Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 30 of 132
Found at i:8190214 original size:14 final size:14
Alignment explanation
Indices: 8190195--8190222 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8190185 AAAATAAAAA
8190195 AATAATTTTATATT
1 AATAATTTTATATT
8190209 AATAATTTTATATT
1 AATAATTTTATATT
8190223 TTATAACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AATAATTTTATATT
Found at i:8191106 original size:16 final size:16
Alignment explanation
Indices: 8191085--8191119 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
8191075 AAAAACTATT
8191085 TTTATATTTTTATTAA
1 TTTATATTTTTATTAA
8191101 TTTATATTTTTATTAA
1 TTTATATTTTTATTAA
8191117 TTT
1 TTT
8191120 TAAAATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATATTTTTATTAA
Found at i:8197304 original size:30 final size:29
Alignment explanation
Indices: 8197240--8197311 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 29
8197230 CAAATAATTT
8197240 TAAAATTATTAAAATTATTATTTTTAATA
1 TAAAATTATTAAAATTATTATTTTTAATA
8197269 TAAAATTATTAAAA-TATT-TTTTTGAAATAA
1 TAAAATTATTAAAATTATTATTTTT--AAT-A
8197299 TAAAATTATTAAA
1 TAAAATTATTAAA
8197312 TAATTTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
27 5 0.12
28 4 0.10
29 17 0.43
30 14 0.35
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (29 bp):
TAAAATTATTAAAATTATTATTTTTAATA
Found at i:8197318 original size:30 final size:27
Alignment explanation
Indices: 8197240--8197318 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 27
8197230 CAAATAATTT
*
8197240 TAAAATTATTAAAATTATTATTTTTAATA
1 TAAAATTATT-AAATAATT-TTTTTAATA
8197269 TAAAATTATTAAA-ATATTTTTTTGAAATAA
1 TAAAATTATTAAATA-ATTTTTTT--AAT-A
8197299 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATAATTTT
8197319 AATTTCTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
27 5 0.11
28 6 0.14
29 13 0.30
30 19 0.43
31 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (27 bp):
TAAAATTATTAAATAATTTTTTTAATA
Found at i:8203752 original size:42 final size:42
Alignment explanation
Indices: 8203677--8203762 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
8203667 CCTTACTACT
*
8203677 TTTAGTAGTGGTGATGTGGCAGACCGTAAACCCATTTTGTTA
1 TTTAGTAGTGGTGACGTGGCAGACCGTAAACCCATTTTGTTA
* * *
8203719 TTTATTAGTGGTGACGTGGCA-AGCTGTAGACCCATTTTGTTA
1 TTTAGTAGTGGTGACGTGGCAGA-CCGTAAACCCATTTTGTTA
8203761 TT
1 TT
8203763 CTCTTTAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.03
42 38 0.97
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (42 bp):
TTTAGTAGTGGTGACGTGGCAGACCGTAAACCCATTTTGTTA
Found at i:8205653 original size:20 final size:22
Alignment explanation
Indices: 8205630--8205670 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
8205620 ATAATTTTAT
8205630 AAAAT-TAAAAA-ATATATCTA
1 AAAATATAAAAATATATATCTA
8205650 AAAATATAAAAATATATATCT
1 AAAATATAAAAATATATATCT
8205671 TTTTAAGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATATAAAAATATATATCTA
Found at i:8208912 original size:195 final size:194
Alignment explanation
Indices: 8208507--8208954 Score: 533
Period size: 195 Copynumber: 2.3 Consensus size: 194
8208497 TACCAGTACT
* * * * * * *
8208507 CGATGCTGCTCATACGAGCTGTCGAGGACTCGCAACGTATACGGTACCCCAACCATCGGTACGGT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGAT
* * * *
8208572 GCTTATCTGTACTATAAACTGTTCCCTAACAATGTTGCTCACACGAGCTGTCGAGAGTATGCATA
66 -CATATCTGCACTATAAACTATTCCCTAACAATGTTGCTCACACGAGCTGTCGAGAATATGCATA
* * * *
8208637 AAGCATAGTCCCAGCCATTGTAGGGCCTATAATCCATTTAGGATCCATATCTCTTTCCCGAGTCA
130 AAGCATAATCCCAGCCATCGTAGGGCCTATAATCCATTCAGGATCCATATCTCTTTCCCGACTCA
* * * *
8208702 CAATGCTACTCACACGAGCTGTCGAGGACTCGTAACATATGCGGTACCTTAGCCATCGATACGAT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGAT
* * *
8208767 -ATATGTGCA-TAT-AACTATTCCCTAACGATGTTGCTCACACGAGCTGTCGAGAATATGCACTT
66 CATATCTGCACTATAAACTATTCCCTAACAATGTTGCTCACACGAGCTGTCGAGAATATGCA-TA
* ** * * * * *
8208829 ATGCATAAATCTTAGCCATCGTAGGGCCTGTAATCCATTCATGGATTCTTTTCTCATTTCTCGAC
130 AAGCAT-AATCCCAGCCATCGTAGGGCCTATAATCCATTCA-GGATCCATATCTC-TTTCCCGAC
8208894 TCA
192 TCA
* * *
8208897 CGATGCTGCTCACACGAGTTATCGATGACTCGCAACATATGCGGTACCTCAGCCATCG
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
8208955 CGTCGATTTC
Statistics
Matches: 212, Mismatches: 37, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
191 44 0.21
192 9 0.04
193 34 0.16
194 10 0.05
195 115 0.54
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (194 bp):
CGATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGAT
CATATCTGCACTATAAACTATTCCCTAACAATGTTGCTCACACGAGCTGTCGAGAATATGCATAA
AGCATAATCCCAGCCATCGTAGGGCCTATAATCCATTCAGGATCCATATCTCTTTCCCGACTCA
Found at i:8210760 original size:18 final size:18
Alignment explanation
Indices: 8210733--8210767 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8210723 GTGAAGAGAA
* *
8210733 ATAACTGCAAAATAATAC
1 ATAACAGCAAAACAATAC
8210751 ATAACAGCAAAACAATA
1 ATAACAGCAAAACAATA
8210768 ATTAAATACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (18 bp):
ATAACAGCAAAACAATAC
Found at i:8213585 original size:22 final size:20
Alignment explanation
Indices: 8213550--8213590 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
8213540 ACTTAGTTAG
8213550 TAGTTACTAAGTAGTTGTAA
1 TAGTTACTAAGTAGTTGTAA
8213570 TAGTTACGGTAAGTAGTTGTA
1 TAGTTAC--TAAGTAGTTGTA
8213591 TCAGTTGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (20 bp):
TAGTTACTAAGTAGTTGTAA
Found at i:8213603 original size:22 final size:22
Alignment explanation
Indices: 8213557--8213622 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
8213547 TAGTAGTTAC
* *
8213557 TAAGTAGTTGTAAT-AGTTACGG
1 TAAGTAGTTGT-ATCAGTTGCTG
8213579 TAAGTAGTTGTATCAGTTGCTG
1 TAAGTAGTTGTATCAGTTGCTG
* **
8213601 TAAGCAGCAGTTATCAGTTGCT
1 TAAGTAGTTG-TATCAGTTGCT
8213623 AAATAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.05
22 24 0.65
23 11 0.30
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (22 bp):
TAAGTAGTTGTATCAGTTGCTG
Found at i:8213982 original size:69 final size:69
Alignment explanation
Indices: 8213871--8214009 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
8213861 GTTTGATTGT
8213871 TGAAGCCATGTTGAAGAACAATTGGAACTCAAAATATTCATTCTCAAGTAAGCTCTAGCGAGCTT
1 TGAAGCCATGTTGAAGAACAATTGGAACTCAAAATATTCATTCTCAAGTAAGCTCTAGCGAGCTT
8213936 AGTA
66 AGTA
8213940 TGAAGCCATGTTGAAGAACAATTGGAACTCAAAATATTCATTCTCAAGTAAGCTCTAGCGAGCTT
1 TGAAGCCATGTTGAAGAACAATTGGAACTCAAAATATTCATTCTCAAGTAAGCTCTAGCGAGCTT
8214005 AGTA
66 AGTA
8214009 T
1 T
8214010 ATGCATCTGG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (69 bp):
TGAAGCCATGTTGAAGAACAATTGGAACTCAAAATATTCATTCTCAAGTAAGCTCTAGCGAGCTT
AGTA
Found at i:8220598 original size:17 final size:18
Alignment explanation
Indices: 8220564--8220601 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
8220554 ACACATTTAA
*
8220564 TTGAAATTTAGATGTAATT
1 TTGAAATTTA-ATATAATT
8220583 TTGAAATTT-ATATAATT
1 TTGAAATTTAATATAATT
8220600 TT
1 TT
8220602 TGTGTTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
TTGAAATTTAATATAATT
Found at i:8221110 original size:19 final size:18
Alignment explanation
Indices: 8221088--8221175 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
8221078 TTTATATTTT
8221088 TTTTAAATTTTTATAAAAC
1 TTTTAAATTTTT-TAAAAC
8221107 TTTTATAATTTTTT-AAA-
1 TTTTA-AATTTTTTAAAAC
8221124 TTGTT-AATTTTTTAAAAC
1 TT-TTAAATTTTTTAAAAC
* * *
8221142 ATTTTGAATATTTTTATAAT
1 -TTTTAAAT-TTTTTAAAAC
*
8221162 TTTTAAATTATTTA
1 TTTTAAATTTTTTA
8221176 TTAACATAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
16 8 0.14
17 5 0.09
18 12 0.21
19 18 0.31
20 15 0.26
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTTAAATTTTTTAAAAC
Found at i:8221125 original size:9 final size:9
Alignment explanation
Indices: 8221086--8221175 Score: 51
Period size: 10 Copynumber: 9.8 Consensus size: 9
8221076 ACTTTATATT
8221086 TTTTTTAAA
1 TTTTTTAAA
8221095 TTTTTATAAA
1 TTTTT-TAAA
**
8221105 ACTTTTATAA
1 TTTTTTA-AA
8221115 TTTTTTAAA
1 TTTTTTAAA
*
8221124 -TTGTT-AA
1 TTTTTTAAA
8221131 TTTTTTAAAA
1 TTTTTT-AAA
** *
8221141 CATTTTGAA
1 TTTTTTAAA
8221150 TATTTTTATAA
1 T-TTTTTA-AA
8221161 -TTTTTAAA
1 TTTTTTAAA
*
8221169 TTATTTA
1 TTTTTTA
8221176 TTAACATAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
7 2 0.03
8 10 0.17
9 22 0.37
10 24 0.40
11 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:8228739 original size:27 final size:23
Alignment explanation
Indices: 8228691--8228742 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
8228681 TAGCATAACA
8228691 TATCTATATATAATATTATTCTT
1 TATCTATATATAATATTATTCTT
8228714 TATCTATATATAATATTATTCTT
1 TATCTATATATAATATTATTCTT
*
8228737 TCTCTA
1 TATCTA
8228743 ATTGCACATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.56
Consensus pattern (23 bp):
TATCTATATATAATATTATTCTT
Found at i:8238209 original size:25 final size:25
Alignment explanation
Indices: 8238181--8238230 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
8238171 AAAATGGGTA
8238181 GAAGTGTTAGAAAAAAAACTCATAT
1 GAAGTGTTAGAAAAAAAACTCATAT
*
8238206 GAAGTGTTTGAAAAAAAACTCATAT
1 GAAGTGTTAGAAAAAAAACTCATAT
8238231 CTATTAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (25 bp):
GAAGTGTTAGAAAAAAAACTCATAT
Found at i:8238545 original size:28 final size:28
Alignment explanation
Indices: 8238514--8238570 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
8238504 TTTTTAAAAT
*
8238514 AAAATAA-AATAAAATAATTAAATTCTTA
1 AAAATAAGAATAAAAGAATTAAATT-TTA
*
8238542 AAAATAAGAGTAAAAGAATTAAATTTTA
1 AAAATAAGAATAAAAGAATTAAATTTTA
8238570 A
1 A
8238571 TTTACGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAATAAGAATAAAAGAATTAAATTTTA
Found at i:8238715 original size:16 final size:15
Alignment explanation
Indices: 8238689--8238719 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
8238679 ATTAATTTTT
8238689 ATTTTTAAATTTTAA
1 ATTTTTAAATTTTAA
8238704 ATTTTATAAATTTTAA
1 ATTTT-TAAATTTTAA
8238720 TAATTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTTAAATTTTAA
Found at i:8241929 original size:5 final size:5
Alignment explanation
Indices: 8241919--8241945 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
8241909 CACATTAATA
8241919 ATGTG ATGTG ATGTG ATGTG ATGTG AT
1 ATGTG ATGTG ATGTG ATGTG ATGTG AT
8241946 TAAAGATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (5 bp):
ATGTG
Found at i:8245050 original size:23 final size:23
Alignment explanation
Indices: 8244976--8245189 Score: 160
Period size: 23 Copynumber: 9.5 Consensus size: 23
8244966 TAAACGGAAC
* * *
8244976 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
8244998 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
8245020 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
8245046 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
8245066 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
8245085 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* **
8245108 AATCAGAGAGCACACGCAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
8245131 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
8245156 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
8245179 AATCAGAGAGC
1 AAACAGAGAGC
8245190 GCGCTAGTGT
Statistics
Matches: 155, Mismatches: 21, Indels: 31
0.75 0.10 0.15
Matches are distributed among these distances:
16 10 0.06
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 80 0.52
24 2 0.01
25 30 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:8245084 original size:39 final size:39
Alignment explanation
Indices: 8245030--8245104 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
8245020 GGGCAACAGA
*
8245030 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
*
8245069 GAGCACACAAAGTGCTAATCAGAGAGCACACAAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
8245105 GCTAATCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:8245157 original size:48 final size:46
Alignment explanation
Indices: 8245069--8245189 Score: 163
Period size: 48 Copynumber: 2.6 Consensus size: 46
8245059 ACAAAGTACT
* *
8245069 GAGCACACAAAGTGCTAATCAGAGAGCACACAAAGTGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGAGAGCACACAAAGTGCTAAACAGA
* * *
8245115 GAGCACACGCAGTGCTAATAACAGAGAGCACGA-GACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCAC-ACAAAGTGCTAAACAGA
8245163 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
8245190 GCGCTAGTGT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
46 25 0.38
48 40 0.61
49 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACACAAAGTGCTAAACAGA
Found at i:8246276 original size:33 final size:36
Alignment explanation
Indices: 8246215--8246280 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 36
8246205 CTCTTTTACC
* *
8246215 CCTTGCTCTACTCTTTTCCTTTGTCTTCAATTTGAT
1 CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTTGAT
8246251 CCTTGC-CT-CTCTTCT-CTTTCTCTTCAATTT
1 CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTT
8246281 CACATAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.50
34 6 0.21
35 2 0.07
36 6 0.21
ACGTcount: A:0.09, C:0.32, G:0.06, T:0.53
Consensus pattern (36 bp):
CCTTGCTCTACTCTTCTCCTTTCTCTTCAATTTGAT
Found at i:8247172 original size:16 final size:17
Alignment explanation
Indices: 8247151--8247182 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8247141 AGTTAAGGTT
8247151 GTGGGC-TAAGTTTAGA
1 GTGGGCTTAAGTTTAGA
8247167 GTGGGCTTAAGTTTAG
1 GTGGGCTTAAGTTTAG
8247183 TGGTTTGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.06, G:0.38, T:0.34
Consensus pattern (17 bp):
GTGGGCTTAAGTTTAGA
Found at i:8247223 original size:19 final size:19
Alignment explanation
Indices: 8247186--8247223 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8247176 AGTTTAGTGG
*
8247186 TTTGGGCTTTTGGGTGTTT
1 TTTGGGCTTTTAGGTGTTT
8247205 TTTGGG-TTTTAGGTAGTTT
1 TTTGGGCTTTTAGGT-GTTT
8247224 AGGTATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.05, C:0.03, G:0.34, T:0.58
Consensus pattern (19 bp):
TTTGGGCTTTTAGGTGTTT
Found at i:8248111 original size:77 final size:77
Alignment explanation
Indices: 8247779--8248270 Score: 476
Period size: 78 Copynumber: 6.3 Consensus size: 77
8247769 TGTCTCATGG
* * * * * * *
8247779 TCGGGGTAAGAGATCGGGTGGCT-GTGATTTGCCCCATGA-TCGGGGTAAAAGATTGGATGGTTT
1 TCGGGGTAAGAGATTGGCT-GATGGTGATCTGCCCCA-GACTCGGGGTAAAAGATCGAATGGTTA
* *
8247842 CAATTTACCCTAGGC
64 CAATCT-CCCCAGGC
**
8247857 TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCATGA-TCGGGGTAAAAGATCGAATGGTTGT
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCA-GACTCGGGGTAAAAGATCGAATGGTTAC
*
8247921 AATCTACCCCTA-TC
65 AATCT-CCCC-AGGC
* * * * * * *
8247935 GCGGGGTAAGAGATTAGCTGACGGTGATTTGCCTCAGACTCAGGGTAAAAGATCGAATGGTTGCA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGACTCGGGGTAAAAGATCGAATGGTTACA
*
8248000 ATTTACCCCAGGC
66 ATCT-CCCCAGGC
* * * * *
8248013 TCGGGGTAAGAGATTAGCTGATGGTGATCTGCCTCAAACTTGGGGTTAAAGATCGAATGGTTACA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGACTCGGGGTAAAAGATCGAATGGTTACA
*
8248078 ATCTGCCCAGGC
66 ATCTCCCCAGGC
* * **
8248090 TCGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCA-AGCTCGGGGTAAAATATCGAATGACT-C
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGA-CTCGGGGTAAAAGATCGAATGGTTAC
* *
8248153 TAATCTTCCCAAGC
65 -AATCTCCCCAGGC
* * * ***
8248167 TTGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGATTCGAGGTAAAAGATC-AGATAACTAC
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGACTCGGGGTAAAAGATCGA-ATGGTTAC
8248231 AATCTGCCCCAGGC
65 AATCT-CCCCAGGC
**
8248245 TCGGGGTAAGAGATTGATTGATGGTG
1 TCGGGGTAAGAGATTGGCTGATGGTG
8248271 TAACCCTAAA
Statistics
Matches: 353, Mismatches: 51, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
76 3 0.01
77 132 0.37
78 217 0.61
79 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (77 bp):
TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGACTCGGGGTAAAAGATCGAATGGTTACA
ATCTCCCCAGGC
Found at i:8248134 original size:39 final size:39
Alignment explanation
Indices: 8247744--8248202 Score: 144
Period size: 39 Copynumber: 11.8 Consensus size: 39
8247734 TCATTATCGA
* * * * * *
8247744 GGTAAGAGATTGGATGGCT-GTGATCTGTCTCATGGTCGG
1 GGTAAGAGATTGGAT-GATGGTGATTTGCCCCAAGCTCGG
* * * * *
8247783 GGTAAGAGATCGGGTGGCT-GTGATTTGCCCCATGATCGG
1 GGTAAGAGATTGGAT-GATGGTGATTTGCCCCAAGCTCGG
* * * * * * *
8247822 GGTAAAAGATTGGATGGT-TTCAATTTACCCTAGGCTCGG
1 GGTAAGAGATTGGATGATGGT-GATTTGCCCCAAGCTCGG
* * * *
8247861 GGTAAGAGATTGGCTGATGGTGATCTGCCCCATGATCGG
1 GGTAAGAGATTGGATGATGGTGATTTGCCCCAAGCTCGG
* * * * * * * * * * *
8247900 GGTAAAAGATCGAATGGTTGTAATCTACCCCTATCGCGG
1 GGTAAGAGATTGGATGATGGTGATTTGCCCCAAGCTCGG
* * * * *
8247939 GGTAAGAGATTAGCTGACGGTGATTTGCCTC-AGACTCAG
1 GGTAAGAGATTGGATGATGGTGATTTGCCCCAAG-CTCGG
* * * * * ** * *
8247978 GGTAAAAGATCGAATGGTTGCAATTTACCCCAGGCTCGG
1 GGTAAGAGATTGGATGATGGTGATTTGCCCCAAGCTCGG
* * * * * *
8248017 GGTAAGAGATTAGCTGATGGTGATCTGCCTCAAACTTGG
1 GGTAAGAGATTGGATGATGGTGATTTGCCCCAAGCTCGG
* * * **** * *
8248056 GGTTAA-AGATCGAATGGTTACAATCTG-CCCAGGCTCGG
1 GG-TAAGAGATTGGATGATGGTGATTTGCCCCAAGCTCGG
*
8248094 GGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGG
1 GGTAAGAGATTGGATGATGGTGATTTGCCCCAAGCTCGG
* * * * * * *
8248133 GGTAAAATATCGAATGACT-CTAATCTT--CCCAAGCTTGG
1 GGTAAGAGATTGGATGA-TGGTGAT-TTGCCCCAAGCTCGG
* *
8248171 GGTAAGAGATTGGCTGATGGTGATCTGCCCCA
1 GGTAAGAGATTGGATGATGGTGATTTGCCCCA
8248203 GATTCGAGGT
Statistics
Matches: 286, Mismatches: 122, Indels: 24
0.66 0.28 0.06
Matches are distributed among these distances:
37 5 0.02
38 50 0.17
39 223 0.78
40 8 0.03
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (39 bp):
GGTAAGAGATTGGATGATGGTGATTTGCCCCAAGCTCGG
Found at i:8256296 original size:51 final size:51
Alignment explanation
Indices: 8256223--8256407 Score: 255
Period size: 51 Copynumber: 3.6 Consensus size: 51
8256213 TTTCATTTAA
* * * * * *
8256223 TACTCACGATGACA-TATTGTCATCGAACCTTTAATTCATCATGGATTCATT
1 TACTCACGATGACACT-TAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
8256274 TACTCACGATGACACTTAGTCATCGGACTTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * *
8256325 TACTCACGATGACACTTAGTCACCGGACCTTTAGTCCGTAAAAGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
*
8256376 TACTCACGATGACATTTAGTCATCGGACCTTT
1 TACTCACGATGACACTTAGTCATCGGACCTTT
8256408 CTTTTATAGC
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
51 119 0.99
52 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:8263527 original size:51 final size:51
Alignment explanation
Indices: 8263451--8263678 Score: 332
Period size: 51 Copynumber: 4.5 Consensus size: 51
8263441 TTTTATTTAA
* * * *
8263451 TACTCAAGATGACATATTA-TCATCGGACCTTTAATTCGTCATGGATTCATT
1 TACTCACGATGACAT-TTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * * *
8263502 TACTCACGATAACTTTTAATTATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACATTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
8263553 TACTCACGATGACATTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACATTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
* * * *
8263604 TACTCACGATGACACTTAGTCACCGAACCTTTAATCCATAAAGGATTCATT
1 TACTCACGATGACATTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
8263655 TACTCACGATGACATTTAGTCATC
1 TACTCACGATGACATTTAGTCATC
8263679 AGACATTTCG
Statistics
Matches: 159, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
50 3 0.02
51 156 0.98
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (51 bp):
TACTCACGATGACATTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
Found at i:8264920 original size:39 final size:39
Alignment explanation
Indices: 8264859--8265007 Score: 140
Period size: 39 Copynumber: 3.8 Consensus size: 39
8264849 GTTACAGATG
8264859 GTGATCTGCCCTAGGCTCGGGGTAAGAGATCGGCTGATA
1 GTGATCTGCCCTAGGCTCGGGGTAAGAGATCGGCTGATA
* * * * * *
8264898 GTGGTCTGCCCTAGGCTGGGGGTAAAAGGTCGGATGGCTA
1 GTGATCTGCCCTAGGCTCGGGGTAAGAGATCGGCT-GATA
* * * ** *
8264938 -TAATCTGCCCCAGGCTTGGGGTAAGAGATTAGCTGATG
1 GTGATCTGCCCTAGGCTCGGGGTAAGAGATCGGCTGATA
* *
8264976 GTGATCTGCCCCAAGG-TCGGGGTAAAAGATCG
1 GTGATCTG-CCCTAGGCTCGGGGTAAGAGATCG
8265008 AATGACTGTG
Statistics
Matches: 84, Mismatches: 23, Indels: 6
0.74 0.20 0.05
Matches are distributed among these distances:
38 2 0.02
39 73 0.87
40 9 0.11
ACGTcount: A:0.21, C:0.19, G:0.36, T:0.23
Consensus pattern (39 bp):
GTGATCTGCCCTAGGCTCGGGGTAAGAGATCGGCTGATA
Found at i:8265505 original size:50 final size:48
Alignment explanation
Indices: 8265344--8265558 Score: 160
Period size: 49 Copynumber: 4.4 Consensus size: 48
8265334 TCACCTTTGT
* * * * ** *
8265344 GGCCTCAACCTTTCCCTTCACATTTTCTAAGGTATCAGATTCGTCGCTGT
1 GGCCTCAACCTTT-CCTTCACATCTTC-AAGGTATCGGGTTCGCCATTGC
* * * ** * * * * *
8265394 GGCCTCAACCTTTCCCATCATATTTTCATTGTATTGAGTTTGTCGTTGC
1 GGCCTCAACCTTT-CCTTCACATCTTCAAGGTATCGGGTTCGCCATTGC
8265443 GGCCTCAACCTTTCCTATCACATCTTCTAAGGTATCGGGTTCGCCATTGC
1 GGCCTCAACCTTTCCT-TCACATCTTC-AAGGTATCGGGTTCGCCATTGC
* * ** * * *
8265493 GACCTCATCCTTTCCCTTCATGTCTTCATGGTATCGGGTTTGCTATTGC
1 GGCCTCAACCTTT-CCTTCACATCTTCAAGGTATCGGGTTCGCCATTGC
8265542 GGCCTCAACCTTTCCTT
1 GGCCTCAACCTTTCCTT
8265559 TTTCCTATGG
Statistics
Matches: 132, Mismatches: 30, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
48 6 0.05
49 64 0.48
50 59 0.45
51 3 0.02
ACGTcount: A:0.16, C:0.30, G:0.17, T:0.38
Consensus pattern (48 bp):
GGCCTCAACCTTTCCTTCACATCTTCAAGGTATCGGGTTCGCCATTGC
Found at i:8265548 original size:49 final size:49
Alignment explanation
Indices: 8265394--8265556 Score: 168
Period size: 49 Copynumber: 3.3 Consensus size: 49
8265384 TCGTCGCTGT
* * * * * *
8265394 GGCCTCAACCTTTCCCATCATATTTTCATTGTATTGAGTTTG-TCGTTGC
1 GGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTTGCT-ATTGC
* * * *
8265443 GGCCTCAACCTTT-CCTATCACATCTTCTAAGGTATCGGGTTCGCCATTGC
1 GGCCTCAACCTTTCCCT-TCATATCTTC-ATGGTATCGGGTTTGCTATTGC
* * *
8265493 GACCTCATCCTTTCCCTTCATGTCTTCATGGTATCGGGTTTGCTATTGC
1 GGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTTGCTATTGC
8265542 GGCCTCAACCTTTCC
1 GGCCTCAACCTTTCC
8265557 TTTTTCCTAT
Statistics
Matches: 91, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
48 2 0.02
49 53 0.58
50 33 0.36
51 3 0.03
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.37
Consensus pattern (49 bp):
GGCCTCAACCTTTCCCTTCATATCTTCATGGTATCGGGTTTGCTATTGC
Found at i:8265557 original size:99 final size:98
Alignment explanation
Indices: 8265295--8265613 Score: 267
Period size: 99 Copynumber: 3.3 Consensus size: 98
8265285 CTCACTATTA
** * * *** * *
8265295 CGACCTCAATTTTTCCCGTCATAT-TTCATGGTACCGAGTTCACCTTTGTGGCCTCAACCTTTCC
1 CGACCTCAACCTTTCCCATCATATCTTCATGGTATCGAGTTTGTCATTGCGGCCTCAACCTTT-C
* * *
8265359 CTTCACATTTTCTAAGGTATCAGATTCGTCGCTG
65 CTTCACATCTTCTAAGGTATCAGATTCGCCACTG
* * * * * *
8265393 TGGCCTCAACCTTTCCCATCATATTTTCATTGTATTGAGTTTGTCGTTGCGGCCTCAACCTTTCC
1 CGACCTCAACCTTTCCCATCATATCTTCATGGTATCGAGTTTGTCATTGCGGCCTCAACCTTTCC
* * *
8265458 TATCACATCTTCTAAGGTATCGGGTTCGCCATTG
66 T-TCACATCTTCTAAGGTATCAGATTCGCCACTG
* * * *
8265492 CGACCTCATCCTTTCCCTTCATGTCTTCATGGTATCGGGTTTG-CTATTGCGGCCTCAACCTTTC
1 CGACCTCAACCTTTCCCATCATATCTTCATGGTATCGAGTTTGTC-ATTGCGGCCTCAACCTTTC
* * *
8265556 CTT----T-TTCCTATGGTACCAGATTCGCCATTG
65 CTTCACATCTT-CTAAGGTATCAGATTCGCCACTG
* *
8265586 CGACCTCGATCC-TTCTCATCATATCTTC
1 CGACCTC-AACCTTTCCCATCATATCTTC
8265614 TAATGTACCG
Statistics
Matches: 180, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
93 2 0.01
94 40 0.22
95 4 0.02
98 24 0.13
99 110 0.61
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.38
Consensus pattern (98 bp):
CGACCTCAACCTTTCCCATCATATCTTCATGGTATCGAGTTTGTCATTGCGGCCTCAACCTTTCC
TTCACATCTTCTAAGGTATCAGATTCGCCACTG
Found at i:8266617 original size:29 final size:27
Alignment explanation
Indices: 8266574--8266635 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 27
8266564 TCACCTCAAC
8266574 CTCTTTTTTTCTTTTTCCTCTTTTTCT
1 CTCTTTTTTTCTTTTTCCTCTTTTTCT
* *
8266601 CTCTCTTTTTTCTTTTTCTTCTTTTTTT
1 CTCT-TTTTTTCTTTTTCCTCTTTTTCT
*
8266629 TTCTTTT
1 CTCTTTT
8266636 CTTTTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (27 bp):
CTCTTTTTTTCTTTTTCCTCTTTTTCT
Found at i:8266635 original size:9 final size:9
Alignment explanation
Indices: 8266577--8266646 Score: 59
Period size: 9 Copynumber: 7.4 Consensus size: 9
8266567 CCTCAACCTC
8266577 TTTTTTTCT
1 TTTTTTTCT
**
8266586 TTTTCCTCT
1 TTTTTTTCT
*
8266595 TTTTCTCTCT
1 TTTT-TTTCT
*
8266605 CTTTTTTCT
1 TTTTTTTCT
*
8266614 TTTTCTTCTT
1 TTTTTTTC-T
8266624 TTTTTTTCT
1 TTTTTTTCT
*
8266633 TTTCTTTTAT
1 TTT-TTTTCT
8266643 TTTT
1 TTTT
8266647 GTTCATGGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 26 0.53
10 23 0.47
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:8266646 original size:19 final size:19
Alignment explanation
Indices: 8266575--8266635 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
8266565 CACCTCAACC
**
8266575 TCTTTTT-TTC-TTTTTCC
1 TCTTTTTCTTCTTTTTTTT
*
8266592 TCTTTTTC-TCTCTCTTTTT
1 TCTTTTTCTTCT-TTTTTTT
8266611 TCTTTTTCTTCTTTTTTTT
1 TCTTTTTCTTCTTTTTTTT
8266630 TCTTTT
1 TCTTTT
8266636 CTTTTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 9 0.25
19 24 0.67
20 3 0.08
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TCTTTTTCTTCTTTTTTTT
Found at i:8279517 original size:24 final size:26
Alignment explanation
Indices: 8279485--8279532 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
8279475 AGTATAGCCA
8279485 TTTATTATTATTA-TTT-ATTTTTGT
1 TTTATTATTATTAGTTTAATTTTTGT
*
8279509 TTTATTATTTTTAGTTTAATTTTT
1 TTTATTATTATTAGTTTAATTTTT
8279533 CTATTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 3 0.14
26 6 0.29
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTATTATTATTAGTTTAATTTTTGT
Found at i:8285012 original size:25 final size:23
Alignment explanation
Indices: 8284969--8285014 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
8284959 CCAACTAGGG
8284969 AATTATTGTTTAGATTTAATTCA
1 AATTATTGTTTAGATTTAATTCA
*
8284992 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTAG-ATTTAATT
8285015 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (23 bp):
AATTATTGTTTAGATTTAATTCA
Found at i:8286322 original size:155 final size:156
Alignment explanation
Indices: 8286039--8286331 Score: 412
Period size: 155 Copynumber: 1.9 Consensus size: 156
8286029 AAAATAGATT
* *
8286039 GATTTTTCTTATATGGCTTGAAAGTGTTTTGTGAGGCACACATTTTTTAAAAATGTTTTTTTATT
1 GATTTTTCTTATATGGCTTGAAAGTGTTTTGTGAGGCACACATTTTTTAAAAATGTCTTTCTATT
* * * *
8286104 TACATGTTACCATTCCTGATCAAATGGTTAAATCTTAATATTTTTGTGCCTTTGGCCCAAGATTG
66 AACATGTCACCATTCCTGATCAAATGGTTAAATCATAATATTTCTGTGCCTTTGGCCCAAGATTG
*
8286169 ATTCTTGCCTTTGGAATGCTTAAGTC
131 ATTATTGCCTTTGGAATGCTTAAGTC
* *
8286195 GATTTTTCTTATATGGCTTGAAAGTGTTTTGTGGGGTACAC-TTTTTTGAAAAATG-CTTTCTAT
1 GATTTTTCTTATATGGCTTGAAAGTGTTTTGTGAGGCACACATTTTTT-AAAAATGTCTTTCTAT
* * * ** *
8286258 TAACATGTCACCA-TCCTTAGTTAAATGGTTAAATGATGGTGTTTCTGTGCCTTTGGCCCAAGAT
65 TAACATGTCACCATTCCTGA-TCAAATGGTTAAATCATAATATTTCTGTGCCTTTGGCCCAAGAT
8286322 TGATTATTGC
129 TGATTATTGC
8286332 ATTTAGCATT
Statistics
Matches: 120, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
154 5 0.04
155 69 0.57
156 46 0.38
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (156 bp):
GATTTTTCTTATATGGCTTGAAAGTGTTTTGTGAGGCACACATTTTTTAAAAATGTCTTTCTATT
AACATGTCACCATTCCTGATCAAATGGTTAAATCATAATATTTCTGTGCCTTTGGCCCAAGATTG
ATTATTGCCTTTGGAATGCTTAAGTC
Found at i:8286423 original size:23 final size:21
Alignment explanation
Indices: 8286372--8286423 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 21
8286362 TTGTTTGAAG
8286372 ATTTTTTTTTAATTTTATTTC
1 ATTTTTTTTTAATTTTATTTC
8286393 ATGCTTTTTTTT-ATTTTAATTTC
1 AT--TTTTTTTTAATTTT-ATTTC
8286416 TATTTTTT
1 -ATTTTTT
8286424 ACTTTTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 2 0.07
22 10 0.37
23 13 0.48
24 2 0.07
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (21 bp):
ATTTTTTTTTAATTTTATTTC
Found at i:8292905 original size:20 final size:20
Alignment explanation
Indices: 8292882--8292919 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8292872 GAAAGTTAAT
*
8292882 AATATATAAATAAAGGAACA
1 AATAAATAAATAAAGGAACA
*
8292902 AATAAATAAATAAGGGAA
1 AATAAATAAATAAAGGAA
8292920 GATTTTCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.13, T:0.18
Consensus pattern (20 bp):
AATAAATAAATAAAGGAACA
Found at i:8300941 original size:2 final size:2
Alignment explanation
Indices: 8300934--8300969 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8300924 AGTTCATCTT
8300934 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
8300970 TAGATTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8305016 original size:59 final size:59
Alignment explanation
Indices: 8304910--8305341 Score: 697
Period size: 59 Copynumber: 7.4 Consensus size: 59
8304900 TATGGATACC
* *
8304910 CGGGGGTAAAATGGTAATTTT-GGTGTAATCGGGATTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* * **
8304968 CGGGGGTAAAATGGCAATTTTCGGTGTAATCGGGGTTAAAAACAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* * *
8305027 C-GAGGTAAAATGGTAATTTTCGATGAAATCAGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* * * *
8305085 TGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGAAATTTCAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* *
8305144 CGGGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
*
8305203 CGGGGGTAAAATGGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
*
8305262 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
8305321 CGGGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
8305342 TGGATAATTT
Statistics
Matches: 345, Mismatches: 27, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
58 70 0.20
59 275 0.80
ACGTcount: A:0.37, C:0.05, G:0.27, T:0.31
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATT
Found at i:8305654 original size:162 final size:162
Alignment explanation
Indices: 8305438--8305913 Score: 780
Period size: 161 Copynumber: 2.9 Consensus size: 162
8305428 ATTTGAAAAT
* * *
8305438 CTTGAAAAAATT-TTGGACCAATTTTGTAATT-AAATAAAAGTCGATTTAAGGATTAAATTAAAA
1 CTTG-AAAAATTATTGGGCCAATTTCGTAATTAAAAT-AAAGTTGATTT-AGGATTAAATTAAAA
8305501 CAAATTAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAATATGACACGTGGCAACCTCTG
63 CAAATTAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAATATGACACGTGGCAACCTCTG
8305566 GTGCAGTCAAACAGTCAAAGGACTAGTTTATAAAC
128 GTGCAGTCAAACAGTCAAAGGACTAGTTTATAAAC
8305601 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTAGGATTAAATTAAAACAA
1 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTAGGATTAAATTAAAACAA
* *
8305666 ATT-AAAATAAAAAGGACTAAATACAGAAATAACCCAAAAATATGACACGTGGCAACCTCTAGTG
66 ATTAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAATATGACACGTGGCAACCTCTGGTG
8305730 CAGTCAAACAGTCAAAGGACTAGTTTATAAAC
131 CAGTCAAACAGTCAAAGGACTAGTTTATAAAC
*
8305762 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTGGGATTAAATTAAAACAA
1 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTAGGATTAAATTAAAACAA
* * ** *
8305827 ATAAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAA-AGTGACACGTGGCAGTCTATGGT
66 ATTAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAATA-TGACACGTGGCAACCTCTGGT
*
8305891 ACAGTCAAACAGTCAAAGGACTA
130 GCAGTCAAACAGTCAAAGGACTA
8305914 AATTGAAAAG
Statistics
Matches: 295, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
161 158 0.54
162 102 0.35
163 31 0.11
164 4 0.01
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (162 bp):
CTTGAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGTTGATTTAGGATTAAATTAAAACAA
ATTAAAAATAAAAAGGACTAAATACAGAAATAATCCAAAAATATGACACGTGGCAACCTCTGGTG
CAGTCAAACAGTCAAAGGACTAGTTTATAAAC
Found at i:8307220 original size:18 final size:15
Alignment explanation
Indices: 8307187--8307217 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8307177 ATGGTGGATG
8307187 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
8307202 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
8307217 G
1 G
8307218 CAGCATAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:8307404 original size:6 final size:6
Alignment explanation
Indices: 8307381--8307488 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
8307371 TATTTGGACT
* * **
8307381 TTTAAA TTTTAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTAAA TTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA
* * *
8307431 TTCAAA -TTAAA TTTAAATA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
8307479 --TAAA TTTAAA
1 TTTAAA TTTAAA
8307489 ATCGATTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 53 0.64
7 14 0.17
8 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:8307452 original size:25 final size:25
Alignment explanation
Indices: 8307424--8307473 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
8307414 TTTTATTTAA
* *
8307424 ATTTAAATTCAAATTAAATTTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
*
8307449 ATTTAAATTTAAAATAAATCTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
8307474 TTAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTAAATTCAAAATAAATCTAAAT
Found at i:8307452 original size:31 final size:31
Alignment explanation
Indices: 8307417--8307480 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
8307407 TTTTAATTTT
*
8307417 TATTTAAATTTAAATTCAAAT-TAAATTTAAA
1 TATTTAAATTTAAAAT-AAATCTAAATTTAAA
8307448 TATTTAAATTTAAAATAAATCTAAATTTAAA
1 TATTTAAATTTAAAATAAATCTAAATTTAAA
8307479 TA
1 TA
8307481 AATTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TATTTAAATTTAAAATAAATCTAAATTTAAA
Found at i:8307467 original size:42 final size:43
Alignment explanation
Indices: 8307395--8307488 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 43
8307385 AATTTTAATG
* * ** *
8307395 TTAAATTT-AATATTTTAATTTTTATTTAAATTTAAATTCAAA
1 TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
*
8307437 TTAAATTTAAATA-TTTAAATTTAAAATAAATCTAAATTTAAA
1 TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
8307479 -TAAATTTAAA
1 TTAAATTTAAA
8307489 ATCGATTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 10 0.22
42 31 0.69
43 4 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (43 bp):
TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
Found at i:8307490 original size:17 final size:16
Alignment explanation
Indices: 8307418--8307488 Score: 85
Period size: 17 Copynumber: 4.4 Consensus size: 16
8307408 TTTAATTTTT
8307418 ATTTAAATTTAAATTCAA
1 ATTTAAATTTAAA-T-AA
8307436 A-TTAAATTTAAAT--
1 ATTTAAATTTAAATAA
8307449 ATTTAAATTTAAAATAA
1 ATTTAAATTT-AAATAA
*
8307466 ATCTAAATTTAAATAA
1 ATTTAAATTTAAATAA
8307482 ATTTAAA
1 ATTTAAA
8307489 ATCGATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
13 1 0.02
14 8 0.17
15 4 0.09
16 13 0.28
17 20 0.43
18 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:8307768 original size:30 final size:30
Alignment explanation
Indices: 8307734--8307792 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
8307724 AATTTGACCC
*
8307734 CTAAAC-TTCTCAAAAATTTAGTTTTAACCT
1 CTAAACTTTC-CAAAAATTCAGTTTTAACCT
* *
8307764 CTAAAGTTTCCAAAAATTCATTTTTAACC
1 CTAAACTTTCCAAAAATTCAGTTTTAACC
8307793 CCCAAACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.39
Consensus pattern (30 bp):
CTAAACTTTCCAAAAATTCAGTTTTAACCT
Found at i:8307884 original size:59 final size:59
Alignment explanation
Indices: 8307726--8307884 Score: 146
Period size: 59 Copynumber: 2.7 Consensus size: 59
8307716 AAATTTTGAA
* * *
8307726 TTTGACCCCTAAACTTCTCAAAAATTTAG-TTTTAACCTCTAAAGTTTCCAAAAATTCATT
1 TTTGACCCCTAAACTT-TCAAAAATTTTGATTTTAACCT-TAAAATTTCCAAAAATTCATC
* * * * ***
8307786 TTTAACCCCCAAACATTCTAAAA--TTGCATTTTAACCCTTAAAATTTTTGAAAATTGCA-C
1 TTTGACCCCTAAACTTTCAAAAATTTTG-ATTTTAA-CCTTAAAATTTCCAAAAATT-CATC
*
8307845 TTTGACCCCTAAACTTTCCAAAATTTTGATTTTAACCTTA
1 TTTGACCCCTAAACTTTCAAAAATTTTGATTTTAACCTTA
8307885 TTTTTACATT
Statistics
Matches: 79, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
57 2 0.03
59 49 0.62
60 25 0.32
61 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (59 bp):
TTTGACCCCTAAACTTTCAAAAATTTTGATTTTAACCTTAAAATTTCCAAAAATTCATC
Found at i:8308931 original size:45 final size:46
Alignment explanation
Indices: 8308867--8308956 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 46
8308857 TGTATAACAT
* *
8308867 CGTGGTTGCAAGATACCACGACATCATTTCTGATATGTT-TAAGAC
1 CGTGGTTGCAAGATACCACGACATCATATATGATATGTTATAAGAC
*
8308912 CGTGGTTG-AGAGATACCACGACTTCATATATGATATGTTATAAGA
1 CGTGGTTGCA-AGATACCACGACATCATATATGATATGTTATAAGA
8308957 TCTTAGTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 1 0.03
45 34 0.85
46 5 0.12
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (46 bp):
CGTGGTTGCAAGATACCACGACATCATATATGATATGTTATAAGAC
Found at i:8308973 original size:46 final size:45
Alignment explanation
Indices: 8308871--8308973 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
8308861 TAACATCGTG
* * * *
8308871 GTTGCAAGATACCACGACATCATTTCTGATATGTTTAAGACCGTG
1 GTTGAAAGATACCACGACATCATATATGATATGTTTAAGACCGTA
* * * *
8308916 GTTGAGAGATACCACGACTTCATATATGATATGTTATAAGATCTTA
1 GTTGAAAGATACCACGACATCATATATGATATGTT-TAAGACCGTA
8308962 GTTGAAAGATAC
1 GTTGAAAGATAC
8308974 TTTGGCATCA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
45 30 0.62
46 18 0.38
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (45 bp):
GTTGAAAGATACCACGACATCATATATGATATGTTTAAGACCGTA
Found at i:8311371 original size:3 final size:3
Alignment explanation
Indices: 8311363--8311397 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8311353 AATGAATTCT
8311363 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8311398 TATATCTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8319724 original size:18 final size:19
Alignment explanation
Indices: 8319691--8319727 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8319681 TACATATGGG
*
8319691 TATTTTTTGTGTTTAAATT
1 TATTTTTAGTGTTTAAATT
8319710 TATTTTTAGTG-TTAAATT
1 TATTTTTAGTGTTTAAATT
8319728 AGATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (19 bp):
TATTTTTAGTGTTTAAATT
Found at i:8319733 original size:19 final size:19
Alignment explanation
Indices: 8319692--8319735 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
8319682 ACATATGGGT
* *
8319692 ATTTTTTGTGTTTAAATTT
1 ATTTTTAGTGTTTAAATTG
8319711 ATTTTTAGTG-TTAAATTAG
1 ATTTTTAGTGTTTAAATT-G
8319730 ATTTTT
1 ATTTTT
8319736 TTTATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (19 bp):
ATTTTTAGTGTTTAAATTG
Found at i:8320100 original size:114 final size:112
Alignment explanation
Indices: 8319916--8320127 Score: 275
Period size: 114 Copynumber: 1.9 Consensus size: 112
8319906 GTTCATCATC
* * ** *
8319916 TATAATATTATTTAAGCTCTTGAATGAGTTTGTTCATGAGTCAACAGGACACCAACTCAGTTAGA
1 TATAATATTATTTAAGCTCTTGAATGAGTTGGTTCATGAGTCAACAAGACACCAAAACAATTAGA
*
8319981 AAAATTATGAAAATATCATTTCGTGATTAAAATAGATCATATTATATT
66 AAAATTATAAAAATATCATTTCGT-ATTAAAATAGATCATATTATATT
* *
8320029 TATATTATTATTTAAG-TCTCTGATTGAGTTGGTGTCATGAGTCAACCAAGA-ACCAAAACAATT
1 TATAATATTATTTAAGCTCT-TGAATGAGTTGGT-TCATGAGTCAA-CAAGACACCAAAACAATT
* * *
8320092 GGAGAAATTATAAAAATATTATTTCGTATTAAAATA
63 AGAAAAATTATAAAAATATCATTTCGTATTAAAATA
8320128 AGTTATATTA
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
112 3 0.04
113 35 0.41
114 43 0.51
115 4 0.05
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (112 bp):
TATAATATTATTTAAGCTCTTGAATGAGTTGGTTCATGAGTCAACAAGACACCAAAACAATTAGA
AAAATTATAAAAATATCATTTCGTATTAAAATAGATCATATTATATT
Found at i:8328147 original size:113 final size:114
Alignment explanation
Indices: 8327940--8328170 Score: 317
Period size: 113 Copynumber: 2.0 Consensus size: 114
8327930 CAAGATGAAA
*
8327940 TTGTTGGAAAAAACCTGATTTGAAAACGATTTTATTGCACAGCGAAAAATTAAAATTTTGAAAAT
1 TTGTTGGAAAAAACCTGATTTGAAAACGATTTTATTGCACAGCAAAAAATTAAAATTTTGAAAAT
* *
8328005 CGACTCAATTTGTGATATTTATAACAATAAACCTTAATTGAATACATAC
66 CGACCCAATTTGTGATATTTATAACAATAAACCTTAATCGAATACATAC
* * * *
8328054 TTGTTGG-AAAAATCT-AGTTTGAAAATGATTTTTTTGCGCAGCAAAAAATTAAAATTTTGAAAA
1 TTGTTGGAAAAAACCTGA-TTTGAAAACGATTTTATTGCACAGCAAAAAATTAAAATTTTGAAAA
** *
8328117 -CAGACCCAGA-TTGTGATATTTATAGTAATAAACCTTAATCGAATACGTAC
65 TC-GACCCA-ATTTGTGATATTTATAACAATAAACCTTAATCGAATACATAC
8328167 TTGT
1 TTGT
8328171 GTTTTCATAT
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
112 2 0.02
113 94 0.90
114 8 0.08
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (114 bp):
TTGTTGGAAAAAACCTGATTTGAAAACGATTTTATTGCACAGCAAAAAATTAAAATTTTGAAAAT
CGACCCAATTTGTGATATTTATAACAATAAACCTTAATCGAATACATAC
Found at i:8331564 original size:23 final size:23
Alignment explanation
Indices: 8331516--8331566 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
8331506 TTATCTGCTT
*
8331516 TTGTGACACACTTTTCTTCTTCC
1 TTGTGACACACTTTTCCTCTTCC
**
8331539 TTGTGACATGCTTTTCCTCTAT-C
1 TTGTGACACACTTTTCCTCT-TCC
8331562 TTGTG
1 TTGTG
8331567 GAACGCTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.12, C:0.25, G:0.14, T:0.49
Consensus pattern (23 bp):
TTGTGACACACTTTTCCTCTTCC
Found at i:8334965 original size:25 final size:26
Alignment explanation
Indices: 8334928--8334986 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
8334918 AGTTATCTGG
*
8334928 AAAGGCTTTCTAGATGA-CTCGCCAT
1 AAAGGCTTTCTAGATAACCTCGCCAT
8334953 AAAGG-TTTCCTAGATAACCTCGCCACT
1 AAAGGCTTT-CTAGATAACCTCGCCA-T
8334980 -AAGGCTT
1 AAAGGCTT
8334987 CCCAAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 3 0.10
25 12 0.41
26 11 0.38
27 3 0.10
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (26 bp):
AAAGGCTTTCTAGATAACCTCGCCAT
Found at i:8334988 original size:26 final size:25
Alignment explanation
Indices: 8334928--8334988 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
8334918 AGTTATCTGG
* *
8334928 AAAGGCTTTCTAGATGACTCGCCAT
1 AAAGGCTTCCTAGATAACTCGCCAT
*
8334953 AAAGGTTTCCTAGATAACCTCGCCACT
1 AAAGGCTTCCTAGATAA-CTCGCCA-T
8334980 -AAGGCTTCC
1 AAAGGCTTCC
8334989 CAAATAATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 14 0.47
26 15 0.50
27 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (25 bp):
AAAGGCTTCCTAGATAACTCGCCAT
Found at i:8339779 original size:20 final size:19
Alignment explanation
Indices: 8339753--8339803 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
8339743 TTTCTGGGTG
8339753 AAAAAGAAAGAAATAGAGA
1 AAAAAGAAAGAAATAGAGA
* *
8339772 AGAAAAGAAGGAAATGGAGA
1 A-AAAAGAAAGAAATAGAGA
8339792 AAAAA-AAAGAAA
1 AAAAAGAAAGAAA
8339804 GTTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.21
19 5 0.18
20 17 0.61
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAGAAATAGAGA
Found at i:8340159 original size:19 final size:20
Alignment explanation
Indices: 8340137--8340180 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8340127 AAATAATAAA
8340137 TTTAAACATTAA-TAATATT
1 TTTAAACATTAAGTAATATT
**
8340156 TTTAAAGTTTAAGTAATATT
1 TTTAAACATTAAGTAATATT
8340176 TTTAA
1 TTTAA
8340181 TATTTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTAAACATTAAGTAATATT
Found at i:8340234 original size:23 final size:25
Alignment explanation
Indices: 8340177--8340226 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
8340167 AGTAATATTT
* *
8340177 TTAATATTTTATTAGAAAAAATTATA
1 TTAACATTTTAATAGAAAAAA-TATA
*
8340203 TTAACATTTTAATAAAAAAAATAT
1 TTAACATTTTAATAGAAAAAATAT
8340227 TACAATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
TTAACATTTTAATAGAAAAAATATA
Found at i:8340783 original size:2 final size:2
Alignment explanation
Indices: 8340776--8340811 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
8340766 CTTATCTTTC
8340776 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8340812 CTTAACTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8345400 original size:162 final size:162
Alignment explanation
Indices: 8345133--8345455 Score: 574
Period size: 162 Copynumber: 2.0 Consensus size: 162
8345123 AATTTTTTGG
*
8345133 GTGGCTAACTTTTGATTTATTGCTTAAAAGCTCAGCTTGTTTAGCTTTGCCTCTATACATTATGT
1 GTGGCTAACTTTTGATTTATCGCTTAAAAGCTCAGCTTGTTTAGCTTTGCCTCTATACATTATGT
**
8345198 AGTGGAATGTATAACTCATCCTTTATCACGAATGTAGTTGTCATGTTGAGTTGACAGACGAGTGA
66 AGTGGAATGTATAACTCATCCTTTATCACGAACATAGTTGTCATGTTGAGTTGACAGACGAGTGA
8345263 TGCTAGATTGGTCTTGTTGATTTTCAGGATTA
131 TGCTAGATTGGTCTTGTTGATTTTCAGGATTA
* *
8345295 GTGGCTAACTTTTGATTTATCGCTTCAAAGCTCAGCTTGTTTAGCTTTGCCTTTATACATTATGT
1 GTGGCTAACTTTTGATTTATCGCTTAAAAGCTCAGCTTGTTTAGCTTTGCCTCTATACATTATGT
* * *
8345360 AGTGGAATGTATAACTCATCCTTTATTATGAACATAGTTGTCATGTTGAGTTGACAGATGAGTGA
66 AGTGGAATGTATAACTCATCCTTTATCACGAACATAGTTGTCATGTTGAGTTGACAGACGAGTGA
8345425 TGCTAGATTGGTCTTGTTGATTTTCAGGATT
131 TGCTAGATTGGTCTTGTTGATTTTCAGGATT
8345456 CTAAATGCCT
Statistics
Matches: 153, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
162 153 1.00
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (162 bp):
GTGGCTAACTTTTGATTTATCGCTTAAAAGCTCAGCTTGTTTAGCTTTGCCTCTATACATTATGT
AGTGGAATGTATAACTCATCCTTTATCACGAACATAGTTGTCATGTTGAGTTGACAGACGAGTGA
TGCTAGATTGGTCTTGTTGATTTTCAGGATTA
Found at i:8349492 original size:81 final size:80
Alignment explanation
Indices: 8349397--8349558 Score: 297
Period size: 81 Copynumber: 2.0 Consensus size: 80
8349387 TCATAGAATT
* *
8349397 AAGTGTTGATAAGTGTTTAATAAAAGTGTAGTAAAACATAAAAAGTAAATATTAAAAAAAAGATA
1 AAGTGTTGACAAGTGTTTAATAAAAATGTAGTAAAACATAAAAAGTAAATATTAAAAAAAA-ATA
8349462 AAAAGATTATTTTTGA
65 AAAAGATTATTTTTGA
8349478 AAGTGTTGACAAGTGTTTAATAAAAATGTAGTAAAACATAAAAAGTAAATATTAAAAAAAAATAA
1 AAGTGTTGACAAGTGTTTAATAAAAATGTAGTAAAACATAAAAAGTAAATATTAAAAAAAAATAA
8349543 AAAGATTATTTTTGA
66 AAAGATTATTTTTGA
8349558 A
1 A
8349559 GGTTATGTAC
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
80 20 0.25
81 59 0.75
ACGTcount: A:0.54, C:0.02, G:0.14, T:0.30
Consensus pattern (80 bp):
AAGTGTTGACAAGTGTTTAATAAAAATGTAGTAAAACATAAAAAGTAAATATTAAAAAAAAATAA
AAAGATTATTTTTGA
Found at i:8360004 original size:18 final size:17
Alignment explanation
Indices: 8359981--8360016 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
8359971 ATTCATATAT
8359981 AATTTTAAAATTTATCCC
1 AATTTTAAAATTT-TCCC
8359999 AATTTTAAAATTTTCCC
1 AATTTTAAAATTTTCCC
8360016 A
1 A
8360017 TTCAAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTTTAAAATTTTCCC
Found at i:8370347 original size:30 final size:29
Alignment explanation
Indices: 8370313--8370369 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
8370303 GGTCTTACTG
*
8370313 AACTAAATTAACTCTTAAATTTGATTTTGA
1 AACT-AATTAACTCTTAAAATTGATTTTGA
* *
8370343 AACTAATTTAGTCTTAAAATTGATTTT
1 AACTAATTAACTCTTAAAATTGATTTT
8370370 TTTGTTGACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.46
Consensus pattern (29 bp):
AACTAATTAACTCTTAAAATTGATTTTGA
Found at i:8370720 original size:20 final size:20
Alignment explanation
Indices: 8370695--8370738 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
8370685 ACATTCTATT
8370695 AATTTGAC-TCTAAATATAAA
1 AATTTGACAT-TAAATATAAA
8370715 AATTTGACATTAAATATAAA
1 AATTTGACATTAAATATAAA
8370735 AATT
1 AATT
8370739 CAACAAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (20 bp):
AATTTGACATTAAATATAAA
Found at i:8372888 original size:19 final size:19
Alignment explanation
Indices: 8372860--8372993 Score: 139
Period size: 19 Copynumber: 7.2 Consensus size: 19
8372850 AGGGAATAAC
* *
8372860 ATACTAGCTCGT-TGAGCAA
1 ATACTGGCTCGTAAGAGC-A
*
8372879 ATACTGGCTCGTAAGAGCG
1 ATACTGGCTCGTAAGAGCA
*
8372898 ATACTGGCTCGT-TGAGCA
1 ATACTGGCTCGTAAGAGCA
* *
8372916 ATATTAGCTCGTAAGAGCA
1 ATACTGGCTCGTAAGAGCA
* *
8372935 ATACTGGCTGGT-TGAGCA
1 ATACTGGCTCGTAAGAGCA
* *
8372953 ATACTGACTCGTAAGAGAA
1 ATACTGGCTCGTAAGAGCA
*
8372972 ATACTAGCTCGTAAGAGCA
1 ATACTGGCTCGTAAGAGCA
8372991 ATA
1 ATA
8372994 TTGAATCGCA
Statistics
Matches: 93, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
18 29 0.31
19 60 0.65
20 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (19 bp):
ATACTGGCTCGTAAGAGCA
Found at i:8372939 original size:37 final size:36
Alignment explanation
Indices: 8372860--8372993 Score: 160
Period size: 37 Copynumber: 3.6 Consensus size: 36
8372850 AGGGAATAAC
*
8372860 ATACTAGCTCGTTGAGCAAATACTGGCTCGTAAGAGCG
1 ATACTAGCTCGTTGAGC-AATACT-GCTCGTAAGAGCA
* *
8372898 ATACTGGCTCGTTGAGCAATATTAGCTCGTAAGAGCA
1 ATACTAGCTCGTTGAGCAATACT-GCTCGTAAGAGCA
* * *
8372935 ATACTGGCTGGTTGAGCAATACTGACTCGTAAGAGAA
1 ATACTAGCTCGTTGAGCAATACTG-CTCGTAAGAGCA
*
8372972 ATACTAGCTCGTAAGAGCAATA
1 ATACTAGCTCGT-TGAGCAATA
8372994 TTGAATCGCA
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.01
37 59 0.70
38 24 0.29
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (36 bp):
ATACTAGCTCGTTGAGCAATACTGCTCGTAAGAGCA
Found at i:8372980 original size:56 final size:56
Alignment explanation
Indices: 8372860--8372993 Score: 164
Period size: 56 Copynumber: 2.4 Consensus size: 56
8372850 AGGGAATAAC
* * * * *
8372860 ATACTAGCTCGT-TGAGCAAATACTGGCTCGTAAGAGCGATACTGGCTCGTTGAGCA
1 ATACTAGCTCGTAAGAGC-AATACTGGCTCGTAAGAGCAATACTGACTCGTAGAGAA
* * *
8372916 ATATTAGCTCGTAAGAGCAATACTGGCTGGT-TGAGCAATACTGACTCGTAAGAGAA
1 ATACTAGCTCGTAAGAGCAATACTGGCTCGTAAGAGCAATACTGACTCGT-AGAGAA
8372972 ATACTAGCTCGTAAGAGCAATA
1 ATACTAGCTCGTAAGAGCAATA
8372994 TTGAATCGCA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 15 0.22
56 48 0.72
57 4 0.06
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (56 bp):
ATACTAGCTCGTAAGAGCAATACTGGCTCGTAAGAGCAATACTGACTCGTAGAGAA
Found at i:8373736 original size:21 final size:21
Alignment explanation
Indices: 8373701--8373758 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
8373691 TAGAAGTAAG
* * * *
8373701 ACTTATTTCGATAGAAGAGTT
1 ACTTATATCGGTAGAACAGTC
* *
8373722 ACTTGTATCGGTAGAACTGTC
1 ACTTATATCGGTAGAACAGTC
8373743 ACTTATATCGGTAGAA
1 ACTTATATCGGTAGAA
8373759 ATATGTAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (21 bp):
ACTTATATCGGTAGAACAGTC
Found at i:8379070 original size:29 final size:29
Alignment explanation
Indices: 8379038--8379116 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
8379028 CATGGCTTGA
* **
8379038 CACACGCTCATGTGACCCATACGGGTTGC
1 CACACGCTCATGTGACCCACACGGCCTGC
*
8379067 CACACGCCCATGTGACCCACACGGCCTGC
1 CACACGCTCATGTGACCCACACGGCCTGC
*
8379096 CACACGGTCATGTGACCCACA
1 CACACGCTCATGTGACCCACA
8379117 TGGTCTATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.23, C:0.41, G:0.22, T:0.15
Consensus pattern (29 bp):
CACACGCTCATGTGACCCACACGGCCTGC
Found at i:8383092 original size:23 final size:23
Alignment explanation
Indices: 8383066--8383109 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8383056 ATCGTTTCGG
*
8383066 TCTGAATTGGTTTCAAATATTTT
1 TCTGAATTGATTTCAAATATTTT
* *
8383089 TCTGTATTGATTTCCAATATT
1 TCTGAATTGATTTCAAATATT
8383110 CAAAAGTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.52
Consensus pattern (23 bp):
TCTGAATTGATTTCAAATATTTT
Found at i:8383462 original size:17 final size:17
Alignment explanation
Indices: 8383428--8383478 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
8383418 GACTTTAAGA
* **
8383428 TAAATTTAAATTTGATT
1 TAAATTTAAAATAAATT
8383445 TAAATTTAAAATAAATT
1 TAAATTTAAAATAAATT
*
8383462 TAAACTTAAAATAAATT
1 TAAATTTAAAATAAATT
8383479 CAATTTGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATTTAAAATAAATT
Found at i:8383476 original size:28 final size:28
Alignment explanation
Indices: 8383421--8383478 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
8383411 TGATTTAGAC
* * * **
8383421 TTTAAGATAAATTTAAATTTGATTTAAA
1 TTTAAAATAAATTTAAACTTAAAATAAA
8383449 TTTAAAATAAATTTAAACTTAAAATAAA
1 TTTAAAATAAATTTAAACTTAAAATAAA
8383477 TT
1 TT
8383479 CAATTTGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (28 bp):
TTTAAAATAAATTTAAACTTAAAATAAA
Found at i:8383605 original size:29 final size:29
Alignment explanation
Indices: 8383550--8383605 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
8383540 ATTTAATGTT
* *
8383550 TAATTGTATATATGAATTTTGATTTTGTG
1 TAATTGTATACATGAATTTTGAATTTGTG
*
8383579 TAATTTTATACATGAAATTTT-AATTTG
1 TAATTGTATACATG-AATTTTGAATTTG
8383606 ATCCAATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (29 bp):
TAATTGTATACATGAATTTTGAATTTGTG
Found at i:8385165 original size:22 final size:22
Alignment explanation
Indices: 8385126--8385167 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8385116 AGTACTTATT
*
8385126 AACTAAAAATGCTTAATAAAAA
1 AACTAAAAATGATTAATAAAAA
8385148 AACTAAAAAT-ATTAAATAAA
1 AACTAAAAATGATT-AATAAA
8385168 TTATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (22 bp):
AACTAAAAATGATTAATAAAAA
Found at i:8387130 original size:92 final size:92
Alignment explanation
Indices: 8386945--8387115 Score: 218
Period size: 92 Copynumber: 1.8 Consensus size: 92
8386935 TAACAATAAG
* * *
8386945 AATATTGGTGGATGAACCATCCGTCTGTGTAGATAAAAACTACTAATATGTTGTGGATGAACCAC
1 AATATTGGTGGATGAACCATCCATCGGTGTAGATAAAAACTACTAATACGTTGTGGATGAACCAC
* *
8387010 TGGCCGTGAAGATAAACTACCGACTAAA
66 TAGCCGAGAAGATAAACTA-CGACTAAA
* * * *
8387038 AATA-TGGTGGATGAACCATCCATGGGTGTAGATAAAAGCTATTTAATACGTTTTGGATGAACCA
1 AATATTGGTGGATGAACCATCCATCGGTGTAGATAAAAACTA-CTAATACGTTGTGGATGAACCA
* *
8387102 CTAGTCGAGCAGAT
65 CTAGCCGAGAAGAT
8387116 GACCGTTGAC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
92 33 0.50
93 33 0.50
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (92 bp):
AATATTGGTGGATGAACCATCCATCGGTGTAGATAAAAACTACTAATACGTTGTGGATGAACCAC
TAGCCGAGAAGATAAACTACGACTAAA
Found at i:8388504 original size:16 final size:16
Alignment explanation
Indices: 8388479--8388517 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
8388469 CTTTTGGTTC
8388479 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
* *
8388495 ACTGTGATGGAATAGG
1 ACTGTAATGGAATAGA
8388511 ACTGTAA
1 ACTGTAA
8388518 ACAGTAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:8388805 original size:57 final size:58
Alignment explanation
Indices: 8388696--8388806 Score: 172
Period size: 57 Copynumber: 1.9 Consensus size: 58
8388686 TTTTAATAAG
* *
8388696 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTATATTTTTACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTACATA
*
8388754 ATTATTATTAAAT-TAAATTTAAT-AAAATAATATATAATTTAATAACATTTTTA
1 ATTATTATTAAATAT-AATTTAATAAAAATAATAAATAATTTAATAACATTTTTA
8388807 ATACCCAAGC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 28 0.57
58 21 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTTACATA
Found at i:8390095 original size:7 final size:7
Alignment explanation
Indices: 8390084--8390126 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
8390074 ACCCCAAGAT
8390084 CTAAACC
1 CTAAACC
*
8390091 TTAAACC
1 CTAAACC
*
8390098 CTAAATC
1 CTAAACC
8390105 CTAAACC
1 CTAAACC
8390112 CTAAACC
1 CTAAACC
8390119 CTAAACC
1 CTAAACC
8390126 C
1 C
8390127 AAAATCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:8390108 original size:21 final size:21
Alignment explanation
Indices: 8390067--8390123 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
8390057 ATAATTTTTT
* *
8390067 ACCCTTAACCCCAAGAT-CTAA
1 ACCCTAAACCCTAA-ATCCTAA
*
8390088 ACCTTAAACCCTAAATCCTAA
1 ACCCTAAACCCTAAATCCTAA
8390109 ACCCTAAACCCTAAA
1 ACCCTAAACCCTAAA
8390124 CCCAAAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.19
Consensus pattern (21 bp):
ACCCTAAACCCTAAATCCTAA
Found at i:8390516 original size:18 final size:18
Alignment explanation
Indices: 8390493--8390529 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8390483 TTTGTTTGTA
8390493 ATTTTAAAAAAATTAATT
1 ATTTTAAAAAAATTAATT
* *
8390511 ATTTTAAATAATTTAATT
1 ATTTTAAAAAAATTAATT
8390529 A
1 A
8390530 AAGTTAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTTAAAAAAATTAATT
Found at i:8397275 original size:122 final size:121
Alignment explanation
Indices: 8397101--8397464 Score: 545
Period size: 122 Copynumber: 3.0 Consensus size: 121
8397091 ATTTTGCTAT
*
8397101 ATTTCCTTTTATTTAATATATCATATTAAAAC-AAAATTATTCCTTTATAGAAATATATGGAAGG
1 ATTTCCTTTTATTTAATATATCATATTAAAACGAAAA-TATTCCTTTAGAGAAATATATGGAAGG
8397165 TTATTAAAACCATTATATCTTTTCCAAAAGGATATTAACTTCCATATTTTTAATATTCA
65 TTATTAAAA-CATTATATCTTTTCCAAAAGGATATTAACTT-CATATTTTTAATATTCA
* * * *
8397224 ATTTTCTTTTATTTAATATGTCATA-TAAAACGAAAATATTCCTTTAGAGAAATAAATGGAAAGT
1 ATTTCCTTTTATTTAATATATCATATTAAAACGAAAATATTCCTTTAGAGAAATATATGG-AAGG
* *
8397288 TTATTAAAACATTATATCTTTTCCAAAAGGATATTAACTTTTATTTTTTTAATATTCA
65 TTATTAAAACATTATATCTTTTCCAAAAGGATATTAAC-TTCATATTTTTAATATTCA
* * * *
8397346 ATTTCCTTTTATTTAATATCTCATATTAAAATGAAACTATTCCTTTAGAGAAATATATGGAAAGT
1 ATTTCCTTTTATTTAATATATCATATTAAAACGAAAATATTCCTTTAGAGAAATATATGGAAGGT
*
8397411 TATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCA-ATGTTTTAATATT
66 TATTAAAACATTATATCTTTTCCAAAAGGATATTAACTTCATAT-TTTTAATATT
8397465 TAACGAAATC
Statistics
Matches: 219, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
120 1 0.00
121 13 0.06
122 133 0.61
123 72 0.33
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (121 bp):
ATTTCCTTTTATTTAATATATCATATTAAAACGAAAATATTCCTTTAGAGAAATATATGGAAGGT
TATTAAAACATTATATCTTTTCCAAAAGGATATTAACTTCATATTTTTAATATTCA
Found at i:8398791 original size:28 final size:29
Alignment explanation
Indices: 8398740--8398797 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
8398730 TCATTCGCTA
8398740 AGGATTTTTTTTCACAGAGTTTTTCTCTT
1 AGGATTTTTTTTCACAGAGTTTTTCTCTT
*
8398769 AGGATTTTTTTTCACTGAG-TTTTCTCTT
1 AGGATTTTTTTTCACAGAGTTTTTCTCTT
8398797 A
1 A
8398798 ATAAGGCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 10 0.36
29 18 0.64
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (29 bp):
AGGATTTTTTTTCACAGAGTTTTTCTCTT
Found at i:8398983 original size:5 final size:5
Alignment explanation
Indices: 8398969--8398998 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
8398959 AGACCTACCC
8398969 ATTTT A-TTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A
8398999 ATATTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:8399167 original size:27 final size:28
Alignment explanation
Indices: 8399137--8399235 Score: 92
Period size: 33 Copynumber: 3.4 Consensus size: 28
8399127 ATTTTTTTCT
8399137 AATTTGGTACCTAAAC-TTTTTTGACCC
1 AATTTGGTACCTAAACATTTTTTGACCC
* ** *
8399164 AATTTGGTACCTGAACTTGTCATTTTTTTTCCT
1 AATTTGGTACCT-AA----ACATTTTTTGACCC
*
8399197 AATTTGGTACCTAAACTTTTTTTGGACCC
1 AATTTGGTACCTAAACATTTTTT-GACCC
8399226 AATTTGGTAC
1 AATTTGGTAC
8399236 TTGAACATGA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
27 12 0.21
28 9 0.16
29 12 0.21
32 3 0.05
33 20 0.36
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.44
Consensus pattern (28 bp):
AATTTGGTACCTAAACATTTTTTGACCC
Found at i:8399190 original size:33 final size:32
Alignment explanation
Indices: 8399153--8399253 Score: 100
Period size: 33 Copynumber: 3.2 Consensus size: 32
8399143 GTACCTAAAC
8399153 TTTTTTGACCCAATTTGGTACCTGAACTTGTCA
1 TTTTTTGACCCAATTTGGTACCTGAAC-TGTCA
** * *
8399186 TTTTTTTTCCTAATTTGGTACCTAAACT-T--
1 TTTTTTGACCCAATTTGGTACCTGAACTGTCA
* * *
8399215 TTTTTGGACCCAATTTGGTACTTGAACATGACA
1 TTTTTTGACCCAATTTGGTACCTGAAC-TGTCA
8399248 TTTTTT
1 TTTTTT
8399254 CCTAATTTGG
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
29 21 0.40
30 1 0.02
31 1 0.02
32 1 0.02
33 28 0.54
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.48
Consensus pattern (32 bp):
TTTTTTGACCCAATTTGGTACCTGAACTGTCA
Found at i:8399250 original size:62 final size:60
Alignment explanation
Indices: 8399107--8399295 Score: 258
Period size: 60 Copynumber: 3.1 Consensus size: 60
8399097 ATAATATATT
8399107 ATTTGGTACTTGAACTTGACATTTTTTT-CTAATTTGGTACCTAAAC-TTTTTTGACCCA
1 ATTTGGTACTTGAACTTGACATTTTTTTCCTAATTTGGTACCTAAACTTTTTTTGACCCA
* *
8399165 ATTTGGTACCTGAACTTGTCATTTTTTTTCCTAATTTGGTACCTAAACTTTTTTTGGACCCA
1 ATTTGGTACTTGAACTTGACA-TTTTTTTCCTAATTTGGTACCTAAACTTTTTTT-GACCCA
* * ** **
8399227 ATTTGGTACTTGAACATGACA-TTTTTTCCTAATTTGGCACCTAAGTTTTTTTTAGATTCA
1 ATTTGGTACTTGAACTTGACATTTTTTTCCTAATTTGGTACCTAAACTTTTTTT-GACCCA
8399287 ATTTGGTAC
1 ATTTGGTAC
8399296 CTAATGTATT
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
58 19 0.16
59 7 0.06
60 60 0.52
61 6 0.05
62 24 0.21
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (60 bp):
ATTTGGTACTTGAACTTGACATTTTTTTCCTAATTTGGTACCTAAACTTTTTTTGACCCA
Found at i:8399551 original size:91 final size:90
Alignment explanation
Indices: 8399446--8399639 Score: 212
Period size: 91 Copynumber: 2.1 Consensus size: 90
8399436 TAAAAAAGAC
* * * ** *
8399446 TAGGTACCAAATTAGGAAAA-ATATTCAAGTTCAAGTACCAAATTGGACC-CCAAAAAGTTTAAG
1 TAGGTACCAAATTAGCAAAACAT-GTCAAGTTCAAGTACCAAATTGAACCAAAAAAAAATTTAAG
* *
8399509 TACCAACTTTAAAAAAAAGTGTTAAGTT
65 TACCAA-ATT-AAAAAAAGTGTCAAGTT
* * * *
8399537 TAGGTACCAAATTAGCAAAACGTGTCAAGTTCGAGTACTAAATTGAACCAAAAAAAAAATTTAGG
1 TAGGTACCAAATTAGCAAAACATGTCAAGTTCAAGTACCAAATTGAACC-AAAAAAAAATTTAAG
8399602 TACCAAATTAAAAAAAGTGTCAAGTT
65 TACCAAATTAAAAAAAGTGTCAAGTT
* *
8399628 CAAGTACCAAAT
1 TAGGTACCAAAT
8399640 GTTATATTAA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
91 67 0.78
92 3 0.03
93 16 0.19
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (90 bp):
TAGGTACCAAATTAGCAAAACATGTCAAGTTCAAGTACCAAATTGAACCAAAAAAAAATTTAAGT
ACCAAATTAAAAAAAGTGTCAAGTT
Found at i:8425158 original size:17 final size:17
Alignment explanation
Indices: 8425136--8425170 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8425126 TTTTTCTAAA
8425136 TATTTTTATC-AATATTT
1 TATTTTTA-CAAATATTT
8425153 TATTTTTACAAATATTT
1 TATTTTTACAAATATTT
8425170 T
1 T
8425171 GAGAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTACAAATATTT
Found at i:8429154 original size:7 final size:7
Alignment explanation
Indices: 8429115--8429142 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
8429105 CTTTAAGTAC
8429115 AAATTTT
1 AAATTTT
8429122 AAATTTT
1 AAATTTT
8429129 AAATTTT
1 AAATTTT
8429136 AAATTTT
1 AAATTTT
8429143 GATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AAATTTT
Found at i:8433054 original size:15 final size:15
Alignment explanation
Indices: 8433031--8433064 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8433021 TAGTAAGAGT
*
8433031 TCTTTTAAAACTCAC
1 TCTTCTAAAACTCAC
*
8433046 TCTTCTAAAATTCAC
1 TCTTCTAAAACTCAC
8433061 TCTT
1 TCTT
8433065 TGTTCAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.44
Consensus pattern (15 bp):
TCTTCTAAAACTCAC
Found at i:8434918 original size:23 final size:23
Alignment explanation
Indices: 8434892--8434944 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
8434882 GGTTTTTTAC
8434892 TAATGGTATTTCTAT-AGATAACA
1 TAATGGTATTTCTATCA-ATAACA
** *
8434915 TAATTATATTTTTATCAATAACA
1 TAATGGTATTTCTATCAATAACA
8434938 -AATGGTA
1 TAATGGTA
8434945 AATGCTGATA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (23 bp):
TAATGGTATTTCTATCAATAACA
Found at i:8435984 original size:16 final size:17
Alignment explanation
Indices: 8435959--8435992 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8435949 TTTTTTCCCA
*
8435959 TTTTCTTTGT-GATATT
1 TTTTCATTGTCGATATT
8435975 TTTTCATTGTCGATATT
1 TTTTCATTGTCGATATT
8435992 T
1 T
8435993 AATTTCATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.15, C:0.09, G:0.12, T:0.65
Consensus pattern (17 bp):
TTTTCATTGTCGATATT
Found at i:8439378 original size:17 final size:17
Alignment explanation
Indices: 8439356--8439394 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8439346 AGGTGGAGAA
* * *
8439356 CTTGTTCGTTGAGAGTT
1 CTTGTTCATAGAGAATT
8439373 CTTGTTCATAGAGAATT
1 CTTGTTCATAGAGAATT
8439390 CTTGT
1 CTTGT
8439395 CAAGGTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.13, G:0.23, T:0.46
Consensus pattern (17 bp):
CTTGTTCATAGAGAATT
Found at i:8440994 original size:32 final size:32
Alignment explanation
Indices: 8440956--8441016 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
8440946 ATTTAATTTC
8440956 TATATAT-TTTTAAAAT-ATAATGTCTATATA
1 TATATATATTTTAAAATAATAATGTCTATATA
*
8440986 TATATATATTTTAATATAATAATGTCTATAT
1 TATATATATTTTAAAATAATAATGTCTATAT
8441017 TTTTAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 7 0.25
31 8 0.29
32 13 0.46
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (32 bp):
TATATATATTTTAAAATAATAATGTCTATATA
Found at i:8441338 original size:24 final size:24
Alignment explanation
Indices: 8441311--8441367 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
8441301 AAAACGGTTC
** *
8441311 ATATATTTATTATTTAATTTCTAT
1 ATATATTTAAAATATAATTTCTAT
*
8441335 ATATTTTTAAAATATAATTTCTAT
1 ATATATTTAAAATATAATTTCTAT
8441359 AT-T-TTTAAA
1 ATATATTTAAA
8441368 TCATTATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 6 0.21
23 1 0.03
24 22 0.76
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
ATATATTTAAAATATAATTTCTAT
Found at i:8441738 original size:18 final size:17
Alignment explanation
Indices: 8441697--8441738 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
8441687 CTCTTTTGAC
*
8441697 TTTTAACCTTCCATCTT
1 TTTTAACCTTCCATATT
*
8441714 TTTTAACCTTTCATATT
1 TTTTAACCTTCCATATT
8441731 TTTGTAAC
1 TTT-TAAC
8441739 TACTTTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.21, C:0.21, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTTAACCTTCCATATT
Found at i:8445781 original size:26 final size:25
Alignment explanation
Indices: 8445742--8445795 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 25
8445732 ACTGACCTAG
8445742 CTAACAGCTTAACTTCTGCTAACTA
1 CTAACAGCTTAACTTCTGCTAACTA
8445767 CTAACAGACTTAACTTCTGCTAACTA
1 CTAACAG-CTTAACTTCTGCTAACTA
8445793 CTA
1 CTA
8445796 CTTGTATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.31
Consensus pattern (25 bp):
CTAACAGCTTAACTTCTGCTAACTA
Found at i:8450237 original size:26 final size:25
Alignment explanation
Indices: 8450198--8450251 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 25
8450188 ACTGACCTAG
*
8450198 CTAACAGCTTAACTTCTGCTAACTA
1 CTAACAGCTTAACTTCTACTAACTA
8450223 CTAACAGACTTAACTTCTACTAACTA
1 CTAACAG-CTTAACTTCTACTAACTA
8450249 CTA
1 CTA
8450252 CCTATATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (25 bp):
CTAACAGCTTAACTTCTACTAACTA
Found at i:8457909 original size:27 final size:27
Alignment explanation
Indices: 8457871--8457927 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
8457861 AAATACCTGA
*
8457871 CACCAGTGGAGGAACACGAAGTGGCGG
1 CACCAATGGAGGAACACGAAGTGGCGG
***
8457898 CACCAATGGAGGAATGTGAAGTGGCGG
1 CACCAATGGAGGAACACGAAGTGGCGG
8457925 CAC
1 CAC
8457928 TAAGGGGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.21, G:0.39, T:0.11
Consensus pattern (27 bp):
CACCAATGGAGGAACACGAAGTGGCGG
Found at i:8458119 original size:4 final size:4
Alignment explanation
Indices: 8458110--8458148 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
8458100 TTGAGGGAGA
*
8458110 AAAG AAAG AAAA AAGAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AA-AG AAAG AAAG AAAG AAAG AAAG AA
8458149 GAAGGAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:8458156 original size:7 final size:7
Alignment explanation
Indices: 8458140--8458174 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
8458130 GAAAGAAAGA
*
8458140 AAGAAAG
1 AAGAAGG
8458147 AAGAAGG
1 AAGAAGG
8458154 AAGAAGG
1 AAGAAGG
8458161 AAGAAGG
1 AAGAAGG
8458168 AAGAAGG
1 AAGAAGG
8458175 GGAAGAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (7 bp):
AAGAAGG
Found at i:8458157 original size:14 final size:14
Alignment explanation
Indices: 8458111--8458172 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
8458101 TGAGGGAGAA
* *
8458111 AAGAAAGAAAAAAG
1 AAGAAAGAAGAAGG
*
8458125 -AGAAAGAAAGAAAGA
1 AAGAAAG-AAG-AAGG
8458140 AAGAAAGAAGAAGG
1 AAGAAAGAAGAAGG
*
8458154 AAGAAGGAAGAAGG
1 AAGAAAGAAGAAGG
8458168 AAGAA
1 AAGAA
8458173 GGGGAAGAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
13 6 0.15
14 23 0.57
15 5 0.12
16 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAGAAGG
Found at i:8458571 original size:20 final size:21
Alignment explanation
Indices: 8458530--8458572 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8458520 TAATTTACTT
8458530 TAATTTAATTTTGCTAGTTAG
1 TAATTTAATTTTGCTAGTTAG
* *
8458551 TAATTTTATTTTG-TTGTTAG
1 TAATTTAATTTTGCTAGTTAG
8458571 TA
1 TA
8458573 TTAGTAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (21 bp):
TAATTTAATTTTGCTAGTTAG
Found at i:8458692 original size:95 final size:95
Alignment explanation
Indices: 8458536--8458806 Score: 415
Period size: 95 Copynumber: 2.9 Consensus size: 95
8458526 ACTTTAATTT
*
8458536 AATTTTGCTAGTTAGTAATTTTATTTTGTTGTTAGTA-T--TAGTAAGTAAAAAATATTGTTCAT
1 AATTTTGTTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAATATTGTTCAT
*
8458598 ATTTATTGATTTAAAGTTTAATAATGTTTA
66 ATTTATTGATTTAAAATTTAATAATGTTTA
*
8458628 AATTTTGTTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAATATTATTCAT
1 AATTTTGTTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAATATTGTTCAT
8458693 ATTTATTGATTTAAAATTTAATAATGTTTA
66 ATTTATTGATTTAAAATTTAATAATGTTTA
****
8458723 AA-AAAATTAGTTAGTAATTTTATTTTGTTGTTACTAGTAGTAGTAAGTAAGTAAAAAATATTGT
1 AATTTTGTTAGTTAGTAATTTTATTTTGTTG-T--TAGTAGTAGT-AGTAAGTAAAAAATATTGT
8458787 TCATATTTATTGATTTAAAA
62 TCATATTTATTGATTTAAAA
8458807 AATAATATAA
Statistics
Matches: 164, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
92 36 0.22
93 1 0.01
94 24 0.15
95 55 0.34
97 10 0.06
98 38 0.23
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.49
Consensus pattern (95 bp):
AATTTTGTTAGTTAGTAATTTTATTTTGTTGTTAGTAGTAGTAGTAAGTAAAAAATATTGTTCAT
ATTTATTGATTTAAAATTTAATAATGTTTA
Found at i:8460420 original size:43 final size:43
Alignment explanation
Indices: 8460338--8460422 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
8460328 ATTAACATAT
* * *
8460338 TAAATTATATTACTTGACTCGTGTTAATATGGTTGCATGTTAC
1 TAAACTATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
* *
8460381 TAAACTATATTACTTTACTCTTATTAATAT-CTTGACATGTTA
1 TAAACTATATTACTTGACTCGTATTAATATGCTTG-CATGTTA
8460423 TTAATTGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.46
Consensus pattern (43 bp):
TAAACTATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
Found at i:8464371 original size:4 final size:4
Alignment explanation
Indices: 8464362--8464431 Score: 106
Period size: 4 Copynumber: 17.5 Consensus size: 4
8464352 AAACACGTTA
* *
8464362 TCTT TCTT TCTT TC-T TCTT TCTT TCCTC TCCT TCTT TCTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT T-CTT TCTT TCTT TCTT TCTT TCTT
8464410 TCTT TCTT TCTT TCTT TCTT TC
1 TCTT TCTT TCTT TCTT TCTT TC
8464432 CCGTTTATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.05
4 54 0.90
5 3 0.05
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TCTT
Found at i:8464823 original size:15 final size:15
Alignment explanation
Indices: 8464803--8464839 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
8464793 CCTAATGTCG
8464803 CCACTTAGAGTCCCT
1 CCACTTAGAGTCCCT
8464818 CCACTTAGAGTCCCT
1 CCACTTAGAGTCCCT
8464833 CCACTTA
1 CCACTTA
8464840 ACTAAACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.22, C:0.41, G:0.11, T:0.27
Consensus pattern (15 bp):
CCACTTAGAGTCCCT
Found at i:8465682 original size:18 final size:18
Alignment explanation
Indices: 8465620--8465682 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
8465610 TTACATTATT
*
8465620 TATT-TTTTATTTAT-TA
1 TATTATTTTATATATATA
* *
8465636 TATAATATTTAAATATATA
1 TATTAT-TTTATATATATA
*
8465655 -ATTTAATTTATATATATA
1 TA-TTATTTTATATATATA
8465673 TATTATTTTA
1 TATTATTTTA
8465683 ACTAATATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
16 3 0.09
17 1 0.03
18 26 0.74
19 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTATTTTATATATATA
Found at i:8465810 original size:20 final size:18
Alignment explanation
Indices: 8465764--8465803 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
8465754 TTTTAAAAAA
8465764 AATTAAAATATACTTGAC
1 AATTAAAATATACTTGAC
*
8465782 AATTAAAATATATTTGAC
1 AATTAAAATATACTTGAC
8465800 AATT
1 AATT
8465804 TTGAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAAAATATACTTGAC
Found at i:8467977 original size:18 final size:19
Alignment explanation
Indices: 8467941--8467978 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
8467931 GAAGATCATA
8467941 TTTATTATGTTGATTATTT
1 TTTATTATGTTGATTATTT
8467960 TTTATT-TGATTG-TTATTT
1 TTTATTATG-TTGATTATTT
8467978 T
1 T
8467979 CTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.71
Consensus pattern (19 bp):
TTTATTATGTTGATTATTT
Found at i:8470731 original size:8 final size:8
Alignment explanation
Indices: 8470713--8470745 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
8470703 ATAAAATTAA
8470713 TTTTA-TT
1 TTTTATTT
8470720 TTTTATTT
1 TTTTATTT
8470728 TTTTATTT
1 TTTTATTT
8470736 TTTTATTT
1 TTTTATTT
8470744 TT
1 TT
8470746 CAAGTATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.20
8 20 0.80
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:8471347 original size:17 final size:17
Alignment explanation
Indices: 8471314--8471347 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8471304 GTCAGCAAAT
* *
8471314 TAATTTAAATTTAAAAA
1 TAATTAAAATTAAAAAA
8471331 TAATTAAAATTAAAAAA
1 TAATTAAAATTAAAAAA
8471348 AACATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATTAAAATTAAAAAA
Found at i:8487005 original size:18 final size:17
Alignment explanation
Indices: 8486982--8487045 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 17
8486972 CCCCCTCCTT
*
8486982 ACCACCTCCATCACTCTC
1 ACCACCTCCCTCAC-CTC
*
8487000 ACCACCCTCACCCTCACCCTG
1 ACCA-CCT--CCCTCA-CCTC
8487021 ACCACCTCCCTCACCTTC
1 ACCACCTCCCTCACC-TC
8487039 ACCACCT
1 ACCACCT
8487046 TTATTACCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
17 2 0.05
18 18 0.47
19 3 0.08
20 3 0.08
21 11 0.29
22 1 0.03
ACGTcount: A:0.20, C:0.59, G:0.02, T:0.19
Consensus pattern (17 bp):
ACCACCTCCCTCACCTC
Done.