Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 80 of 199
Found at i:22657563 original size:121 final size:119
Alignment explanation
Indices: 22657246--22657668 Score: 641
Period size: 122 Copynumber: 3.5 Consensus size: 119
22657236 ATTTCAACAT
* * *
22657246 TTATAATTATGTATAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGATTACATATCCA
1 TTATAATTATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCA
* *
22657311 TACTAATATAGGTTATATATTTAAAATATAGGTTTTAATATTTAAAATATAATAT
66 TACTAATATAGGTTATATATTTAAAAAATAGGTTTTAATATTTAAAATATAA-AA
* *
22657366 TTATAATTATGTTTAAAATTTAAAAAAAGTTATTAGTAATGAATTTGAAATATATGTAATATATC
1 TTATAATTATGTTTAAAATTT--AAAAAGTTATTAGTAATGAATTTGAAATATAGGTTATATATC
* *
22657431 CAGACTAATATAGGTGATATATTTAAAAAATAGGTTTTAATATTTAAAAATATAAAA
64 CATACTAATATAGGTTATATATTTAAAAAATAGGTTTTAATATTT-AAAATATAAAA
*
22657488 TAAATAATTATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCC
1 T-TATAATTATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCC
*
22657553 ATACTAATATAGGTTATATA-TTAAAAATATAGGTTTAAAGTTATTTAAAATATAATAA
65 ATACTAATATAGGTTATATATTTAAAAA-ATAGGTTTTAA--TATTTAAAATATAA-AA
* *
22657611 TTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTTGAAATATAGGTTAT
1 TTATAATTATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTTAT
22657669 TTATTAATAA
Statistics
Matches: 277, Mismatches: 18, Indels: 14
0.90 0.06 0.05
Matches are distributed among these distances:
120 27 0.10
121 69 0.25
122 145 0.52
123 36 0.13
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.42
Consensus pattern (119 bp):
TTATAATTATGTTTAAAATTTAAAAAGTTATTAGTAATGAATTTGAAATATAGGTTATATATCCA
TACTAATATAGGTTATATATTTAAAAAATAGGTTTTAATATTTAAAATATAAAA
Found at i:22657736 original size:100 final size:99
Alignment explanation
Indices: 22657558--22657789 Score: 383
Period size: 100 Copynumber: 2.3 Consensus size: 99
22657548 TATCCATACT
*
22657558 AATATAGGTTATATATTAAAAATATAGGTTTAAAGTTATTTAAAATATAATAATTATAATTATTT
1 AATATAGGTTATATATTAATAATATAGGTTTAAAGTTATTTAAAATATAATAATTATAATTATTT
22657623 TTAAAATTTAAAAACTTATTAGTAATGAATTTGA
66 TTAAAATTTAAAAACTTATTAGTAATGAATTTGA
* * *
22657657 AATATAGGTTATTTATTAATAATATAGGTTTTAAGTTATTTAAAAATATAATATTTATAATTATT
1 AATATAGGTTATATATTAATAATATAGGTTTAAAGTTATTT-AAAATATAATAATTATAATTATT
*
22657722 TTTAAAATTTAAAAATTTATTAGTAATGAATTTGA
65 TTTAAAATTTAAAAACTTATTAGTAATGAATTTGA
22657757 AATATAGGTTATATATTCATACTAATATAGGTT
1 AATATAGGTTATATATT-A-A-TAATATAGGTT
22657790 ACATATTAAT
Statistics
Matches: 123, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
99 38 0.31
100 72 0.59
101 1 0.01
102 1 0.01
103 11 0.09
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (99 bp):
AATATAGGTTATATATTAATAATATAGGTTTAAAGTTATTTAAAATATAATAATTATAATTATTT
TTAAAATTTAAAAACTTATTAGTAATGAATTTGA
Found at i:22659609 original size:125 final size:124
Alignment explanation
Indices: 22659450--22659848 Score: 559
Period size: 125 Copynumber: 3.2 Consensus size: 124
22659440 AATTTTATAA
* * * * *
22659450 CTTTTGCAGCGTTT-TCAGCAAAAACGCCACTAAAAAATTAATTTCCTATAACGAAACAGCACCA
1 CTTTTGCGGCGTTTCTGAG-AAAAACGCCACTAAAAAATTAATTTCCTGTAACCAAACAGCACCG
*** * *
22659514 TTTTGCACAATTTTTAATACACAATTGCGGCGTTTTTAGACCAAACGGCACTATTGCTTAC
65 TTTTG-ACAATTTTTAATACATTGTTGCGGCGTTTTTAGACCAAACGCCGCTATTGCTTAC
* * * * *
22659575 CTTTTGCGGCATTTCTGAGAAAAACGCCACTAAAAATTTAATTTCCTGGAACTAAACAACACCGT
1 CTTTTGCGGCGTTTCTGAGAAAAACGCCACTAAAAAATTAATTTCCTGTAACCAAACAGCACCGT
22659640 TTTGTACAATTTTTAATACATTGTTGCGGCGTTTTTAGACCAAACGCCGCTATTGCTTAC
66 TTTG-ACAATTTTTAATACATTGTTGCGGCGTTTTTAGACCAAACGCCGCTATTGCTTAC
* * * *
22659700 CTTTTGCGGCGTTTTTGAGAAAAATGCCACTAAAAAATTAAATTCCTGTAACCAAACGGCACCGT
1 CTTTTGCGGCGTTTCTGAGAAAAACGCCACTAAAAAATTAATTTCCTGTAACCAAACAGCACCGT
* *
22659765 CTTT-ACAATTTTTAATACATTGTTGCGGCGTTTTTTGTCCAAACGCCGCTATTGCTTAC
66 -TTTGACAATTTTTAATACATTGTTGCGGCGTTTTTAGACCAAACGCCGCTATTGCTTAC
22659824 CTTTTGCGGCGTTTCTGAGAAAAAC
1 CTTTTGCGGCGTTTCTGAGAAAAAC
22659849 ACCGCAAACG
Statistics
Matches: 244, Mismatches: 28, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
124 76 0.31
125 162 0.66
126 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (124 bp):
CTTTTGCGGCGTTTCTGAGAAAAACGCCACTAAAAAATTAATTTCCTGTAACCAAACAGCACCGT
TTTGACAATTTTTAATACATTGTTGCGGCGTTTTTAGACCAAACGCCGCTATTGCTTAC
Found at i:22661138 original size:31 final size:30
Alignment explanation
Indices: 22661103--22661162 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
22661093 GGAGGTGGGA
*
22661103 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
22661134 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
22661163 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:22661390 original size:9 final size:9
Alignment explanation
Indices: 22661376--22661412 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22661366 TATAGTTTGA
22661376 TATTCGAAT
1 TATTCGAAT
22661385 TATTCGAAT
1 TATTCGAAT
*
22661394 TATTCGAGT
1 TATTCGAAT
22661403 TATTCGAAT
1 TATTCGAAT
22661412 T
1 T
22661413 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:22661488 original size:18 final size:18
Alignment explanation
Indices: 22661465--22661499 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22661455 ATTCGAGTTG
22661465 ATTCGAATAACTCGATTA
1 ATTCGAATAACTCGATTA
22661483 ATTCGAATAACTCGATT
1 ATTCGAATAACTCGATT
22661500 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
ATTCGAATAACTCGATTA
Found at i:22661534 original size:9 final size:10
Alignment explanation
Indices: 22661514--22661538 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22661504 TAACTCGAAA
22661514 TTCGATTTTT
1 TTCGATTTTT
22661524 TTCGATTTTT
1 TTCGATTTTT
22661534 TTCGA
1 TTCGA
22661539 GTCGAATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.64
Consensus pattern (10 bp):
TTCGATTTTT
Found at i:22661648 original size:7 final size:7
Alignment explanation
Indices: 22661636--22661749 Score: 97
Period size: 7 Copynumber: 16.6 Consensus size: 7
22661626 AAAAACCTCT
22661636 TAAACCC
1 TAAACCC
22661643 TAAA-CC
1 TAAACCC
*
22661649 TAAACCG
1 TAAACCC
*
22661656 TAAACAC
1 TAAACCC
*
22661663 TAAACTC
1 TAAACCC
* *
22661670 TTAACAC
1 TAAACCC
* *
22661677 TAAATCA
1 TAAACCC
22661684 TAAACCC
1 TAAACCC
22661691 TAAACCC
1 TAAACCC
22661698 TAAACCC
1 TAAACCC
*
22661705 TAAACCT
1 TAAACCC
22661712 TAAACCC
1 TAAACCC
* *
22661719 CAAACCT
1 TAAACCC
*
22661726 TAAA-CA
1 TAAACCC
*
22661732 TACACCC
1 TAAACCC
*
22661739 TAAACCT
1 TAAACCC
22661746 TAAA
1 TAAA
22661750 TATATATATT
Statistics
Matches: 83, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
6 10 0.12
7 73 0.88
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:22661999 original size:19 final size:19
Alignment explanation
Indices: 22661977--22662014 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22661967 AAAAGTCTAA
22661977 AATAAAATTATTTTCTTGC
1 AATAAAATTATTTTCTTGC
22661996 AATAAAATTATTTTCTTGC
1 AATAAAATTATTTTCTTGC
22662015 GGCGTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (19 bp):
AATAAAATTATTTTCTTGC
Found at i:22662151 original size:76 final size:76
Alignment explanation
Indices: 22662037--22662194 Score: 192
Period size: 76 Copynumber: 2.1 Consensus size: 76
22662027 AAACCGCCAT
* * * * *
22662037 TAATGCCGCTAAAGCTCAACAAAAAAATGACATCGTTTTGCTCAACTTTTTTATGGTGTTTTCCA
1 TAATGCCGCCAAAGCTCAACAAAAAAACGACATCGTTTTGCTCAAATTTTTTACGGCGTTTTCCA
*
22662102 AAAAGTGCCGC
66 AAAAGCGCCGC
* * * *
22662113 TAATGCCGCCAAAGCTCACCAAGAGAACGACGAT-GTTTTGCTCAAATTTTTTGCGGCGTTTTCC
1 TAATGCCGCCAAAGCTCAACAAAAAAACGAC-ATCGTTTTGCTCAAATTTTTTACGGCGTTTTCC
* *
22662177 AAGACGCGCCGC
65 AAAAAGCGCCGC
22662189 TAATGC
1 TAATGC
22662195 TTGACCTATA
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
76 67 0.97
77 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (76 bp):
TAATGCCGCCAAAGCTCAACAAAAAAACGACATCGTTTTGCTCAAATTTTTTACGGCGTTTTCCA
AAAAGCGCCGC
Found at i:22663631 original size:6 final size:6
Alignment explanation
Indices: 22663620--22663649 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
22663610 TTTGATAGAT
22663620 TTAATA TTAATA TTAATA TTAATA TTAATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA
22663650 CTTATCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:22663765 original size:21 final size:23
Alignment explanation
Indices: 22663741--22663783 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22663731 ATAAATATTC
22663741 TATT-AATTAA-ATAAGATTTAA
1 TATTAAATTAATATAAGATTTAA
*
22663762 TATTAAATTAATATAATATTTA
1 TATTAAATTAATATAAGATTTA
22663784 TCAAGTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTAAATTAATATAAGATTTAA
Found at i:22668768 original size:23 final size:23
Alignment explanation
Indices: 22668738--22668783 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22668728 CAACCAATTT
22668738 CTAGCTATGAACTAGTTATAGTC
1 CTAGCTATGAACTAGTTATAGTC
22668761 CTAGCTATGAACTAGTTATAGTC
1 CTAGCTATGAACTAGTTATAGTC
22668784 TTTTTGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (23 bp):
CTAGCTATGAACTAGTTATAGTC
Found at i:22669132 original size:4 final size:4
Alignment explanation
Indices: 22669123--22669169 Score: 58
Period size: 4 Copynumber: 11.0 Consensus size: 4
22669113 TATGCATTGA
*
22669123 CTTT CTTT CTTT CTTT CTTT CTTT TTATT GACTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CT-TT --CTTT CTTT CTTT CTTT
22669170 TTTAATGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 33 0.87
5 2 0.05
6 2 0.05
7 1 0.03
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:22676002 original size:19 final size:20
Alignment explanation
Indices: 22675962--22676006 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
22675952 ATCAACCTTT
22675962 AATCAAGTTAAAATGGTTTC
1 AATCAAGTTAAAATGGTTTC
* *
22675982 AATCAAGTTAGAAT-TTTTC
1 AATCAAGTTAAAATGGTTTC
22676001 AATCAA
1 AATCAA
22676007 AATTAAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (20 bp):
AATCAAGTTAAAATGGTTTC
Found at i:22676806 original size:20 final size:20
Alignment explanation
Indices: 22676781--22676820 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
22676771 ACTTTAAATT
22676781 CAAGTTAAAATAATTTTAAC
1 CAAGTTAAAATAATTTTAAC
*
22676801 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATAATTTTAAC
22676821 AAATCAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (20 bp):
CAAGTTAAAATAATTTTAAC
Found at i:22678313 original size:15 final size:17
Alignment explanation
Indices: 22678293--22678329 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
22678283 TATAAAATCA
22678293 ATAATATA-ATATAA-T
1 ATAATATATATATAATT
*
22678308 ATAATATATTTATAATT
1 ATAATATATATATAATT
22678325 ATAAT
1 ATAAT
22678330 TATTTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATATATATATAATT
Found at i:22683709 original size:31 final size:30
Alignment explanation
Indices: 22683636--22683699 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
22683626 GGCTCGATCA
*
22683636 AAATTTAATTTAAAATATAAAAATATTTTT
1 AAATTTAAATTAAAATATAAAAATATTTTT
*
22683666 AAATTTAAATTAAATTATAAAAA-ATATTTT
1 AAATTTAAATTAAAATATAAAAATAT-TTTT
22683696 AAAT
1 AAAT
22683700 ATTTTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAATTTAAATTAAAATATAAAAATATTTTT
Found at i:22685875 original size:20 final size:19
Alignment explanation
Indices: 22685845--22685882 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
22685835 TATTATCCAT
*
22685845 ATAGAATGTTGTTATATAA
1 ATAGAATGTTGGTATATAA
22685864 ATAGATATGTTGGTATATA
1 ATAGA-ATGTTGGTATATA
22685883 TTATAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (19 bp):
ATAGAATGTTGGTATATAA
Found at i:22685927 original size:58 final size:56
Alignment explanation
Indices: 22685807--22686001 Score: 187
Period size: 58 Copynumber: 3.4 Consensus size: 56
22685797 TGGAAGATGT
* * ** *
22685807 TAGATATGTTGCTATATATTATAAATTTTATTATCCATATAGAATGTTGTTATATAAA
1 TAGATATGTTG-TATATATTATAGATTTTAGTAT-TTTATAAAATGTTGTTATATAAA
* * * *
22685865 TAGATATGTTGGTATATATTATAGATTTTAGTATTTGTATAAAATATTGTCATTTAAG
1 TAGATATGTT-GTATATATTATAGATTTTAGTATTT-TATAAAATGTTGTTATATAAA
* * **
22685923 TAGATATGTTGT-TATAATA-AGATTTTGGTAGTTATTATAAAAATGTTGTTATATATT
1 TAGATATGTTGTATATATTATAGATTTTAGTA-TT-TTAT-AAAATGTTGTTATATAAA
*
22685980 TAGATATGTTATATATATTATA
1 TAGATATGTTGTATATATTATA
22686002 TAAATAGATT
Statistics
Matches: 112, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
55 10 0.09
56 11 0.10
57 27 0.24
58 62 0.55
59 2 0.02
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.48
Consensus pattern (56 bp):
TAGATATGTTGTATATATTATAGATTTTAGTATTTTATAAAATGTTGTTATATAAA
Found at i:22686148 original size:43 final size:39
Alignment explanation
Indices: 22686098--22686199 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 39
22686088 TATTGAAATT
* *
22686098 CCAACTTTGTAACTAAATACT-TTGTAATTGTGCGTAGGTGTAC
1 CCAACTTTGTAACCAAATACTATT-T-A-TATGCG-A-GTGTAC
*
22686141 CCAACTTTATAACCAAATACTCATTTATATGCGAGTGTAC
1 CCAACTTTGTAACCAAATACT-ATTTATATGCGAGTGTAC
22686181 CCAACTTTGTAACCAAATA
1 CCAACTTTGTAACCAAATA
22686200 GTAAAATTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
40 24 0.45
41 1 0.02
42 5 0.09
43 20 0.38
44 1 0.02
45 2 0.04
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (39 bp):
CCAACTTTGTAACCAAATACTATTTATATGCGAGTGTAC
Found at i:22686275 original size:39 final size:38
Alignment explanation
Indices: 22686179--22686276 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 38
22686169 ATGCGAGTGT
22686179 ACCCAACTTTGTAACCAAATAGTAAAATTTCTACTGAA
1 ACCCAACTTTGTAACCAAATAGTAAAATTTCTACTGAA
** * *
22686217 ATTCAACTTTGTAACCAAATATTAAAA-TTCTTATTGAAA
1 ACCCAACTTTGTAACCAAATAGTAAAATTTC-TACTG-AA
* *
22686256 ACCCAATTTTGTAATCAAATA
1 ACCCAACTTTGTAACCAAATA
22686277 CTTAGTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 3 0.06
38 28 0.56
39 19 0.38
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (38 bp):
ACCCAACTTTGTAACCAAATAGTAAAATTTCTACTGAA
Found at i:22686917 original size:80 final size:81
Alignment explanation
Indices: 22686807--22687006 Score: 258
Period size: 80 Copynumber: 2.5 Consensus size: 81
22686797 CAAAGTTAAG
* * *
22686807 TTTCCAATAGAAATTTTAGTTTTTGGTTACAAAGTTGGACACAGTCACACACAATTACAAAGTAT
1 TTTCCAATA-AAAATTTAGTTTTTCGTTACAAAGTTGGACACACTCACACACAATTACAAAGTAT
** *
22686872 TTGGTTACAAACTT-GA
65 TTAATTACAAAATTGGA
* *
22686888 TTTCCAATAAAAATTTAGTTTTTCGTTACAAAGTTGGATACACTCACGCACAATTACAAAGTATT
1 TTTCCAATAAAAATTTAGTTTTTCGTTACAAAGTTGGACACACTCACACACAATTACAAAGTATT
*
22686953 TAATTACAAAATTGGG
66 TAATTACAAAATTGGA
* * * *
22686969 TCTCCAATAGAAACTTAGTTTTTTTGTTACAAAGTTGG
1 TTTCCAATAAAAATTTAG-TTTTTCGTTACAAAGTTGG
22687007 GTTTCCAATA
Statistics
Matches: 104, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
80 61 0.59
81 25 0.24
82 18 0.17
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (81 bp):
TTTCCAATAAAAATTTAGTTTTTCGTTACAAAGTTGGACACACTCACACACAATTACAAAGTATT
TAATTACAAAATTGGA
Found at i:22688177 original size:13 final size:13
Alignment explanation
Indices: 22688159--22688183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22688149 TAGGTGATAT
22688159 GTGTGAAAATTTC
1 GTGTGAAAATTTC
22688172 GTGTGAAAATTT
1 GTGTGAAAATTT
22688184 TATCGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:22692045 original size:41 final size:42
Alignment explanation
Indices: 22691986--22692115 Score: 151
Period size: 41 Copynumber: 3.2 Consensus size: 42
22691976 CTGATACGCT
** * *
22691986 TATAGTCTAATTCCGTTCACCGGCACTTAGCCTGCTAGG-CT
1 TATAGTCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGACG
* *
22692027 TGTAG-CCTGATTTAGTTCACCGGCACTTAGCCTGCT-GGACG
1 TATAGTCC-GATTCAGTTCACCGGCACTTAGCCTGCTAGGACG
* *
22692068 TATAGTCCGATTCAATTCACCAGCACTTAGCCTGCTA-GACG
1 TATAGTCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGACG
22692109 TATAGTC
1 TATAGTC
22692116 TGAACAATTT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
40 3 0.04
41 70 0.93
42 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (42 bp):
TATAGTCCGATTCAGTTCACCGGCACTTAGCCTGCTAGGACG
Found at i:22692128 original size:41 final size:40
Alignment explanation
Indices: 22692001--22692133 Score: 140
Period size: 41 Copynumber: 3.2 Consensus size: 40
22691991 TCTAATTCCG
* * * * * *
22692001 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTTAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA-TCAA
* *
22692042 TTCACCGGCACTTAGCCTGCTGGACGTATAGTCCGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGA-TCAA
* *
22692083 TTCACCAGCACTTAGCCTGCTAGACGTATAGTCTGAACAA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATCAA
*
22692123 TTTCACTGGCA
1 -TTCACCGGCA
22692134 ATAAATCCGA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 3 0.04
41 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (40 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGATCAA
Found at i:22700546 original size:16 final size:16
Alignment explanation
Indices: 22700522--22700552 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22700512 TATGTACCGA
*
22700522 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
22700538 AAATATAAATAAATA
1 AAATATAAATAAATA
22700553 GATAACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:22702213 original size:46 final size:46
Alignment explanation
Indices: 22702150--22702602 Score: 168
Period size: 46 Copynumber: 10.0 Consensus size: 46
22702140 GTCACAGGGC
* * * *
22702150 GGTAAAATCTGCCATCTTCGATCTGCTT-CGCTGCCAAATACAGGAA
1 GGTAAAATCTGCAATCTTCAATCT-ATTCCACTGCCAAATACAGGAA
* *
22702196 GGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGA
1 GGTAAAATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGAA
* * * * * * * * * *
22702242 GATAGAGT-TATC-AGCTTCAATGTACTCCACTG--TAGT-CAGGGA
1 GGTAAAATCT-GCAATCTTCAATCTATTCCACTGCCAAATACAGGAA
*
22702284 GGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGA
1 GGTAAAATCTG-CA------ATCTTCAATCTATTCCACTGCCAAATACAGGAA
* * * * ** * * * *
22702337 GATAGAGT-TATC-GGCTTCAATGTACTCCACTG--TAGT-CAGGAA
1 GGTAAAATCT-GCAATCTTCAATCTATTCCACTGCCAAATACAGGAA
* * * *
22702379 GGTAAAATCTGCCATCTTCGATCTGCTT-CGCTGCCAAATACAGGAA
1 GGTAAAATCTGCAATCTTCAATCT-ATTCCACTGCCAAATACAGGAA
* * * *
22702425 GGCAAGATCTGCAATCTTCAATCTATTCTACTGCCAAATACAGGGA
1 GGTAAAATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGAA
* * * * ** * * * * *
22702471 GATAGAGT-TATC-GGCTTCAATGTACTCCACTG--TAGT-CAGGGA
1 GGTAAAATCT-GCAATCTTCAATCTATTCCACTGCCAAATACAGGAA
* ** * * *
22702513 GGTAAAATCTGCCATCTTTGATTTGCTT-CGCTGCCAAATACAGGAA
1 GGTAAAATCTGCAATCTTCAATCT-ATTCCACTGCCAAATACAGGAA
* * *
22702559 GGCAAGATCTGCAATCTTCAATCTATTCCACTGCTAAATACAGG
1 GGTAAAATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGG
22702603 GAGATAGAGT
Statistics
Matches: 283, Mismatches: 94, Indels: 60
0.65 0.22 0.14
Matches are distributed among these distances:
42 34 0.12
43 31 0.11
44 2 0.01
45 60 0.21
46 124 0.44
50 17 0.06
52 4 0.01
53 11 0.04
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (46 bp):
GGTAAAATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGAA
Found at i:22702273 original size:45 final size:45
Alignment explanation
Indices: 22702211--22702502 Score: 130
Period size: 45 Copynumber: 6.4 Consensus size: 45
22702201 GATCTGCAAT
*
22702211 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
* * * * * * *
22702256 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTCGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---A---TC-AG
* *
22702306 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
* * * * * * * ** *
22702351 CTTCAATGTACTCCACTG--TAGT-CAGGAAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-TATCAG
* * * * * ** * * *
22702394 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AGATCTGCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-AG
* * *
22702440 CTTCAATCTATTCTACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
*
22702485 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
22702503 TAGTCAGGGA
Statistics
Matches: 172, Mismatches: 57, Indels: 36
0.65 0.22 0.14
Matches are distributed among these distances:
42 21 0.12
43 20 0.12
44 1 0.01
45 51 0.30
46 41 0.24
47 4 0.02
49 3 0.02
50 17 0.10
52 3 0.02
53 11 0.06
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCAG
Found at i:22702301 original size:88 final size:88
Alignment explanation
Indices: 22702190--22702422 Score: 324
Period size: 95 Copynumber: 2.6 Consensus size: 88
22702180 CTGCCAAATA
* *
22702190 CAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCA
1 CAGGAAGGTAAAATCTGCCATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCA
22702255 GCTTCAATGTACTCCACTGTAGT
66 GCTTCAATGTACTCCACTGTAGT
*
22702278 CAGGGAGGTAAAATCTGCCATCTTCGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGA
1 CAGGAAGGTAAAATCTG----C--C-ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGA
*
22702343 GTTATCGGCTTCAATGTACTCCACTGTAGT
59 GTTATCAGCTTCAATGTACTCCACTGTAGT
* * *
22702373 CAGGAAGGTAAAATCTGCCATCTTCGATCTGCTT-CGCTGCCAAATACAGG
1 CAGGAAGGTAAAATCTGCCATCTTCAATCT-ATTCCACTGCCAAATACAGG
22702423 AAGGCAAGAT
Statistics
Matches: 129, Mismatches: 8, Indels: 16
0.84 0.05 0.10
Matches are distributed among these distances:
88 40 0.31
89 3 0.02
91 1 0.01
92 1 0.01
95 84 0.65
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (88 bp):
CAGGAAGGTAAAATCTGCCATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCA
GCTTCAATGTACTCCACTGTAGT
Found at i:22702321 original size:95 final size:95
Alignment explanation
Indices: 22702209--22702402 Score: 370
Period size: 95 Copynumber: 2.0 Consensus size: 95
22702199 AAGATCTGCA
22702209 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
*
22702274 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGAAGGTAAAATCTGCCATCTTCG
*
22702304 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
22702369 TAGTCAGGAAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGAAGGTAAAATCTGCCATCTTCG
22702399 ATCT
1 ATCT
22702403 GCTTCGCTGC
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
TAGTCAGGAAGGTAAAATCTGCCATCTTCG
Found at i:22702464 original size:134 final size:134
Alignment explanation
Indices: 22702304--22702711 Score: 753
Period size: 134 Copynumber: 3.0 Consensus size: 134
22702294 GCCATCTTCG
22702304 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
22702369 TAGTCAGGAAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
22702434 TGCA
131 TGCA
*
22702438 ATCTTCAATCTATTCTACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
22702503 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATTTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
22702568 TGCA
131 TGCA
* *
22702572 ATCTTCAATCTATTCCACTGCTAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
22702637 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
*
22702702 TACA
131 TGCA
22702706 ATCTTC
1 ATCTTC
22702712 GATCCACTTC
Statistics
Matches: 264, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 264 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:22702490 original size:229 final size:230
Alignment explanation
Indices: 22702100--22702530 Score: 774
Period size: 229 Copynumber: 1.9 Consensus size: 230
22702090 CACTGTTGCC
**
22702100 CAGGGAGATAGAATTACCAGCTTCAATGTACTCCACTGTAGTCACAGGGCGGTAAAATCTGCCAT
1 CAGGGAGATAGAATTACCAGCTTCAATGTACTCCACTGTAGT-ACAGGAAGGTAAAATCTGCCAT
*
22702165 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGTAAGATCTGCAATCTTCAATCTATTCCACTGC
65 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
22702230 CAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTG
130 CAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTG
22702295 CCATCTTCGATCTTCAATCTATTCCACTGCCAAATA
195 CCATCTTCGATCTTCAATCTATTCCACTGCCAAATA
* * *
22702331 CAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT-CAGGAAGGTAAAATCTGCCATC
1 CAGGGAGATAGAATTACCAGCTTCAATGTACTCCACTGTAGTACAGGAAGGTAAAATCTGCCATC
*
22702395 TTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCTACTGCC
66 TTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC
*
22702460 AAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGC
131 AAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGC
22702525 CATCTT
196 CATCTT
22702531 TGATTTGCTT
Statistics
Matches: 192, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
229 153 0.80
231 39 0.20
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (230 bp):
CAGGGAGATAGAATTACCAGCTTCAATGTACTCCACTGTAGTACAGGAAGGTAAAATCTGCCATC
TTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC
AAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGC
CATCTTCGATCTTCAATCTATTCCACTGCCAAATA
Found at i:22702775 original size:88 final size:89
Alignment explanation
Indices: 22702653--22703233 Score: 554
Period size: 88 Copynumber: 6.6 Consensus size: 89
22702643 GGGAGGTAAA
* * * * * * *
22702653 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCGATCCA
1 ATCTGCTATCTTCGATCTACTTCAC-GCC-AATACAGGAAGACAAGATCTGCTATCTTCGATCTA
*
22702718 CTTC-CTACCAATATAGGAAGACAGG
64 CTTCACTACCAATATAGGAAGACAAG
* * * *
22702743 ACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGGTCTACT
1 ATCTGCTATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACT
* * *
22702808 TCGCCACCAATATGGGAAGACAAG
66 TCACTACCAATATAGGAAGACAAG
* * * * * * *
22702832 ATCTGC-ATCATCGATCCACTTC-CTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTAC
1 ATCTGCTATCTTCGATCTACTTCAC-GCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
* * *
22702895 TTCAC-GCCAATACATGAAGACAAG
65 TTCACTACCAATATAGGAAGACAAG
* * * * *
22702919 ATCTGATTTCTTCGATCTACTTCGCCACCAATA-TGGAAAGACAAGATCTGC-ATCTTCGATCTA
1 ATCTGCTATCTTCGATCTACTTC-ACGCCAATACAGG-AAGACAAGATCTGCTATCTTCGATCTA
* * * *
22702982 CTTCAC-GCCAATACATGAAGATAAG
64 CTTCACTACCAATATAGGAAGACAAG
* * * * ** * *
22703007 ATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCGTCGATCCAC
1 ATCTGCTATCTTCGATCTACTTC-ACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTAC
*
22703071 TTC-CTACCAATATAGGAAGACAGG
65 TTCACTACCAATATAGGAAGACAAG
* * * * *
22703095 ACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
1 ATCTGCTATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACT
*
22703160 TC-CTACCAATATAGGAAGACAGG
66 TCACTACCAATATAGGAAGACAAG
* * *
22703183 ATCTACT-TCCTTCGATCTACTTCACGCCAATACATGAAGGCAAGATCTGCT
1 ATCTGCTAT-CTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCT
22703234 TTAATGACTT
Statistics
Matches: 414, Mismatches: 67, Indels: 22
0.82 0.13 0.04
Matches are distributed among these distances:
87 44 0.11
88 301 0.73
89 47 0.11
90 22 0.05
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (89 bp):
ATCTGCTATCTTCGATCTACTTCACGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACT
TCACTACCAATATAGGAAGACAAG
Found at i:22702892 original size:132 final size:132
Alignment explanation
Indices: 22702661--22703205 Score: 560
Period size: 132 Copynumber: 4.1 Consensus size: 132
22702651 AAATCTGCCA
* ** ** * *
22702661 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCGATCCACTTC-CTA
1 TCTTCGATCTACTTCGCCACC-AATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCAC-A
* * * *
22702725 CCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
63 CCAATACAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATC
22702790 TGCTT
128 TGCTT
* *
22702795 TCTTCGGTCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCATCGATCCACTTC-CTACC
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCAC-ACC
* * * * *
22702859 AATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
65 AATACAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTG
*
22702924 ATT
130 CTT
* * *
22702927 TCTTCGATCTACTTCGCCACCAATATGGAAAGACAAGATCTGCATCTTCGATCTACTTCACGCCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACACCA
* * * * * * **
22702992 ATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
66 ATACAGGAAGACAAGACCTGCTATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTG
*
22703057 C-A
130 CTT
* * * * * * * * * *
22703059 TCGTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCCACTTCACACC
* * * * *
22703123 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CTACCAATATAGGAAGACAGGATCT
65 AATACAGGAAGACAAGACCTGCTATCTTCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCT
*
22703187 ACTT
129 GCTT
*
22703191 CCTTCGATCTACTTC
1 TCTTCGATCTACTTC
22703206 ACGCCAATAC
Statistics
Matches: 355, Mismatches: 51, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
130 1 0.00
131 42 0.12
132 256 0.72
133 39 0.11
134 17 0.05
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (132 bp):
TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCACACCA
ATACAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGC
TT
Found at i:22703077 original size:220 final size:219
Alignment explanation
Indices: 22702707--22703235 Score: 880
Period size: 220 Copynumber: 2.4 Consensus size: 219
22702697 AGATCTACAA
* *
22702707 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCA
1 TCTTCGATCTACTTCCTACCAATATAGGAAGACAGGATCTGC-ATCTTCGATCTACTTCACGCCA
*
22702772 ATACATGAAGACAAGATCTGCTTTCTTCGGTCTACTTCGCCACCAATATGGGAAGACAAGATCTG
65 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG
22702837 CATCATCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGC
130 CATCATCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGC
22702902 CAATACATGAAGACAAGATCTGATT
195 CAATACATGAAGACAAGATCTGATT
* *
22702927 TCTTCGATCTACTTCGCCACCAATAT-GGAAAGACAAGATCTGCATCTTCGATCTACTTCACGCC
1 TCTTCGATCTACTTC-CTACCAATATAGG-AAGACAGGATCTGCATCTTCGATCTACTTCACGCC
* *
22702991 AATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
64 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
* * **
22703056 GCATCGTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGTTATCTTTGATCTACTTCACG
129 GCATCATCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACG
*
22703121 CCAATACATGAAGACAAGATCTGCTT
194 CCAATACATGAAGACAAGATCTGATT
* *
22703147 TCTTCGATCTACTTCCTACCAATATAGGAAGACAGGATCTACTTCCTTCGATCTACTTCACGCCA
1 TCTTCGATCTACTTCCTACCAATATAGGAAGACAGGATCTGCAT-CTTCGATCTACTTCACGCCA
*
22703212 ATACATGAAGGCAAGATCTGCTTT
65 ATACATGAAGACAAGATCTGCTTT
22703236 AATGACTTCA
Statistics
Matches: 287, Mismatches: 18, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
219 22 0.08
220 244 0.85
221 21 0.07
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (219 bp):
TCTTCGATCTACTTCCTACCAATATAGGAAGACAGGATCTGCATCTTCGATCTACTTCACGCCAA
TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
ATCATCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCC
AATACATGAAGACAAGATCTGATT
Found at i:22704729 original size:22 final size:23
Alignment explanation
Indices: 22704700--22704748 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
22704690 AGTAGAGGTC
*
22704700 TTTTC-TTTTATTTT-TGGTTTT
1 TTTTCTTTTTATTTTCTAGTTTT
22704721 TTTTGCTTTTTATTTTCTAGTTTT
1 TTTT-CTTTTTATTTTCTAGTTTT
22704745 TTTT
1 TTTT
22704749 TTGCTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 1 0.04
23 9 0.38
24 10 0.42
ACGTcount: A:0.06, C:0.06, G:0.08, T:0.80
Consensus pattern (23 bp):
TTTTCTTTTTATTTTCTAGTTTT
Found at i:22706138 original size:62 final size:62
Alignment explanation
Indices: 22706056--22706180 Score: 205
Period size: 62 Copynumber: 2.0 Consensus size: 62
22706046 CTAAACTCGA
* *
22706056 CGTACTTTTGGATTTTAGGAAATTTATTATATAAAATGAAATGTAATGTTGATGCATGAATG
1 CGTACTTTTGAATTTTAGGAAATTTATTATATAAAATGAAATGTAACGTTGATGCATGAATG
* **
22706118 CGTATTTTTGAATTTTAGGAAATTTATTATATGCAATGAAATGTAACGTTGATGCATGAATG
1 CGTACTTTTGAATTTTAGGAAATTTATTATATAAAATGAAATGTAACGTTGATGCATGAATG
22706180 C
1 C
22706181 AAAAAAAAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.40
Consensus pattern (62 bp):
CGTACTTTTGAATTTTAGGAAATTTATTATATAAAATGAAATGTAACGTTGATGCATGAATG
Found at i:22708439 original size:16 final size:16
Alignment explanation
Indices: 22708415--22708445 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22708405 TATGTACCGA
*
22708415 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
22708431 AAATATAAATAAATA
1 AAATATAAATAAATA
22708446 GATAACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:22709883 original size:31 final size:31
Alignment explanation
Indices: 22709842--22709903 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
22709832 CATATTCACT
22709842 TATACCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCGAATGCATACATATA
*
22709873 TATATCCACCTATGCCGAATGCATACATATA
1 TATACCCACCTATGCCGAATGCATACATATA
22709904 CACACTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (31 bp):
TATACCCACCTATGCCGAATGCATACATATA
Found at i:22710156 original size:41 final size:41
Alignment explanation
Indices: 22710097--22710290 Score: 239
Period size: 41 Copynumber: 4.7 Consensus size: 41
22710087 CAGATTAACT
* * *
22710097 GGCACTTCA-CCTGATAGGCTTATAGTCTAATTCCGTTCACC
1 GGCACTT-AGCCTGCTAGGCTTATAGTCTGATTCAGTTCACC
* * *
22710138 GGCACTTTGCCTGCTAGGCCTATAGCCTGATTCAGTTCACC
1 GGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAGTTCACC
* *
22710179 GGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACC
1 GGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAGTTCACC
* * *
22710220 GGCACTTAGCCTGCT-GGACATATAGTCCGATTCAATTCACC
1 GGCACTTAGCCTGCTAGG-CTTATAGTCTGATTCAGTTCACC
* *
22710261 GGCACTTAGCCTGCTAGACGTATAGTCTGA
1 GGCACTTAGCCTGCTAGGCTTATAGTCTGA
22710291 ACAATTTCAC
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.02
41 130 0.98
42 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (41 bp):
GGCACTTAGCCTGCTAGGCTTATAGTCTGATTCAGTTCACC
Found at i:22717270 original size:17 final size:16
Alignment explanation
Indices: 22717248--22717280 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
22717238 GGAAGTCGTG
22717248 ATAATTATACATTTAAA
1 ATAATTATA-ATTTAAA
22717265 ATAATTATAATTTAAA
1 ATAATTATAATTTAAA
22717281 TTTATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATTATAATTTAAA
Found at i:22717293 original size:22 final size:23
Alignment explanation
Indices: 22717248--22717293 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
22717238 GGAAGTCGTG
*
22717248 ATAATTATACATTTAAAATAATT
1 ATAATTATAAATTTAAAATAATT
* *
22717271 ATAATT-TAAATTTATAATTATT
1 ATAATTATAAATTTAAAATAATT
22717293 A
1 A
22717294 GCTAAAAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAATTATAAATTTAAAATAATT
Found at i:22717404 original size:19 final size:18
Alignment explanation
Indices: 22717362--22717404 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
22717352 AAAATATAAG
22717362 AAAA-AATTATAATTTAA
1 AAAATAATTATAATTTAA
**
22717379 ATTATAATTATTAATTTAA
1 AAAATAATTA-TAATTTAA
22717398 AAAATAA
1 AAAATAA
22717405 GTTGTGCTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 2 0.10
18 5 0.25
19 13 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATAATTATAATTTAA
Found at i:22723419 original size:12 final size:14
Alignment explanation
Indices: 22723397--22723435 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
22723387 AGGAAAATTT
*
22723397 TAATAATAATATAAA
1 TAATAAT-ATATACA
*
22723412 TGATAATATATACA
1 TAATAATATATACA
22723426 TAATAATATA
1 TAATAATATA
22723436 CAAAAGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATATATACA
Found at i:22725850 original size:39 final size:39
Alignment explanation
Indices: 22725807--22725884 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
22725797 ACTATAGAGT
22725807 ACCATCCCGATAAGGCTAATATTGTGGCTGATGCTCTTA
1 ACCATCCCGATAAGGCTAATATTGTGGCTGATGCTCTTA
22725846 ACCATCCCGATAAGGCTAATATTGTGGCTGATGCTCTTA
1 ACCATCCCGATAAGGCTAATATTGTGGCTGATGCTCTTA
22725885 GTTGTAGAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (39 bp):
ACCATCCCGATAAGGCTAATATTGTGGCTGATGCTCTTA
Found at i:22728558 original size:29 final size:29
Alignment explanation
Indices: 22728516--22728580 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
22728506 ATGTGATGAG
* * *
22728516 CCACACGGCTGTGTGCCAGGTCTTGTGGA
1 CCACACGACCGTGTGCCAGGTCTTGTGAA
*
22728545 CCACACGACCGTGTGCTAGGTCTTGTGAA
1 CCACACGACCGTGTGCCAGGTCTTGTGAA
*
22728574 CTACACG
1 CCACACG
22728581 GGCCAGCCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.23
Consensus pattern (29 bp):
CCACACGACCGTGTGCCAGGTCTTGTGAA
Found at i:22730069 original size:23 final size:25
Alignment explanation
Indices: 22730011--22730117 Score: 83
Period size: 23 Copynumber: 4.6 Consensus size: 25
22730001 CTGTAAAATC
22730011 ATTAAATATAATTTGATAA--A-TTA
1 ATTAAATATAATTT-ATAATTATTTA
*
22730034 A--AAATAATTAATTTTTAATT-TTTA
1 ATTAAAT-A-TAATTTATAATTATTTA
*
22730058 ATTAAATA-AA-TTATATTTATTTA
1 ATTAAATATAATTTATAATTATTTA
22730081 ATTAAATATAATTTAT--TTATTTA
1 ATTAAATATAATTTATAATTATTTA
*
22730104 A-TAAATATATTTTA
1 ATTAAATATAATTTA
22730118 AAAATCATAA
Statistics
Matches: 70, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
21 4 0.06
22 22 0.31
23 29 0.41
24 6 0.09
25 5 0.07
26 4 0.06
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (25 bp):
ATTAAATATAATTTATAATTATTTA
Found at i:22730081 original size:19 final size:19
Alignment explanation
Indices: 22730054--22730099 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
22730044 ATTTTTAATT
*
22730054 TTTAATTAAATAAAT-TATA
1 TTTATTTAAATAAATATA-A
*
22730073 TTTATTTAATTAAATATAA
1 TTTATTTAAATAAATATAA
22730092 TTTATTTA
1 TTTATTTA
22730100 TTTAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTATTTAAATAAATATAA
Found at i:22732673 original size:19 final size:19
Alignment explanation
Indices: 22732649--22732687 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22732639 TTCAAAATGA
22732649 AAACTCATATTTTAAAGTT
1 AAACTCATATTTTAAAGTT
22732668 AAACTCATATTTTAAAGTT
1 AAACTCATATTTTAAAGTT
22732687 A
1 A
22732688 TGGCAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (19 bp):
AAACTCATATTTTAAAGTT
Found at i:22738992 original size:6 final size:6
Alignment explanation
Indices: 22738981--22739030 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
22738971 AACCCAATTA
*
22738981 TTATTT TTATTT TTATTT TTA-CT TTATTT ATTACTTT ATT-TTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT -TTA-TTT -TTATTT TTATTT
22739030 T
1 T
22739031 ACTTATTTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 6 0.16
6 23 0.61
7 3 0.08
8 6 0.16
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:22748982 original size:57 final size:57
Alignment explanation
Indices: 22748912--22749032 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 57
22748902 TAAACGCAAC
* * *
22748912 CACGATAAGTAAATAAAATATTTTCTAAATTCAGTCACTATAATAAATTACATAAAA
1 CACGATAAATAAATAAAATATTCTCTAAATTCAATCACTATAATAAATTACATAAAA
* * * *
22748969 CATGATAAATAAATAAAATGTTCTCTAAATTCAATCACTGTAATAAATTACTTAAAA
1 CACGATAAATAAATAAAATATTCTCTAAATTCAATCACTATAATAAATTACATAAAA
22749026 CACGATA
1 CACGATA
22749033 CGGTAAGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.50, C:0.13, G:0.06, T:0.31
Consensus pattern (57 bp):
CACGATAAATAAATAAAATATTCTCTAAATTCAATCACTATAATAAATTACATAAAA
Found at i:22749609 original size:19 final size:20
Alignment explanation
Indices: 22749571--22749609 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22749561 AAAAAGAAAG
**
22749571 TTCAAAAAATTATGAGATAA
1 TTCAAAAAATTAACAGATAA
22749591 TTCAAAAAATTAACA-ATAA
1 TTCAAAAAATTAACAGATAA
22749610 AAAATGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (20 bp):
TTCAAAAAATTAACAGATAA
Found at i:22749883 original size:24 final size:24
Alignment explanation
Indices: 22749853--22749901 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
22749843 ATAGTGATAA
*
22749853 AATCTTTCACCATCCTTAAAATAT
1 AATCTTTCACCATCCCTAAAATAT
22749877 AATCTTTCACCATCCCTAAAATAT
1 AATCTTTCACCATCCCTAAAATAT
22749901 A
1 A
22749902 GAAATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.35
Consensus pattern (24 bp):
AATCTTTCACCATCCCTAAAATAT
Found at i:22753076 original size:46 final size:46
Alignment explanation
Indices: 22753010--22753226 Score: 269
Period size: 46 Copynumber: 4.6 Consensus size: 46
22753000 TTTGAGTACT
*
22753010 TCTGATC-AGTGGCAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
22753055 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-C----T----TTAGCTACACTTA
* * *
22753110 TCTGATCAAATGACAAAGTAATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
22753156 TCTTATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
22753202 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
22753227 ATCATACGTA
Statistics
Matches: 152, Mismatches: 10, Indels: 21
0.83 0.05 0.11
Matches are distributed among these distances:
44 12 0.08
45 12 0.08
46 83 0.55
47 1 0.01
51 1 0.01
54 1 0.01
55 42 0.28
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:22763624 original size:160 final size:161
Alignment explanation
Indices: 22763304--22763626 Score: 603
Period size: 160 Copynumber: 2.0 Consensus size: 161
22763294 AAAACAAGTG
22763304 AAATGACATAATCGGTAAAAATTATTATTGTTCATAAGTGCATGTTAGAGCAAGAATTTGATGTT
1 AAATGACATAATCGGTAAAAATTATTATTGTTCATAAGTGCATGTTAGAGCAAGAATTTGATGTT
*
22763369 GATATAGAAGGGAAAAATATTCAGCATGTTATAAATCATAAGAAAAAGGAATAAATTTTAATTTC
66 GATATAGAAGGGAAAAATATTCAACATGTTATAAATCATAAGAAAAAGGAATAAATTTTAATTTC
22763434 CGAACCTAGGGGAAAAATTGTAATTTTGTGA
131 CGAACCTAGGGGAAAAATTGTAATTTTGTGA
22763465 AAATGACATAATCGGTAAAAATTATTATTGTTCATAAGTGCATGTTAGAGCAAGAATTTGATGTT
1 AAATGACATAATCGGTAAAAATTATTATTGTTCATAAGTGCATGTTAGAGCAAGAATTTGATGTT
* *
22763530 GCTATAGAAGGG-AAAATATTCAACATGTTATAAATCATAAGAAAAAGGAATAAATTTTAATTTT
66 GATATAGAAGGGAAAAATATTCAACATGTTATAAATCATAAGAAAAAGGAATAAATTTTAATTTC
*
22763594 CGAACCTAGGGGAAAATTTGTAATTTTGTGA
131 CGAACCTAGGGGAAAAATTGTAATTTTGTGA
22763625 AA
1 AA
22763627 CTTTAGGGGC
Statistics
Matches: 158, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
160 82 0.52
161 76 0.48
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.32
Consensus pattern (161 bp):
AAATGACATAATCGGTAAAAATTATTATTGTTCATAAGTGCATGTTAGAGCAAGAATTTGATGTT
GATATAGAAGGGAAAAATATTCAACATGTTATAAATCATAAGAAAAAGGAATAAATTTTAATTTC
CGAACCTAGGGGAAAAATTGTAATTTTGTGA
Found at i:22763914 original size:50 final size:51
Alignment explanation
Indices: 22763821--22763954 Score: 139
Period size: 50 Copynumber: 2.6 Consensus size: 51
22763811 GTGAAGTTGC
* **
22763821 TAGGTCACGTGTGTAGTACTATGTGC-AGACTACTACGTGTACCAGAAT-G-A
1 TAGGTCACGTGTGTAGTACTATGTGCAAG-CTACAACGCATACCA-AATAGCA
* * * *
22763871 TAGGTCGCATGTGTAGTACTATGTGCAAGCTACAATGCATACCAAATAGCT
1 TAGGTCACGTGTGTAGTACTATGTGCAAGCTACAACGCATACCAAATAGCA
* * *
22763922 TCGATCACGTGTGTAGTACTATGTGCAGGCTAC
1 TAGGTCACGTGTGTAGTACTATGTGCAAGCTAC
22763955 TATGTGAACC
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
49 3 0.04
50 36 0.52
51 30 0.43
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (51 bp):
TAGGTCACGTGTGTAGTACTATGTGCAAGCTACAACGCATACCAAATAGCA
Found at i:22766928 original size:37 final size:37
Alignment explanation
Indices: 22766887--22766963 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
22766877 GGAAAGCTTG
*
22766887 TTTTACAAATTCCAAAATCATTTTCATTTCCTTCTTC
1 TTTTACAAATTCCAAAATCATTTTCATTTCCTTCTCC
*
22766924 TTTTACAAATTCCAAAATCATTTTCTTTTCCTTCTCC
1 TTTTACAAATTCCAAAATCATTTTCATTTCCTTCTCC
22766961 TTT
1 TTT
22766964 CTCTTCAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.51
Consensus pattern (37 bp):
TTTTACAAATTCCAAAATCATTTTCATTTCCTTCTCC
Found at i:22771616 original size:16 final size:17
Alignment explanation
Indices: 22771583--22771617 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22771573 TAAACATCTT
22771583 ATTAAAATAATATTTTA
1 ATTAAAATAATATTTTA
*
22771600 ATTAAGATAAT-TTTTA
1 ATTAAAATAATATTTTA
22771616 AT
1 AT
22771618 AAATTATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTAAAATAATATTTTA
Found at i:22777773 original size:19 final size:19
Alignment explanation
Indices: 22777751--22777787 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22777741 CGAACGGATC
*
22777751 GCCTAAGGCCGAACAAATT
1 GCCTAAGCCCGAACAAATT
22777770 GCCTAAGCCCGAACAAAT
1 GCCTAAGCCCGAACAAAT
22777788 CGCAAGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.30, G:0.19, T:0.14
Consensus pattern (19 bp):
GCCTAAGCCCGAACAAATT
Found at i:22780189 original size:137 final size:137
Alignment explanation
Indices: 22779931--22780200 Score: 371
Period size: 137 Copynumber: 2.0 Consensus size: 137
22779921 TCAATTTAGG
* *
22779931 GATGAAATGTATGTGATTGAATGGTTTATGATATATTTAAATTATTGAATGTTATGATGTTTGAA
1 GATGAAACGTATGTGATTGAATGATTTATGATATATTTAAATTATTGAATGTTATGATGTTTGAA
* * * * * *
22779996 TATTTCTGATTGTATAGTAATACTCTGTAACCCTAATTCGACGATAGAGGCGGGTTAGGGGTGTT
66 TATTTCTGATTGTACAGTAATACTCCGTAACCCTAATTCGACGACAGAGACAGGTTAGAGGTGTT
22780061 ACATTTA
131 ACATTTA
* * *
22780068 GATGAAACGTATGTGATTGGATGATTTATGATATATTTAAATTATTGAGTGTTATGGTGTTTGAA
1 GATGAAACGTATGTGATTGAATGATTTATGATATATTTAAATTATTGAATGTTATGATGTTTGAA
* * * * * *
22780133 TGTTTTTTATTGTACGGTAATACTCCGTAACCCTAATTTGGCGACAG-GTACAGGTTAGAGGTGT
66 TATTTCTGATTGTACAGTAATACTCCGTAACCCTAATTCGACGACAGAG-ACAGGTTAGAGGTGT
22780197 TACA
130 TACA
22780201 GTTCGAGTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
136 1 0.01
137 114 0.99
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (137 bp):
GATGAAACGTATGTGATTGAATGATTTATGATATATTTAAATTATTGAATGTTATGATGTTTGAA
TATTTCTGATTGTACAGTAATACTCCGTAACCCTAATTCGACGACAGAGACAGGTTAGAGGTGTT
ACATTTA
Found at i:22780717 original size:10 final size:10
Alignment explanation
Indices: 22780704--22780745 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
22780694 CAAAAAGACA
22780704 AAGAGAAGAG
1 AAGAGAAGAG
22780714 AAGAGAAGAG
1 AAGAGAAGAG
22780724 -AGAG-AGAG
1 AAGAGAAGAG
22780732 AAAGAGAAAGAG
1 -AAGAG-AAGAG
22780744 AA
1 AA
22780746 TTGGAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 14 0.50
11 2 0.07
12 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
AAGAGAAGAG
Found at i:22780745 original size:6 final size:6
Alignment explanation
Indices: 22780697--22780745 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
22780687 AAAGAAACAA
* *
22780697 AAAGAC AAAGAG -AAGAG -AAGAG AAGAGAG AGAGAG AAAGAG AAAGAG
1 AAAGAG AAAGAG AAAGAG AAAGAG AA-AGAG AAAGAG AAAGAG AAAGAG
22780744 AA
1 AA
22780746 TTGGAAATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 10 0.26
6 23 0.61
7 5 0.13
ACGTcount: A:0.63, C:0.02, G:0.35, T:0.00
Consensus pattern (6 bp):
AAAGAG
Found at i:22780915 original size:23 final size:25
Alignment explanation
Indices: 22780883--22780946 Score: 78
Period size: 23 Copynumber: 2.6 Consensus size: 25
22780873 TATAAAAACC
* * *
22780883 AAAACGCACCGTTTAATTAAA-TC-
1 AAAACACACCGTTTAACTAAAGACA
*
22780906 AATACACACCGTTTAACTAAAGACA
1 AAAACACACCGTTTAACTAAAGACA
22780931 AAAACACACCGTTTAA
1 AAAACACACCGTTTAA
22780947 GCTAGCCAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 18 0.53
24 1 0.03
25 15 0.44
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.22
Consensus pattern (25 bp):
AAAACACACCGTTTAACTAAAGACA
Found at i:22782781 original size:29 final size:28
Alignment explanation
Indices: 22782716--22782780 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
22782706 AAATTAAAAA
*
22782716 TTACCAAAATGTTATAACTTTTTTTTAT
1 TTACCAAAATATTATAACTTTTTTTTAT
22782744 TTACCAAAATATATATAA-TTTTTTTTAT
1 TTACCAAAATAT-TATAACTTTTTTTTAT
22782772 TTACCAAAA
1 TTACCAAAA
22782781 AATAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 30 0.86
29 5 0.14
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATTATAACTTTTTTTTAT
Found at i:22782789 original size:9 final size:9
Alignment explanation
Indices: 22782776--22782820 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
22782766 TTTTATTTAC
22782776 CAAAAAATAA
1 CAAAAAA-AA
22782786 -AAAAAAAA
1 CAAAAAAAA
22782794 CAAAAAAAA
1 CAAAAAAAA
*
22782803 CAGAAAAAA
1 CAAAAAAAA
22782812 CAAAAAAAA
1 CAAAAAAAA
22782821 ACCTGGACTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 2 0.06
9 30 0.94
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:22782891 original size:27 final size:27
Alignment explanation
Indices: 22782851--22782928 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
22782841 TCCCTGGGTG
*
22782851 AAGGGAACACTGTTGGTGGCACCAAAC
1 AAGGGAACACTGTTGGCGGCACCAAAC
22782878 AAGGGAAC-CTTGTTGGCGGCACCAAAC
1 AAGGGAACAC-TGTTGGCGGCACCAAAC
* *
22782905 AA-GGATTCCCTGTTGGCGGCACCA
1 AAGGGA-ACACTGTTGGCGGCACCA
22782929 CCCTTGAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.09
27 41 0.89
28 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.17
Consensus pattern (27 bp):
AAGGGAACACTGTTGGCGGCACCAAAC
Found at i:22782998 original size:18 final size:17
Alignment explanation
Indices: 22782975--22783047 Score: 71
Period size: 19 Copynumber: 4.2 Consensus size: 17
22782965 GAAGGAGAGG
22782975 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
22782993 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
22783010 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
22783026 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
22783044 GGAA
1 GGAA
22783048 AGGAGAGGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
15 9 0.20
16 4 0.09
17 6 0.13
18 13 0.28
19 14 0.30
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:22783008 original size:10 final size:10
Alignment explanation
Indices: 22782977--22783048 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
22782967 AGGAGAGGGG
*
22782977 AAGAAGAAGA
1 AAGAAAAAGA
22782987 AAGAAAGGAAGA
1 AAGAAA--AAGA
22782999 AAGAAAAAGA
1 AAGAAAAAGA
* *
22783009 AGGAAAAGGA
1 AAGAAAAAGA
22783019 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
22783033 AAGAAAAAGA
1 AAGAAAAAGA
*
22783043 AGGAAA
1 AAGAAA
22783049 GGAGAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:22783008 original size:22 final size:23
Alignment explanation
Indices: 22782977--22783063 Score: 61
Period size: 24 Copynumber: 3.7 Consensus size: 23
22782967 AGGAGAGGGG
*
22782977 AAGAAGAAGAAAG-AAAGGAAGA
1 AAGAAAAAGAAAGAAAAGGAAGA
*
22782999 AAGAAAAAGAAGGAAAAGGAA-A
1 AAGAAAAAGAAAGAAAAGGAAGA
* * *
22783021 GGAGAGGAAAGAAAGAAAAAGAAGGA
1 -AAGA-AAAAGAAAGAAAAGGAA-GA
* * *
22783047 AAGGAGAGGAAAGAAAA
1 AAGAAAAAGAAAGAAAA
22783064 AAAAATAAGG
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
22 12 0.24
23 10 0.20
24 24 0.49
25 2 0.04
26 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
AAGAAAAAGAAAGAAAAGGAAGA
Found at i:22783020 original size:28 final size:28
Alignment explanation
Indices: 22782980--22783084 Score: 99
Period size: 28 Copynumber: 3.6 Consensus size: 28
22782970 AGAGGGGAAG
22782980 AAGAA-GAAA-GAAAGG-AAGAAAGAAA
1 AAGAAGGAAAGGAAAGGAAAGAAAGAAA
22783005 AAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAAA
1 AAGAAGG-AAAGG--A--A-AGGAAAGAAAGAAA
* *
22783039 AAGAAGGAAAGGAGAGGAAAGAAAAAAA
1 AAGAAGGAAAGGAAAGGAAAGAAAGAAA
* *
22783067 AATAAGGAAAGAAAAGGA
1 AAGAAGGAAAGGAAAGGA
22783085 GAGGAGAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
25 5 0.08
26 1 0.02
27 3 0.05
28 29 0.44
30 1 0.02
31 1 0.02
32 1 0.02
33 8 0.12
34 17 0.26
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (28 bp):
AAGAAGGAAAGGAAAGGAAAGAAAGAAA
Found at i:22783132 original size:30 final size:29
Alignment explanation
Indices: 22783074--22783140 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
22783064 AAAAATAAGG
*
22783074 AAAGAAAAGGAGAGGAGAAGAGAAAAAAA
1 AAAGAAAAGAAGAGGAGAAGAGAAAAAAA
22783103 AAAGAAGAAGAAGAGG-GAAG-GAAGGAAAAA
1 AAAGAA-AAGAAGAGGAGAAGAGAA--AAAAA
22783133 AAAGAAAA
1 AAAGAAAA
22783141 TAAGGTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 3 0.09
29 12 0.35
30 19 0.56
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (29 bp):
AAAGAAAAGAAGAGGAGAAGAGAAAAAAA
Found at i:22783133 original size:33 final size:32
Alignment explanation
Indices: 22782976--22783135 Score: 112
Period size: 33 Copynumber: 4.8 Consensus size: 32
22782966 AAGGAGAGGG
* * *
22782976 GAAGAAGAAGAAAGAAAGGAAGAAAGAAAAAGAA
1 GAAGAA-AAGGAAGGAAGGAA-AAAAAAAAAGAA
* *
22783010 G--GAAAAGGAAAGGAGAGGAAAGAAAGAAA-AA
1 GAAGAAAAGG-AAGGA-AGGAAAAAAAAAAAGAA
* * *
22783041 GAAGGAAAGGAGAGGAAAGAAAAAAAAATAAGGA
1 GAAGAAAAGGA-AGGAAGGAAAAAAAAA-AAGAA
*
22783075 -AAGAAAAGGAGAGGAGAAGAGAAAAAAAAAAGAA
1 GAAGAAAAGGA-AGGA-AGGA-AAAAAAAAAAGAA
*
22783109 GAAGAAGAGGGAAGGAAGGAAAAAAAA
1 GAAGAA-AAGGAAGGAAGGAAAAAAAA
22783136 GAAAATAAGG
Statistics
Matches: 101, Mismatches: 14, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
31 6 0.06
32 23 0.23
33 38 0.38
34 13 0.13
35 17 0.17
36 4 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.01
Consensus pattern (32 bp):
GAAGAAAAGGAAGGAAGGAAAAAAAAAAAGAA
Found at i:22783851 original size:19 final size:19
Alignment explanation
Indices: 22783829--22783869 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
22783819 AATATTCTGG
*
22783829 TATTTTTTTAATATTTTAT
1 TATTTTTGTAATATTTTAT
*
22783848 TATTTTTGTAATGTTTTAT
1 TATTTTTGTAATATTTTAT
22783867 TAT
1 TAT
22783870 GGGTTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (19 bp):
TATTTTTGTAATATTTTAT
Found at i:22783926 original size:27 final size:27
Alignment explanation
Indices: 22783894--22783961 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
22783884 AATTAAAAAA
22783894 TTACCAAAATAT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTAT
*
22783921 TTACCAAAAAATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
22783948 TTACCAAAATATAT
1 TTACCAAAATATAT
22783962 CAAAAAAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 33 0.87
28 5 0.13
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:22787466 original size:18 final size:18
Alignment explanation
Indices: 22787440--22787477 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22787430 ATCCCAATGA
*
22787440 TCGCCACCACATTCTTCT
1 TCGCAACCACATTCTTCT
*
22787458 TCGCAACCATATTCTTCT
1 TCGCAACCACATTCTTCT
22787476 TC
1 TC
22787478 ACCACCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.39, G:0.05, T:0.37
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:22787484 original size:18 final size:18
Alignment explanation
Indices: 22787443--22787484 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
22787433 CCAATGATCG
*
22787443 CCACCACATTCTTCTTCG
1 CCACCACATTCTTCTTCA
* *
22787461 CAACCATATTCTTCTTCA
1 CCACCACATTCTTCTTCA
22787479 CCACCA
1 CCACCA
22787485 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.43, G:0.02, T:0.31
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:22788168 original size:3 final size:3
Alignment explanation
Indices: 22788160--22788193 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
22788150 AGTAACATCT
22788160 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22788194 CTATAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:22788525 original size:18 final size:18
Alignment explanation
Indices: 22788502--22788539 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
22788492 GAACCCTTGT
*
22788502 TTGGTGCCGCCAATAGTG
1 TTGGTGCCGCCAACAGTG
22788520 TTGGTGCCGCCAACAGTG
1 TTGGTGCCGCCAACAGTG
22788538 TT
1 TT
22788540 CCCTTCACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.29
Consensus pattern (18 bp):
TTGGTGCCGCCAACAGTG
Found at i:22788828 original size:31 final size:31
Alignment explanation
Indices: 22788764--22788829 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
22788754 TTAGTAACTT
* * * *
22788764 AAATAAAAATATTTGAATAGTTAAATGATTA
1 AAATAAAAAAATTTCAATAGTTAAATAAATA
* *
22788795 AAATAAAAAAATTTCAATATTTTAATAAATA
1 AAATAAAAAAATTTCAATAGTTAAATAAATA
22788826 AAAT
1 AAAT
22788830 TTAAATTTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (31 bp):
AAATAAAAAAATTTCAATAGTTAAATAAATA
Found at i:22808718 original size:11 final size:11
Alignment explanation
Indices: 22808702--22808733 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
22808692 GACAAGGAAA
22808702 GAAACAAAATG
1 GAAACAAAATG
22808713 GAAACAAAATG
1 GAAACAAAATG
22808724 GAAACAAAAT
1 GAAACAAAAT
22808734 CAAAGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.09, G:0.16, T:0.09
Consensus pattern (11 bp):
GAAACAAAATG
Found at i:22821129 original size:25 final size:25
Alignment explanation
Indices: 22821088--22821135 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
22821078 TGAATTTTTT
22821088 TGTTCTTGTAATACTTTATTCTTTGC
1 TGTTCTTGTAATACTTT-TTCTTTGC
22821114 TGTTCTTG-AATACTTTTTCTTT
1 TGTTCTTGTAATACTTTTTCTTT
22821136 TCAAGACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.27
25 8 0.36
26 8 0.36
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.60
Consensus pattern (25 bp):
TGTTCTTGTAATACTTTTTCTTTGC
Found at i:22822054 original size:44 final size:44
Alignment explanation
Indices: 22821982--22822694 Score: 653
Period size: 44 Copynumber: 16.2 Consensus size: 44
22821972 GCTGGTTAAA
* * *
22821982 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * * * *
22822026 AAGGTAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCG
* * ** *
22822071 AAGAT-GCAGAGCTTGTCTTCCCATGCTGGTG-GCAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTG--AAGTAGATCG
* * * *
22822115 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * *
22822159 AAGATAGCAGGTCATGTCTTCCTATATT-G-GTAGAAAGTGGA-CG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGT-G-AAGTAGATCG
* * *
22822202 AAGAT-GCAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCG
* * *
22822246 AAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * *** *
22822290 AAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * *
22822334 AAGAT-GCAGATCTTGTCTTCAC-ATACTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTC-CTATATTGG-CGTGAAGTAGATCG
* * * *
22822378 AAGAAATCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * * * *
22822422 AAGATAACAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCG
*
22822466 AAGAT-GCAGATCTTGTCTTCCCATACTAGTGGC--GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT-CC-TA-TATTGGCGTGAAGTAGATCG
* * * *
22822510 AA-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * * * *
22822553 AAGATAGTAGATCCTGTTTTCCTATATTGGTAGTGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCG
* * * *
22822598 AAGATA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCG
* * *
22822642 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
22822686 AAGATAGCA
1 AAGATAGCA
22822695 AATTTTATTC
Statistics
Matches: 533, Mismatches: 110, Indels: 52
0.77 0.16 0.07
Matches are distributed among these distances:
41 6 0.01
42 23 0.04
43 61 0.11
44 323 0.61
45 114 0.21
46 6 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (44 bp):
AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
Found at i:22822399 original size:132 final size:132
Alignment explanation
Indices: 22821982--22822694 Score: 1180
Period size: 132 Copynumber: 5.4 Consensus size: 132
22821972 GCTGGTTAAA
* *
22821982 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
* * * *
22822047 CTATATTGGTAGCGAAGTGGATCGAAGATGCAGAGCTTGTCTTCCCATGCTGGTGGCAAAGTAGA
66 CTATATTGGTA-AGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
22822112 TCG
130 TCG
* *
22822115 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCATGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
*
22822180 CTATATTGGT-AGAAAGTGGA-CGAAGATGCAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGA
66 CTATATTGGTAAG-AAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
22822243 TCG
130 TCG
* *
22822246 AAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
*
22822311 CTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCACATACTGGTGGCGAAGTAGAT
66 CTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
22822376 CG
131 CG
* *
22822378 AAGAAATCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
* *
22822443 CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGAT
66 CTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
22822508 CG
131 CG
* * * *
22822510 AA-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGATCCTGTTTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
* *
22822574 CTATATTGGTAGTGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
66 CTATATTGGTA-AGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
22822639 TCG
130 TCG
22822642 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
22822695 AATTTTATTC
Statistics
Matches: 542, Mismatches: 33, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
131 188 0.35
132 235 0.43
133 119 0.22
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (132 bp):
AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
CTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
CG
Found at i:22824103 original size:27 final size:27
Alignment explanation
Indices: 22824073--22824136 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
22824063 TATCTGTAAT
22824073 TATTTTTTATTTATATATACATATGTA
1 TATTTTTTATTTATATATACATATGTA
* * * *
22824100 TATTTGTTGTTTTTATATACATATTTA
1 TATTTTTTATTTATATATACATATGTA
*
22824127 TTTTTTTTAT
1 TATTTTTTAT
22824137 AAGTAATGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.66
Consensus pattern (27 bp):
TATTTTTTATTTATATATACATATGTA
Found at i:22830600 original size:20 final size:19
Alignment explanation
Indices: 22830562--22830613 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
22830552 GTAAAATTTC
*
22830562 TAAAAATAAATAAATAATA
1 TAAATATAAATAAATAATA
*
22830581 TAAATATAATATATATAATA
1 TAAATATAA-ATAAATAATA
*
22830601 AAAATATAAATAA
1 TAAATATAAATAA
22830614 TAAAAAACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAATATAAATAAATAATA
Found at i:22830618 original size:15 final size:15
Alignment explanation
Indices: 22830588--22830619 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22830578 ATATAAATAT
*
22830588 AATATATATAATAAA
1 AATATAAATAATAAA
22830603 AATATAAATAATAAA
1 AATATAAATAATAAA
22830618 AA
1 AA
22830620 ACCAGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAAATAATAAA
Found at i:22834314 original size:24 final size:24
Alignment explanation
Indices: 22834284--22834342 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
22834274 GCTATCTGGT
* *
22834284 GCTACCCGTTAATTGCTTTTCGGA
1 GCTACCCGTTAATTGCTCTTCAGA
*
22834308 GCTACCCATTAATTGCTCTTCAGA
1 GCTACCCGTTAATTGCTCTTCAGA
*
22834332 GCTACTCGTTA
1 GCTACCCGTTA
22834343 TAGGCTCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (24 bp):
GCTACCCGTTAATTGCTCTTCAGA
Found at i:22843353 original size:15 final size:15
Alignment explanation
Indices: 22843319--22843394 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
22843309 TTAGATTTAG
*
22843319 ATTTTAGATTTT-AG
1 ATTTTAGATTTTAAA
22843333 ATTTTAGATTTTAAA
1 ATTTTAGATTTTAAA
* *
22843348 ATTTTATATTTGAAA
1 ATTTTAGATTTTAAA
*
22843363 CTTTT-G-TTTTATAA
1 ATTTTAGATTTTA-AA
*
22843377 ATTTATA-ATTTTCAA
1 ATTT-TAGATTTTAAA
22843392 ATT
1 ATT
22843395 CTCTGTAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
13 4 0.08
14 17 0.35
15 24 0.49
16 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.57
Consensus pattern (15 bp):
ATTTTAGATTTTAAA
Found at i:22843358 original size:7 final size:7
Alignment explanation
Indices: 22843302--22843345 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
22843292 TGAATTTGAA
22843302 TTTAGA-
1 TTTAGAT
22843308 TTTAGA-
1 TTTAGAT
22843314 TTTAGAT
1 TTTAGAT
22843321 TTTAGAT
1 TTTAGAT
22843328 TTTAGAT
1 TTTAGAT
22843335 TTTAGAT
1 TTTAGAT
22843342 TTTA
1 TTTA
22843346 AAATTTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 12 0.32
7 25 0.68
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
TTTAGAT
Found at i:22844702 original size:29 final size:29
Alignment explanation
Indices: 22844669--22844747 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 29
22844659 ATTCTTAAAT
*
22844669 GATAGTCGCTGTCAGACTCTTGTTTGGTA
1 GATAGTCACTGTCAGACTCTTGTTTGGTA
* * * *
22844698 GATAGTCATTGCCAGACTCTTATTTGGTG
1 GATAGTCACTGTCAGACTCTTGTTTGGTA
* *
22844727 GATATTCACTGT-GGACTCTTG
1 GATAGTCACTGTCAGACTCTTG
22844748 ATTTAAGATA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 7 0.17
29 33 0.82
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (29 bp):
GATAGTCACTGTCAGACTCTTGTTTGGTA
Found at i:22847900 original size:21 final size:21
Alignment explanation
Indices: 22847854--22847911 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
22847844 GAGTACATTG
22847854 TAAACAGAAGCCCA-AA-TGC
1 TAAACAGAAGCCCATAAGTGC
** *
22847873 TGCACAGAAGCACATAAGTGC
1 TAAACAGAAGCCCATAAGTGC
*
22847894 TAAACAGAAACCCATAAG
1 TAAACAGAAGCCCATAAG
22847912 GGTTGAACGG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.12
Consensus pattern (21 bp):
TAAACAGAAGCCCATAAGTGC
Found at i:22847939 original size:21 final size:21
Alignment explanation
Indices: 22847871--22847941 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
22847861 AAGCCCAAAT
* *
22847871 GCTGCACAGAAGCACATAAGT
1 GCTGAACAGAAGCACATAAGA
* * * *
22847892 GCTAAACAGAAACCCATAAGG
1 GCTGAACAGAAGCACATAAGA
* * *
22847913 GTTGAACGGAAGCTCATAAGA
1 GCTGAACAGAAGCACATAAGA
22847934 GCTGAACA
1 GCTGAACA
22847942 AAAACCCAGA
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (21 bp):
GCTGAACAGAAGCACATAAGA
Found at i:22848004 original size:42 final size:41
Alignment explanation
Indices: 22847879--22848014 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 41
22847869 ATGCTGCACA
* * * * *
22847879 GAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAACG
1 GAAGCTCATAAGAGCTGAACAGAAACCCATAA-GGTTAAACT
* *
22847921 GAAGCTCATAAGAGCTGAACAAAAACCCAGAAGGATTAAACT
1 GAAGCTCATAAGAGCTGAACAGAAACCCATAAGG-TTAAACT
*
22847963 GAAGCTCGA-AAGAGCTGAACTGAAACCCATTAAGGTTAAACT
1 GAAGCTC-ATAAGAGCTGAACAGAAACCCA-TAAGGTTAAACT
* *
22848005 AAAACTCATA
1 GAAGCTCATA
22848015 TGAGTTGATT
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
41 3 0.04
42 70 0.90
43 5 0.06
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (41 bp):
GAAGCTCATAAGAGCTGAACAGAAACCCATAAGGTTAAACT
Found at i:22856530 original size:41 final size:41
Alignment explanation
Indices: 22856466--22856659 Score: 214
Period size: 41 Copynumber: 4.7 Consensus size: 41
22856456 TTTTTAACCT
* *
22856466 TTAGCGGCGTTTTTGTCAAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGT-TCA
* * * * *
22856507 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
*
22856548 TTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGT-TCA
* * * * *
22856589 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
*
22856630 TTAGCGGCATTTTT-TGCTAAGCGCCGCTAA
1 TTAGCGGCGTTTTTAT-CTAAGCGCCGCTAA
22856660 AGTTCGTGTT
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
40 3 0.02
41 119 0.94
42 4 0.03
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (41 bp):
TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCTGTTCA
Found at i:22856601 original size:82 final size:82
Alignment explanation
Indices: 22856464--22856659 Score: 358
Period size: 82 Copynumber: 2.4 Consensus size: 82
22856454 ATTTTTTAAC
*
22856464 CTTTAGCGGCGTTTTTGTCAAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
22856529 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTGTT
22856546 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
22856611 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTGTT
*
22856628 CTTTAGCGGCATTTTT-TGCTAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAA
22856660 AGTTCGTGTT
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
81 1 0.01
82 110 0.99
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
GCCACTAATTCTCTGTT
Found at i:22856895 original size:82 final size:82
Alignment explanation
Indices: 22856799--22856975 Score: 309
Period size: 82 Copynumber: 2.2 Consensus size: 82
22856789 GTGTACTCTA
*
22856799 TTAGTGGCGTTTTAAGGGAAAACACCGTAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGGAAAACACCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
*
22856864 TTTCTGTAATTGAAAAT
66 TTTCTGTAATTGAAAAG
* * *
22856881 TTAGTGGCATTTTAAGGTAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGGAAAACACCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
22856946 TTTCTGTAATTGAAAAG
66 TTTCTGTAATTGAAAAG
22856963 TTAGTGGCGTTTT
1 TTAGTGGCGTTTT
22856976 TTCCGGTAGC
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 89 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (82 bp):
TTAGTGGCGTTTTAAGGGAAAACACCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
TTTCTGTAATTGAAAAG
Found at i:22857897 original size:8 final size:10
Alignment explanation
Indices: 22857875--22857911 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
22857865 TATTTTTACT
22857875 TATATATGGA
1 TATATATGGA
*
22857885 TATATATGAA
1 TATATATGGA
22857895 TATATATGGA
1 TATATATGGA
22857905 TATATAT
1 TATATAT
22857912 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:22858020 original size:27 final size:27
Alignment explanation
Indices: 22857979--22858030 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
22857969 AATAAACAAA
* *
22857979 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
22858006 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
22858031 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:22859363 original size:14 final size:14
Alignment explanation
Indices: 22859344--22859373 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
22859334 ATAAAAGGTT
22859344 TTTAGTTAATCATC
1 TTTAGTTAATCATC
22859358 TTTAGTTAATCATC
1 TTTAGTTAATCATC
22859372 TT
1 TT
22859374 GCTGTTCGTG
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:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:22859936 original size:11 final size:11
Alignment explanation
Indices: 22859899--22859938 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
22859889 GAATATCTCA
22859899 AACT-ATGGGT
1 AACTAATGGGT
*
22859909 AACTAGTGGGT
1 AACTAATGGGT
22859920 AACTAATGGGT
1 AACTAATGGGT
22859931 AACTAATG
1 AACTAATG
22859939 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:22860159 original size:11 final size:11
Alignment explanation
Indices: 22860132--22860164 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
22860122 TTAAACAACC
22860132 TGATTATTTTG
1 TGATTATTTTG
*
22860143 -GATTATATTG
1 TGATTATTTTG
22860153 TGATTATTTTG
1 TGATTATTTTG
22860164 T
1 T
22860165 TTAGATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (11 bp):
TGATTATTTTG
Found at i:22860847 original size:380 final size:380
Alignment explanation
Indices: 22860146--22860908 Score: 1526
Period size: 380 Copynumber: 2.0 Consensus size: 380
22860136 TATTTTGGAT
22860146 TATATTGTGATTATTTTGTTTAGATTTTTTTTTGGAAGAAAACTCATAAAATAACTTAAAGTTTA
1 TATATTGTGATTATTTTGTTTAGATTTTTTTTTGGAAGAAAACTCATAAAATAACTTAAAGTTTA
22860211 ATAGCGTTGTACATGATGGATTTTGGATTTTGTTATATTTAAGTTTTATACTAATTCTTTCCTGT
66 ATAGCGTTGTACATGATGGATTTTGGATTTTGTTATATTTAAGTTTTATACTAATTCTTTCCTGT
22860276 TTATTTGGAACTAACTTACTTATGTTTTCCTTTTTATTTTTATTTTTTGCAGTAGTTTGCTTCGA
131 TTATTTGGAACTAACTTACTTATGTTTTCCTTTTTATTTTTATTTTTTGCAGTAGTTTGCTTCGA
22860341 AGTCCAGGAAATTGAGGTATTTATTCCTATGTTTCCCACCTCGGTTTTCTTAAAAAAACACCTCC
196 AGTCCAGGAAATTGAGGTATTTATTCCTATGTTTCCCACCTCGGTTTTCTTAAAAAAACACCTCC
22860406 AAATGTTTAAATTTTGGATTTTGTTACTTTAATTATTATTTTTGAGTTTTAAAAGGGAGTTTTAA
261 AAATGTTTAAATTTTGGATTTTGTTACTTTAATTATTATTTTTGAGTTTTAAAAGGGAGTTTTAA
22860471 TTAAAAAAAATTTTTTTACGCTGTGGGTATTGGTTTATTTATCATTTTTTATTTA
326 TTAAAAAAAATTTTTTTACGCTGTGGGTATTGGTTTATTTATCATTTTTTATTTA
22860526 TATATTGTGATTATTTTGTTTAGATTTTTTTTTGGAAGAAAACTCATAAAATAACTTAAAGTTTA
1 TATATTGTGATTATTTTGTTTAGATTTTTTTTTGGAAGAAAACTCATAAAATAACTTAAAGTTTA
22860591 ATAGCGTTGTACATGATGGATTTTGGATTTTGTTATATTTAAGTTTTATACTAATTCTTTCCTGT
66 ATAGCGTTGTACATGATGGATTTTGGATTTTGTTATATTTAAGTTTTATACTAATTCTTTCCTGT
22860656 TTATTTGGAACTAACTTACTTATGTTTTCCTTTTTATTTTTATTTTTTGCAGTAGTTTGCTTCGA
131 TTATTTGGAACTAACTTACTTATGTTTTCCTTTTTATTTTTATTTTTTGCAGTAGTTTGCTTCGA
22860721 AGTCCAGGAAATTGAGGTATTTATTCCTATGTTTCCCACCTCGGTTTTCTTAAAAAAACACCTCC
196 AGTCCAGGAAATTGAGGTATTTATTCCTATGTTTCCCACCTCGGTTTTCTTAAAAAAACACCTCC
22860786 AAATGTTTAAATTTTGGATTTTGTTACTTTAATTATTATTTTTGAGTTTTAAAAGGGAGTTTTAA
261 AAATGTTTAAATTTTGGATTTTGTTACTTTAATTATTATTTTTGAGTTTTAAAAGGGAGTTTTAA
22860851 TTAAAAAAAATTTTTTTACGCTGTGGGTATTGGTTTATTTATCATTTTTTATTTA
326 TTAAAAAAAATTTTTTTACGCTGTGGGTATTGGTTTATTTATCATTTTTTATTTA
22860906 TAT
1 TAT
22860909 GTTGCTGGCT
Statistics
Matches: 383, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
380 383 1.00
ACGTcount: A:0.27, C:0.10, G:0.14, T:0.49
Consensus pattern (380 bp):
TATATTGTGATTATTTTGTTTAGATTTTTTTTTGGAAGAAAACTCATAAAATAACTTAAAGTTTA
ATAGCGTTGTACATGATGGATTTTGGATTTTGTTATATTTAAGTTTTATACTAATTCTTTCCTGT
TTATTTGGAACTAACTTACTTATGTTTTCCTTTTTATTTTTATTTTTTGCAGTAGTTTGCTTCGA
AGTCCAGGAAATTGAGGTATTTATTCCTATGTTTCCCACCTCGGTTTTCTTAAAAAAACACCTCC
AAATGTTTAAATTTTGGATTTTGTTACTTTAATTATTATTTTTGAGTTTTAAAAGGGAGTTTTAA
TTAAAAAAAATTTTTTTACGCTGTGGGTATTGGTTTATTTATCATTTTTTATTTA
Found at i:22861208 original size:17 final size:17
Alignment explanation
Indices: 22861186--22861484 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
22861176 GTTAAATTTA
22861186 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
22861203 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
22861220 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
22861243 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
22861260 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
22861277 TTACATAAATTTGTTTAAATTTA-
1 TTAC-TAAA-----ATACA-TTAC
*
22861300 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
*
22861317 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
22861340 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
22861357 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
22861374 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
22861387 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
22861401 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
*
22861418 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
22861441 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
22861458 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
22861475 TTACTAAAAT
1 TTACTAAAAT
22861485 TTGTTTAAAT
Statistics
Matches: 225, Mismatches: 18, Indels: 78
0.70 0.06 0.24
Matches are distributed among these distances:
10 4 0.02
11 1 0.00
13 4 0.02
14 4 0.02
16 13 0.06
17 136 0.60
18 4 0.02
22 4 0.02
23 43 0.19
24 12 0.05
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:22861259 original size:40 final size:40
Alignment explanation
Indices: 22861203--22861366 Score: 157
Period size: 40 Copynumber: 3.7 Consensus size: 40
22861193 AATACATTAC
*
22861203 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
*
22861243 TTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGTTTAAA
1 TTACTAAAATACATTACTTACTAAAAT---TT-GTT---TAAA----TTT--A
22861296 TTTATTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 -TTA---CTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
22861340 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
22861367 ACATTACTTA
Statistics
Matches: 104, Mismatches: 3, Indels: 34
0.74 0.02 0.24
Matches are distributed among these distances:
40 50 0.48
43 5 0.05
44 3 0.03
46 3 0.03
47 4 0.04
50 4 0.04
51 3 0.03
53 3 0.03
54 5 0.05
57 24 0.23
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:22861265 original size:57 final size:57
Alignment explanation
Indices: 22861177--22861326 Score: 266
Period size: 57 Copynumber: 2.6 Consensus size: 57
22861167 CGATTGAATG
22861177 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACAT-AAATTTGT
*
22861234 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
*
22861291 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
22861327 TTGTTTAAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 89 0.99
58 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
Found at i:22861322 original size:97 final size:97
Alignment explanation
Indices: 22861206--22861517 Score: 518
Period size: 97 Copynumber: 3.2 Consensus size: 97
22861196 ACATTACTTA
*
22861206 CTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
22861271 CATTACTTAC-ATAAATTTGTTTAAATTTATTT
66 CATTACTTACTA-AAATTTGTTTAAATTTATTT
22861303 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
22861368 CATTACTTACTAAAATTTGTTTAAATTTATTAATT
66 CATTACTTACTAAAATTTGTTTAAATTTA-T--TT
*
22861403 ACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
1 -CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
*
22861468 ACATTACTTACTAAAATTTGTTTAAATTTATTA
65 ACATTACTTACTAAAATTTGTTTAAATTTATTT
* **
22861501 CTTAAATATGTTACTTA
1 CTAAAATACATTACTTA
22861518 AATTTATTAC
Statistics
Matches: 205, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
97 106 0.52
98 3 0.01
100 3 0.01
101 93 0.45
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (97 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
CATTACTTACTAAAATTTGTTTAAATTTATTT
Found at i:22861364 original size:57 final size:60
Alignment explanation
Indices: 22861303--22861427 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 60
22861293 AAATTTATTT
22861303 CTAAAATACATTACTTACTAAAATTTGTTTAAA-T-TT-ATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
*
22861360 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAA-TTATTAATTACTAAAATACATTACTTA
22861421 CTAAAAT
1 CTAAAAT
22861428 TTGTTTAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
57 33 0.52
59 1 0.02
60 2 0.03
61 27 0.43
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (60 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
Found at i:22861435 original size:101 final size:100
Alignment explanation
Indices: 22861198--22861500 Score: 533
Period size: 101 Copynumber: 3.0 Consensus size: 100
22861188 ACTAAAATAC
*
22861198 ATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTA-TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
22861263 CTAAAATACATTACTTAC-ATAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTA-AAATTTGTTTAAATTT
22861299 A-T-TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
1 ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
22861361 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
22861396 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATT-ATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
22861461 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
22861497 ATTA
1 ATTA
22861501 CTTAAATATG
Statistics
Matches: 195, Mismatches: 2, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
97 91 0.47
98 4 0.02
100 4 0.02
101 96 0.49
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (100 bp):
ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
TAAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:22861444 original size:40 final size:43
Alignment explanation
Indices: 22861352--22861467 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 43
22861342 ACTAAAATAC
*
22861352 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TT
*
22861396 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
22861438 -TT-ATTACTAAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
22861468 ACATTACTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 27 0.39
41 2 0.03
42 1 0.01
44 39 0.57
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
Found at i:22861471 original size:57 final size:57
Alignment explanation
Indices: 22861396--22861517 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
22861386 GTTTAAATTT
* *
22861396 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
* *
22861453 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAT
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
*
22861510 GTTACTTA
1 ATTACTTA
22861518 AATTTATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
Found at i:22861507 original size:13 final size:13
Alignment explanation
Indices: 22861489--22861559 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
22861479 TAAAATTTGT
22861489 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
22861502 TTAAATATGTTAC
1 TTAAATTTATTAC
22861515 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
22861528 TTAAATATGTTAC
1 TTAAATTTATTAC
22861541 TTAAATTTATTAC
1 TTAAATTTATTAC
22861554 TTAAAT
1 TTAAAT
22861560 AATTATAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:22861525 original size:26 final size:26
Alignment explanation
Indices: 22861489--22861560 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
22861479 TAAAATTTGT
22861489 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
22861515 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
22861541 TTAAATTTATTACTTAAATA
1 TTAAATTTATTACTTAAATA
22861561 ATTATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (26 bp):
TTAAATTTATTACTTAAATATGTTAC
Found at i:22861789 original size:74 final size:74
Alignment explanation
Indices: 22861709--22861856 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
22861699 AATAAAATAT
22861709 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
1 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
22861774 ATAATTATA
66 ATAATTATA
22861783 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
1 AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
22861848 ATAATTATA
66 ATAATTATA
22861857 TTAGTAATGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (74 bp):
AAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTATTA
ATAATTATA
Found at i:22861976 original size:26 final size:26
Alignment explanation
Indices: 22861893--22862162 Score: 330
Period size: 26 Copynumber: 10.8 Consensus size: 26
22861883 ATTTTATTAA
22861893 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
22861919 ATAATACAT-TTAACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
22861946 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
22861972 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
22861998 ATAATAC---AT---TT--GACTGAC
1 ATAATACATAATAACTTACAACTTAC
*
22862016 ATAATACATT-TAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
22862041 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
22862067 ATAATACATAATAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
22862093 ACAATACATAATAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
22862119 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
22862144 ACAATACAT-TTAACTTACA
1 ATAATACATAATAACTTACA
22862163 TAATACATTT
Statistics
Matches: 219, Mismatches: 13, Indels: 25
0.85 0.05 0.10
Matches are distributed among these distances:
18 12 0.05
20 3 0.01
23 4 0.02
25 55 0.25
26 121 0.55
27 15 0.07
28 9 0.04
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:22861987 original size:19 final size:19
Alignment explanation
Indices: 22861912--22861991 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
22861902 AATAACTTAC
*
22861912 AACTTACATAATACAT-TT
1 AACTTACATAATACATAAT
*
22861930 AACTTACAT--TACTTACAT
1 AACTTACATAATACATA-AT
* *
22861948 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TAAT
22861965 AACTTACATAATACATAAT
1 AACTTACATAATACATAAT
22861984 AACTTACA
1 AACTTACA
22861992 ACTTACATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 15
0.68 0.10 0.22
Matches are distributed among these distances:
16 9 0.19
17 3 0.06
18 15 0.32
19 19 0.40
20 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (19 bp):
AACTTACATAATACATAAT
Found at i:22862003 original size:19 final size:19
Alignment explanation
Indices: 22861897--22861977 Score: 84
Period size: 19 Copynumber: 4.5 Consensus size: 19
22861887 TATTAAATAA
22861897 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
22861916 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
*
22861934 TACAT--T-ACTTACATA-A
1 TACATAATAACTTACA-ACT
22861950 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
22861969 TACATAATA
1 TACATAATA
22861978 CATAATAACT
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
15 2 0.04
16 9 0.18
17 1 0.02
18 13 0.25
19 26 0.51
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:22862159 original size:121 final size:120
Alignment explanation
Indices: 22861893--22862192 Score: 390
Period size: 121 Copynumber: 2.5 Consensus size: 120
22861883 ATTTTATTAA
22861893 ATAATACATAATAACTTACAACTTACATAATACATTTAACTTACATTACTTACATAATACATAAT
1 ATAATACA-AATAACTTACAACTTACATAATACATTTAACTTACA--ACTTACATAATACATAAT
* * *
22861958 AACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTGACTGAC
63 AACTTACAACTTACACAATACATAATAACTTACAACTTACACAATACATTTAACTGAC
** * *
22862016 ATAATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATAA
1 ATAATACAAATAACTTACAACTTACATAATACAT-TTAACTTACAACTTACATAATACATAATAA
* * *
22862081 CTTGCAACTTACACAATACATAATAACTTGCAACTTACACAATACATTTAACTTAC
65 CTTACAACTTACACAATACATAATAACTTACAACTTACACAATACATTTAACTGAC
* *
22862137 A-ACTTACACAAT-ACATT-TAACTTACATAATACATTTAACTTACATAACTTACATAA
1 ATA-ATACA-AATAAC-TTACAACTTACATAATACATTTAACTTAC--AACTTACATAA
22862193 CTTACCATTG
Statistics
Matches: 155, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
120 9 0.06
121 92 0.59
122 37 0.24
123 17 0.11
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.32
Consensus pattern (120 bp):
ATAATACAAATAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAAC
TTACAACTTACACAATACATAATAACTTACAACTTACACAATACATTTAACTGAC
Found at i:22862186 original size:9 final size:9
Alignment explanation
Indices: 22862154--22862197 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
22862144 ACAATACATT
22862154 TAACTTACA
1 TAACTTACA
22862163 TAA--TACA
1 TAACTTACA
22862170 TTTAACTTACA
1 --TAACTTACA
22862181 TAACTTACA
1 TAACTTACA
22862190 TAACTTAC
1 TAACTTAC
22862198 CATTGCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
7 4 0.13
9 23 0.74
11 4 0.13
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.36
Consensus pattern (9 bp):
TAACTTACA
Found at i:22862193 original size:18 final size:17
Alignment explanation
Indices: 22862137--22862197 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 17
22862127 TTTAACTTAC
*
22862137 AACTTACACAATACATTT
1 AACTTACATAATACA-TT
22862155 AACTTACATAATACATTT
1 AACTTACATAATACA-TT
22862173 AACTTACATAACTTACA-T
1 AACTTACATAA--TACATT
22862191 AACTTAC
1 AACTTAC
22862198 CATTGCAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
18 36 0.90
20 4 0.10
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.34
Consensus pattern (17 bp):
AACTTACATAATACATT
Done.