Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 61 of 141
Found at i:18208476 original size:16 final size:16
Alignment explanation
Indices: 18208455--18208508 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
18208445 TTGATTTGCT
18208455 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
18208471 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
18208487 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
18208503 AATACA
1 ATTACA
18208509 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:18211904 original size:29 final size:29
Alignment explanation
Indices: 18211839--18211905 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
18211829 GATTTCGCGG
*
18211839 AAAATGGCCCATTCCGGTAAATAATTAAA
1 AAAACGGCCCATTCCGGTAAATAATTAAA
* * *
18211868 AAATCGGCCCATTTCGGTAAAT-TTTGAAA
1 AAAACGGCCCATTCCGGTAAATAATT-AAA
18211897 AAAACGGCC
1 AAAACGGCC
18211906 TTTTTTGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (29 bp):
AAAACGGCCCATTCCGGTAAATAATTAAA
Found at i:18212829 original size:29 final size:29
Alignment explanation
Indices: 18212764--18212830 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
18212754 GATTTCGCGG
*
18212764 AAAATGGCCCATTCCGGTAAATAATTAAA
1 AAAACGGCCCATTCCGGTAAATAATTAAA
* * *
18212793 AAATCGGCCCATTTCGGTAAAT-TTTGAAA
1 AAAACGGCCCATTCCGGTAAATAATT-AAA
18212822 AAAACGGCC
1 AAAACGGCC
18212831 TTTTTTGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (29 bp):
AAAACGGCCCATTCCGGTAAATAATTAAA
Found at i:18213587 original size:168 final size:168
Alignment explanation
Indices: 18213307--18213645 Score: 536
Period size: 168 Copynumber: 2.0 Consensus size: 168
18213297 AGGATTGATT
* *
18213307 TTATTAGATTTAAATTTTTATGATTTTATTATTAAAATAAATTTAATGTCATTGTAAAATTGTTT
1 TTATTAGATTTAAATTTTTATGATTTTATTACTAAAATAAATTTAATGTAATTGTAAAATTGTTT
* * *
18213372 AATCTTGTATTTAATTTGTTAAATACAATTTAATGAGTATAATTCTATTTTAGTTTTAAAATTGA
66 AATCTTGTACTTAATTTGTTAAATACAATTTAATGAGTATAATTCTATTTTAGTTTTAAAACTCA
* *
18213437 TTTAATGAAAATTACTTGCTAATATTAATAGTTAA-TA
131 TTTAATGAAAACTACTTGCTAATATTAACAGTTAATTA
* * *
18213474 TTATTAGATTTAATTTTTTATGATTTTGTTACTAAAATAAATTTAATGTTAATTGTGAAATTGTT
1 TTATTAGATTTAAATTTTTATGATTTTATTACTAAAATAAATTTAATG-TAATTGTAAAATTGTT
* * *
18213539 TAATCTTGTGCTTAATTTGTTAAATACAGTTTAATGAGTATGATTCTATTTTAGTTTTAAAACTC
65 TAATCTTGTACTTAATTTGTTAAATACAATTTAATGAGTATAATTCTATTTTAGTTTTAAAACTC
*
18213604 ATTTAATGAAAACTAGTTGCTAATATTAACAGTTAATTA
130 ATTTAATGAAAACTACTTGCTAATATTAACAGTTAATTA
18213643 TTA
1 TTA
18213646 ATTTTCATCA
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
167 45 0.29
168 106 0.68
169 5 0.03
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (168 bp):
TTATTAGATTTAAATTTTTATGATTTTATTACTAAAATAAATTTAATGTAATTGTAAAATTGTTT
AATCTTGTACTTAATTTGTTAAATACAATTTAATGAGTATAATTCTATTTTAGTTTTAAAACTCA
TTTAATGAAAACTACTTGCTAATATTAACAGTTAATTA
Found at i:18214562 original size:24 final size:26
Alignment explanation
Indices: 18214519--18214568 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
18214509 TATTGATAAA
18214519 ATAAAAAATTATTATGATAATTTATTT
1 ATAAAAAATTA-TATGATAATTTATTT
18214546 ATAAAAAATTA-AT-ATAATTTATT
1 ATAAAAAATTATATGATAATTTATT
18214569 AGTATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.43
25 2 0.09
27 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATAAAAAATTATATGATAATTTATTT
Found at i:18215187 original size:11 final size:11
Alignment explanation
Indices: 18215173--18215206 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
18215163 TTTTAATTTG
18215173 ATTTTTTTAAA
1 ATTTTTTTAAA
*
18215184 ATTTTTTTCAA
1 ATTTTTTTAAA
*
18215195 ATATTTTTAAA
1 ATTTTTTTAAA
18215206 A
1 A
18215207 AATTTAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTTTTAAA
Found at i:18215526 original size:29 final size:29
Alignment explanation
Indices: 18215505--18215559 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
18215495 ATTTGGTCCG
18215505 TTGTACTTTAAATTGATCAATTTTAGTCA
1 TTGTACTTTAAATTGATCAATTTTAGTCA
*
18215534 TTGTACTTTAATTTGA--AATTTTAGTC
1 TTGTACTTTAAATTGATCAATTTTAGTC
18215560 CTAATCTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
29 15 0.60
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (29 bp):
TTGTACTTTAAATTGATCAATTTTAGTCA
Found at i:18217593 original size:16 final size:16
Alignment explanation
Indices: 18217569--18217608 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
18217559 TGAAGGTTTG
*
18217569 AAATGATTCGAATATA
1 AAATAATTCGAATATA
* *
18217585 AAATAATTCTAATTTA
1 AAATAATTCGAATATA
18217601 AAATAATT
1 AAATAATT
18217609 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (16 bp):
AAATAATTCGAATATA
Found at i:18217617 original size:16 final size:16
Alignment explanation
Indices: 18217583--18217620 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18217573 GATTCGAATA
*
18217583 TAAAATAATTCTAATT
1 TAAAATAATTCTAAAT
18217599 TAAAATAATT-TAAAAT
1 TAAAATAATTCT-AAAT
18217615 TAAAAT
1 TAAAAT
18217621 GAGTATATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATAATTCTAAAT
Found at i:18220469 original size:16 final size:16
Alignment explanation
Indices: 18220448--18220516 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
18220438 TTTGGTTCGC
*
18220448 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAAG
18220464 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAAG
18220480 TGTATTAGGATTAGAAG
1 TGTATT-GGATTAGAAG
*
18220497 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAAG
18220513 TGTA
1 TGTA
18220517 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAAG
Found at i:18220492 original size:33 final size:32
Alignment explanation
Indices: 18220448--18220516 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
18220438 TTTGGTTCGC
*
18220448 TGTATTGGATTAGAGGTGTATTGGATTAGAAG
1 TGTATTGGATTAGAAGTGTATTGGATTAGAAG
*
18220480 TGTATTAGGATTAGAAGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAAGTGTATTGGATTAGAAG
18220513 TGTA
1 TGTA
18220517 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAAGTGTATTGGATTAGAAG
Found at i:18220581 original size:44 final size:45
Alignment explanation
Indices: 18220497--18220586 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
18220487 GGATTAGAAG
* * *
18220497 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
18220542 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
18220586 T
1 T
18220587 AGAATAGAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:18220603 original size:39 final size:43
Alignment explanation
Indices: 18220507--18220610 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 43
18220497 TGTATTGGAT
18220507 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAATGTAATGGAA
1 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA-GTAA-GGAA
* ***
18220552 TAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA-T-A-GAA
1 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAAGTAAGGAA
18220591 TAGAGGTGTAATAGCATAAT
1 TAGAGGTGTAATAGC-TAAT
18220611 GGAAAAAACT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
39 16 0.31
41 5 0.10
42 1 0.02
44 17 0.33
45 13 0.25
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.34
Consensus pattern (43 bp):
TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAAGTAAGGAA
Found at i:18220769 original size:16 final size:16
Alignment explanation
Indices: 18220732--18220786 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
18220722 TTAATCATAT
*
18220732 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
18220748 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
18220763 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
18220781 -TAAAAT
1 TTAAAAT
18220787 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:18220779 original size:18 final size:18
Alignment explanation
Indices: 18220738--18220786 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
18220728 ATATTTAAAC
18220738 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
18220756 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
18220772 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
18220787 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:18220923 original size:156 final size:156
Alignment explanation
Indices: 18220639--18220966 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 156
18220629 TAGAATACCC
* *
18220639 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
18220704 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAA
18220769 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
18220795 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
18220860 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTACTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAA
*
18220925 TATATAATTTAATAAAATTTTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
18220951 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
18220967 ATTGTTATTT
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 166 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:18220929 original size:18 final size:17
Alignment explanation
Indices: 18220908--18220942 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18220898 TTATTACTAA
*
18220908 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
18220926 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
18220943 TTTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:18220933 original size:137 final size:136
Alignment explanation
Indices: 18220644--18221080 Score: 466
Period size: 156 Copynumber: 3.1 Consensus size: 136
18220634 TACCCTTAGC
18220644 ATAAAATTGTTTTGGTAAATG-ATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
1 ATAAAATT-TTTTGGTAAATGTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
*
18220708 CAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATA
65 CAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATA
18220773 TAATTTA
130 TAATTTA
* * *
18220780 ATAAAATTCTTATAATTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATT
1 ATAAAA-T-TT-T--TT-G--GTAAA-TG-TAT--T-ATTG-TTA----T--TGTTATTTAAATT
*
18220845 TTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTACTAAAT
46 TTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAAT
18220910 ATATTTTAATTAAAATATATAATTTA
111 ATATTTTAATTAAAATATATAATTTA
* * * ** *
18220936 ATAAAA-TTTTT-ATAATTAGCAGAAATTTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
1 ATAAAATTTTTTGGTAAAT-GTA-TTA-TTGTTATTGTTATTTAAATTTTAATAAGATTATTATT
* * * * ****
18220999 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGGTA
63 ATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATA
18221064 TATAATTTA
128 TATAATTTA
18221073 ATAAAATT
1 ATAAAATT
18221081 CTTAATAATT
Statistics
Matches: 253, Mismatches: 23, Indels: 48
0.78 0.07 0.15
Matches are distributed among these distances:
136 6 0.02
137 102 0.40
138 3 0.01
139 1 0.00
140 2 0.01
141 1 0.00
143 8 0.03
144 4 0.02
145 1 0.00
146 4 0.02
148 1 0.00
149 3 0.01
150 5 0.02
152 1 0.00
153 2 0.01
154 1 0.00
156 108 0.43
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (136 bp):
ATAAAATTTTTTGGTAAATGTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATC
AGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATAT
AATTTA
Found at i:18221042 original size:67 final size:66
Alignment explanation
Indices: 18220834--18221046 Score: 159
Period size: 67 Copynumber: 3.2 Consensus size: 66
18220824 ATTGTTAATG
*
18220834 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTAATATCA-TAATAAATATTTTAATCATATTTAAACATAAT
18220899 TA
65 TA
* * * * * ***
18220901 TTACTAAATATATTTTAATTAA-AATATATAAT-T--TAATAAA-ATTTTTATAATTAGCAGAAA
1 TTA-T--TTAAATTTTAA-TAAGATTAT-TAATATCATAATAAATATTTTAATCA-TA-TTTAAA
** * *
18220961 TTTGTTATTG
59 --CATAATTA
*
18220971 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTAATATC-ATAATAAATATTTTAATCATATTTAAACATAAT
18221036 TA
65 TA
18221038 TTA-TTAAAT
1 TTATTTAAAT
18221047 ACATTATAAT
Statistics
Matches: 105, Mismatches: 26, Indels: 31
0.65 0.16 0.19
Matches are distributed among these distances:
66 21 0.20
67 33 0.31
68 4 0.04
69 4 0.04
70 30 0.29
71 13 0.12
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (66 bp):
TTATTTAAATTTTAATAAGATTATTAATATCATAATAAATATTTTAATCATATTTAAACATAATT
A
Found at i:18221124 original size:137 final size:135
Alignment explanation
Indices: 18220846--18221124 Score: 321
Period size: 137 Copynumber: 2.0 Consensus size: 135
18220836 ATTTAAATTT
* * *
18220846 TAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTACTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTACTAAATA
* * * * *
18220911 TATTTTAATTAAAATATATAATTTAATAAAATTTTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTTTAATAATTA-CA-AAATTTCTTATTGTTACT
* **
18220976 TAAATTT
129 CAAATCA
*
18220983 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTACTAAATA
**** *
18221048 CATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATA-TTCTTATATGAATTT
66 CATTATAATTAAAATATATAATTTAATAAAATT-TTAATAATTACAAAATTTCTTAT-TG---TT
18221110 ACTCAAATCA
126 ACTCAAATCA
18221120 TAATA
1 TAATA
18221125 TATGATACTA
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
136 1 0.01
137 101 0.84
138 8 0.07
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTACTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTTTAATAATTACAAAATTTCTTATTGTTACTCA
AATCA
Found at i:18225751 original size:24 final size:24
Alignment explanation
Indices: 18225688--18225739 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18225678 TTTTTAGAAG
* * *
18225688 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
18225712 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
18225736 ATTT
1 ATTT
18225740 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:18226349 original size:22 final size:23
Alignment explanation
Indices: 18226324--18226366 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
18226314 ATTATGATCT
*
18226324 TTTAA-TTTTATAATATATTTAG
1 TTTAATTTTTATAAAATATTTAG
18226346 TTTAATTTTTATAAAATATTT
1 TTTAATTTTTATAAAATATTT
18226367 GTATAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAATTTTTATAAAATATTTAG
Found at i:18227256 original size:15 final size:15
Alignment explanation
Indices: 18227231--18227275 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
18227221 AATACATTTA
18227231 TTTCTTCTTCTTTTTT
1 TTTC-TCTTCTTTTTT
18227247 TTTCTCTTCTTCTTTT
1 TTTCTCTTCTT-TTTT
*
18227263 TTTTTC-TCTTTTT
1 TTTCTCTTCTTTTT
18227276 CTCTCTTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 3 0.11
15 11 0.41
16 13 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTCTCTTCTTTTTT
Found at i:18227256 original size:18 final size:18
Alignment explanation
Indices: 18227233--18227277 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
18227223 TACATTTATT
18227233 TCTTCTTCTTTTTTTTTC
1 TCTTCTTCTTTTTTTTTC
18227251 TCTTCTTCTTTTTTTTTC
1 TCTTCTTCTTTTTTTTTC
*
18227269 TCTTTTTCT
1 TCTTCTTCT
18227278 CTCTTCCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TCTTCTTCTTTTTTTTTC
Found at i:18228265 original size:19 final size:19
Alignment explanation
Indices: 18228238--18228275 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18228228 TTGTATTATA
18228238 AATTAATATTAATTTAATT
1 AATTAATATTAATTTAATT
* *
18228257 AATTTATATTATTTTAATT
1 AATTAATATTAATTTAATT
18228276 TTTTTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTAATATTAATTTAATT
Found at i:18229381 original size:18 final size:18
Alignment explanation
Indices: 18229360--18229421 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 18
18229350 ACAATTGAAC
18229360 ATTTTTATATAATTTTTA
1 ATTTTTATATAATTTTTA
18229378 ATTTTTATAT--TTTCTGTA
1 ATTTTTATATAATTT-T-TA
18229396 ATTTTT-TATAGATATTTTAA
1 ATTTTTATATA-AT-TTTT-A
18229416 ATTTTT
1 ATTTTT
18229422 GAAGATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.08
17 4 0.11
18 18 0.49
19 1 0.03
20 9 0.24
21 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTTATATAATTTTTA
Found at i:18233303 original size:45 final size:45
Alignment explanation
Indices: 18233199--18233303 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
18233189 TCCATCATTA
* * * *
18233199 TGATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTC
1 TGATCCGCTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTC
* *
18233244 TG-TCCGCTCCACTACAACTTCAGGGAGATAAGTTTTGTCATCTTC
1 TGATCCGCTCCACTACAACTTCAGGGAGATAAGATTGGT-ATCTTC
*
18233289 -GATCTGCTCCACTAC
1 TGATCCGCTCCACTAC
18233304 TGTTTAGGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
44 32 0.63
45 19 0.37
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (45 bp):
TGATCCGCTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTC
Found at i:18233573 original size:86 final size:88
Alignment explanation
Indices: 18233427--18233591 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 88
18233417 AATCTGCCTT
* * * ** *
18233427 ACTACAACCGAGGAAGGTAAGGTTTGTGTCTTCGATCTACTTCGTTGTTGATGCAGGAAGGCAAG
1 ACTACAACCGAGGAAGGCAAGGTCTGTGTCTTCGATCTACTTCGCTGTCAACGCAGGAAGGCAAG
*
18233492 ATCTGCTATCTTCAACCTACTCC
66 ATCTGATATCTTCAACCTACTCC
* * * *
18233515 ACTACAACCGAGGGAGGCAAGG-CT-TGTCTTCGATCTGCTTCGCTGTCAACGCATGAAGGTAAG
1 ACTACAACCGAGGAAGGCAAGGTCTGTGTCTTCGATCTACTTCGCTGTCAACGCAGGAAGGCAAG
*
18233578 ATCTGATGTCTTCA
66 ATCTGATATCTTCA
18233592 TTGATCTGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
86 44 0.68
87 1 0.02
88 20 0.31
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (88 bp):
ACTACAACCGAGGAAGGCAAGGTCTGTGTCTTCGATCTACTTCGCTGTCAACGCAGGAAGGCAAG
ATCTGATATCTTCAACCTACTCC
Found at i:18234862 original size:15 final size:14
Alignment explanation
Indices: 18234829--18234861 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18234819 TTATTTTTCA
18234829 TTTTTCATTTCCAT
1 TTTTTCATTTCCAT
*
18234843 TTTTTCATTTTCAT
1 TTTTTCATTTCCAT
18234857 TTTTT
1 TTTTT
18234862 TAGACTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCATTTCCAT
Found at i:18235747 original size:15 final size:15
Alignment explanation
Indices: 18235720--18235753 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
18235710 CTCATTTTTC
18235720 TTTTCTTTTTCTT-T
1 TTTTCTTTTTCTTAT
18235734 TTTTCTTCTTTCTTAT
1 TTTTCTT-TTTCTTAT
18235750 TTTT
1 TTTT
18235754 GACTTTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 6 0.33
16 5 0.28
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTCTTAT
Found at i:18235778 original size:11 final size:11
Alignment explanation
Indices: 18235762--18235812 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
18235752 TTGACTTTGA
18235762 TTTTTTGATTT
1 TTTTTTGATTT
18235773 TTTTTTG-TTT
1 TTTTTTGATTT
18235783 TTAATTTTGA--T
1 TT--TTTTGATTT
18235794 TTTTTTGATTT
1 TTTTTTGATTT
18235805 TTTTTTGA
1 TTTTTTGA
18235813 ATTGGATCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
9 6 0.17
10 5 0.14
11 19 0.54
12 5 0.14
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (11 bp):
TTTTTTGATTT
Found at i:18235784 original size:31 final size:32
Alignment explanation
Indices: 18235749--18235811 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
18235739 TTCTTTCTTA
*
18235749 TTTTTGACTTTGA-TTTTTTGATTTTTTTTTG
1 TTTTTAACTTTGATTTTTTTGATTTTTTTTTG
*
18235780 TTTTTAATTTTGATTTTTTTGATTTTTTTTTG
1 TTTTTAACTTTGATTTTTTTGATTTTTTTTTG
18235812 AATTGGATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.11, C:0.02, G:0.11, T:0.76
Consensus pattern (32 bp):
TTTTTAACTTTGATTTTTTTGATTTTTTTTTG
Found at i:18235806 original size:23 final size:23
Alignment explanation
Indices: 18235764--18235808 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
18235754 GACTTTGATT
*
18235764 TTTTGATTTTTTTTTGTTTTTAA
1 TTTTGATTTTTTTATGTTTTTAA
*
18235787 TTTTGATTTTTTTGATTTTTTT
1 TTTTGATTTTTTT-ATGTTTTT
18235809 TTGAATTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (23 bp):
TTTTGATTTTTTTATGTTTTTAA
Found at i:18238172 original size:20 final size:21
Alignment explanation
Indices: 18238130--18238174 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
18238120 TCTTTTTACA
*
18238130 TTTGCTCCAGTTTCTCTAATC
1 TTTGATCCAGTTTCTCTAATC
* *
18238151 TTTGATCCA-TTTCTTTAGTC
1 TTTGATCCAGTTTCTCTAATC
18238171 TTTG
1 TTTG
18238175 CTTGGATATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.13, C:0.22, G:0.11, T:0.53
Consensus pattern (21 bp):
TTTGATCCAGTTTCTCTAATC
Found at i:18242187 original size:20 final size:19
Alignment explanation
Indices: 18242162--18242217 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
18242152 AAAATTTATG
18242162 TTCTAAAATAATTATAAAAA
1 TTCTAAAA-AATTATAAAAA
18242182 TTCTAAAAAATGTATAAAAA
1 TTCTAAAAAAT-TATAAAAA
*
18242202 AT-TAAAAAATTA-AAAA
1 TTCTAAAAAATTATAAAA
18242218 TTTTCTAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.12
18 2 0.06
19 11 0.32
20 17 0.50
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
TTCTAAAAAATTATAAAAA
Found at i:18242199 original size:11 final size:10
Alignment explanation
Indices: 18242165--18242210 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
18242155 ATTTATGTTC
18242165 TAAAATAATTA
1 TAAAA-AATTA
*
18242176 T-AAAAATTC
1 TAAAAAATTA
18242185 TAAAAAATGTA
1 TAAAAAAT-TA
18242196 TAAAAAATTA
1 TAAAAAATTA
18242206 -AAAAA
1 TAAAAA
18242211 TTAAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 10 0.32
10 11 0.35
11 10 0.32
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:18244712 original size:5 final size:5
Alignment explanation
Indices: 18244656--18244713 Score: 62
Period size: 5 Copynumber: 11.2 Consensus size: 5
18244646 CAACTTTTTT
* * * *
18244656 GGCCC TGGCCG GGCCT GGCCT GGCCC GGCCC GGCCC TGGCCT GGCCC GGCCC
1 GGCCC -GGCCC GGCCC GGCCC GGCCC GGCCC GGCCC -GGCCC GGCCC GGCCC
18244708 GGCCC G
1 GGCCC G
18244714 AATATAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
5 38 0.83
6 8 0.17
ACGTcount: A:0.00, C:0.50, G:0.41, T:0.09
Consensus pattern (5 bp):
GGCCC
Found at i:18244712 original size:21 final size:21
Alignment explanation
Indices: 18244655--18244712 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
18244645 TCAACTTTTT
*
18244655 TGGCCCTGG-CCGGGCCTGGCC
1 TGGCCC-GGCCCGGCCCTGGCC
18244676 TGGCCCGGCCCGGCCCTGGCC
1 TGGCCCGGCCCGGCCCTGGCC
18244697 TGGCCCGGCCCGGCCC
1 TGGCCCGGCCCGGCCC
18244713 GAATATAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.00, C:0.50, G:0.40, T:0.10
Consensus pattern (21 bp):
TGGCCCGGCCCGGCCCTGGCC
Found at i:18246671 original size:19 final size:19
Alignment explanation
Indices: 18246647--18246685 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
18246637 TAAAAAAACC
**
18246647 TATATATATGTATATTTTT
1 TATATATACATATATTTTT
18246666 TATATATACATATATTTTT
1 TATATATACATATATTTTT
18246685 T
1 T
18246686 TTTTGCAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TATATATACATATATTTTT
Found at i:18246673 original size:21 final size:21
Alignment explanation
Indices: 18246647--18246687 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18246637 TAAAAAAACC
* *
18246647 TATATATATGTATATTTTTTA
1 TATATACATATATATTTTTTA
*
18246668 TATATACATATATTTTTTTT
1 TATATACATATATATTTTTT
18246688 TTGCAACTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TATATACATATATATTTTTTA
Found at i:18247360 original size:99 final size:98
Alignment explanation
Indices: 18247229--18247426 Score: 351
Period size: 99 Copynumber: 2.0 Consensus size: 98
18247219 AAAAAAATAA
* * *
18247229 TAAATGAAATATTCCGAGTTTGGGATTTTAGAGGATTCGTGCCCTAACGTATTGGGTGTGATTTA
1 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTA
18247294 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
18247327 TAAAGGAAATATTCCAAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
1 TAAAGGAAATATTCC-AAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTT
*
18247392 CTTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
65 ATTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
18247426 T
1 T
18247427 TTTATTGCAC
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
98 14 0.15
99 81 0.85
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTA
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:18247941 original size:9 final size:10
Alignment explanation
Indices: 18247922--18248039 Score: 51
Period size: 10 Copynumber: 12.5 Consensus size: 10
18247912 TATATGTAAA
18247922 ATATAAA-AT
1 ATATAAATAT
18247931 ATA-AAATAT
1 ATATAAATAT
*
18247940 ATATAAGTAT
1 ATATAAATAT
18247950 ATAT--AT-T
1 ATATAAATAT
18247957 CATGA-AAATA-
1 -AT-ATAAATAT
* *
18247967 A-AAAAATGT
1 ATATAAATAT
18247976 ATATAAATAT
1 ATATAAATAT
* *
18247986 ATATAGATTTGT
1 ATATA-A-ATAT
18247998 ATATAAAT-T
1 ATATAAATAT
18248007 ATA-AAATAT
1 ATATAAATAT
* *
18248016 A-AAAAACAT
1 ATATAAATAT
*
18248025 ATATAAGTAT
1 ATATAAATAT
18248035 ATATA
1 ATATA
18248040 TATGTAAATT
Statistics
Matches: 82, Mismatches: 12, Indels: 29
0.67 0.10 0.24
Matches are distributed among these distances:
7 2 0.02
8 15 0.18
9 23 0.28
10 33 0.40
11 2 0.02
12 7 0.09
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (10 bp):
ATATAAATAT
Found at i:18249387 original size:19 final size:19
Alignment explanation
Indices: 18249360--18249405 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
18249350 TCTGTCGGGG
*
18249360 AAATGAAATTGAAAACTAA
1 AAATAAAATTGAAAACTAA
*
18249379 AAATAAAATTGAAAACTTA
1 AAATAAAATTGAAAACTAA
*
18249398 AACTAAAA
1 AAATAAAA
18249406 ACTTAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.22
Consensus pattern (19 bp):
AAATAAAATTGAAAACTAA
Found at i:18249406 original size:13 final size:13
Alignment explanation
Indices: 18249372--18249420 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
18249362 ATGAAATTGA
*
18249372 AAACTAAAAA-TA
1 AAACTAAAAACTT
* *
18249384 AAATTGAAAACTT
1 AAACTAAAAACTT
18249397 AAACTAAAAACTT
1 AAACTAAAAACTT
18249410 AAACATAAAAA
1 AAAC-TAAAAA
18249421 TAAATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 8 0.27
13 16 0.53
14 6 0.20
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.20
Consensus pattern (13 bp):
AAACTAAAAACTT
Found at i:18249544 original size:16 final size:16
Alignment explanation
Indices: 18249523--18249555 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18249513 TATATTTTTT
18249523 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
18249539 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
18249555 A
1 A
18249556 TATATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:18251142 original size:108 final size:103
Alignment explanation
Indices: 18251020--18251234 Score: 279
Period size: 102 Copynumber: 2.0 Consensus size: 103
18251010 AAAATTATTT
* *
18251020 TTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTTTTTAAAAAAAATTTTCTTAT
1 TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAA----TTTTAAAAAAAATTTTC-T-T
*
18251085 TTTTTTTCCTGTCAGAATCAGATATAAATATACGAAAAAAA-AA
60 TTTTTTTCCTGTCAGAATCAAATATAAATATACGAAAAAAATAA
* ****
18251128 TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTGCAATTTTAAAATTTTTTTTCTTTTTTTT
1 TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAATTTTAAAAAAAATTTTCTTTTTTTT
* *
18251193 TCGTTTCAGAATCAAATATAAATATACGAAAAAAATAA
66 TCCTGTCAGAATCAAATATAAATATACGAAAAAAATAA
18251231 TTTT
1 TTTT
18251235 CTTTTTCTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
102 39 0.41
103 7 0.07
104 13 0.14
108 37 0.39
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (103 bp):
TTTTGGGTGCTGGCCTATCAATGGCCGGCACCCAGTACAATTTTAAAAAAAATTTTCTTTTTTTT
TCCTGTCAGAATCAAATATAAATATACGAAAAAAATAA
Found at i:18255747 original size:21 final size:21
Alignment explanation
Indices: 18255723--18255775 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
18255713 TTAAAATAAT
*
18255723 TTTATTAATTA-CTATTAATCA
1 TTTATT-ATTATCTATCAATCA
*
18255744 TTTATTATTATCTATCAATTA
1 TTTATTATTATCTATCAATCA
18255765 TTT-TTCATTAT
1 TTTATT-ATTAT
18255776 GTTGCTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTATTATTATCTATCAATCA
Found at i:18258818 original size:43 final size:43
Alignment explanation
Indices: 18258723--18258889 Score: 165
Period size: 43 Copynumber: 3.9 Consensus size: 43
18258713 TTACAAAAAT
* * ** * *
18258723 AAACCCCGCTAAAGGTCATGTTCTTTAGCGGCGC-ACCGAAAA
1 AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTTCGACAC
* * *
18258765 AAACAACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCGACGC
1 AAAC-GCCGCTAAAGGACATGTTCTTTAGCGGCGCTTTCGACAC
* * * **
18258809 AAACGCCGCTAAAGAACATGATCTTTAGTGGCGCTTTGCTTCAC
1 AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTT-CGACAC
* *
18258853 AAACGCCGCTAAAAGAAATGTTCTTTAGCGGCGCTTT
1 AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTT
18258890 TATAAAAACG
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 4 0.04
43 57 0.55
44 42 0.41
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGGACATGTTCTTTAGCGGCGCTTTCGACAC
Found at i:18259293 original size:21 final size:21
Alignment explanation
Indices: 18259269--18259340 Score: 126
Period size: 21 Copynumber: 3.4 Consensus size: 21
18259259 TTCTTTTGAA
* *
18259269 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCCG
18259290 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCCG
18259311 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCCG
18259332 CCTCTGCTT
1 CCTCTGCTT
18259341 TAAGTTATAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.01, C:0.49, G:0.18, T:0.32
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCCG
Found at i:18264823 original size:9 final size:9
Alignment explanation
Indices: 18264809--18264929 Score: 99
Period size: 9 Copynumber: 13.9 Consensus size: 9
18264799 TCTTTATGTA
18264809 TTATGTAAG
1 TTATGTAAG
18264818 TTATGTAAG
1 TTATGTAAG
*
18264827 TTGTGT-A-
1 TTATGTAAG
*
18264834 TTATGTGAG
1 TTATGTAAG
18264843 TTATGTAAG
1 TTATGTAAG
*
18264852 TTATGGAAG
1 TTATGTAAG
* *
18264861 TTATTTAAT
1 TTATGTAAG
18264870 TTATGTAAG
1 TTATGTAAG
*
18264879 TTATGTAGG
1 TTATGTAAG
*
18264888 CTATGT-A-
1 TTATGTAAG
* *
18264895 TTATCTAAA
1 TTATGTAAG
*
18264904 TAATGTAAG
1 TTATGTAAG
*
18264913 TTA-GGAATG
1 TTATGTAA-G
18264922 TTATGTAA
1 TTATGTAA
18264930 ATTAATATTA
Statistics
Matches: 86, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
7 9 0.10
8 6 0.07
9 68 0.79
10 3 0.03
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
TTATGTAAG
Found at i:18264833 original size:25 final size:25
Alignment explanation
Indices: 18264802--18264885 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
18264792 TCATATATCT
18264802 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
18264827 TTGTGTATTATGTGAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* * *
18264852 TTATGGAAGTTATTTAATTTATGTAAG
1 TTAT-GTA-TTATGTAAGTTATGTAAG
18264879 TTATGTA
1 TTATGTA
18264886 GGCTATGTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
25 26 0.53
26 4 0.08
27 19 0.39
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:18264883 original size:61 final size:61
Alignment explanation
Indices: 18264809--18264925 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 61
18264799 TCTTTATGTA
* * * * * *
18264809 TTATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGGAA-GTTATTTAAT
1 TTATGTAAGTTATGTAAGCTATGTATTATCTAAATAATGTAAGTTA-GGAATGTTATTTAAT
*
18264870 TTATGTAAGTTATGTAGGCTATGTATTATCTAAATAATGTAAGTTAGGAATGTTAT
1 TTATGTAAGTTATGTAAGCTATGTATTATCTAAATAATGTAAGTTAGGAATGTTAT
18264926 GTAAATTAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 4 0.08
61 44 0.92
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (61 bp):
TTATGTAAGTTATGTAAGCTATGTATTATCTAAATAATGTAAGTTAGGAATGTTATTTAAT
Found at i:18264986 original size:20 final size:20
Alignment explanation
Indices: 18264963--18265100 Score: 89
Period size: 20 Copynumber: 7.3 Consensus size: 20
18264953 ATTAGAAATT
18264963 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* **
18264983 TTATCTTAATATTAAACGAG
1 TTATCTTAATATTATATAAG
* * *
18265003 TTAT-GT-A-ATTAGA-AATT
1 TTATCTTAATATTATATAA-G
18265020 TTATCTTAATA-T-TATAAG
1 TTATCTTAATATTATATAAG
*
18265038 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* * *
18265058 TTAT-GTAAT-TCA-A-AATT
1 TTATCTTAATATTATATAA-G
*
18265075 TTATCTTAATATTGTATAAG
1 TTATCTTAATATTATATAAG
18265095 TTATCT
1 TTATCT
18265101 AAAATTAGAA
Statistics
Matches: 87, Mismatches: 19, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
16 3 0.03
17 14 0.16
18 19 0.22
19 11 0.13
20 38 0.44
21 2 0.02
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:18264994 original size:57 final size:56
Alignment explanation
Indices: 18264931--18265100 Score: 263
Period size: 57 Copynumber: 3.0 Consensus size: 56
18264921 GTTATGTAAA
18264931 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATT-TATAAGTTATC
*
18264988 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATA-TTATAAGTAATC
1 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTTATAAGTTATC
* **
18265043 TTAATATTATATAAGTTATGTAATTCA-AAATTTTATCTTAATATTGTATAAGTTATC
1 TTAATATTAAACGAGTTATGTAATT-AGAAATTTTATCTTAATATT-TATAAGTTATC
18265100 T
1 T
18265101 AAAATTAGAA
Statistics
Matches: 105, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
55 48 0.46
56 3 0.03
57 54 0.51
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.46
Consensus pattern (56 bp):
TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTTATAAGTTATC
Found at i:18265061 original size:55 final size:55
Alignment explanation
Indices: 18264931--18265087 Score: 235
Period size: 55 Copynumber: 2.8 Consensus size: 55
18264921 GTTATGTAAA
* *
18264931 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATC
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATA-T-TATAAGTAATC
*
18264988 TTAATATTAAACGAGTTATGTAATTAGAAATTTTATCTTAATATTATAAGTAATC
1 TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAGTAATC
* *
18265043 TTAATATTATATAAGTTATGTAATTCA-AAATTTTATCTTAATATT
1 TTAATATTAAACAAGTTATGTAATT-AGAAATTTTATCTTAATATT
18265088 GTATAAGTTA
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
55 50 0.53
56 2 0.02
57 43 0.45
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (55 bp):
TTAATATTAAACAAGTTATGTAATTAGAAATTTTATCTTAATATTATAAGTAATC
Found at i:18265141 original size:112 final size:112
Alignment explanation
Indices: 18264944--18265145 Score: 264
Period size: 112 Copynumber: 1.8 Consensus size: 112
18264934 ATATTAAACG
* * *
18264944 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATATTAAACGAGTTATGT
1 AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAAATTAAAAGAGATATGT
** **
18265009 AATTAGAAATTTTATCTTAATATTATAAGTAATCTTAATATTATATA
66 AATTAGAAATTAGAAATTAATATTATAAGTAATCTTAATATTATATA
* ** *
18265056 AGTTATGTAATTCA-AAATTTTATCTTAATATTGTATAAGTTATC-TAAAATTAGAAATTGATGT
1 AGTTATGTAATT-AGAAATTTTATCTTAATATTATATAAGTTATCTTAAAATTA-AAAGAGATAT
*
18265119 GTACTTAGAAATTAGAAATTAATATTA
64 GTAATTAGAAATTAGAAATTAATATTA
18265146 AACGAGTTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
111 7 0.09
112 68 0.89
113 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (112 bp):
AGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAAATTAAAAGAGATATGT
AATTAGAAATTAGAAATTAATATTATAAGTAATCTTAATATTATATA
Found at i:18267542 original size:7 final size:7
Alignment explanation
Indices: 18267532--18267592 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
18267522 CCGTAAATCT
18267532 TAAACCC
1 TAAACCC
**
18267539 TAAACTA
1 TAAACCC
*
18267546 TAAACCT
1 TAAACCC
*
18267553 TAAACTC
1 TAAACCC
18267560 TAAACCC
1 TAAACCC
* * *
18267567 CAAATCG
1 TAAACCC
*
18267574 TAAACCT
1 TAAACCC
18267581 TAAACCC
1 TAAACCC
18267588 TAAAC
1 TAAAC
18267593 ACCTCAATTA
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:18267554 original size:21 final size:21
Alignment explanation
Indices: 18267525--18267564 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18267515 GCCTTAACCG
*
18267525 TAAATCTTAAACCCTAAACTA
1 TAAACCTTAAACCCTAAACTA
*
18267546 TAAACCTTAAACTCTAAAC
1 TAAACCTTAAACCCTAAAC
18267565 CCCAAATCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAACCTTAAACCCTAAACTA
Found at i:18267563 original size:28 final size:28
Alignment explanation
Indices: 18267532--18267592 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
18267522 CCGTAAATCT
* *
18267532 TAAACCCTAAA-CTATAAACCTTAAACTC
1 TAAACCCCAAATC-ATAAACCTTAAACCC
*
18267560 TAAACCCCAAATCGTAAACCTTAAACCC
1 TAAACCCCAAATCATAAACCTTAAACCC
18267588 TAAAC
1 TAAAC
18267593 ACCTCAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.21
Consensus pattern (28 bp):
TAAACCCCAAATCATAAACCTTAAACCC
Found at i:18268406 original size:93 final size:93
Alignment explanation
Indices: 18268241--18268421 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
18268231 GACCAAACGT
* * * * *
18268241 TGCGTTTTGGTTAAGCTTTTTTGCGGCGTTTTTTATAATGCGCTGCTAATACTAAGCTTTAACAG
1 TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACGAAGCTTTAACAG
*
18268306 CGTTTTTTTATAAGCGCCACTAAAACAC
66 CGATTTTTTATAAGCGCCACTAAAACAC
* * * *
18268334 TGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATA-GAGTGCTTTAGCG
1 TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACGA-AGCTTTAACA
18268398 GCGATTTTTTATAAGCGCCACTAA
65 GCGATTTTTTATAAGCGCCACTAA
18268422 TACTAATATA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 1 0.01
93 76 0.99
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (93 bp):
TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATACGAAGCTTTAACAG
CGATTTTTTATAAGCGCCACTAAAACAC
Found at i:18268518 original size:207 final size:206
Alignment explanation
Indices: 18268131--18268535 Score: 560
Period size: 207 Copynumber: 2.0 Consensus size: 206
18268121 AAACGGCGCG
*
18268131 GTTTTGGTTAACAATTTTGCGGCGCTTTCTATAATGCGCCGCTAATACTGTGATTTAGCGGCGTT
1 GTTTTGGTTAACAATTTTGCGGCGCTTTCTATAATGCGCCGCTAATACAGTGATTTAGCGGCGTT
* * ** * *
18268196 TTTGCATAAGTGCCACTAATTCTAATATACCTCAAGACCAAACGTTGCGTTTTGGTTAAGCTTTT
66 TTTGCATAAGCGCCACTAATACTAATATACCTCAAGACCAAACACTGCGTTTTGGTTAAGATATT
* **
18268261 TTGCGGCGTTTTTTATAATGCGCTGCTAATACTAAGCTTTAACAGCGTTTTTTTATAAGCGCCAC
131 TTGCGGCGTTTTTTATAATGCGCCGCTAATACTAAGCTTTAACAGCGTTTTTGCATAAGCGCCAC
18268326 TAAAACACTGC
196 TAAAACACTGC
* * * * *
18268337 GTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATAGAGTGCTTTAGCGGCGA
1 GTTTTGGTTAACA-ATTTTGCGGCGCTTTCTATAATGCGCCGCTAATACAGTGATTTAGCGGCG-
* * ** *
18268402 TTTTT-TATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGTGTTTTGGTTAAGATA
64 TTTTTGCATAAGCGCCACTAATACTAATATACCTCAAGACCAAACACTGCGTTTTGGTTAAGATA
* ** * *
18268466 TTTTGTGGCGTTTTTTATAATGCGCCGCTAATACTTTGCTTTAGCGGCGTTTTTGCATAAGCGCC
129 TTTTGCGGCGTTTTTTATAATGCGCCGCTAATACTAAGCTTTAACAGCGTTTTTGCATAAGCGCC
18268531 ACTAA
194 ACTAA
18268536 TTCTATTATA
Statistics
Matches: 172, Mismatches: 25, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
206 12 0.07
207 155 0.90
208 5 0.03
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (206 bp):
GTTTTGGTTAACAATTTTGCGGCGCTTTCTATAATGCGCCGCTAATACAGTGATTTAGCGGCGTT
TTTGCATAAGCGCCACTAATACTAATATACCTCAAGACCAAACACTGCGTTTTGGTTAAGATATT
TTGCGGCGTTTTTTATAATGCGCCGCTAATACTAAGCTTTAACAGCGTTTTTGCATAAGCGCCAC
TAAAACACTGC
Found at i:18268530 original size:114 final size:114
Alignment explanation
Indices: 18268330--18268705 Score: 506
Period size: 114 Copynumber: 3.3 Consensus size: 114
18268320 CGCCACTAAA
**
18268330 ACACTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATAGAGTGCTTTA
1 ACACTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATACTGTGCTTTA
* *
18268395 GCGGCGATTTTT-TATAAGCGCCACTAATACTAATATACCTCAAGATCGT
66 GCGGCG-TTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGATCGT
* * *
18268444 ACACTGTGTTTTGGTTAAGATATTTTGTGGCGTTTTTTATAATGCGCCGCTAATACTTTGCTTTA
1 ACACTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATACTGTGCTTTA
* * *
18268509 GCGGCGTTTTTGCATAAGCGCCACTAATTCTATTATACCTTAAGATCAT
66 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGATCGT
* * * * *
18268558 ACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTATATAA-GCGCCGCTAGTGCTGTGCTTTA
1 ACACTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATACTGTGCTTTA
* * *
18268622 GCGACATTTTTGCATAAGCGCCATTAATTCTAATATACCTCAAGATCGT
66 GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGATCGT
* * * * *
18268671 ACGCTGCATTTTGTTTAACAT-TTTCTGCGGCGCTT
1 ACACTGCGTTTTGGTTAAGATATTT-TGTGGCGCTT
18268706 ACAAATAAAC
Statistics
Matches: 233, Mismatches: 27, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
112 3 0.01
113 95 0.41
114 135 0.58
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (114 bp):
ACACTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATACTGTGCTTTA
GCGGCGTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGATCGT
Found at i:18268744 original size:227 final size:227
Alignment explanation
Indices: 18268333--18268746 Score: 507
Period size: 227 Copynumber: 1.8 Consensus size: 227
18268323 CACTAAAACA
* *
18268333 CTGCGTTTTGGTTAAGATATTTTGTGGCGCTTTTTATAATGCGCCGCTAATAGAGTGCTTTAGCG
1 CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTATATAATGCGCCGCTAATAGAGTGCTTTAGCG
* * ** *
18268398 GCGATTTTTTATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGTGTTTTGGTTAAG
66 ACGATTTTTCATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGCATTTTGGTTAAC
* **** * * * * *
18268463 ATATTTTGTGGCGTTTTTTATAATGCGCCGCTAATACTTTGCTTTAGCGGCGTTTTTGCATAAGC
131 ATATTTTGCGGCGTTACAAATAATACACCGCTAATA-TGTGCTATAACGGCGTTTTTGCATAAGC
18268528 GCCACTAATTCTATTATACCTTAAGATCATACG
195 GCCACTAATTCTATTATACCTTAAGATCATACG
* *
18268561 CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTATATAA-GCGCCGCTAGT-GCTGTGCTTTAGC
1 CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTATATAATGCGCCGCTAATAG-AGTGCTTTAGC
* * * *
18268624 GAC-ATTTTTGCATAAGCGCCATTAATTCTAATATACCTCAAGATCGTACGCTGCATTTTGTTTA
65 GACGATTTTT-CATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGCATTTTGGTTA
*
18268688 ACAT-TTTCTGCGGCGCTTACAAATAA-ACACCGCTAAT-TGTGCTACATAATGGCGTTTTT
129 ACATATTT-TGCGGCG-TTACAAATAATACACCGCTAATATGTGCT--ATAACGGCGTTTTT
18268747 ATAGTGCGCC
Statistics
Matches: 156, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
225 5 0.03
226 10 0.06
227 98 0.63
228 43 0.28
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (227 bp):
CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTATATAATGCGCCGCTAATAGAGTGCTTTAGCG
ACGATTTTTCATAAGCGCCACTAATACTAATATACCTCAAGATCGTACACTGCATTTTGGTTAAC
ATATTTTGCGGCGTTACAAATAATACACCGCTAATATGTGCTATAACGGCGTTTTTGCATAAGCG
CCACTAATTCTATTATACCTTAAGATCATACG
Found at i:18270746 original size:22 final size:23
Alignment explanation
Indices: 18270718--18270770 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
18270708 TTTTAAAAAA
*
18270718 AATATTTA-TA-TTATATTATTTT
1 AATATTTACTATTTA-ATAATTTT
18270740 AATATTTACTATTTAATAATTTT
1 AATATTTACTATTTAATAATTTT
18270763 ATATATTT
1 A-ATATTT
18270771 TTTATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 8 0.30
23 10 0.37
24 9 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
AATATTTACTATTTAATAATTTT
Found at i:18272998 original size:16 final size:17
Alignment explanation
Indices: 18272957--18272999 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
18272947 TTAAAATTTG
18272957 AAAATTTATGTGGTTTCC
1 AAAATTTATGT-GTTTCC
**
18272975 AATTTTTATGT-TTTCC
1 AAAATTTATGTGTTTCC
18272991 AAAATTTAT
1 AAAATTTAT
18273000 TGTATTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (17 bp):
AAAATTTATGTGTTTCC
Found at i:18275100 original size:19 final size:19
Alignment explanation
Indices: 18275068--18275106 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18275058 GGTCTTTGGC
18275068 AAAAATAATACAAAAAAAT
1 AAAAATAATACAAAAAAAT
*
18275087 AAAAA-AATACCAAAATAAT
1 AAAAATAATA-CAAAAAAAT
18275106 A
1 A
18275107 TATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAAATAATACAAAAAAAT
Found at i:18275358 original size:24 final size:23
Alignment explanation
Indices: 18275323--18275367 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
18275313 GATTATCTTG
*
18275323 TTATTATGTTTTTTTGTATAGTTT
1 TTATTATGTTTTGTTGT-TAGTTT
*
18275347 TTATTATTTTTTGTTGTTAGT
1 TTATTATGTTTTGTTGTTAGT
18275368 GTAGTTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (23 bp):
TTATTATGTTTTGTTGTTAGTTT
Found at i:18275638 original size:40 final size:40
Alignment explanation
Indices: 18275576--18275651 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
18275566 TTATATTATT
* **
18275576 GTTAGTTATTATTTTTAATAAAACCCTAATTATTATTTTTA
1 GTTAGTTATTATTTTGAATAAAAAACT-ATTATTATTTTTA
*
18275617 GTTAG-TATTATTTTGAGTAAAAAACTATTATTATT
1 GTTAGTTATTATTTTGAATAAAAAACTATTATTATT
18275652 GTTATTGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 9 0.29
40 17 0.55
41 5 0.16
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (40 bp):
GTTAGTTATTATTTTGAATAAAAAACTATTATTATTTTTA
Found at i:18279113 original size:12 final size:12
Alignment explanation
Indices: 18279096--18279129 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18279086 GAATGTAATT
*
18279096 GCTCGGGGTCTG
1 GCTCGGGCTCTG
18279108 GCTCGGGCTCTG
1 GCTCGGGCTCTG
*
18279120 GTTCGGGCTC
1 GCTCGGGCTC
18279130 CGGTTCGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.29, G:0.44, T:0.26
Consensus pattern (12 bp):
GCTCGGGCTCTG
Found at i:18281041 original size:154 final size:152
Alignment explanation
Indices: 18280767--18281307 Score: 720
Period size: 154 Copynumber: 3.5 Consensus size: 152
18280757 TCAAAAAAAA
* *
18280767 TTAGTAAAAAACCCTTGTTTCGGCCATTTGTTCGTATTTTTTCCCCGGATTTTATTACTTTAAAA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTACTTTAAAA
**
18280832 AA-ATGCTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTCATTAA
66 AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATT-ATTAA
18280896 TTTAGTGTGTTTTTTAAATAAAT
130 TTTAGTGTGTTTTTTAAATAAAT
* * *
18280919 TTAG-AAAATAACCCTTATTTCGGCCCTTTGCTCGTA-TTTTT-CCCTGATTTTATCACTTTTAA
1 TTAGTAAAA-AACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTAC-TTT-A
18280981 TAAAAATATATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGT
63 -AAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT-T
* * * * *
18281045 ATTAATTAATTCTATTTTTCTTAAA-AATT
125 ATTAATTTAGTGT-GTTTT-TTAAATAAAT
* * *
18281074 TTAGTAAAAAACCTTTATTTCGTCCATTTGTTTGTATTTTTTCCCCTGATTTTATTACTTTAAAA
1 TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTACTTTAAAA
18281139 AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAA
66 AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA-TTATTAA
18281204 TTTAGTGTGTTTTTTAAATAAAT
130 TTTAGTGTGTTTTTTAAATAAAT
** * *
18281227 TTAAAAAAATAACCCTTATTTCGGCCCTTTATTCGTATTGTTTT-CCC-GAATTTTATTACTTTA
1 TTAGTAAAA-AACCCTTATTTCGGCCATTTGTTCGTATT-TTTTCCCCTG-ATTTTATTACTTTA
18281290 AATAAATATATATATTTT
63 AA-AAATATAT-TATTTT
18281308 ATTTTGTTAT
Statistics
Matches: 339, Mismatches: 30, Indels: 36
0.84 0.07 0.09
Matches are distributed among these distances:
150 13 0.04
151 12 0.04
152 34 0.10
153 21 0.06
154 173 0.51
155 49 0.14
156 23 0.07
157 14 0.04
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (152 bp):
TTAGTAAAAAACCCTTATTTCGGCCATTTGTTCGTATTTTTTCCCCTGATTTTATTACTTTAAAA
AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTATTAAT
TTAGTGTGTTTTTTAAATAAAT
Found at i:18281712 original size:15 final size:15
Alignment explanation
Indices: 18281675--18281719 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
18281665 CTTCCTTCCC
*
18281675 TCTTCTTCTTCTCCTTT
1 TCTT-TTCTT-TCTTTT
18281692 TCTTTTCTTTCTTTT
1 TCTTTTCTTTCTTTT
*
18281707 TTTTTTCTTTCTT
1 TCTTTTCTTTCTT
18281720 CTCCTTTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 17 0.65
16 5 0.19
17 4 0.15
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTTTCTTTCTTTT
Found at i:18287326 original size:24 final size:24
Alignment explanation
Indices: 18287298--18287348 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
18287288 TTGTGCTATA
18287298 TGCGACCTTCTTGTCCATAAATAT
1 TGCGACCTTCTTGTCCATAAATAT
18287322 TGCGACCTTCTTGTCCATAAATAT
1 TGCGACCTTCTTGTCCATAAATAT
18287346 TGC
1 TGC
18287349 ATTTCATTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (24 bp):
TGCGACCTTCTTGTCCATAAATAT
Found at i:18287791 original size:138 final size:138
Alignment explanation
Indices: 18287543--18287818 Score: 525
Period size: 138 Copynumber: 2.0 Consensus size: 138
18287533 AAGCAGTTTG
*
18287543 GGATGGAAAAAGTATCCTGAAAGACTATGATGGAAGGTCCATGAAAGCTCTTGATGAATCTATAA
1 GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGAAAGCTCTTGATGAATCTATAA
*
18287608 ATTGGATTACCGATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
66 ATTGGATTACCAATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
18287673 CATGCCTA
131 CATGCCTA
*
18287681 GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGGAAGCTCTTGATGAATCTATAA
1 GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGAAAGCTCTTGATGAATCTATAA
18287746 ATTGGATTACCAATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
66 ATTGGATTACCAATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
18287811 CATGCCTA
131 CATGCCTA
18287819 CCATGATCAC
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 135 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (138 bp):
GGATGGAAAAAGTATCCTGAAAGACTATGATGAAAGGTCCATGAAAGCTCTTGATGAATCTATAA
ATTGGATTACCAATGTTGTTGAAGAAATGAGTTTTGGAGAGATTACGATAGCAGTTGAGATCAAA
CATGCCTA
Found at i:18289330 original size:20 final size:20
Alignment explanation
Indices: 18289305--18289344 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18289295 CGTAAAATAA
*
18289305 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
18289325 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
18289345 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:18289334 original size:34 final size:35
Alignment explanation
Indices: 18289290--18289356 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
18289280 TAGTAAAATA
*
18289290 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
* *
18289324 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGGAAAATATTTT
18289357 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGGAAAATATTTTAC
Found at i:18290352 original size:31 final size:32
Alignment explanation
Indices: 18290293--18290357 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
18290283 GGCAAATTAC
18290293 AAGAGCAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGCAATTGAATCCTAATAAAAACTCTTTA
*
18290325 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGCAATTGAATCCTAATAAAAACTCTTTA
18290356 AA
1 AA
18290358 TCGTGCCTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (32 bp):
AAGAGCAATTGAATCCTAATAAAAACTCTTTA
Found at i:18295687 original size:16 final size:14
Alignment explanation
Indices: 18295646--18295678 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
18295636 TTTTTTGCGG
*
18295646 TTTTTTGCTTCTTC
1 TTTTTTGCTTTTTC
18295660 TTTTTT-CTTTTTC
1 TTTTTTGCTTTTTC
18295673 TTTTTT
1 TTTTTT
18295679 TGCTGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTTTTGCTTTTTC
Found at i:18297502 original size:275 final size:275
Alignment explanation
Indices: 18297011--18297559 Score: 1080
Period size: 275 Copynumber: 2.0 Consensus size: 275
18297001 TAAAAGGCAG
18297011 TTGACTTAAGTGGGTTGGTTTTCATTTCATCCAGATAGCACTATGCTTGCTTAGAACAAGCTCAA
1 TTGACTTAAGTGGGTTGGTTTTCATTTCATCCAGATAGCACTATGCTTGCTTAGAACAAGCTCAA
18297076 CTGATGTGAGAAACATTCCAGAGAGCTAGTAGAAAATAATAACATAATTATGTCATAATTAGTTC
66 CTGATGTGAGAAACATTCCAGAGAGCTAGTAGAAAATAATAACATAATTATGTCATAATTAGTTC
18297141 ATAACATAATATCTACTCAACAAGTGGAAATCATAAAATCTTAAACACACACAGTGCACATTGCT
131 ATAACATAATATCTACTCAACAAGTGGAAATCATAAAATCTTAAACACACACAGTGCACATTGCT
18297206 TGCCTGATGATTGTACAGATATCTGCATATCTCATATTGATGCTCCTTTGATAGGACAATATTCA
196 TGCCTGATGATTGTACAGATATCTGCATATCTCATATTGATGCTCCTTTGATAGGACAATATTCA
18297271 AGGCTCCAGTAACAA
261 AGGCTCCAGTAACAA
*
18297286 TTGACTTAAGTGGGTTGGTTTTCCTTTCATCCAGATAGCACTATGCTTGCTTAGAACAAGCTCAA
1 TTGACTTAAGTGGGTTGGTTTTCATTTCATCCAGATAGCACTATGCTTGCTTAGAACAAGCTCAA
18297351 CTGATGTGAGAAACATTCCAGAGAGCTAGTAGAAAATAATAACATAATTATGTCATAATTAGTTC
66 CTGATGTGAGAAACATTCCAGAGAGCTAGTAGAAAATAATAACATAATTATGTCATAATTAGTTC
18297416 ATAACATAATATCTACTCAACAAGTGGAAATCATAAAATCTTAAACACACACAGTGCACATTGCT
131 ATAACATAATATCTACTCAACAAGTGGAAATCATAAAATCTTAAACACACACAGTGCACATTGCT
*
18297481 TGCCTGATGATTGTACAGATATCTGCATATCTCATATTGATGCTCCTTTGATAGGACAGTATTCA
196 TGCCTGATGATTGTACAGATATCTGCATATCTCATATTGATGCTCCTTTGATAGGACAATATTCA
18297546 AGGCTCCAGTAACA
261 AGGCTCCAGTAACA
18297560 TATAATGTAA
Statistics
Matches: 272, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
275 272 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (275 bp):
TTGACTTAAGTGGGTTGGTTTTCATTTCATCCAGATAGCACTATGCTTGCTTAGAACAAGCTCAA
CTGATGTGAGAAACATTCCAGAGAGCTAGTAGAAAATAATAACATAATTATGTCATAATTAGTTC
ATAACATAATATCTACTCAACAAGTGGAAATCATAAAATCTTAAACACACACAGTGCACATTGCT
TGCCTGATGATTGTACAGATATCTGCATATCTCATATTGATGCTCCTTTGATAGGACAATATTCA
AGGCTCCAGTAACAA
Found at i:18298969 original size:19 final size:19
Alignment explanation
Indices: 18298932--18298970 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18298922 AATTGAGGGA
* *
18298932 GGGTTTTAATTCTATTTTT
1 GGGTTCTAATTCTACTTTT
*
18298951 GGGTTCTAATTCTGCTTTT
1 GGGTTCTAATTCTACTTTT
18298970 G
1 G
18298971 CTGTCAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.21, T:0.56
Consensus pattern (19 bp):
GGGTTCTAATTCTACTTTT
Found at i:18299140 original size:26 final size:24
Alignment explanation
Indices: 18299111--18299162 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
18299101 TCGAAATGAA
*
18299111 TTGAGTGAAATGAGATTTATTTCGAG
1 TTGAGTCAAATGA-ATTTATTT-GAG
*
18299137 TTGAGTCAAATGAATTTGTTTGAG
1 TTGAGTCAAATGAATTTATTTGAG
18299161 TT
1 TT
18299163 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 7 0.29
26 12 0.50
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
TTGAGTCAAATGAATTTATTTGAG
Found at i:18299358 original size:17 final size:18
Alignment explanation
Indices: 18299333--18299366 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18299323 AGGCCTCAAA
*
18299333 TTTATAAAT-ATAATTTT
1 TTTAAAAATAATAATTTT
18299350 TTTAAAAATAATAATTT
1 TTTAAAAATAATAATTT
18299367 AGCATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAAAATAATAATTTT
Found at i:18299568 original size:18 final size:18
Alignment explanation
Indices: 18299545--18299580 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18299535 ACATAAATTT
*
18299545 ATTATTCAAGTTATTCGA
1 ATTATTCAAATTATTCGA
*
18299563 ATTATTTAAATTATTCGA
1 ATTATTCAAATTATTCGA
18299581 GTTTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTATTCAAATTATTCGA
Found at i:18301265 original size:19 final size:17
Alignment explanation
Indices: 18301241--18301311 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 17
18301231 TTTAACACTG
18301241 TTATATAATTTTTAGAGTT
1 TTATATAATTTTTA-A-TT
18301260 TTATATAATTTTTAATT
1 TTATATAATTTTTAATT
* *
18301277 TTTTATATTTTTATAATT
1 TTATATAATTTT-TAATT
*
18301295 TTTTATAGATATTTTAA
1 TTATATA-AT-TTTTAA
18301312 AATTTTGAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
17 12 0.26
18 13 0.28
19 18 0.39
20 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.63
Consensus pattern (17 bp):
TTATATAATTTTTAATT
Found at i:18301299 original size:10 final size:10
Alignment explanation
Indices: 18301268--18301317 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
18301258 TTTTATATAA
18301268 TTTT-TAATT
1 TTTTATAATT
18301277 TTTTAT-A-T
1 TTTTATAATT
18301285 TTTTATAATT
1 TTTTATAATT
*
18301295 TTTTATAGATA
1 TTTTATA-ATT
*
18301306 TTTTAAAATT
1 TTTTATAATT
18301316 TT
1 TT
18301318 GAAGATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
8 7 0.21
9 6 0.18
10 13 0.38
11 8 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:18307126 original size:17 final size:17
Alignment explanation
Indices: 18307097--18307129 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18307087 AGGCCTCAAA
18307097 TTTATAAATATAATTTT
1 TTTATAAATATAATTTT
18307114 TTTA-AAATAATAATTT
1 TTTATAAAT-ATAATTT
18307130 AGCATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTATAAATATAATTTT
Found at i:18307331 original size:18 final size:18
Alignment explanation
Indices: 18307308--18307343 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18307298 ACATAAATTT
*
18307308 ATTATTCAAGTTATTCGA
1 ATTATTCAAATTATTCGA
*
18307326 ATTATTTAAATTATTCGA
1 ATTATTCAAATTATTCGA
18307344 GTTTTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTATTCAAATTATTCGA
Found at i:18314166 original size:41 final size:41
Alignment explanation
Indices: 18314060--18314166 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
18314050 CACCGGCACA
18314060 AAGCCTGCTAGACATAAAGTCTGAAGAAATTCACCGACATC
1 AAGCCTGCTAGACATAAAGTCTGAAGAAATTCACCGACATC
* *
18314101 AAGCCTGCTAAACATAAAGTCTGAAGTAATTCACCGACATC
1 AAGCCTGCTAGACATAAAGTCTGAAGAAATTCACCGACATC
* * * *
18314142 AAGTCTGCTAGGCATTAAGCCTGAA
1 AAGCCTGCTAGACATAAAGTCTGAA
18314167 AATCTCAGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (41 bp):
AAGCCTGCTAGACATAAAGTCTGAAGAAATTCACCGACATC
Found at i:18314400 original size:64 final size:63
Alignment explanation
Indices: 18314282--18314462 Score: 262
Period size: 64 Copynumber: 2.9 Consensus size: 63
18314272 GCAAACAAAC
*
18314282 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCTCAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
18314343 T
63 T
18314344 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
18314408 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
18314463 AAATATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 10
0.89 0.02 0.08
Matches are distributed among these distances:
62 17 0.15
63 6 0.05
64 77 0.70
65 10 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:18314556 original size:20 final size:21
Alignment explanation
Indices: 18314531--18314574 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
18314521 CTCAAAGAAC
18314531 TTATATCATA-CATTCA-AACT
1 TTATAT-ATATCATTCATAACT
*
18314551 TTATATATATGATTCATAACT
1 TTATATATATCATTCATAACT
18314572 TTA
1 TTA
18314575 ATTTCAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 11 0.52
21 7 0.33
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (21 bp):
TTATATATATCATTCATAACT
Found at i:18315283 original size:28 final size:28
Alignment explanation
Indices: 18315252--18315308 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
18315242 GTTTGTTTTT
18315252 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
18315280 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
18315308 T
1 T
18315309 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:18326072 original size:41 final size:41
Alignment explanation
Indices: 18326015--18326218 Score: 327
Period size: 41 Copynumber: 5.0 Consensus size: 41
18326005 GCATATTCGG
* * *
18326015 ATCACCAGTACTTAGCCTGCTAGGTTTATAACCTGATTAAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * *
18326056 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
18326097 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
* * *
18326138 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
18326179 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
1 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCA
18326219 ATTCACCAAT
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 149 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
Found at i:18326116 original size:82 final size:82
Alignment explanation
Indices: 18326009--18326225 Score: 382
Period size: 82 Copynumber: 2.6 Consensus size: 82
18325999 AATTTAGCAT
* * *
18326009 ATTCGGATCACCAGTACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
18326074 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAGCCTG
*
18326091 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
18326156 GCTAGGCTTATAGCCTG
66 GCTAGGCTTATAGCCTG
18326173 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAAT-TCACC
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT-AATATCACC
18326226 AATTCCAAAC
Statistics
Matches: 129, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 127 0.98
83 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (82 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTAATATCACCGGCACTTAGCCT
GCTAGGCTTATAGCCTG
Found at i:18329755 original size:6 final size:7
Alignment explanation
Indices: 18329730--18329805 Score: 50
Period size: 7 Copynumber: 11.0 Consensus size: 7
18329720 CCATTCATAA
18329730 ATTTAAC
1 ATTTAAC
18329737 ATTTAAC
1 ATTTAAC
18329744 ATTTAA-
1 ATTTAAC
*
18329750 ATTTAAT
1 ATTTAAC
**
18329757 AAAT-AC
1 ATTTAAC
* *
18329763 ATAATACC
1 AT-TTAAC
* *
18329771 ATTCATC
1 ATTTAAC
18329778 AATTTAAC
1 -ATTTAAC
18329786 ATTTAAC
1 ATTTAAC
18329793 ATTTAA-
1 ATTTAAC
18329799 ATTTAAC
1 ATTTAAC
18329806 CACACGAACT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
6 14 0.26
7 32 0.59
8 8 0.15
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (7 bp):
ATTTAAC
Found at i:18329758 original size:49 final size:49
Alignment explanation
Indices: 18329705--18329804 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
18329695 AAATGATATG
18329705 AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
1 AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
*
18329754 AATAAATACATAATACCATTCATCAATTTAACATTTAACATTTAAATTT
1 AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
18329803 AA
1 AA
18329805 CCACACGAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (49 bp):
AATAAATACATAATACCATTCATAAATTTAACATTTAACATTTAAATTT
Found at i:18329804 original size:13 final size:14
Alignment explanation
Indices: 18329730--18329805 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 14
18329720 CCATTCATAA
18329730 ATTTAACATTTAAC
1 ATTTAACATTTAAC
*
18329744 ATTTAA-ATTTAAT
1 ATTTAACATTTAAC
** * *
18329757 AAAT-ACATAATACC
1 ATTTAACAT-TTAAC
* *
18329771 ATTCATCAATTTAAC
1 ATTTAAC-ATTTAAC
18329786 ATTTAACATTTAA-
1 ATTTAACATTTAAC
18329799 ATTTAAC
1 ATTTAAC
18329806 CACACGAACT
Statistics
Matches: 44, Mismatches: 14, Indels: 9
0.66 0.21 0.13
Matches are distributed among these distances:
12 1 0.02
13 17 0.39
14 15 0.34
15 9 0.20
16 2 0.05
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAACATTTAAC
Found at i:18334552 original size:7 final size:7
Alignment explanation
Indices: 18334540--18334573 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
18334530 CCATTAATCA
18334540 ATTTAAC
1 ATTTAAC
18334547 ATTTAAC
1 ATTTAAC
18334554 ATTTAAC
1 ATTTAAC
18334561 ATTTAA-
1 ATTTAAC
18334567 ATTTAAC
1 ATTTAAC
18334574 CATACAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTAAC
Found at i:18338162 original size:26 final size:26
Alignment explanation
Indices: 18338132--18338188 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
18338122 AACAAACACC
18338132 TTCATACTTAGCCATTTTAACAACCA
1 TTCATACTTAGCCATTTTAACAACCA
18338158 TTCATACTTAGCCATTTTAACAACCA
1 TTCATACTTAGCCATTTTAACAACCA
18338184 TTCAT
1 TTCAT
18338189 CATCAAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (26 bp):
TTCATACTTAGCCATTTTAACAACCA
Found at i:18339472 original size:29 final size:29
Alignment explanation
Indices: 18339415--18339470 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
18339405 AAATTAATTG
18339415 ATTTTAATAATGTAATTTTTATTTTTATA
1 ATTTTAATAATGTAATTTTTATTTTTATA
* *
18339444 ATTTTCAT-ATGTAATTTTT-TTATTATA
1 ATTTTAATAATGTAATTTTTATTTTTATA
18339471 TACATATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.28
28 11 0.44
29 7 0.28
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (29 bp):
ATTTTAATAATGTAATTTTTATTTTTATA
Found at i:18341546 original size:56 final size:50
Alignment explanation
Indices: 18341311--18341539 Score: 291
Period size: 50 Copynumber: 4.5 Consensus size: 50
18341301 ACATGTCAAA
* ** * *
18341311 GCCATGTCCCAAACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
*
18341362 GCCATGTACCAG-CATGGTCTTACGA-GGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGGTGCCAAT
18341411 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
*
18341461 GCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TGCCAAT
* *
18341517 GCCATGCCCCAGACATGGACTTA
1 GCCATGTCCCAGACATGGTCTTA
18341540 TGTGGGATCT
Statistics
Matches: 158, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
49 28 0.18
50 85 0.54
51 11 0.07
53 5 0.03
55 2 0.01
56 27 0.17
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:18347623 original size:28 final size:28
Alignment explanation
Indices: 18347582--18347649 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
18347572 GTTAGCTTCT
* *
18347582 ATATATGGTCGGTTCTACCGCCTGAATG
1 ATATATGGTCGGTTCTACCACCTGAATA
* * *
18347610 TTATATGGTTGGTTCTGCCACCTGAATA
1 ATATATGGTCGGTTCTACCACCTGAATA
18347638 ATATATGGTCGG
1 ATATATGGTCGG
18347650 CACTGTCACC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (28 bp):
ATATATGGTCGGTTCTACCACCTGAATA
Found at i:18347670 original size:28 final size:28
Alignment explanation
Indices: 18347583--18347670 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
18347573 TTAGCTTCTA
** * * *
18347583 TATATGGTCGGTTCTACCGCCTGAATGT
1 TATATGGTCGGCACTGCCACCTGAATAT
* ** *
18347611 TATATGGTTGGTTCTGCCACCTGAATAA
1 TATATGGTCGGCACTGCCACCTGAATAT
* *
18347639 TATATGGTCGGCACTGTCACCTGAGTAT
1 TATATGGTCGGCACTGCCACCTGAATAT
18347667 TATA
1 TATA
18347671 GTGTACTAAG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (28 bp):
TATATGGTCGGCACTGCCACCTGAATAT
Found at i:18348067 original size:15 final size:15
Alignment explanation
Indices: 18348049--18348082 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18348039 TGATAAATTG
18348049 AAATAAATTAAAAGA
1 AAATAAATTAAAAGA
*
18348064 AAATAAATTGAAAGA
1 AAATAAATTAAAAGA
18348079 AAAT
1 AAAT
18348083 TTATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
AAATAAATTAAAAGA
Found at i:18350946 original size:17 final size:18
Alignment explanation
Indices: 18350915--18350953 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
18350905 CAGCTATTGT
18350915 TTTTCTTCTTCCTCTCCG
1 TTTTCTTCTTCCTCTCCG
*
18350933 TTTTCTTC-TCCTCTCTG
1 TTTTCTTCTTCCTCTCCG
18350950 TTTT
1 TTTT
18350954 TCTTTCCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.00, C:0.33, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTCTTCTTCCTCTCCG
Found at i:18350954 original size:18 final size:19
Alignment explanation
Indices: 18350912--18350957 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
18350902 CTTCAGCTAT
18350912 TGTTTTTCTTCTTCCTCTC
1 TGTTTTTCTTCTTCCTCTC
*
18350931 CG-TTTTCTTC-TCCTCTC
1 TGTTTTTCTTCTTCCTCTC
18350948 TGTTTTTCTT
1 TGTTTTTCTT
18350958 TCCCTTTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.33
18 15 0.62
19 1 0.04
ACGTcount: A:0.00, C:0.30, G:0.07, T:0.63
Consensus pattern (19 bp):
TGTTTTTCTTCTTCCTCTC
Found at i:18358516 original size:2 final size:2
Alignment explanation
Indices: 18358509--18358556 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
18358499 AACGTTTTAT
18358509 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18358551 TC TC TC
1 TC TC TC
18358557 GTTTTAATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:18360149 original size:4 final size:4
Alignment explanation
Indices: 18360140--18360176 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
18360130 AACCATCAAA
18360140 ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC A
1 ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC A
18360177 TATTTGGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.27, C:0.49, G:0.00, T:0.24
Consensus pattern (4 bp):
ACTC
Found at i:18360698 original size:18 final size:18
Alignment explanation
Indices: 18360675--18360710 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18360665 CAGCCCCGGA
18360675 GTTCCCATAACCATAGGC
1 GTTCCCATAACCATAGGC
*
18360693 GTTCCCATAATCATAGGC
1 GTTCCCATAACCATAGGC
18360711 TCGTCAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.25
Consensus pattern (18 bp):
GTTCCCATAACCATAGGC
Found at i:18361431 original size:9 final size:9
Alignment explanation
Indices: 18361417--18361467 Score: 75
Period size: 9 Copynumber: 5.7 Consensus size: 9
18361407 ATGTAGTGAT
18361417 TTAATTCGG
1 TTAATTCGG
*
18361426 TTAATTCAG
1 TTAATTCGG
18361435 TTAATTCGG
1 TTAATTCGG
* *
18361444 ATAATCCGG
1 TTAATTCGG
18361453 TTAATTCGG
1 TTAATTCGG
18361462 TTAATT
1 TTAATT
18361468 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (9 bp):
TTAATTCGG
Found at i:18366575 original size:16 final size:16
Alignment explanation
Indices: 18366504--18366586 Score: 57
Period size: 16 Copynumber: 5.2 Consensus size: 16
18366494 AATGTAATTA
18366504 AAAAATATTT--T-TT
1 AAAAATATTTAATATT
18366517 AAAAATATTTAATTAATT
1 AAAAATATTTAA-T-ATT
* **
18366535 TAAAATCGGTT-ATATT
1 AAAAAT-ATTTAATATT
* * *
18366551 AATATTATTTAATTTT
1 AAAAATATTTAATATT
18366567 AAAAATATTTAATATT
1 AAAAATATTTAATATT
18366583 AAAA
1 AAAA
18366587 TAATACAAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
13 10 0.20
15 2 0.04
16 28 0.55
17 1 0.02
18 8 0.16
19 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (16 bp):
AAAAATATTTAATATT
Found at i:18368189 original size:8 final size:8
Alignment explanation
Indices: 18368176--18368210 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
18368166 CCTCGGGAGC
18368176 ACATATAT
1 ACATATAT
18368184 ACATATAT
1 ACATATAT
18368192 CACATATAT
1 -ACATATAT
18368201 ACATATAT
1 ACATATAT
18368209 AC
1 AC
18368211 TCAAAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (8 bp):
ACATATAT
Found at i:18368197 original size:17 final size:17
Alignment explanation
Indices: 18368175--18368208 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
18368165 GCCTCGGGAG
18368175 CACATATATACATATAT
1 CACATATATACATATAT
18368192 CACATATATACATATAT
1 CACATATATACATATAT
18368209 ACTCAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (17 bp):
CACATATATACATATAT
Found at i:18369029 original size:69 final size:69
Alignment explanation
Indices: 18368946--18369175 Score: 212
Period size: 69 Copynumber: 3.2 Consensus size: 69
18368936 ATTATTTATA
*
18368946 TATTTATTTATTCATTATCCTTTATTTTTTTAAATACTTAAATTTAATACTATTTATATTTGTTA
1 TATTTATTTATTCATTATCCTTTATTTTTTTAAATACTTAAATTTAATATTATTTATATTTGTTA
18369011 TATT
66 TATT
* ** * * * *
18369015 TATTTATTTGTTCATTATCCTTT-TACCTATTAAATATTTAAATCTAATATTGTTTATATTTGTT
1 TATTTATTTATTCATTATCCTTTAT-TTTTTTAAATACTTAAATTTAATATTATTTATATTTG--
*
18369079 TTACTGGTT
63 TTA-T-ATT
** * * * *
18369088 TATTTATACATTTATCATTCCTTTAAATTTTTTTAAATACTTAAATTTAATATTATCTATATTTA
1 TATTTATTTATTCATTA-TCCTTT--ATTTTTTTAAATACTTAAATTTAATATTATTTATATTTG
*
18369153 TCT-TATC
63 T-TATATT
*
18369160 TATTTATTTAGTCATT
1 TATTTATTTATTCATT
18369176 TATTCGTTAT
Statistics
Matches: 122, Mismatches: 29, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
68 1 0.01
69 52 0.43
71 3 0.02
72 13 0.11
73 15 0.12
74 7 0.06
75 1 0.01
76 29 0.24
77 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (69 bp):
TATTTATTTATTCATTATCCTTTATTTTTTTAAATACTTAAATTTAATATTATTTATATTTGTTA
TATT
Found at i:18369549 original size:25 final size:25
Alignment explanation
Indices: 18369503--18369550 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
18369493 TAAAAGATAG
* * *
18369503 GTCTATCTTTTGACATGTTTTCTCT
1 GTCTATCTCTTGACACGGTTTCTCT
*
18369528 GTCTGTCTCTTGACACGGTTTCT
1 GTCTATCTCTTGACACGGTTTCT
18369551 TTTTTATCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.10, C:0.23, G:0.17, T:0.50
Consensus pattern (25 bp):
GTCTATCTCTTGACACGGTTTCTCT
Found at i:18382435 original size:21 final size:21
Alignment explanation
Indices: 18382409--18382504 Score: 81
Period size: 21 Copynumber: 4.5 Consensus size: 21
18382399 AACCCTAATC
18382409 CTAACCCTTAACTTAAAAACT
1 CTAACCCTTAACTTAAAAACT
* * *
18382430 CTAACCCTTAAATTCAAAACA
1 CTAACCCTTAACTTAAAAACT
* *
18382451 CTAAACCCTAAACCTAAAAAC-
1 CT-AACCCTTAACTTAAAAACT
18382472 CATAAACCCTTAAGC-T-AAAACT
1 C-T-AACCCTTAA-CTTAAAAACT
*
18382494 CTAACCTTTAA
1 CTAACCCTTAA
18382505 ACCCCAAACC
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
20 8 0.13
21 27 0.44
22 26 0.42
23 1 0.02
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (21 bp):
CTAACCCTTAACTTAAAAACT
Found at i:18382489 original size:22 final size:21
Alignment explanation
Indices: 18382411--18382491 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 21
18382401 CCCTAATCCT
18382411 AACCCTTAACTTAAAAACTC-T-
1 AACCCTTAAC-TAAAAAC-CATA
* *
18382432 AACCCTTAAATTCAAAA-CACTA
1 AACCCTT-AACTAAAAACCA-TA
*
18382454 AACCCTAAACCTAAAAACCATA
1 AACCCTTAA-CTAAAAACCATA
18382476 AACCCTTAAGCTAAAA
1 AACCCTTAA-CTAAAA
18382492 CTCTAACCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
19 1 0.02
21 15 0.32
22 29 0.62
23 2 0.04
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.21
Consensus pattern (21 bp):
AACCCTTAACTAAAAACCATA
Found at i:18382492 original size:43 final size:44
Alignment explanation
Indices: 18382411--18383409 Score: 470
Period size: 43 Copynumber: 23.5 Consensus size: 44
18382401 CCCTAATCCT
* * ** *
18382411 AACCCTTAACTTAAAAACTCT-AACCCTTAAATTCAAAACAC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
* * * *
18382454 AACCCTAAACCTAAAAACCATAAACCCTTAAGCTAAAACTCTAACCTTTA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAA--C---CC-ATA
** * * * *
18382504 AACCCCAAACCTAAAAACCCTACACACTAAACTTAAAACCC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * *
18382547 AACCCTTCACCT-AAAACCCT-AACCCTTAACCTAAAGCCCCTA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * ** *
18382589 AA-CC---A---AAAAACACT-AACCCTCAACCTAAAAATCTTA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* *
18382625 AACCCTTAACCTTAAAACCCTAAA-CC--AA---AAAACAC-T-
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* *
18382661 AACCATCAACCTAAAAACCCTAAACCCTTAACCTAAAAACCC-T-
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
* * * * * **
18382704 AACCTTTAACTTAAAAACCATTAACTCTTAACCTAAATTCCATA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * *
18382748 AACTCTTAACCTAAAAACCCT-AACTCTCAACCTAAAAACCC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
** * * **
18382791 AACCTTTAACTTAAATTATATAAACCATAAACCCTAAATCCTAAATTCCATA
1 AACC-----CTTAACCTA-A-AAACCCTAAACCCTTAA-CCTAAAACCCATA
* *
18382843 AATCCTTAACCT-AAAACCCT-AACCCTTAACCTAAACCCCATA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * * *
18382885 AACCCTTAACCT-AAGACCGTAAACCTTTAACATAAAAACCC-T-
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
* * * **
18382927 AATCCTAAACC-ATAAAACCATAAACCCTTAACCTAAATTCCATA
1 AACCCTTAACCTA-AAAACCCTAAACCCTTAACCTAAAACCCATA
* * * *
18382971 AACCCTTAACCT-AAAACCTTAAACTCTTAACATAAAA-CCTTA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * * * *
18383013 AACCCTTAACCT-AAAACCCT-AACTCTAAACTTAAAAACC-TT
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * * * * **
18383054 AACCCTCAATC-GAAAACACTAAACCTTTAACCTAAATTCCATA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* * *
18383097 AACCCTTAACCCT--AAACCCT-AACCATTAACCTAAAAACCTTA
1 AACCCTTAA-CCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* *
18383139 AA--CTT----T--AAACCCTAAA-CTTTAAACTTAAAAACCC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTT-AACCT-AAAACCCATA
* * * *
18383175 AACCCTTAACCTAAAAACACT-AACCTTTAACCTAAAAACC-TT
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
* **
18383217 AA-CCTTGAACCCT-AAAACCCTAAACCATTAACCTAAATTCCATA
1 AACCCTT-AA-CCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
** *
18383261 AACTTTTAACCT--AAACCCTAAACCCTAAACCTAAAAACCC-T-
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
* * *
18383302 AACCTTTAA-CTTAAAACCCT-AA-CCTTAAACCATAAAACTC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTT-AACC-TAAAACCCATA
* * *
18383344 AACCCTAAACCTAAAAACTCT-AACCCTCAACCTAAAAACCC-TA
1 AACCCTTAACCTAAAAACCCTAAACCCTTAACCT-AAAACCCATA
*
18383387 AACCCTTAACATAAAAACCCTAA
1 AACCCTTAACCTAAAAACCCTAA
18383410 CATAAAGGCT
Statistics
Matches: 740, Mismatches: 138, Indels: 155
0.72 0.13 0.15
Matches are distributed among these distances:
35 11 0.01
36 57 0.08
37 11 0.01
38 9 0.01
39 2 0.00
40 9 0.01
41 74 0.10
42 171 0.23
43 240 0.32
44 75 0.10
45 6 0.01
47 6 0.01
48 9 0.01
49 1 0.00
50 39 0.05
51 12 0.02
52 8 0.01
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (44 bp):
AACCCTTAACCTAAAAACCCTAAACCCTTAACCTAAAACCCATA
Found at i:18382541 original size:50 final size:50
Alignment explanation
Indices: 18382452--18382547 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
18382442 TTCAAAACAC
* * * *
18382452 TAAACCCTAAACCTAAAAACCATAAACCCTTAAGCTAAAACTCTAACCTT
1 TAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAACCCTAACCTT
* *
18382502 TAAACCCCAAACCTAAAAACCCTACACAC-TAAACTTAAAACCCTAA
1 TAAACCCCAAACCTAAAAACCATAAACACTTAAAC-TAAAACCCTAA
18382548 ACCCTTCACC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 4 0.10
50 35 0.90
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (50 bp):
TAAACCCCAAACCTAAAAACCATAAACACTTAAACTAAAACCCTAACCTT
Found at i:18382627 original size:36 final size:36
Alignment explanation
Indices: 18382559--18382628 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
18382549 CCCTTCACCT
* * **
18382559 AAAACCCTAACCCTTAACCTAAAGCCCCTAAACCAA
1 AAAACACTAACCCTCAACCTAAAAACCCTAAACCAA
* *
18382595 AAAACACTAACCCTCAACCTAAAAATCTTAAACC
1 AAAACACTAACCCTCAACCTAAAAACCCTAAACC
18382629 CTTAACCTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.47, C:0.36, G:0.01, T:0.16
Consensus pattern (36 bp):
AAAACACTAACCCTCAACCTAAAAACCCTAAACCAA
Found at i:18382628 original size:22 final size:22
Alignment explanation
Indices: 18382584--18382650 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 22
18382574 AACCTAAAGC
* * *
18382584 CCCTAAACCAAAAAACACT-AA
1 CCCTCAACCTAAAAACCCTAAA
* *
18382605 CCCTCAACCTAAAAATCTTAAA
1 CCCTCAACCTAAAAACCCTAAA
* *
18382627 CCCTTAACCTTAAAACCCTAAA
1 CCCTCAACCTAAAAACCCTAAA
18382649 CC
1 CC
18382651 AAAAAACACT
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
21 14 0.39
22 22 0.61
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (22 bp):
CCCTCAACCTAAAAACCCTAAA
Found at i:18382647 original size:58 final size:58
Alignment explanation
Indices: 18382555--18382705 Score: 227
Period size: 58 Copynumber: 2.6 Consensus size: 58
18382545 TAAACCCTTC
* *
18382555 ACCT-AAAACCCT-AACCCTTAACC-TAAAGCCCCTAAACCAAAAAACACTAACCCTCA
1 ACCTAAAAACCCTAAACCCTTAACCTTAAA-ACCCTAAACCAAAAAACACTAACCATCA
* *
18382611 ACCTAAAAATCTTAAACCCTTAACCTTAAAACCCTAAACCAAAAAACACTAACCATCA
1 ACCTAAAAACCCTAAACCCTTAACCTTAAAACCCTAAACCAAAAAACACTAACCATCA
*
18382669 ACCTAAAAACCCTAAACCCTTAACCTAAAAACCCTAA
1 ACCTAAAAACCCTAAACCCTTAACCTTAAAACCCTAA
18382706 CCTTTAACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
56 4 0.05
57 6 0.07
58 71 0.84
59 4 0.05
ACGTcount: A:0.48, C:0.35, G:0.01, T:0.17
Consensus pattern (58 bp):
ACCTAAAAACCCTAAACCCTTAACCTTAAAACCCTAAACCAAAAAACACTAACCATCA
Done.