Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 25 of 113
Found at i:8601806 original size:25 final size:25
Alignment explanation
Indices: 8601776--8601826 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
8601766 TGATTTGTAG
8601776 ATATTTATATTATATAAAATATAAA
1 ATATTTATATTATATAAAATATAAA
**
8601801 ATATTTATATTATATTTAATATAAA
1 ATATTTATATTATATAAAATATAAA
8601826 A
1 A
8601827 ATTATGTGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTATATTATATAAAATATAAA
Found at i:8601903 original size:22 final size:23
Alignment explanation
Indices: 8601843--8601903 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 23
8601833 TGTCATAAGT
*
8601843 TATAATAATATAA-AAATATAAAA
1 TATAATTAT-TAATAAATATAAAA
* * * *
8601866 TATATTTTTTATTAAAT-TAATA
1 TATAATTATTAATAAATATAAAA
8601888 TATAATTATTAATAAA
1 TATAATTATTAATAAA
8601904 ATTTTAAATC
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TATAATTATTAATAAATATAAAA
Found at i:8613425 original size:48 final size:48
Alignment explanation
Indices: 8613348--8613445 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
8613338 TTCAAACTCC
* *
8613348 ATTTAGAACAAATGCCAAAGATGGTGATTTTACTACCATATATAAATT
1 ATTTAGAACAAATGCCAAAGATAGAGATTTTACTACCATATATAAATT
* *
8613396 ATTTATAACAAATGCCAAATATAGAGATTTTACTACCATATATAAATT
1 ATTTAGAACAAATGCCAAAGATAGAGATTTTACTACCATATATAAATT
8613444 AT
1 AT
8613446 GAGTTTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (48 bp):
ATTTAGAACAAATGCCAAAGATAGAGATTTTACTACCATATATAAATT
Found at i:8627067 original size:12 final size:12
Alignment explanation
Indices: 8627046--8627084 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8627036 TATGATCATC
8627046 TTTTTCTTTGTT
1 TTTTTCTTTGTT
*
8627058 TTTTTTTTTGTT
1 TTTTTCTTTGTT
* *
8627070 TATTTCTTTATT
1 TTTTTCTTTGTT
8627082 TTT
1 TTT
8627085 ATGTATTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.05, C:0.05, G:0.05, T:0.85
Consensus pattern (12 bp):
TTTTTCTTTGTT
Found at i:8631733 original size:20 final size:19
Alignment explanation
Indices: 8631708--8631751 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
8631698 TTAAATCGAA
8631708 TTATATAT-TTTTATTAATTT
1 TTATATATATTTTA--AATTT
8631728 TTATATATATTTTAAATTT
1 TTATATATATTTTAAATTT
8631747 TTATA
1 TTATA
8631752 AAATAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATATATATTTTAAATTT
Found at i:8631804 original size:22 final size:23
Alignment explanation
Indices: 8631768--8631822 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
8631758 AATAATTATT
*
8631768 ATATATATAAA-TTTATTTAAAT-
1 ATATATA-AAATTTTATTAAAATA
*
8631790 ATATTTAAAATTTTATTAAAATA
1 ATATATAAAATTTTATTAAAATA
8631813 ATATATAAAA
1 ATATATAAAA
8631823 AAATAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 16 0.57
23 9 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATATAAAATTTTATTAAAATA
Found at i:8636183 original size:30 final size:30
Alignment explanation
Indices: 8636149--8636205 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8636139 GGTGATGTTG
*
8636149 AAAATGTTGGCACAAGAA-AAGGTCATGCTA
1 AAAATGTTAGCA-AAGAATAAGGTCATGCTA
*
8636179 AAAATGTTAGCAAAGAATGAGGTCATG
1 AAAATGTTAGCAAAGAATAAGGTCATG
8636206 TTAGGGCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.21
Consensus pattern (30 bp):
AAAATGTTAGCAAAGAATAAGGTCATGCTA
Found at i:8651770 original size:34 final size:35
Alignment explanation
Indices: 8651719--8651787 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 35
8651709 CCAAATAAAG
8651719 ATCATGCAAAAATGTGATTGCTTTTGCCAATCATT
1 ATCATGCAAAAATGTGATTGCTTTTGCCAATCATT
*
8651754 ATCATGC-AAAATGTGATTGCTTTTTCCAATCATT
1 ATCATGCAAAAATGTGATTGCTTTTGCCAATCATT
8651788 CCCCCCCCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 26 0.79
35 7 0.21
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (35 bp):
ATCATGCAAAAATGTGATTGCTTTTGCCAATCATT
Found at i:8657347 original size:15 final size:15
Alignment explanation
Indices: 8657329--8657366 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8657319 GGAAAAATTT
8657329 TTTAACTTC-AAATAA
1 TTTAA-TTCGAAATAA
8657344 TTTAGATTCGAAATAA
1 TTTA-ATTCGAAATAA
8657360 TTTAATT
1 TTTAATT
8657367 TTGAGATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (15 bp):
TTTAATTCGAAATAA
Found at i:8658387 original size:14 final size:15
Alignment explanation
Indices: 8658368--8658396 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8658358 AAGACATCAC
8658368 TTATAATT-ATTATA
1 TTATAATTAATTATA
8658382 TTATAATTAATTATA
1 TTATAATTAATTATA
8658397 ATTTGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATAATTAATTATA
Found at i:8660203 original size:18 final size:17
Alignment explanation
Indices: 8660172--8660208 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
8660162 TAAAATACTA
8660172 ATTTGTAAAATGTTTTC
1 ATTTGTAAAATGTTTTC
*
8660189 ATTTGATAAATTGTTTTC
1 ATTTG-TAAAATGTTTTC
8660207 AT
1 AT
8660209 CAAATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (17 bp):
ATTTGTAAAATGTTTTC
Found at i:8662906 original size:12 final size:13
Alignment explanation
Indices: 8662891--8662951 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
8662881 TTTTAATCAA
8662891 TTATTTAAT-TTT
1 TTATTTAATATTT
8662903 TTATTTATATATTT
1 TTATTTA-ATATTT
* *
8662917 TTATATAATGATAT
1 TTATTTAAT-ATTT
*
8662931 TT-TTAAATATTT
1 TTATTTAATATTT
8662943 TATATTTAA
1 T-TATTTAA
8662952 AAATAATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
12 11 0.29
13 9 0.24
14 18 0.47
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (13 bp):
TTATTTAATATTT
Found at i:8664480 original size:21 final size:21
Alignment explanation
Indices: 8664443--8664483 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8664433 AAATGTAAAT
8664443 TTTAAATTTTAAATTTCAATA
1 TTTAAATTTTAAATTTCAATA
*
8664464 TTTATAATTTT-ATTTTCAAT
1 TTTA-AATTTTAAATTTCAAT
8664484 CATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAAATTTTAAATTTCAATA
Found at i:8684580 original size:19 final size:20
Alignment explanation
Indices: 8684556--8684602 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
8684546 AATTCATGAA
*
8684556 TTTAATTAAATTTTTA-TAT
1 TTTAATTAAATTTTAATTAT
*
8684575 TTTAA-TATATTTTAATTAT
1 TTTAATTAAATTTTAATTAT
8684594 TTTAATTAA
1 TTTAATTAA
8684603 TAAAATATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.35
19 13 0.57
20 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTAAATTTTAATTAT
Found at i:8684583 original size:10 final size:10
Alignment explanation
Indices: 8684570--8684599 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8684560 ATTAAATTTT
8684570 TATATTTTAA
1 TATATTTTAA
8684580 TATATTTTAA
1 TATATTTTAA
8684590 T-TATTTTAA
1 TATATTTTAA
8684599 T
1 T
8684600 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:8684596 original size:9 final size:9
Alignment explanation
Indices: 8684572--8684601 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
8684562 TAAATTTTTA
8684572 TATTTTAAT
1 TATTTTAAT
8684581 ATATTTTAAT
1 -TATTTTAAT
8684591 TATTTTAAT
1 TATTTTAAT
8684600 TA
1 TA
8684602 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:8685294 original size:25 final size:25
Alignment explanation
Indices: 8685266--8685313 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
8685256 ACTAAAAAAA
*
8685266 TAAAATTT-AATTAAATTTTAAACAT
1 TAAAATTTGAATCAAA-TTTAAACAT
*
8685291 TAAATTTTGAATCAAATTTAAAC
1 TAAAATTTGAATCAAATTTAAAC
8685314 TTATTACCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (25 bp):
TAAAATTTGAATCAAATTTAAACAT
Found at i:8690594 original size:88 final size:88
Alignment explanation
Indices: 8690392--8690579 Score: 265
Period size: 87 Copynumber: 2.1 Consensus size: 88
8690382 GCATTACTTT
* * *
8690392 TTTTTACCTTAAAAATGTAATTTTTG-TTAAAAGTAAATAATTCTGAAAAATAAATTTTTTCATA
1 TTTTTATCTTAAAAATGTAATTTTTGTTTAAAAGTAAAAAATTCTGAAAAATAAATTCTTTCATA
* *
8690456 ATATATTATTACCAATGATTATA
66 ATATATTATTAACAATGATTACA
* *
8690479 TTTTTATCTTAAAAATGTAATTATTGTTTAAAA-TAAAAAATTCTGATAAAAT-AATTCTTTCTT
1 TTTTTATCTTAAAAATGTAATTTTTGTTTAAAAGTAAAAAATTCTGA-AAAATAAATTCTTTCAT
*
8690542 AATATATTTTTAACAATGATTACCA
65 AATATATTATTAACAATGATTA-CA
8690567 TTTTTATCTTAAA
1 TTTTTATCTTAAA
8690580 TATTCTATTT
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
87 65 0.72
88 25 0.28
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (88 bp):
TTTTTATCTTAAAAATGTAATTTTTGTTTAAAAGTAAAAAATTCTGAAAAATAAATTCTTTCATA
ATATATTATTAACAATGATTACA
Found at i:8690804 original size:86 final size:87
Alignment explanation
Indices: 8690669--8690827 Score: 205
Period size: 86 Copynumber: 1.8 Consensus size: 87
8690659 AAACAAATAA
* ** * * *
8690669 TTTTAAAAAATAATTTTTTTATAATAAAATTTTTAATAATGACTATGTTTTTTATTTTTAAAGTG
1 TTTTAAAAAATAAATTTTGCATAATAAAATTTTTAATAATGACTATGTTTTTTATCTTAAAAATG
*
8690734 TAGTTTTTGCTAAAAGTAAAAT
66 CAGTTTTTGCTAAAAGTAAAAT
* * *
8690756 TTTTTAAAAATAAATTTTGCATAAT-ATATTTTTATTAA-GTACTATGTTTTTTATCTTAAAAAT
1 TTTTAAAAAATAAATTTTGCATAATAAAATTTTTAATAATG-ACTATGTTTTTTATCTTAAAAAT
8690819 GCAGTTTTT
65 GCAGTTTTT
8690828 ATTGAATTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
85 1 0.02
86 39 0.64
87 21 0.34
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (87 bp):
TTTTAAAAAATAAATTTTGCATAATAAAATTTTTAATAATGACTATGTTTTTTATCTTAAAAATG
CAGTTTTTGCTAAAAGTAAAAT
Found at i:8690992 original size:88 final size:89
Alignment explanation
Indices: 8690851--8691019 Score: 214
Period size: 88 Copynumber: 1.9 Consensus size: 89
8690841 AACCAAAGGA
* * * * * *
8690851 AAAATAAATCTTTCGCAACATATTTTCAATAAATATTACATTTTTTATTTTAAACACATAGTATT
1 AAAATAAATATTTCACAACATATTTTCAAGAAATATTACATTTTTAATATTAAAAACATAGTATT
* *
8690916 TGTTTAAATTATAAAAGAAAAGAG
66 TGTTAAAAATATAAAAGAAAAGAG
* * * * *
8690940 AAAATAAA-ATTTCACAATATATTTTCAAGAAATATTACGTTTTTAATATTAAAAACGTATTTTT
1 AAAATAAATATTTCACAACATATTTTCAAGAAATATTACATTTTTAATATTAAAAACATAGTATT
8691004 TGTTAAAAATATAAAA
66 TGTTAAAAATATAAAA
8691020 TATAAAATAT
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
88 59 0.88
89 8 0.12
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.40
Consensus pattern (89 bp):
AAAATAAATATTTCACAACATATTTTCAAGAAATATTACATTTTTAATATTAAAAACATAGTATT
TGTTAAAAATATAAAAGAAAAGAG
Found at i:8691297 original size:25 final size:24
Alignment explanation
Indices: 8691238--8691297 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
8691228 ATTATATTTT
*
8691238 TATTAAATGAATCTAAATTAATTA
1 TATTAAATAAATCTAAATTAATTA
* * *
8691262 TATGAACTAAATAC-AAATTTAATTC
1 TATTAAATAAAT-CTAAA-TTAATTA
8691287 TATTAAATAAA
1 TATTAAATAAA
8691298 AAAAATCAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (24 bp):
TATTAAATAAATCTAAATTAATTA
Found at i:8695946 original size:158 final size:158
Alignment explanation
Indices: 8695653--8695964 Score: 588
Period size: 158 Copynumber: 2.0 Consensus size: 158
8695643 CTTACAGAAC
*
8695653 AATTTAAAAGATTGTTTAATGATAAAGAAAACTTTATTATGCTTTCTACCAAAGAATGATAGAAA
1 AATTTAAAAGATTGTTTAATGATAAAGAAAACTTTATTATGCTTTCAACCAAAGAATGATAGAAA
8695718 ATATATATATGCTAGGAATATCCCTTCAAACATAAAAACTTTCAGATTATATTGCTATAATCGTA
66 ATATATATATGCTAGGAATATCCCTTCAAACATAAAAACTTTCAGATTATATTGCTATAATCGTA
8695783 CCTAAAATCAAGAGATTTGTATGTGAAT
131 CCTAAAATCAAGAGATTTGTATGTGAAT
*
8695811 AATTTAAAATATTGTTTAATGATAAAGAAAACTTTATTATGCTTTCAACCAAAGAATGATAGAAA
1 AATTTAAAAGATTGTTTAATGATAAAGAAAACTTTATTATGCTTTCAACCAAAGAATGATAGAAA
*
8695876 ATATATATATGCTAGGAATATCCCTTCAAACATAAAAACTTTCAGATTATATTGCTATAATCGTG
66 ATATATATATGCTAGGAATATCCCTTCAAACATAAAAACTTTCAGATTATATTGCTATAATCGTA
*
8695941 TCTAAAATCAAGAGATTTGTATGT
131 CCTAAAATCAAGAGATTTGTATGT
8695965 AAACTCATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 150 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (158 bp):
AATTTAAAAGATTGTTTAATGATAAAGAAAACTTTATTATGCTTTCAACCAAAGAATGATAGAAA
ATATATATATGCTAGGAATATCCCTTCAAACATAAAAACTTTCAGATTATATTGCTATAATCGTA
CCTAAAATCAAGAGATTTGTATGTGAAT
Found at i:8696385 original size:2 final size:2
Alignment explanation
Indices: 8696378--8696413 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
8696368 CCATAGCTAC
8696378 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8696414 GAGATGAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8701119 original size:20 final size:20
Alignment explanation
Indices: 8701096--8701135 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8701086 ACATAAACAC
* *
8701096 ACACACACACACATACATAT
1 ACACAAACACAAATACATAT
*
8701116 ACACAAACTCAAATACATAT
1 ACACAAACACAAATACATAT
8701136 GGAGTACCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (20 bp):
ACACAAACACAAATACATAT
Found at i:8711239 original size:1 final size:1
Alignment explanation
Indices: 8711233--8711258 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8711223 TAGTAAATAG
8711233 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
8711259 CTTACCTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8714690 original size:107 final size:107
Alignment explanation
Indices: 8714501--8714713 Score: 381
Period size: 107 Copynumber: 2.0 Consensus size: 107
8714491 TGATGAACCC
* *
8714501 TCATTGACGTGAAATAACACCGGACATCATTTTCCAATGCGAACCAACTGCATCAAATTTTTTGA
1 TCATTGACGTGAAATAACACCAGACATCATTTTCCAATGCGAACCAACTACATCAAATTTTTTGA
* *
8714566 AAGGCCACACAAGCCAATATTCTTTCTATTCAGCTCTTAAAT
66 AAGACCACACAAACCAATATTCTTTCTATTCAGCTCTTAAAT
*
8714608 TCATTGACGTGAAATAACACCAGACATCATTTTCCAATGTGAACCAACTACATCAAATTTTTTGA
1 TCATTGACGTGAAATAACACCAGACATCATTTTCCAATGCGAACCAACTACATCAAATTTTTTGA
8714673 AAGACCACACAAACCAATATTCTTTCTATTCAGCTCTTAAA
66 AAGACCACACAAACCAATATTCTTTCTATTCAGCTCTTAAA
8714714 GATTTCTAAC
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 101 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (107 bp):
TCATTGACGTGAAATAACACCAGACATCATTTTCCAATGCGAACCAACTACATCAAATTTTTTGA
AAGACCACACAAACCAATATTCTTTCTATTCAGCTCTTAAAT
Found at i:8718320 original size:2 final size:2
Alignment explanation
Indices: 8718313--8718339 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8718303 TTTTACACGG
8718313 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 A
8718340 ATTGAAAACC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8725190 original size:13 final size:13
Alignment explanation
Indices: 8725174--8725200 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8725164 CACAGGTAAC
8725174 AAATTCAAAGAAG
1 AAATTCAAAGAAG
8725187 AAATTCAAAGAAG
1 AAATTCAAAGAAG
8725200 A
1 A
8725201 CTGGTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (13 bp):
AAATTCAAAGAAG
Found at i:8725687 original size:13 final size:14
Alignment explanation
Indices: 8725655--8725693 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
8725645 AATATTCGAT
8725655 TTTAAATA-T-TTA
1 TTTAAATATTATTA
8725667 TTTAAATATTATTA
1 TTTAAATATTATTA
8725681 TTT-AATATTATTA
1 TTTAAATATTATTA
8725694 AATATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 8 0.32
13 11 0.44
14 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAAATATTATTA
Found at i:8725725 original size:29 final size:27
Alignment explanation
Indices: 8725678--8725741 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
8725668 TTAAATATTA
* *
8725678 TTATTTAA-TATTATTAAATATAATAT
1 TTATTTAATTATCATTAAATAAAATAT
8725704 TTATTTAATTATCATTAAAAATAAAATAT
1 TTATTTAATTATCATT--AAATAAAATAT
*
8725733 TTATATAAT
1 TTATTTAAT
8725742 ATTAAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.25
27 6 0.19
29 18 0.56
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TTATTTAATTATCATTAAATAAAATAT
Found at i:8725761 original size:19 final size:19
Alignment explanation
Indices: 8725717--8725764 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
8725707 TTTAATTATC
* *
8725717 ATTAAAA-ATAAAATATTT
1 ATTAAAATATTAAATATTA
*
8725735 A-TATAATATTAAATATTA
1 ATTAAAATATTAAATATTA
8725753 ATTAAAATATTA
1 ATTAAAATATTA
8725765 TATAATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
19 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTAAAATATTAAATATTA
Found at i:8725766 original size:29 final size:31
Alignment explanation
Indices: 8725725--8725787 Score: 103
Period size: 29 Copynumber: 2.1 Consensus size: 31
8725715 TCATTAAAAA
8725725 TAAAATATTTATATAATATTAAATATTA-AT
1 TAAAATATTTATATAATATTAAATATTACAT
*
8725755 TAAAATA-TTATATAATATTTAATATTACAT
1 TAAAATATTTATATAATATTAAATATTACAT
8725785 TAA
1 TAA
8725788 GACACATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (31 bp):
TAAAATATTTATATAATATTAAATATTACAT
Found at i:8725776 original size:19 final size:20
Alignment explanation
Indices: 8725728--8725778 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
8725718 TTAAAAATAA
8725728 AATATTTATATAATATTAAAT
1 AATATTTA-ATAATATTAAAT
* * *
8725749 ATTAATTAA-AATATTATAT
1 AATATTTAATAATATTAAAT
8725768 AATATTTAATA
1 AATATTTAATA
8725779 TTACATTAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 16 0.67
20 2 0.08
21 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTTAATAATATTAAAT
Found at i:8725889 original size:15 final size:15
Alignment explanation
Indices: 8725869--8725904 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
8725859 ATAACTATAT
8725869 TTAATTTTTTATAAA
1 TTAATTTTTTATAAA
8725884 TTAATTTTTTATAAA
1 TTAATTTTTTATAAA
8725899 TTAATT
1 TTAATT
8725905 GAATTAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTAATTTTTTATAAA
Found at i:8725932 original size:21 final size:21
Alignment explanation
Indices: 8725908--8725950 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8725898 ATTAATTGAA
*
8725908 TTAATATTTTAATTATAGTAT
1 TTAATATTTTAATTATACTAT
*
8725929 TTAATTTTTTAATTATACTAT
1 TTAATATTTTAATTATACTAT
8725950 T
1 T
8725951 ATTTAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTAATATTTTAATTATACTAT
Found at i:8729053 original size:17 final size:18
Alignment explanation
Indices: 8729014--8729053 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
8729004 CTAAATCAAA
*
8729014 TTATATATTTTTTAGTTT
1 TTATATATTTTTTAATTT
*
8729032 ATATAT-TTTTTTAATTT
1 TTATATATTTTTTAATTT
8729049 TTATA
1 TTATA
8729054 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TTATATATTTTTTAATTT
Found at i:8729091 original size:22 final size:24
Alignment explanation
Indices: 8729044--8729114 Score: 87
Period size: 22 Copynumber: 3.1 Consensus size: 24
8729034 ATATTTTTTT
* *
8729044 AATTTT-TA-TAAAATAAAAATAAA
1 AATTTTATATTAAAAT-AATATATA
8729067 AATTTTATATTAAAAT-ATAT-TA
1 AATTTTATATTAAAATAATATATA
8729089 AATTTTATATTAAAATAATATATA
1 AATTTTATATTAAAATAATATATA
8729113 AA
1 AA
8729115 AATTAAAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 17 0.40
23 13 0.31
24 6 0.14
25 6 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AATTTTATATTAAAATAATATATA
Found at i:8729099 original size:12 final size:12
Alignment explanation
Indices: 8729066--8729102 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8729056 ATAAAAATAA
8729066 AAATTTTATATT
1 AAATTTTATATT
*
8729078 AAA--ATATATT
1 AAATTTTATATT
8729088 AAATTTTATATT
1 AAATTTTATATT
8729100 AAA
1 AAA
8729103 ATAATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 9 0.43
12 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AAATTTTATATT
Found at i:8735702 original size:2 final size:2
Alignment explanation
Indices: 8735697--8735725 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8735687 TAGTAGAGAG
8735697 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 A
8735726 GTTGATAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8735875 original size:19 final size:19
Alignment explanation
Indices: 8735848--8735894 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
8735838 TGATTTAATT
8735848 TTATATTTT-ATTTATTTAA
1 TTATATTTTAATTTA-TTAA
*
8735867 TTATGTTTTAATTTATTAA
1 TTATATTTTAATTTATTAA
8735886 TTAATATTT
1 TT-ATATTT
8735895 AATAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATATTTTAATTTATTAA
Found at i:8735947 original size:18 final size:18
Alignment explanation
Indices: 8735896--8735958 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
8735886 TTAATATTTA
* *
8735896 ATAATTTTTATACATAAAT
1 ATAATTTTTAT-TATAATT
8735915 ATAATATTTTATTATAATT
1 ATAAT-TTTTATTATAATT
* *
8735934 ATAATTTTTCTTATATTT
1 ATAATTTTTATTATAATT
8735952 ATAATTT
1 ATAATTT
8735959 CATAAGAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 18 0.46
19 15 0.38
20 6 0.15
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATAATTTTTATTATAATT
Found at i:8737329 original size:29 final size:27
Alignment explanation
Indices: 8737287--8737343 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 27
8737277 AAGTGCCATT
*
8737287 AAACAAGAACGTTTTCTTGGCCAAAGAAA
1 AAACAACAACGTTTTC-TGGCCAAA-AAA
*
8737316 AAACAACAATGTTTTCTGGCCAAAAAA
1 AAACAACAACGTTTTCTGGCCAAAAAA
8737343 A
1 A
8737344 GAAAAAGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 4 0.15
28 8 0.31
29 14 0.54
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.21
Consensus pattern (27 bp):
AAACAACAACGTTTTCTGGCCAAAAAA
Found at i:8740983 original size:24 final size:25
Alignment explanation
Indices: 8740936--8740991 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 25
8740926 TATTAATATA
8740936 ATTATTAAAATGTTAAAAATTATTT
1 ATTATTAAAATGTTAAAAATTATTT
*
8740961 ATTATTAAAGTGTT-AAAATTATTT
1 ATTATTAAAATGTTAAAAATTATTT
8740985 ATTATTA
1 ATTATTA
8740992 CATTTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (25 bp):
ATTATTAAAATGTTAAAAATTATTT
Found at i:8741147 original size:42 final size:43
Alignment explanation
Indices: 8741100--8741185 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
8741090 TTTATGTTAA
* * *
8741100 TATTTTAATATATTTAAAAATAGT-ATA-TTATTCTTAAAATAT
1 TATTTTAATAAAATT-AAAATAGTAATATTTATTATTAAAATAT
*
8741142 TATTTTATTAAAATTAAAATAGTAATATTTATTATTAAAATAT
1 TATTTTAATAAAATTAAAATAGTAATATTTATTATTAAAATAT
8741185 T
1 T
8741186 TATACTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 8 0.21
42 15 0.39
43 15 0.39
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (43 bp):
TATTTTAATAAAATTAAAATAGTAATATTTATTATTAAAATAT
Found at i:8741199 original size:17 final size:16
Alignment explanation
Indices: 8741165--8741207 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
8741155 TTAAAATAGT
8741165 AATATTTAT-TATTAA
1 AATATTTATATATTAA
*
8741180 AATATTTATACTATTTA
1 AATATTTATA-TATTAA
8741197 AATATTTATAT
1 AATATTTATAT
8741208 TTTATATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 9 0.36
16 1 0.04
17 15 0.60
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATTTATATATTAA
Found at i:8741489 original size:32 final size:29
Alignment explanation
Indices: 8741431--8741489 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 29
8741421 TTATATAAAT
*
8741431 TATTATTTATTATTAAAATAATAATATAA
1 TATTATTTATTATTAAAATAAAAATATAA
8741460 TATTATTTATTATTGAAAGACTAAAAATAT
1 TATTATTTATTATT-AAA-A-TAAAAATAT
8741490 TTATGTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 14 0.54
30 3 0.12
31 1 0.04
32 8 0.31
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (29 bp):
TATTATTTATTATTAAAATAAAAATATAA
Found at i:8741594 original size:19 final size:17
Alignment explanation
Indices: 8741561--8741597 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
8741551 TTTTATTAAA
8741561 ATTAAATAAAATATTTT
1 ATTAAATAAAATATTTT
8741578 ATTAATATAATAATATTTT
1 ATTAA-ATAA-AATATTTT
8741597 A
1 A
8741598 AGTCGAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
19 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAAATAAAATATTTT
Found at i:8748428 original size:2 final size:2
Alignment explanation
Indices: 8748410--8748451 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
8748400 TCTTGAATTC
* *
8748410 AT AT TT AT AT TT 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 AT AT AT
8748452 TATGAACAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:8757301 original size:15 final size:16
Alignment explanation
Indices: 8757281--8757322 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
8757271 ATTAATAAAA
8757281 TTTTTTAATTAAAT-T
1 TTTTTTAATTAAATAT
8757296 TTTTTTAATTTAAATAT
1 TTTTTTAA-TTAAATAT
*
8757313 TTTTATAATT
1 TTTTTTAATT
8757323 CTACTCAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 8 0.33
17 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTAATTAAATAT
Found at i:8757308 original size:16 final size:17
Alignment explanation
Indices: 8757281--8757322 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
8757271 ATTAATAAAA
8757281 TTTTTTAA-TTAAAT-T
1 TTTTTTAATTTAAATAT
8757296 TTTTTTAATTTAAATAT
1 TTTTTTAATTTAAATAT
*
8757313 TTTTATAATT
1 TTTTTTAATT
8757323 CTACTCAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 8 0.33
16 6 0.25
17 10 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTAATTTAAATAT
Found at i:8775881 original size:45 final size:44
Alignment explanation
Indices: 8775795--8775881 Score: 99
Period size: 45 Copynumber: 2.0 Consensus size: 44
8775785 AGTCTTTCTC
* *
8775795 ATAAAAATTGAATCTTAAAAAAATATTTATTATTATTATTATTA
1 ATAAAAATTGAATCTTAAAAAAATAATTATTATTATCATTATTA
8775839 ATAAAAATT-ATATACTTAAGAAAAA-AATTATT-TTATACATTAT
1 ATAAAAATTGA-AT-CTTAA-AAAAATAATTATTATTAT-CATTAT
8775882 ACTAGAGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
43 1 0.03
44 15 0.41
45 16 0.43
46 5 0.14
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (44 bp):
ATAAAAATTGAATCTTAAAAAAATAATTATTATTATCATTATTA
Found at i:8775964 original size:18 final size:18
Alignment explanation
Indices: 8775933--8775971 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8775923 TATTATATTT
8775933 AAAATATATCTAAAATATA
1 AAAATATATCTAAAATA-A
*
8775952 AAAATA-ATTTAAAATAA
1 AAAATATATCTAAAATAA
8775969 AAA
1 AAA
8775972 TAAAACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 9 0.47
19 6 0.32
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATATATCTAAAATAA
Found at i:8782917 original size:92 final size:92
Alignment explanation
Indices: 8782760--8782929 Score: 340
Period size: 92 Copynumber: 1.8 Consensus size: 92
8782750 TTTGATATAA
8782760 AAAGGAAATTTAGAATCATAAAGGATGGCAGTCGCCCCCCACATAAGGATCAAGAATATAGCATT
1 AAAGGAAATTTAGAATCATAAAGGATGGCAGTCGCCCCCCACATAAGGATCAAGAATATAGCATT
8782825 GAAAATCTTCCAGGAAGTGATCAAATT
66 GAAAATCTTCCAGGAAGTGATCAAATT
8782852 AAAGGAAATTTAGAATCATAAAGGATGGCAGTCGCCCCCCACATAAGGATCAAGAATATAGCATT
1 AAAGGAAATTTAGAATCATAAAGGATGGCAGTCGCCCCCCACATAAGGATCAAGAATATAGCATT
8782917 GAAAATCTTCCAG
66 GAAAATCTTCCAG
8782930 TGTGAAAGTG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.21
Consensus pattern (92 bp):
AAAGGAAATTTAGAATCATAAAGGATGGCAGTCGCCCCCCACATAAGGATCAAGAATATAGCATT
GAAAATCTTCCAGGAAGTGATCAAATT
Found at i:8787333 original size:21 final size:21
Alignment explanation
Indices: 8787309--8787352 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8787299 TTAATACTTA
* *
8787309 AATTTAATTAATGATTCGATC
1 AATTTAATTAATAATACGATC
*
8787330 AATTTAATTGATAATACGATC
1 AATTTAATTAATAATACGATC
8787351 AA
1 AA
8787353 CTCAATTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (21 bp):
AATTTAATTAATAATACGATC
Found at i:8789673 original size:14 final size:14
Alignment explanation
Indices: 8789654--8789692 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
8789644 CATTATTCTG
* *
8789654 AAAATAAATAAATA
1 AAAATAAAAAAACA
8789668 AAAATAAAAAAACA
1 AAAATAAAAAAACA
*
8789682 AAGATAAAAAA
1 AAAATAAAAAA
8789693 GTGATAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAATAAAAAAACA
Found at i:8790659 original size:13 final size:14
Alignment explanation
Indices: 8790631--8790660 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8790621 TCTTAAAAAT
8790631 AAAAATTTGAGAAA
1 AAAAATTTGAGAAA
8790645 AAAAATTTGAGAAA
1 AAAAATTTGAGAAA
8790659 AA
1 AA
8790661 GTTGAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (14 bp):
AAAAATTTGAGAAA
Found at i:8790660 original size:15 final size:15
Alignment explanation
Indices: 8790626--8790660 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
8790616 ATTTTTCTTA
8790626 AAAATAAAAATTTGAG
1 AAAA-AAAAATTTGAG
8790642 -AAAAAAAATTTGAG
1 AAAAAAAAATTTGAG
8790656 AAAAA
1 AAAAA
8790661 GTTGAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (15 bp):
AAAAAAAAATTTGAG
Found at i:8790858 original size:60 final size:59
Alignment explanation
Indices: 8790784--8790943 Score: 223
Period size: 60 Copynumber: 2.7 Consensus size: 59
8790774 TTCAAGAAAA
8790784 TTTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAAATA-ATAT
1 TTTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTT-AAAATAAAAATTTCAAA-AGATAT
* * * * *
8790844 TTTTTTTAGGAAAAGTTAAAAGTATTAATGTTTCTTAAGGATAAAATTTTCAAAAGATAT
1 TTTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAA-AATAAAAATTTCAAAAGATAT
* *
8790904 TTTTTTGAGGATAAGTTAAAAGTATCAATTTTTCTTAAAA
1 TTTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAA
8790944 CTAATTTTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
59 4 0.05
60 84 0.95
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (59 bp):
TTTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAATAAAAATTTCAAAAGATAT
Found at i:8790966 original size:198 final size:192
Alignment explanation
Indices: 8790708--8791135 Score: 513
Period size: 198 Copynumber: 2.2 Consensus size: 192
8790698 AAAAAAAAAG
* * * *
8790708 TTTTAAGGAAAATTTGATAGTATC-ATTTTTCCTTAGAAAATAATTTTTTTTTAAAAAAATGTAT
1 TTTTGAGGAAAAATTAAAAGTATCAATTTTT-CTTA-AAAATAATTTTTTTTTAAAAAAATGTAT
* * *
8790772 TTTTCAAGAAAATTTTTTAAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAAATAAAAATTTCAA
64 TTCTCAAGAAAATTTTTTAAGGAAAAATTAAAAATATCAA-TTTT-TT-AAAATAAAAATTTCAA
* * * * *
8790837 ATA-ATATTTTTTTTAGGAAAAGTTAAAAGTATTAATGTTTCTTAAGGAT-AAAATTTTCAAAAG
126 A-AGATATATTTTTCAGAAAAAGTTAAAAGTATCAATGTTTCTTAA-AATAAAAATTTT-AAAA-
8790900 A-TATTT
187 ACTA-TT
* * *
8790906 TTTTGAGGATAAGTTAAAAGTATCAATTTTTCTTAAAACTAATTTTTTTTTTAAAAAAATGTATT
1 TTTTGAGGAAAAATTAAAAGTATCAATTTTTCTTAAAAATAA-TTTTTTTTTAAAAAAATGTATT
* ** *
8790971 TCTCAAGAAACTTTTTTAAGGAAAAATTAAAAATATCAATTTTTTAAGGTAAAATTTTCAAAAGA
65 TCTCAAGAAAATTTTTTAAGGAAAAATTAAAAATATCAATTTTTTAAAATAAAAATTTCAAAAGA
* * *
8791036 TATATTTTTCAGAAAAAGTTAAGAGTATCAATTTTTTTTAAAATAAAAATTTTAAAAACTATT
130 TATATTTTTCAGAAAAAGTTAAAAGTATCAATGTTTCTTAAAATAAAAATTTTAAAAACTATT
* *
8791099 TTTTGAGGAAAAATTAAAAATATCAAATTTTCTTAAA
1 TTTTGAGGAAAAATTAAAAGTATCAATTTTTCTTAAA
8791136 TAAAGGCATT
Statistics
Matches: 200, Mismatches: 25, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
193 36 0.18
194 9 0.05
195 57 0.28
196 2 0.01
197 10 0.05
198 80 0.40
199 6 0.03
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (192 bp):
TTTTGAGGAAAAATTAAAAGTATCAATTTTTCTTAAAAATAATTTTTTTTTAAAAAAATGTATTT
CTCAAGAAAATTTTTTAAGGAAAAATTAAAAATATCAATTTTTTAAAATAAAAATTTCAAAAGAT
ATATTTTTCAGAAAAAGTTAAAAGTATCAATGTTTCTTAAAATAAAAATTTTAAAAACTATT
Found at i:8791044 original size:58 final size:56
Alignment explanation
Indices: 8790982--8791139 Score: 160
Period size: 57 Copynumber: 2.8 Consensus size: 56
8790972 CTCAAGAAAC
** *
8790982 TTTTTTAAGGAAAAATTAAAAATATCAATTTTTTAAGGT-AAAATTTTCAAAAGATA
1 TTTTTTAAGGAAAAATTAAAAATATCAATTTTTTAAAATAAAAATTTT-AAAAAATA
* * * *
8791038 TATTTTTCA-GAAAAAGTTAAGAGTATCAATTTTTTTTAAAATAAAAATTTTAAAAACTA
1 T-TTTTTAAGGAAAAA-TTAAAAATATCAA--TTTTTTAAAATAAAAATTTTAAAAAATA
*
8791097 TTTTTTGAGGAAAAATTAAAAATATCAAATTTTCTT-AAATAAA
1 TTTTTTAAGGAAAAATTAAAAATATC-AATTTT-TTAAAATAAA
8791140 GGCATTAATC
Statistics
Matches: 84, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
56 7 0.08
57 28 0.33
58 17 0.20
59 24 0.29
60 8 0.10
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (56 bp):
TTTTTTAAGGAAAAATTAAAAATATCAATTTTTTAAAATAAAAATTTTAAAAAATA
Found at i:8793533 original size:109 final size:109
Alignment explanation
Indices: 8793342--8793563 Score: 426
Period size: 109 Copynumber: 2.0 Consensus size: 109
8793332 TTTTATTTGT
8793342 AAGTATTTTGAAGGTTCTATATTATAAGAAAAAGTTTGAGAATGCCATCAAAAATTTTGTTAATA
1 AAGTATTTTGAAGGTTCTATATTATAAGAAAAAGTTTGAGAATGCCATCAAAAATTTTGTTAATA
8793407 TGGTGATCTCCTGAAAAATTATAGAGAATGTTATTAAAAATGGC
66 TGGTGATCTCCTGAAAAATTATAGAGAATGTTATTAAAAATGGC
* *
8793451 AAGTATTTTGAAGGTTCTATATTATGAGAAAAAGTTTGAGAATGCCATCAAAAATTTTGTTGATA
1 AAGTATTTTGAAGGTTCTATATTATAAGAAAAAGTTTGAGAATGCCATCAAAAATTTTGTTAATA
8793516 TGGTGATCTCCTGAAAAATTATAGAGAATGTTATTAAAAATGGC
66 TGGTGATCTCCTGAAAAATTATAGAGAATGTTATTAAAAATGGC
8793560 AAGT
1 AAGT
8793564 TTAAAGAATG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 111 1.00
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.35
Consensus pattern (109 bp):
AAGTATTTTGAAGGTTCTATATTATAAGAAAAAGTTTGAGAATGCCATCAAAAATTTTGTTAATA
TGGTGATCTCCTGAAAAATTATAGAGAATGTTATTAAAAATGGC
Found at i:8803982 original size:13 final size:13
Alignment explanation
Indices: 8803964--8803998 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
8803954 TACTGTTTGA
*
8803964 CCTTTTTGTTTTT
1 CCTTTTTTTTTTT
8803977 -CTTTTTTTTTTT
1 CCTTTTTTTTTTT
8803989 CCTTTTTTTT
1 CCTTTTTTTT
8803999 ATTCAATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (13 bp):
CCTTTTTTTTTTT
Found at i:8805122 original size:16 final size:15
Alignment explanation
Indices: 8805098--8805167 Score: 51
Period size: 14 Copynumber: 4.9 Consensus size: 15
8805088 TTATTCAATC
*
8805098 AATTCAATTAATTTT
1 AATTAAATTAATTTT
8805113 GAATTAAATT-ATTTT
1 -AATTAAATTAATTTT
* *
8805128 TATTAATTTAA-TTT
1 AATTAAATTAATTTT
**
8805142 AATT-TTTTAATTTT
1 AATTAAATTAATTTT
8805156 AA--AAATTAATTT
1 AATTAAATTAATTT
8805168 GATTGATTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
13 12 0.27
14 18 0.41
15 6 0.14
16 8 0.18
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (15 bp):
AATTAAATTAATTTT
Found at i:8806970 original size:3 final size:3
Alignment explanation
Indices: 8806962--8807001 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
8806952 AGAGTTGTTT
8806962 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8807002 CTCCACATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8808953 original size:23 final size:23
Alignment explanation
Indices: 8808910--8808991 Score: 64
Period size: 25 Copynumber: 3.6 Consensus size: 23
8808900 TAAAATTAAA
* *
8808910 ATAATTTAT-ATTTTTATATTTAT
1 ATAATTTATAATATATA-ATTTAT
8808933 ATAATTTATAATATATAATTTTTAT
1 ATAATTTATAATATATAA--TTTAT
** *
8808958 ATAAAATATCATATA-AATTTAT
1 ATAATTTATAATATATAATTTAT
8808980 A-AATTT-TAATAT
1 ATAATTTATAATAT
8808992 TTTACATAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.10
21 3 0.06
22 6 0.12
23 10 0.21
24 7 0.15
25 17 0.35
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (23 bp):
ATAATTTATAATATATAATTTAT
Found at i:8808981 original size:31 final size:31
Alignment explanation
Indices: 8808910--8808987 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
8808900 TAAAATTAAA
** *
8808910 ATAATTTAT-ATTTTTATATTTATATAATTT
1 ATAATTTATAATTTTTATATAAATATAATAT
* *
8808940 ATAATATATAATTTTTATATAAAATATCATAT
1 ATAATTTATAATTTTTATAT-AAATATAATAT
*
8808972 A-AATTTATAAATTTTA
1 ATAATTTATAATTTTTA
8808988 ATATTTTACA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 8 0.21
31 23 0.59
32 8 0.21
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (31 bp):
ATAATTTATAATTTTTATATAAATATAATAT
Found at i:8816144 original size:27 final size:29
Alignment explanation
Indices: 8816098--8816160 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
8816088 TCTCAATTCT
*
8816098 TTTTTAAAGATATCTTAAAA-TTATATATA
1 TTTTT-AAGATATCTAAAAATTTATATATA
*
8816127 TTTTTAA-ATATCTAAAAATTTTTATATA
1 TTTTTAAGATATCTAAAAATTTATATATA
8816155 TTTTTA
1 TTTTTA
8816161 TTTTTATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 10 0.32
28 16 0.52
29 5 0.16
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTTTAAGATATCTAAAAATTTATATATA
Found at i:8819969 original size:4 final size:4
Alignment explanation
Indices: 8819960--8819996 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
8819950 TTTAATTTAA
*
8819960 AAAT AAAT -AAT AAAT AAAT CAAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
8819997 AAACAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:8819985 original size:8 final size:8
Alignment explanation
Indices: 8819960--8819996 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
8819950 TTTAATTTAA
8819960 AAATAAAT
1 AAATAAAT
8819968 -AATAAAT
1 AAATAAAT
*
8819975 AAATCAAT
1 AAATAAAT
8819983 AAATAAAT
1 AAATAAAT
8819991 -AATAAA
1 AAATAAA
8819997 AAACAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 13 0.50
8 13 0.50
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAAAT
Found at i:8823195 original size:17 final size:17
Alignment explanation
Indices: 8823165--8823214 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
8823155 ATATCTATTA
*
8823165 AATTACATATTAAATTT
1 AATTATATATTAAATTT
* *
8823182 TATTATA-ATATAAAATT
1 AATTATATAT-TAAATTT
8823199 AATTATATATTAAATT
1 AATTATATATTAAATT
8823215 ACTAAATATC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 2 0.08
17 22 0.85
18 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTATATATTAAATTT
Found at i:8823209 original size:34 final size:36
Alignment explanation
Indices: 8823143--8823214 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 36
8823133 TTTGTTTGAC
**
8823143 TTTTATTATAATATATCTATTAAATTACATATTAAA
1 TTTTATTATAATATATAAATTAAATTACATATTAAA
*
8823179 TTTTATTATAATATA-AAATT-AATTATATATTAAA
1 TTTTATTATAATATATAAATTAAATTACATATTAAA
8823213 TT
1 TT
8823215 ACTAAATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 15 0.45
35 3 0.09
36 15 0.45
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (36 bp):
TTTTATTATAATATATAAATTAAATTACATATTAAA
Found at i:8823308 original size:18 final size:18
Alignment explanation
Indices: 8823267--8823308 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
8823257 TTAACTATAC
8823267 ATTAAATTACTATAATAA
1 ATTAAATTACTATAATAA
* *
8823285 AATAAATCTA-TATAATAT
1 ATTAAAT-TACTATAATAA
8823303 ATTAAA
1 ATTAAA
8823309 ATTAATTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAAATTACTATAATAA
Found at i:8823675 original size:16 final size:17
Alignment explanation
Indices: 8823632--8823675 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
8823622 ATATTAAATT
8823632 TTAA-TAAAATATAAAA
1 TTAATTAAAATATAAAA
*
8823648 TTAATT-ACATATAAAA
1 TTAATTAAAATATAAAA
8823664 TT-ATTAAAATAT
1 TTAATTAAAATAT
8823676 CATTCTCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 3 0.12
16 20 0.83
17 1 0.04
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAATTAAAATATAAAA
Found at i:8825409 original size:29 final size:28
Alignment explanation
Indices: 8825356--8825443 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
8825346 ATTAATTTAT
*
8825356 GTTAAGAATTTATTTAGGAATAAATTAAA
1 GTTAAAAATTTATTTA-GAATAAATTAAA
8825385 GTTAAAAATTTATTTA-AATACAAATTAAA
1 GTTAAAAATTTATTTAGAAT--AAATTAAA
* * * *
8825414 TATTAAATATTTTTTTGAGTATAAATTAAA
1 -GTTAAAAATTTATTT-AGAATAAATTAAA
8825444 ATTCAAAAGC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
27 3 0.06
29 23 0.47
30 20 0.41
31 1 0.02
32 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.42
Consensus pattern (28 bp):
GTTAAAAATTTATTTAGAATAAATTAAA
Found at i:8825440 original size:30 final size:29
Alignment explanation
Indices: 8825357--8825461 Score: 86
Period size: 30 Copynumber: 3.6 Consensus size: 29
8825347 TTAATTTATG
* * *
8825357 TTAAGAATTTATTTAGGA-ATAAATTAAAG
1 TTAAAAATTTATTTA-AATATAAATTAAAA
*
8825386 TTAAAAATTTATTTAAATACAAATTAAATA
1 TTAAAAATTTATTTAAATATAAATTAAA-A
* * * *
8825416 TTAAATATTTTTTTGAGTATAAATTAAAA
1 TTAAAAATTTATTTAAATATAAATTAAAA
**
8825445 TTCAAAAGCTTATTTAA
1 TT-AAAAATTTATTTAA
8825462 GCATAATAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
28 1 0.02
29 26 0.44
30 32 0.54
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.42
Consensus pattern (29 bp):
TTAAAAATTTATTTAAATATAAATTAAAA
Found at i:8833763 original size:24 final size:24
Alignment explanation
Indices: 8833720--8833779 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
8833710 TTTAAAATAT
*
8833720 AAAAAATAAAAATTTTAGATA-TTA
1 AAAAAAT-ATAATTTTAGATATTTA
8833744 AAAAAATATAATTTTGAGATATTTA
1 AAAAAATATAATTTT-AGATATTTA
*
8833769 AAAAAAAATAA
1 AAAAAATATAA
8833780 ACAAAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 7 0.22
24 12 0.38
25 13 0.41
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (24 bp):
AAAAAATATAATTTTAGATATTTA
Found at i:8838065 original size:33 final size:33
Alignment explanation
Indices: 8838019--8838084 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
8838009 CATTGTATTA
* * *
8838019 CTCACAACGCTAATCGCATTGAAAGCAAAAATT
1 CTCACAACACTAATCACATTGAAAACAAAAATT
*
8838052 CTCATAACACTAATCACATTGAAAACAAAAATT
1 CTCACAACACTAATCACATTGAAAACAAAAATT
8838085 ATGCACTAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.23
Consensus pattern (33 bp):
CTCACAACACTAATCACATTGAAAACAAAAATT
Found at i:8842392 original size:17 final size:19
Alignment explanation
Indices: 8842361--8842435 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 19
8842351 TCAAATGAAT
8842361 AATATTTAAATTATAATAA
1 AATATTTAAATTATAATAA
* * *
8842380 AATATTTAATATAATATTTA
1 AATATTTAA-ATTATAATAA
*
8842400 AAT-TTTAAAAGTT-TAATAT
1 AATATTT-AAA-TTATAATAA
8842419 AATATTTAAATTATAAT
1 AATATTTAAATTATAAT
8842436 TTTATTATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
18 2 0.05
19 26 0.59
20 16 0.36
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (19 bp):
AATATTTAAATTATAATAA
Found at i:8842619 original size:13 final size:13
Alignment explanation
Indices: 8842601--8842625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8842591 ATCATTTATG
8842601 ATATTAATATTTA
1 ATATTAATATTTA
8842614 ATATTAATATTT
1 ATATTAATATTT
8842626 TTTATAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATATTAATATTTA
Found at i:8843406 original size:2 final size:2
Alignment explanation
Indices: 8843401--8843427 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8843391 ATATCAATCC
8843401 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 A
8843428 GACACACACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8845049 original size:29 final size:29
Alignment explanation
Indices: 8845011--8845067 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
8845001 AACACTACTA
* *
8845011 AGATATTTATTTGCAGATGGGTACTAATG
1 AGATACTTATTTGCAGATGGGTAATAATG
8845040 AGATACTTATTTGCAGATGGGTAATAAT
1 AGATACTTATTTGCAGATGGGTAATAAT
8845068 CTAGTGGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (29 bp):
AGATACTTATTTGCAGATGGGTAATAATG
Found at i:8849036 original size:14 final size:14
Alignment explanation
Indices: 8849008--8849053 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
8848998 CGAAGTTTGG
*
8849008 TATAATTAA-TTTA
1 TATAAATAATTTTA
8849021 TATAAATAATTTTA
1 TATAAATAATTTTA
8849035 TA-AAATAATATTTAA
1 TATAAATAAT-TTT-A
8849050 TATA
1 TATA
8849054 TTTTAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 15 0.54
14 9 0.32
15 3 0.11
16 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATAAATAATTTTA
Found at i:8850182 original size:15 final size:15
Alignment explanation
Indices: 8850162--8850204 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
8850152 TAATTCAACT
8850162 AAATATATATT-TTAA
1 AAATAT-TATTATTAA
*
8850177 AAATATTTTTATTAA
1 AAATATTATTATTAA
*
8850192 AAATTTTATTATT
1 AAATATTATTATT
8850205 TTATTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATATTATTATTAA
Found at i:8854704 original size:8 final size:8
Alignment explanation
Indices: 8854693--8854735 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
8854683 TTTAATTTTT
8854693 TATTTATA
1 TATTTATA
8854701 TATTTATA
1 TATTTATA
8854709 -A-TTATA
1 TATTTATA
*
8854715 TATTTAAA
1 TATTTATA
8854723 TATTTATA
1 TATTTATA
8854731 T-TTTA
1 TATTTA
8854736 AAAATAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 6 0.19
8 20 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTTATA
Found at i:8854710 original size:22 final size:22
Alignment explanation
Indices: 8854685--8854735 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
8854675 ATTAATTATT
* *
8854685 TAATTTTTTATTTATATATTTA
1 TAATTTTATATTTAAATATTTA
*
8854707 TAATTATATATTTAAATATTTA
1 TAATTTTATATTTAAATATTTA
8854729 T-ATTTTA
1 TAATTTTA
8854736 AAAATAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TAATTTTATATTTAAATATTTA
Found at i:8855837 original size:17 final size:16
Alignment explanation
Indices: 8855815--8855850 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
8855805 TTATATAAAG
*
8855815 TTAAAGGCTAGTAGATT
1 TTAAAGCCTAGTAG-TT
8855832 TTAAAGCCTAGTAGTT
1 TTAAAGCCTAGTAGTT
8855848 TTA
1 TTA
8855851 GTGGCAGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.39
Consensus pattern (16 bp):
TTAAAGCCTAGTAGTT
Found at i:8856865 original size:15 final size:15
Alignment explanation
Indices: 8856845--8856892 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
8856835 AATAATTGTG
8856845 TTTTATTTTAATTAA
1 TTTTATTTTAATTAA
8856860 TTTTA--TT--TT--
1 TTTTATTTTAATTAA
8856869 TTTTATTTTAATTAA
1 TTTTATTTTAATTAA
8856884 TTTTATTTT
1 TTTTATTTT
8856893 TTTTCTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
9 5 0.19
11 4 0.15
13 4 0.15
15 14 0.52
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTATTTTAATTAA
Found at i:8856876 original size:24 final size:24
Alignment explanation
Indices: 8856845--8856896 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
8856835 AATAATTGTG
8856845 TTTTATTTTAATTAATTTTATTTT
1 TTTTATTTTAATTAATTTTATTTT
8856869 TTTTATTTTAATTAATTTTATTTT
1 TTTTATTTTAATTAATTTTATTTT
8856893 TTTT
1 TTTT
8856897 CTTCATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTATTTTAATTAATTTTATTTT
Found at i:8858566 original size:20 final size:19
Alignment explanation
Indices: 8858527--8858566 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
8858517 GTAGTTTTTT
**
8858527 TTTTCTTCTAAATTTCGTA
1 TTTTCTTCTAAATTAAGTA
8858546 TTTTCTATCTAAATTAAGTA
1 TTTTCT-TCTAAATTAAGTA
8858566 T
1 T
8858567 AACAAGAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTCTTCTAAATTAAGTA
Found at i:8862840 original size:21 final size:21
Alignment explanation
Indices: 8862800--8862841 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
8862790 TTGTCCAAAC
*
8862800 TTTTTTTTTTTCCAACAAAAG
1 TTTTTTTTTTTCCAAAAAAAG
8862821 TTTTTTTTTTAT-CAAAAAAAG
1 TTTTTTTTTT-TCCAAAAAAAG
8862842 ATTTGTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (21 bp):
TTTTTTTTTTTCCAAAAAAAG
Found at i:8863404 original size:28 final size:28
Alignment explanation
Indices: 8863350--8863418 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
8863340 AAATAATAAT
* *
8863350 AAAATATTTAATATGATATTTAAAATTTA
1 AAAATTTTTAATATAATATTTAAAA-TTA
* *
8863379 AAAATTTTTAATGTAATATTT-GAATTA
1 AAAATTTTTAATATAATATTTAAAATTA
*
8863406 TAAATTTATTAAT
1 AAAATTT-TTAAT
8863419 TAGTACGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 9 0.26
28 7 0.21
29 18 0.53
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (28 bp):
AAAATTTTTAATATAATATTTAAAATTA
Found at i:8870329 original size:29 final size:29
Alignment explanation
Indices: 8870292--8870414 Score: 183
Period size: 29 Copynumber: 4.1 Consensus size: 29
8870282 CTTACAATCA
* *
8870292 AAAAGAATACATGGAAATATACAGGCTGT
1 AAAACAATACATGGAAATATACAGGCTAT
8870321 AAAACAATACATGGAAATATACAGGCTAT
1 AAAACAATACATGGAAATATACAGGCTAT
8870350 AAAACAATACATGGAAATATACAGGCTAT
1 AAAACAATACATGGAAATATACAGGCTAT
**
8870379 ACAGGCTATATACATGGAAATATACAGGCTAT
1 A-AAAC-A-ATACATGGAAATATACAGGCTAT
8870411 AAAA
1 AAAA
8870415 AATTTGCTGT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
29 57 0.67
30 2 0.02
31 2 0.02
32 24 0.28
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (29 bp):
AAAACAATACATGGAAATATACAGGCTAT
Found at i:8871638 original size:23 final size:23
Alignment explanation
Indices: 8871612--8871656 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8871602 AATAATTACA
*
8871612 ATAATTACGATTAAAAAAAATTT
1 ATAATTACAATTAAAAAAAATTT
**
8871635 ATAATTGTAATTAAAAAAAATT
1 ATAATTACAATTAAAAAAAATT
8871657 CAATAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
ATAATTACAATTAAAAAAAATTT
Found at i:8873560 original size:16 final size:15
Alignment explanation
Indices: 8873521--8873562 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
8873511 GACCACCTAA
8873521 ATAAAAAAATAAATG
1 ATAAAAAAATAAATG
8873536 ACTAAAAAAATGAAA-G
1 A-TAAAAAAAT-AAATG
8873552 ATAATAAAAAT
1 ATAA-AAAAAT
8873563 TATAATTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.17
16 17 0.71
17 3 0.12
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.19
Consensus pattern (15 bp):
ATAAAAAAATAAATG
Found at i:8882001 original size:29 final size:28
Alignment explanation
Indices: 8881936--8882011 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
8881926 TTAAATTTTA
* * *
8881936 TTATTTTACA-TAAATAAGACTTTGTAT
1 TTATTTTACATTAAATAAGTCATTATAT
*
8881963 TT-TTTTACATTTAAATAAGTCATTATTT
1 TTATTTTACA-TTAAATAAGTCATTATAT
*
8881991 TTATTTTACATCCAAATAAGT
1 TTATTTTACAT-TAAATAAGT
8882012 TTTCAAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 7 0.17
27 2 0.05
28 16 0.40
29 15 0.38
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (28 bp):
TTATTTTACATTAAATAAGTCATTATAT
Found at i:8882077 original size:16 final size:16
Alignment explanation
Indices: 8882052--8882100 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
8882042 CTTAATTTTT
*
8882052 AATTTGTATTTAAATA
1 AATTTTTATTTAAATA
*
8882068 AATTTTTATTTGTAATA
1 AATTTTTATTT-AAATA
**
8882085 AAAATTTATTTAAATA
1 AATTTTTATTTAAATA
8882101 TAAATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
AATTTTTATTTAAATA
Found at i:8882089 original size:23 final size:23
Alignment explanation
Indices: 8882045--8882089 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8882035 TGTAAGTCTT
**
8882045 AATTTTTAATTTGTATTTAAATA
1 AATTTTTAATTTGTATAAAAATA
8882068 AATTTTT-ATTTGTAATAAAAAT
1 AATTTTTAATTTGT-ATAAAAAT
8882090 TTATTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
AATTTTTAATTTGTATAAAAATA
Found at i:8882113 original size:29 final size:28
Alignment explanation
Indices: 8882081--8882160 Score: 106
Period size: 29 Copynumber: 2.8 Consensus size: 28
8882071 TTTTATTTGT
*
8882081 AATAAAAATTTATTTAAATATAAATAAAA
1 AATAAAAATTTATCTAAATA-AAATAAAA
** *
8882110 AATAAGTATTTATCTGAATAAAATAAAA
1 AATAAAAATTTATCTAAATAAAATAAAA
8882138 ATATAAAAATTTATCTAAATAAA
1 A-ATAAAAATTTATCTAAATAAA
8882161 TTTTTTTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 9 0.21
29 34 0.79
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AATAAAAATTTATCTAAATAAAATAAAA
Found at i:8894922 original size:6 final size:6
Alignment explanation
Indices: 8894913--8894997 Score: 51
Period size: 6 Copynumber: 15.3 Consensus size: 6
8894903 AAGATTTTTT
*
8894913 AATATA AATATA AA-ATT AA-ATA AATATA AA-AT- -ATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
* * * * *
8894956 AA-AT- TATATA AATA-A TTATATA TATATA TATATA TATATA AA
1 AATATA AATATA AATATA -AATATA AATATA AATATA AATATA AA
8894998 CTGAGTCAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 3 0.05
5 15 0.23
6 45 0.69
7 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AATATA
Found at i:8894937 original size:16 final size:16
Alignment explanation
Indices: 8894911--8894969 Score: 84
Period size: 16 Copynumber: 3.7 Consensus size: 16
8894901 AAAAGATTTT
8894911 TTAATATAAATATAAAA
1 TTAA-ATAAATATAAAA
8894928 TTAAATAAATATAAAA
1 TTAAATAAATATAAAA
*
8894944 -TATATAAATATAAAA
1 TTAAATAAATATAAAA
*
8894959 TTATATAAATA
1 TTAAATAAATA
8894970 ATTATATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
15 14 0.35
16 22 0.55
17 4 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:8894965 original size:2 final size:2
Alignment explanation
Indices: 8894943--8894995 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
8894933 TAAATATAAA
* * *
8894943 AT AT AT AA AT AT A- AA AT -T AT AT AA AT A- AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8894981 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
8894996 AACTGAGTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
1 4 0.10
2 38 0.90
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:8897546 original size:3 final size:3
Alignment explanation
Indices: 8897538--8897564 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8897528 AGTATACTAT
8897538 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
8897565 ATATAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8902667 original size:2 final size:2
Alignment explanation
Indices: 8902660--8902688 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8902650 CTGGTACTTA
8902660 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 A
8902689 ATTTAATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8902949 original size:18 final size:17
Alignment explanation
Indices: 8902909--8902942 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8902899 TAATTGGTGT
8902909 TATATTTTAAGTAATTA
1 TATATTTTAAGTAATTA
*
8902926 TCTATTTTAAGTCAATT
1 TATATTTTAAGT-AATT
8902943 TAATATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (17 bp):
TATATTTTAAGTAATTA
Found at i:8903164 original size:13 final size:13
Alignment explanation
Indices: 8903143--8903173 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8903133 TCTCTCTTTC
8903143 TTTTCTTTTCTAT
1 TTTTCTTTTCTAT
*
8903156 TTTTTTTTTCTAT
1 TTTTCTTTTCTAT
8903169 TTTTC
1 TTTTC
8903174 ACCTTTTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTCTAT
Found at i:8903549 original size:2 final size:2
Alignment explanation
Indices: 8903542--8903575 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
8903532 CAATTTTAGG
*
8903542 AT AT AT AT AT GT 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
8903576 TTGAGTGAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8904286 original size:43 final size:47
Alignment explanation
Indices: 8904239--8904333 Score: 108
Period size: 48 Copynumber: 2.1 Consensus size: 47
8904229 AATATAATTA
* *
8904239 ATTAATTAATTTAAATATA-A-TATA-AAT-ATATAAAAATAAATAT
1 ATTAAATAAGTTAAATATATATTATATAATAATATAAAAATAAATAT
* * *
8904282 ATTAAATACGTTAAATATATATTTATATAATAATATTAAATTAAATAT
1 ATTAAATAAGTTAAATATATA-TTATATAATAATATAAAAATAAATAT
8904330 ATTA
1 ATTA
8904334 TTCGTATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
43 16 0.38
44 1 0.02
46 4 0.10
47 3 0.07
48 18 0.43
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (47 bp):
ATTAAATAAGTTAAATATATATTATATAATAATATAAAAATAAATAT
Found at i:8904433 original size:21 final size:21
Alignment explanation
Indices: 8904397--8904440 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
8904387 ATCATACGAA
*
8904397 TAAATATAAAATATAT-TTTT
1 TAAAAATAAAATATATGTTTT
8904417 TAAAAATAAATATATATGTTTT
1 TAAAAATAAA-ATATATGTTTT
8904439 TA
1 TA
8904441 TCATTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 6 0.29
22 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TAAAAATAAAATATATGTTTT
Found at i:8909032 original size:37 final size:37
Alignment explanation
Indices: 8908960--8909032 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 37
8908950 CCACCACTCC
* * * *
8908960 GACCACCACATTTAACCTTCAACAACTTTTGATGGAG
1 GACCACCACATTCAACCTTAAACAACTATTAATGGAG
*
8908997 GACCACCACATTCGACCTTAAACAA-TCATTAATGGA
1 GACCACCACATTCAACCTTAAACAACT-ATTAATGGA
8909033 AGATGATGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 1 0.03
37 29 0.97
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (37 bp):
GACCACCACATTCAACCTTAAACAACTATTAATGGAG
Found at i:8917070 original size:21 final size:21
Alignment explanation
Indices: 8917033--8917072 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8917023 TTTTTTCCCT
*
8917033 TTTTTATTTAAATAAAAGGGA
1 TTTTTATTTAAAAAAAAGGGA
8917054 TTTTT-TTTAAAGAAAAAGG
1 TTTTTATTTAAA-AAAAAGG
8917073 CTATAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (21 bp):
TTTTTATTTAAAAAAAAGGGA
Found at i:8920846 original size:21 final size:21
Alignment explanation
Indices: 8920820--8920881 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
8920810 AAATTAATTT
8920820 TTTATTTAATAATATATAAAA
1 TTTATTTAATAATATATAAAA
*
8920841 TTTATTTTAGATTA-AT-TAAAA
1 TTTA-TTTA-ATAATATATAAAA
*
8920862 TTGATATTTAAAAATATATA
1 TT--TATTTAATAATATATA
8920882 TTTATAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
21 13 0.41
22 12 0.38
23 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
TTTATTTAATAATATATAAAA
Found at i:8924036 original size:54 final size:54
Alignment explanation
Indices: 8923949--8924054 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
8923939 CAGCTCCATG
** * *
8923949 GCGTCAAATAGACTCATGTATGCAAATTTAAGTATTAATGATTCCC-AGACATA
1 GCGTCAAATAGACTCACATATGCAAACTCAAGTATTAATGATTCCCAAGACATA
* *
8924002 GCGTCAAAATAGACTGACATATGCAAACTCAAGTATTTATGATTCCCAAGACA
1 GCGTC-AAATAGACTCACATATGCAAACTCAAGTATTAATGATTCCCAAGACA
8924055 ATTAAATCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 5 0.11
54 35 0.78
55 5 0.11
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (54 bp):
GCGTCAAATAGACTCACATATGCAAACTCAAGTATTAATGATTCCCAAGACATA
Found at i:8924530 original size:67 final size:67
Alignment explanation
Indices: 8924427--8924556 Score: 208
Period size: 67 Copynumber: 1.9 Consensus size: 67
8924417 TTAATCTAAT
* * *
8924427 GGTTGCCATTCATAACATATGTTGTTTTGTACTCAACCATTAGAATTGAACTTTTTCTTTCCTTA
1 GGTTGCCATTCATAACATATGCTGTTTTGCACTCAACCATTAGAACTGAAC-TTTTCTTTCCTTA
8924492 GTA
65 GTA
*
8924495 GGTTGCCATTCAT-ACATGTGCTGTTTTGCACTCAACCATTAGAACTGAACTTTTCTTTCCTT
1 GGTTGCCATTCATAACATATGCTGTTTTGCACTCAACCATTAGAACTGAACTTTTCTTTCCTT
8924557 CCTACAAAAC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 12 0.21
67 33 0.57
68 13 0.22
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (67 bp):
GGTTGCCATTCATAACATATGCTGTTTTGCACTCAACCATTAGAACTGAACTTTTCTTTCCTTAG
TA
Found at i:8924897 original size:27 final size:26
Alignment explanation
Indices: 8924844--8924898 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
8924834 ATTATATTTC
* * **
8924844 TTTTTTGCAAAAAGTTCTTTTTTTTT
1 TTTTTTGAAAAAAGTTCATTTAGTTT
8924870 TTTTTTGAAATAAAGTTCATTTAGTTT
1 TTTTTTGAAA-AAAGTTCATTTAGTTT
8924897 TT
1 TT
8924899 AAGTAGTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.24, C:0.05, G:0.09, T:0.62
Consensus pattern (26 bp):
TTTTTTGAAAAAAGTTCATTTAGTTT
Found at i:8928544 original size:17 final size:17
Alignment explanation
Indices: 8928522--8928570 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
8928512 ATTATTTGGG
*
8928522 TTCATAAATATTATAAT
1 TTCATAAATATTATAAC
*
8928539 TTCATAAATAAT-TAAC
1 TTCATAAATATTATAAC
*
8928555 TTCATATATAATTATA
1 TTCATAAAT-ATTATA
8928571 TTTATTTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 11 0.42
17 13 0.50
18 2 0.08
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (17 bp):
TTCATAAATATTATAAC
Found at i:8928560 original size:16 final size:16
Alignment explanation
Indices: 8928522--8928568 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
8928512 ATTATTTGGG
* *
8928522 TTCATAAATATTATAAT
1 TTCATAAATAAT-TAAC
8928539 TTCATAAATAATTAAC
1 TTCATAAATAATTAAC
*
8928555 TTCATATATAATTA
1 TTCATAAATAATTA
8928569 TATTTATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCATAAATAATTAAC
Found at i:8929504 original size:18 final size:19
Alignment explanation
Indices: 8929481--8929523 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
8929471 ATATAAAATA
*
8929481 TTTATAAAAAATT-TTATT
1 TTTATAAAAAATTATTAGT
*
8929499 TTTAT-AAGAATTATTAGT
1 TTTATAAAAAATTATTAGT
8929517 TTTATAA
1 TTTATAA
8929524 TCAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 14 0.67
19 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TTTATAAAAAATTATTAGT
Found at i:8939452 original size:25 final size:22
Alignment explanation
Indices: 8939424--8939469 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
8939414 AAGAGCAAGG
8939424 TGCAGTGGATGATAGAGACACTTTC
1 TGCA-TGG-TGATAGAGAC-CTTTC
*
8939449 TGCATGGTGTTAGAGACCTTT
1 TGCATGGTGATAGAGACCTTT
8939470 TAAGTATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 3 0.15
25 4 0.20
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (22 bp):
TGCATGGTGATAGAGACCTTTC
Found at i:8946864 original size:236 final size:236
Alignment explanation
Indices: 8946463--8946925 Score: 692
Period size: 236 Copynumber: 2.0 Consensus size: 236
8946453 TCAAAAAAAA
* * *
8946463 TTTTAACTTAATACCTTAACAGATATTTCATAAAGATCATCAATATCTCTATTAATTAAATCCTT
1 TTTTAACTCAATACCTTAACAAATATTTCATAAAGATCATCAATATCACTATTAATTAAATCCTT
** * * * * *
8946528 AGGTTCTATGTTGAACAGTACAAATATCATCATTTCAGAATTATTATACATCAAAATATTCAACT
66 AACTTCTATATTGAACAGTACAAATATCATCATTCCAGAATCATCATACACCAAAATATTCAACT
* * ***
8946593 TGTACCTATAAAAAATACAAAATTCTACAATTATAAATATAATATAATGATTTAAAATGTTTTTA
131 TGTACCTATAAAAAATACAAAATTCTACAATTATAAATATAATAAAATAATTTAAAACACTTTTA
8946658 TTATCATCATGGAATAAAAATTTTTTATGTATCAAAAATTT
196 TTATCATCATGGAATAAAAATTTTTTATGTATCAAAAATTT
* *
8946699 TTTTAACTCAATACCTTAACAAATATTTCATAAAGATTATCAATATCACTATTATTTAAATCCTT
1 TTTTAACTCAATACCTTAACAAATATTTCATAAAGATCATCAATATCACTATTAATTAAATCCTT
* * * * **
8946764 AACTTCTGTATTGAACTGTACAAATATCGTCCTTCCAGAATCATCATATGCCAAAATATTCAACT
66 AACTTCTATATTGAACAGTACAAATATCATCATTCCAGAATCATCATACACCAAAATATTCAACT
* *
8946829 TGTACCTATAACAAATACAAAATTCTACAATTATAAATATAATAAAATAATTTGAAACACTTTTA
131 TGTACCTATAAAAAATACAAAATTCTACAATTATAAATATAATAAAATAATTTAAAACACTTTTA
*
8946894 TTATCATCATGGAATAATAATTTTTTATGTAT
196 TTATCATCATGGAATAAAAATTTTTTATGTAT
8946926 TAAATTTAAA
Statistics
Matches: 201, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
236 201 1.00
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.39
Consensus pattern (236 bp):
TTTTAACTCAATACCTTAACAAATATTTCATAAAGATCATCAATATCACTATTAATTAAATCCTT
AACTTCTATATTGAACAGTACAAATATCATCATTCCAGAATCATCATACACCAAAATATTCAACT
TGTACCTATAAAAAATACAAAATTCTACAATTATAAATATAATAAAATAATTTAAAACACTTTTA
TTATCATCATGGAATAAAAATTTTTTATGTATCAAAAATTT
Found at i:8947703 original size:31 final size:32
Alignment explanation
Indices: 8947667--8947741 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
8947657 TACAAATAAA
** *
8947667 ATCAAATGAAATC-CTCGTACGTTAATATTTT
1 ATCAAATGAAATCAAACGTACATTAATATTTT
*
8947698 ATCAAATGAAATCAAACGTGCATTAATATTTT
1 ATCAAATGAAATCAAACGTACATTAATATTTT
*
8947730 ACCAAATGAAAT
1 ATCAAATGAAAT
8947742 AAAATGAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
31 13 0.34
32 25 0.66
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (32 bp):
ATCAAATGAAATCAAACGTACATTAATATTTT
Done.