 8 0.11
25 15 0.21
26 1 0.01
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (23 bp):
AATATATACATAATATATATAAA
Found at i:11889375 original size:11 final size:11
Alignment explanation
Indices: 11889348--11889392 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
11889338 AATGGCATAA
*
11889348 AAAATATATAC
1 AAAATATATAT
*
11889359 ATAATATATAT
1 AAAATATATAT
*
11889370 AAAATACATAT
1 AAAATATATAT
*
11889381 AATATATATAT
1 AAAATATATAT
11889392 A
1 A
11889393 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:11889929 original size:11 final size:12
Alignment explanation
Indices: 11889915--11889950 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
11889905 AAGAAAAAAA
11889915 GAAGAGAG-AGG
1 GAAGAGAGAAGG
11889926 GAAGAGAGAAGG
1 GAAGAGAGAAGG
11889938 G-AGAGAGAAGG
1 GAAGAGAGAAGG
11889949 GA
1 GA
11889951 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:11890179 original size:18 final size:17
Alignment explanation
Indices: 11890145--11890197 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
11890135 GAAAAAAGGA
*
11890145 AAAAAATAAAATAAAAAT
1 AAAAAATAAGAT-AAAAT
11890163 AAAAAATAAGAGTAAAAT
1 AAAAAATAAGA-TAAAAT
* *
11890181 AATAAAGAAGATAAAAT
1 AAAAAATAAGATAAAAT
11890198 CACCTTTAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.19
18 24 0.77
19 1 0.03
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (17 bp):
AAAAAATAAGATAAAAT
Found at i:11891367 original size:30 final size:30
Alignment explanation
Indices: 11891331--11891388 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
11891321 TTTTGAAAAA
11891331 CAGAAATT-AAAAGACTCAACTCAACTCTAG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTAG
*
11891361 CAGAAATTAAAAAGCTCAACTCACCTCT
1 CAGAAATTAAAAAGCTCAACTCAACTCT
11891389 CGCAATATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.21
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTAG
Found at i:11891487 original size:24 final size:24
Alignment explanation
Indices: 11891460--11891508 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11891450 CCAAGGCTCA
11891460 ACTCACTTCTCGCAATATGAGTTG
1 ACTCACTTCTCGCAATATGAGTTG
11891484 ACTCACTTCTCGCAATATGAGTTG
1 ACTCACTTCTCGCAATATGAGTTG
11891508 A
1 A
11891509 TTTTTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (24 bp):
ACTCACTTCTCGCAATATGAGTTG
Found at i:11891534 original size:14 final size:14
Alignment explanation
Indices: 11891511--11891545 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
11891501 TGAGTTGATT
11891511 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
11891524 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
11891538 TTTGAAAA
1 TTTGAAAA
11891546 TACCTCGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:11891735 original size:77 final size:77
Alignment explanation
Indices: 11891567--11891779 Score: 257
Period size: 79 Copynumber: 2.7 Consensus size: 77
11891557 GTGACCCGAG
* * * * * *
11891567 GCTCAACTCACATCTCGCAATGTGCGTTGATTTTTTTGAAAAATATAAATTGAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG--AAAATACCTCA
* * * *
11891632 GTGTGTGATCTGAA
64 GCGCGTGAGCTCAA
*
11891646 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
11891711 GCGTGAGC-CAA
66 GCGTGAGCTCAA
* * *
11891722 GGTTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTTGAAAGGCAGAAATTGAAAA
1 -GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAAAA
11891780 ACGGAAATTG
Statistics
Matches: 118, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
76 2 0.02
77 45 0.38
78 25 0.21
79 46 0.39
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (77 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
GCGTGAGCTCAA
Found at i:11891847 original size:92 final size:91
Alignment explanation
Indices: 11891681--11891869 Score: 238
Period size: 92 Copynumber: 2.1 Consensus size: 91
11891671 GTTGATTTTT
* * * * *
11891681 TTGAAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGTTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATAC
11891746 GAGTCGATTTTTTTTGA-AAGGCAGAAA
66 GAGTCGATTTTTTTTGACAA--CAGAAA
* * * * *
11891773 TTGAAAAACGGAAATTGAAAATACCTCGGCATGTGA-CCTGAGGCTCAACTCGCCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATA
*
11891837 CGAGTTGATTTTTTTTGACAACAGAAA
65 CGAGTCGATTTTTTTTGACAACAGAAA
11891864 TTGAAA
1 TTGAAA
11891870 TTACCTCAGC
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
91 14 0.17
92 68 0.81
93 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (91 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATAC
GAGTCGATTTTTTTTGACAACAGAAA
Found at i:11891908 original size:75 final size:77
Alignment explanation
Indices: 11891783--11891947 Score: 237
Period size: 75 Copynumber: 2.1 Consensus size: 77
11891773 TTGAAAAACG
* *
11891783 GAAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TT
1 GAAATTGAAAATACCTCAGCA-GTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
11891847 TTTTTTGACAA-CA
65 TTTTTTGA-AAGCA
* * *
11891860 GAAATTGAAATTACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
11891924 TTTTTGAAAGGCA
66 TTTTTGAAA-GCA
11891937 GAAATTGAAAA
1 GAAATTGAAAA
11891948 ACGGAAATTG
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
75 39 0.49
76 10 0.13
77 30 0.38
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (77 bp):
GAAATTGAAAATACCTCAGCAGTGACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
TTTTTGAAAGCA
Found at i:11892074 original size:74 final size:73
Alignment explanation
Indices: 11891951--11892232 Score: 285
Period size: 74 Copynumber: 3.9 Consensus size: 73
11891941 TTGAAAAACG
* * *
11891951 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTC--AGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
11892016 TTTTGACAACA
64 TTTT-ACAACA
* *
11892027 GAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCACTATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
11892092 TT------
66 TTACAACA
** *
11892094 --TTTTGAAAATACCTCAGTGCGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
**
11892156 GAAACATACGAA
66 -TTACA-AC--A
* * ** * * *
11892168 AAAATTGACAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTT
1 GAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
11892233 GAAATAAAAC
Statistics
Matches: 172, Mismatches: 21, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
64 39 0.23
65 18 0.10
74 46 0.27
76 32 0.19
77 37 0.22
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (73 bp):
GAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTACAACA
Found at i:11892096 original size:168 final size:167
Alignment explanation
Indices: 11891621--11892095 Score: 747
Period size: 167 Copynumber: 2.8 Consensus size: 167
11891611 ATAAATTGAA
* * * * * *
11891621 AAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTGAC
* * * * *
11891686 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGTTCAACTCACCTCTCGCAATATGAGT
66 A-ACAGAAATTGAAATTACCTCA--GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
11891750 CGA-TTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
127 TGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
* *
11891790 AAAATACCTCGGCATGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTTGA
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGA-TTTTTTTGA
11891855 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
65 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
11891920 TTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
130 TTTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
11891958 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTGAC
1 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTGAC
* *
11892023 AACAGAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCACTATGAGTTGAT
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
11892088 TTTTTTTT
131 TTTTTTTT
11892096 TTGAAAATAC
Statistics
Matches: 285, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
166 2 0.01
167 116 0.41
168 90 0.32
169 67 0.24
170 10 0.04
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (167 bp):
AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTGAC
AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTGAAAGGCAGAAATTGAAAAACGGAAATTG
Found at i:11892133 original size:64 final size:65
Alignment explanation
Indices: 11892031--11892155 Score: 216
Period size: 64 Copynumber: 1.9 Consensus size: 65
11892021 ACAACAGAAA
* * *
11892031 TTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCACTATGAGTTGATTTTTTTTT
1 TTGAAAATACCTCAGTGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
11892096 TTGAAAATACCTCAGTGCGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TTGAAAATACCTCAGTGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
11892156 GAAACATACG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
64 39 0.68
65 18 0.32
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (65 bp):
TTGAAAATACCTCAGTGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
Found at i:11892209 original size:141 final size:138
Alignment explanation
Indices: 11891978--11892232 Score: 368
Period size: 141 Copynumber: 1.8 Consensus size: 138
11891968 GGCGTGTGAC
* *** *
11891978 CTGAGGCTCAACTCGCCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAACAAAAATTGAAATTACCT
** * * * *
11892043 CAGTGTGTCCTGAGGCTCAACTCACCTCTCGCACTATGAGTTGATTTTTTTTTTTGAAAATACCT
66 CAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTTTTTGAAAATACCT
11892108 CAGTGCGT
131 CAGTGCGT
11892116 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATACGAAAAAATTGACAA-T
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA-AC--AAAAATTGA-AATT
11892180 ACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTT
62 ACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTT
11892233 GAAATAAAAC
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
138 42 0.41
139 2 0.02
141 56 0.55
142 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (138 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAACAAAAATTGAAATTACCT
CAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGAATTTTTTTTTTGAAAATACCT
CAGTGCGT
Found at i:11904671 original size:23 final size:23
Alignment explanation
Indices: 11904577--11904688 Score: 58
Period size: 23 Copynumber: 4.9 Consensus size: 23
11904567 AGTATTTGAG
* *
11904577 AATATATGCATAAGATGATAT-AA
1 AATATATACATAATAT-ATATAAA
* *
11904600 AATACATACATGGAATAGTATA-AGA
1 AATATATACAT--AATA-TATATAAA
**
11904625 AATATATA-ACTAATGGCATA-AAA
1 AATATATACA-TAAT-ATATATAAA
11904648 AATATATACATAATATATAT-AA
1 AATATATACATAATATATATAAA
*
11904670 AATACAT--ATAATATATATA
1 AATATATACATAATATATATA
11904689 CGTATTAGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
20 11 0.16
22 11 0.16
23 29 0.42
24 2 0.03
25 15 0.22
26 1 0.01
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.30
Consensus pattern (23 bp):
AATATATACATAATATATATAAA
Found at i:11904673 original size:11 final size:11
Alignment explanation
Indices: 11904646--11904688 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
11904636 AATGGCATAA
*
11904646 AAAATATATAC
1 AAAATATATAT
*
11904657 ATAATATATAT
1 AAAATATATAT
*
11904668 AAAATACATAT
1 AAAATATATAT
*
11904679 AATATATATA
1 AAAATATATA
11904689 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:11905187 original size:11 final size:12
Alignment explanation
Indices: 11905173--11905208 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
11905163 AAGAAAAAAA
11905173 GAAGAGAG-AGG
1 GAAGAGAGAAGG
11905184 GAAGAGAGAAGG
1 GAAGAGAGAAGG
11905196 G-AGAGAGAAGG
1 GAAGAGAGAAGG
11905207 GA
1 GA
11905209 GGGGGAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:11905434 original size:18 final size:18
Alignment explanation
Indices: 11905412--11905452 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11905402 GGAAAAAAAA
*
11905412 ATAAAAATAA-AAATAAG
1 ATAAAAATAATAAAGAAG
11905429 AGT-AAAATAATAAAGAAG
1 A-TAAAAATAATAAAGAAG
11905447 ATAAAA
1 ATAAAA
11905453 TCACATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
ATAAAAATAATAAAGAAG
Found at i:11905435 original size:17 final size:17
Alignment explanation
Indices: 11905415--11905453 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11905405 AAAAAAAATA
*
11905415 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
11905432 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
11905449 AAAAT
1 AAAAT
11905454 CACATTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:11908254 original size:8 final size:8
Alignment explanation
Indices: 11908232--11908267 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
11908222 AATAATAATA
11908232 TTAAAATT
1 TTAAAATT
*
11908240 TCAAAAATT
1 T-TAAAATT
11908249 TTAAAATT
1 TTAAAATT
11908257 TTAAAATT
1 TTAAAATT
11908265 TTA
1 TTA
11908268 TGTTCGAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (8 bp):
TTAAAATT
Found at i:11909740 original size:2 final size:2
Alignment explanation
Indices: 11909733--11909759 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11909723 GCAAGCTAAT
11909733 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
11909760 GAACAATTGT
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:11910153 original size:2 final size:2
Alignment explanation
Indices: 11910146--11910170 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11910136 TGGGTCCTGT
11910146 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
11910171 TAGCCCTATT
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:11910642 original size:62 final size:62
Alignment explanation
Indices: 11910545--11910669 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
11910535 AAAATAATTG
*
11910545 CACATAATCAAATTTAAACTTAAAACATTATTATTAATATGATCTCTAATTCATTAATTTTA
1 CACATAATCAAATTTAAACTCAAAACATTATTATTAATATGATCTCTAATTCATTAATTTTA
*
11910607 CACATAATTAAATTTAAACTCAAAACATTATTATTAATATGATCTCTAATTCATTAATTTTA
1 CACATAATCAAATTTAAACTCAAAACATTATTATTAATATGATCTCTAATTCATTAATTTTA
11910669 C
1 C
11910670 CATTTCAACC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.42
Consensus pattern (62 bp):
CACATAATCAAATTTAAACTCAAAACATTATTATTAATATGATCTCTAATTCATTAATTTTA
Found at i:11913257 original size:28 final size:28
Alignment explanation
Indices: 11913223--11913276 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
11913213 ATGAAGTTAT
11913223 TTGTGTAGTTAATTAGGTTTTGGTTAAG
1 TTGTGTAGTTAATTAGGTTTTGGTTAAG
11913251 TTGTGTAGTTAATTAGGTTTTGGTTA
1 TTGTGTAGTTAATTAGGTTTTGGTTA
11913277 GGTGAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (28 bp):
TTGTGTAGTTAATTAGGTTTTGGTTAAG
Found at i:11913598 original size:22 final size:22
Alignment explanation
Indices: 11913537--11913613 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
11913527 AAAAGAAATA
* *
11913537 GAAAAAGAAACAGAGATAGAAAC
1 GAAAAAGAAAAAGAGAAAG-AAC
* *
11913560 GAAAACAG--TAAGGGAAAGAAC
1 GAAAA-AGAAAAAGAGAAAGAAC
*
11913581 GAAAAAGAAAAAGAGAAAGAAA
1 GAAAAAGAAAAAGAGAAAGAAC
11913603 GAAAGAAGAAA
1 GAAA-AAGAAA
11913614 TTAGGATTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.05
21 8 0.19
22 20 0.47
23 11 0.26
24 2 0.05
ACGTcount: A:0.68, C:0.05, G:0.25, T:0.03
Consensus pattern (22 bp):
GAAAAAGAAAAAGAGAAAGAAC
Found at i:11915029 original size:22 final size:21
Alignment explanation
Indices: 11914987--11915030 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
11914977 AAGCTATTTG
* *
11914987 AATAGCAAGTATGAGATTTGA
1 AATAGCAAGGATGAGAATTGA
*
11915008 AATAGCAAGAGATGATAATTGA
1 AATAGCAAG-GATGAGAATTGA
11915030 A
1 A
11915031 TATGTTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.48, C:0.05, G:0.23, T:0.25
Consensus pattern (21 bp):
AATAGCAAGGATGAGAATTGA
Done.