Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 54 of 240
Found at i:18121432 original size:21 final size:21
Alignment explanation
Indices: 18121408--18121450 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
18121398 CACATTGGCC
18121408 TCTCCTATTTTCTCTCTCTCT
1 TCTCCTATTTTCTCTCTCTCT
* *
18121429 TCTCTTATTTTTTCTCTCTCT
1 TCTCCTATTTTCTCTCTCTCT
18121450 T
1 T
18121451 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.33, G:0.00, T:0.63
Consensus pattern (21 bp):
TCTCCTATTTTCTCTCTCTCT
Found at i:18121450 original size:16 final size:16
Alignment explanation
Indices: 18121424--18121456 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18121414 ATTTTCTCTC
18121424 TCTCTTCTCTTATTTTT
1 TCTCTTCTCTT-TTTTT
18121441 TCTC-TCTCTTTTTTT
1 TCTCTTCTCTTTTTTT
18121456 T
1 T
18121457 AAAATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 6 0.38
17 4 0.25
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTCTTCTCTTTTTTT
Found at i:18129265 original size:16 final size:19
Alignment explanation
Indices: 18129244--18129282 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
18129234 TATTAAAGGT
18129244 TAAATAA-GTA-AAT-TAA
1 TAAATAATGTATAATATAA
18129260 TAAATAATGTATAATATAA
1 TAAATAATGTATAATATAA
18129279 TAAA
1 TAAA
18129283 ACAAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 3 0.15
19 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAATAATGTATAATATAA
Found at i:18130191 original size:12 final size:12
Alignment explanation
Indices: 18130174--18130199 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18130164 TCGAATAAGC
18130174 ATGTATATATAT
1 ATGTATATATAT
18130186 ATGTATATATAT
1 ATGTATATATAT
18130198 AT
1 AT
18130200 AATGCTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:18130883 original size:41 final size:41
Alignment explanation
Indices: 18130838--18130991 Score: 290
Period size: 41 Copynumber: 3.8 Consensus size: 41
18130828 AGGCTAAGCG
18130838 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
18130879 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
18130920 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
18130961 CCTAGCAGGCTACGTGCCGGTGATCTGAATC
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATC
18130992 AAGCTATAAG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
Found at i:18130992 original size:41 final size:41
Alignment explanation
Indices: 18130838--18131019 Score: 283
Period size: 41 Copynumber: 4.4 Consensus size: 41
18130828 AGGCTAAGCG
*
18130838 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
*
18130879 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
18130920 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
* * * *
18130961 CCTAGCAGGCTACGTGCCGGTGATCTGAATCAAGCTATAAG
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
* * *
18131002 TCTAGCAGTCTATGTGCC
1 CCTAGCAGGCTACGTGCC
18131020 ATTGAATCTG
Statistics
Matches: 133, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 133 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
Found at i:18137035 original size:16 final size:19
Alignment explanation
Indices: 18137014--18137052 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
18137004 TATTAAAGGT
18137014 TAAATAA-GTA-AAT-TAA
1 TAAATAATGTATAATATAA
18137030 TAAATAATGTATAATATAA
1 TAAATAATGTATAATATAA
18137049 TAAA
1 TAAA
18137053 ACAAAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 3 0.15
18 3 0.15
19 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAATAATGTATAATATAA
Found at i:18137953 original size:2 final size:2
Alignment explanation
Indices: 18137946--18137996 Score: 52
Period size: 2 Copynumber: 26.0 Consensus size: 2
18137936 AATAAGCATG
* * *
18137946 TA TA TA TA TA TG TA TA TA TA TA TA -A TGC TA -A AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
18137987 TA TA TA TA TA
1 TA TA TA TA TA
18137997 GAAAAGTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
1 2 0.05
2 38 0.93
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:18137960 original size:12 final size:12
Alignment explanation
Indices: 18137943--18137968 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18137933 TCGAATAAGC
18137943 ATGTATATATAT
1 ATGTATATATAT
18137955 ATGTATATATAT
1 ATGTATATATAT
18137967 AT
1 AT
18137969 AATGCTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:18138654 original size:41 final size:41
Alignment explanation
Indices: 18138609--18138762 Score: 290
Period size: 41 Copynumber: 3.8 Consensus size: 41
18138599 AGGCTAAGCG
18138609 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
18138650 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
18138691 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
18138732 CCTAGCAGGCTACGTGCCGGTGATCTGAATC
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATC
18138763 AAGCTATAAG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
Found at i:18138771 original size:82 final size:82
Alignment explanation
Indices: 18138609--18138780 Score: 281
Period size: 82 Copynumber: 2.1 Consensus size: 82
18138599 AGGCTAAGCG
*
18138609 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
* ** *
18138674 TTGAATCGGGTTATAAA
66 CTGAATCAAGCTATAAA
18138691 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
*
18138756 CTGAATCAAGCTATAAG
66 CTGAATCAAGCTATAAA
*
18138773 TCTAGCAG
1 CCTAGCAG
18138781 TCTATATGCC
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 83 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (82 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCAGGTTATAAACCTAGCAGGCTACGTGCCGGTGAT
CTGAATCAAGCTATAAA
Found at i:18166061 original size:14 final size:14
Alignment explanation
Indices: 18166023--18166065 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
18166013 CAAAATGTAC
18166023 AATATAATTAAA-T
1 AATATAATTAAATT
18166036 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
18166051 AA-ATAATTTAATT
1 AATATAATTAAATT
18166064 AA
1 AA
18166066 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:18168914 original size:54 final size:54
Alignment explanation
Indices: 18168826--18168991 Score: 260
Period size: 54 Copynumber: 3.1 Consensus size: 54
18168816 AATATGAGAG
*
18168826 TATAAATATTTGGGTCAATGCAAGATTCTTCTTTAAATTTTTGGGTTCTTTCATT
1 TATAAATATTTGGGTC-ATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCATT
*
18168881 TATAAATATTTGGGTCATGCAAGATTTTTCTTTAAATTTTTGGGCTCTTTCATT
1 TATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCATT
* * * * *
18168935 TATAAATATTTGGGTCATGCAATATTCCTCTTTAAATTTCTAGGCTATTTCATT
1 TATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCATT
18168989 TAT
1 TAT
18168992 TGTTTCTAAA
Statistics
Matches: 103, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
54 87 0.84
55 16 0.16
ACGTcount: A:0.26, C:0.12, G:0.13, T:0.49
Consensus pattern (54 bp):
TATAAATATTTGGGTCATGCAAGATTCTTCTTTAAATTTTTGGGCTCTTTCATT
Found at i:18169333 original size:25 final size:25
Alignment explanation
Indices: 18169301--18169355 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
18169291 TAGTGGTTAA
18169301 AATG-GACGGTGGCTGCCCCTAATT
1 AATGAGACGGTGGCTGCCCCTAATT
18169325 AATGAGACGGTGGCTGCCCCTAATT
1 AATGAGACGGTGGCTGCCCCTAATT
18169350 AATGAG
1 AATGAG
18169356 TAAAACAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (25 bp):
AATGAGACGGTGGCTGCCCCTAATT
Found at i:18175416 original size:91 final size:91
Alignment explanation
Indices: 18175251--18175808 Score: 924
Period size: 91 Copynumber: 6.1 Consensus size: 91
18175241 ATGATTTTAG
* * * * *
18175251 TAAATTCATATAAGAATATTTATTATTAAAAATTTTATG-AATTATATATCATTATTAAATAATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
18175315 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* *
18175341 TAAATTCATATAAGAAACTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
18175406 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* *
18175432 TAAATTCATATAAGAAAATTTATTATCAAGAA-TTT-TGAACGAGTATATATCATTATTAAATTA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAA--ATTATATATCATTATTAAATTA
18175495 TATTTAATATTAATTATTTTAAATTATA
64 TATTTAATATTAATTATTTTAAATTATA
*
18175523 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
18175588 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
18175614 TAAATTCATATAACAAAGTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
18175679 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
* * *
18175705 TAAATTCATATAACAAAATTTATTATCAAGAATTTGATGAAGTTATATATTATTATTAAATTATA
1 TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
* *
18175770 TTTAATAATAATTATATTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
18175796 CAAATTCATATAA
1 TAAATTCATATAA
18175809 TTAAATTATA
Statistics
Matches: 444, Mismatches: 19, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
89 4 0.01
90 38 0.09
91 395 0.89
92 3 0.01
93 4 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAACAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:18175583 original size:18 final size:17
Alignment explanation
Indices: 18175557--18175606 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
18175547 ATCAAGAATT
*
18175557 TTATGAAATTATATATTA
1 TTATTAAATTATAT-TTA
18175575 TTATTAAATTATATTTA
1 TTATTAAATTATATTTA
*
18175592 ATATT-AATTAT-TTTA
1 TTATTAAATTATATTTA
18175607 AATTATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 7 0.23
18 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATTAAATTATATTTA
Found at i:18175589 original size:16 final size:16
Alignment explanation
Indices: 18175563--18175611 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 16
18175553 AATTTTATGA
*
18175563 AATTATATATTATTATT
1 AATTATAT-TTAATATT
18175580 AAATTATATTTAATATT
1 -AATTATATTTAATATT
18175597 AATTAT-TTTAA-ATT
1 AATTATATTTAATATT
18175611 A
1 A
18175612 TATAAATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 4 0.13
15 5 0.17
16 6 0.20
17 7 0.23
18 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTATATTTAATATT
Found at i:18175842 original size:29 final size:28
Alignment explanation
Indices: 18175806--18175904 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
18175796 CAAATTCATA
18175806 TAATTAAATTATATTTAATAATAATTAT
1 TAATTAAATTATATTTAATAATAATTAT
* * * * *
18175834 TATTTTAAATTTTATTAAATCATATAGT-T
1 TA-ATTAAATTATATTTAATAATA-ATTAT
*
18175863 TAATTAAAATATATTTAATAATAATTAT
1 TAATTAAATTATATTTAATAATAATTAT
*
18175891 T--TAAAATTATATTT
1 TAATTAAATTATATTT
18175905 TATACTATCA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
26 11 0.20
27 2 0.04
28 20 0.36
29 20 0.36
30 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (28 bp):
TAATTAAATTATATTTAATAATAATTAT
Found at i:18175945 original size:120 final size:121
Alignment explanation
Indices: 18175841--18176138 Score: 492
Period size: 120 Copynumber: 2.5 Consensus size: 121
18175831 TATTATTTTA
*
18175841 AATTTTATTAAATCATATAGTTTAATTAAAATATATTTAATAATAATTAT-TTAAAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAAATTATATTT
*
18175905 TATACTATCATATATTATGATTTTAGGAAATTCATATAATAATATTGATTATTAAG
66 TATACTATCATATATTATGATTTGAGGAAATTCATATAATAATATTGATTATTAAG
18175961 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTT-AAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAAATTATATTT
** * * * *
18176025 TATGGTATCATCTATTATGATTTGAGTAAATTCATATAACAATATTGATTATTAAT
66 TATACTATCATATATTATGATTTGAGGAAATTCATATAATAATATTGATTATTAAG
* *
18176081 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAAAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAAAT
18176139 ATGATTAAAT
Statistics
Matches: 166, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
120 160 0.96
121 6 0.04
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (121 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAAATTATATTT
TATACTATCATATATTATGATTTGAGGAAATTCATATAATAATATTGATTATTAAG
Found at i:18175976 original size:61 final size:60
Alignment explanation
Indices: 18175911--18176101 Score: 169
Period size: 61 Copynumber: 3.2 Consensus size: 60
18175901 ATTTTATACT
*
18175911 ATCATATATTATGATTTTAGGAAATTCATATAATAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTA-GAAATTCATATAATAATATTGATTATTAATAATTTTATTAA
* * * * ***
18175972 ATCATATATT-TTA-ATTA-AAATAT-ATTTAATAATAATT-ATCT-TAAATTATATTTTATGGT
1 ATCATATATTATGATTTTAGAAAT-TCATATAATAAT-ATTGAT-TATTAA-TA-ATTTTATTAA
* * *
18176031 ATCATCTATTATGATTTGAGTAAATTCATATAACAATATTGATTATTAATAATTTTATTAA
1 ATCATATATTATGATTTTAG-AAATTCATATAATAATATTGATTATTAATAATTTTATTAA
*
18176092 ATTATATATT
1 ATCATATATT
18176102 TTAATTAAAA
Statistics
Matches: 98, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 18 0.18
58 6 0.06
59 19 0.19
60 4 0.04
61 27 0.28
62 7 0.07
63 17 0.17
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (60 bp):
ATCATATATTATGATTTTAGAAATTCATATAATAATATTGATTATTAATAATTTTATTAA
Found at i:18176110 original size:18 final size:17
Alignment explanation
Indices: 18176082--18176116 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18176072 ATTATTAATA
*
18176082 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18176099 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18176117 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18176582 original size:22 final size:21
Alignment explanation
Indices: 18176548--18176597 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
18176538 GTTTTAAAAC
*
18176548 TTTTGATTACTTTTTTCTGTTT
1 TTTTGATTACTTTTTACT-TTT
18176570 TTTTGACTT-CTTTTTAC-TTT
1 TTTTGA-TTACTTTTTACTTTT
18176590 TTTTGATT
1 TTTTGATT
18176598 GAAAGCTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 9 0.35
22 13 0.50
23 2 0.08
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.72
Consensus pattern (21 bp):
TTTTGATTACTTTTTACTTTT
Found at i:18177281 original size:26 final size:26
Alignment explanation
Indices: 18177242--18177315 Score: 76
Period size: 33 Copynumber: 2.5 Consensus size: 26
18177232 TTGAAACTTT
18177242 TCGAGAAAAGAGAATATTTCACGTTAA
1 TCGAG-AAAGAGAATATTTCACGTTAA
18177269 TCGAGAAAGAGAATTATAAATATTTCACGTTAA
1 TCGAGAAAGAG-------AATATTTCACGTTAA
18177302 TCGAGAAAGAGAAT
1 TCGAGAAAGAGAAT
18177316 TATATCCAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 15
0.73 0.00 0.27
Matches are distributed among these distances:
26 9 0.22
27 5 0.12
33 26 0.65
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.26
Consensus pattern (26 bp):
TCGAGAAAGAGAATATTTCACGTTAA
Found at i:18177291 original size:33 final size:33
Alignment explanation
Indices: 18177254--18177319 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
18177244 GAGAAAAGAG
18177254 AATATTTCACGTTAATCGAGAAAGAGAATTATA
1 AATATTTCACGTTAATCGAGAAAGAGAATTATA
18177287 AATATTTCACGTTAATCGAGAAAGAGAATTATA
1 AATATTTCACGTTAATCGAGAAAGAGAATTATA
18177320 TCCAGTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (33 bp):
AATATTTCACGTTAATCGAGAAAGAGAATTATA
Found at i:18178276 original size:22 final size:23
Alignment explanation
Indices: 18178225--18178277 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
18178215 ACTAATCCCA
* *
18178225 TCTCAAATTTCCTCTCAATTTAT
1 TCTCAAATTTACTCTCAATTTAC
* *
18178248 TCT-AAATTTATTCT-AATTTGC
1 TCTCAAATTTACTCTCAATTTAC
18178269 TCTCAAATT
1 TCTCAAATT
18178278 CCTTCAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 8 0.32
22 14 0.56
23 3 0.12
ACGTcount: A:0.28, C:0.21, G:0.02, T:0.49
Consensus pattern (23 bp):
TCTCAAATTTACTCTCAATTTAC
Found at i:18178325 original size:51 final size:50
Alignment explanation
Indices: 18178253--18178357 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 50
18178243 TTTATTCTAA
*
18178253 ATTTATTCTAATTTGCTCTCAAATTCCT-TCAAAATTTCTCTCAAATCCAT
1 ATTTATTCTAATTTACTCTCAAATTCCTCT-AAAATTTCTCTCAAATCCAT
* * * * *
18178303 ATTTATTTTCAATTTACTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCT
1 ATTTATTCT-AATTTACTCTCAAATTCCTCTAAAATTTCTCTCAAATCCAT
18178354 ATTT
1 ATTT
18178358 TTAAATAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 8 0.17
51 38 0.81
52 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.02, T:0.48
Consensus pattern (50 bp):
ATTTATTCTAATTTACTCTCAAATTCCTCTAAAATTTCTCTCAAATCCAT
Found at i:18178374 original size:17 final size:17
Alignment explanation
Indices: 18178354--18178393 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
18178344 TTAAATCCCT
18178354 ATTTTTAAATAATTTTA
1 ATTTTTAAATAATTTTA
* **
18178371 ATTTTTTAATTTTTTTA
1 ATTTTTAAATAATTTTA
18178388 ATTTTT
1 ATTTTT
18178394 TTAAACCGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTAAATAATTTTA
Found at i:18178386 original size:9 final size:9
Alignment explanation
Indices: 18178366--18178397 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
18178356 TTTTAAATAA
18178366 TTTTAA-TT
1 TTTTAATTT
18178374 TTTTAATTT
1 TTTTAATTT
18178383 TTTTAATTT
1 TTTTAATTT
18178392 TTTTAA
1 TTTTAA
18178398 ACCGTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTAATTT
Found at i:18180480 original size:21 final size:21
Alignment explanation
Indices: 18180435--18180480 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
18180425 TGCCCTACTG
* *
18180435 GAAGAACCAGAATCCCCACCG
1 GAAGAACCACAATCCCCACCA
* *
18180456 GAAGAACCACAATCGCCGCCA
1 GAAGAACCACAATCCCCACCA
18180477 GAAG
1 GAAG
18180481 TTGGACAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.35, G:0.22, T:0.04
Consensus pattern (21 bp):
GAAGAACCACAATCCCCACCA
Found at i:18180790 original size:22 final size:21
Alignment explanation
Indices: 18180722--18181928 Score: 897
Period size: 22 Copynumber: 55.9 Consensus size: 21
18180712 TTTAATTGAC
**
18180722 AAACCCTTAAACCCTTAACCCCA
1 AAACCC-TAAACCCTTAA-CTAA
* *
18180745 AAACCCT-AACTCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
18180766 AAACCCTAAACCCTTAAGCTAA
1 AAACCCTAAACCCTTAA-CTAA
* * *
18180788 AAATCATAAACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
* * * *
18180810 AAACACT-AACCCATAAATTCA
1 AAACCCTAAACCC-TTAACTAA
* *
18180831 AAACCCTAAACCTTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
18180853 AAACCCT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
* * **
18180874 AAACACT-AACCTTTAACTTTT
1 AAACCCTAAACCCTTAAC-TAA
* * * *
18180895 AAACCCTAGACTCTGAACTTA
1 AAACCCTAAACCCTTAACTAA
18180916 AAACCCTTAAACCCTTAACTTAA
1 AAACCC-TAAACCCTTAAC-TAA
* * *
18180939 AAACACT-AATCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
* * *
18180960 TAACCCTTAACCCTTAACCAAA
1 AAACCCTAAACCCTTAA-CTAA
18180982 AAACCCT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
* *
18181003 AAACCCTAAA-TCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
*
18181024 AAACCCTAGA-CCTCTAACTTAA
1 AAACCCTAAACCCT-TAAC-TAA
18181046 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
* *
18181068 AAACCAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
* *
18181089 AAACACTAAACCCTAACCTTTAACCTGA
1 AAACCCTAAA--C---CC-TTAA-CTAA
*
18181117 AAACCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
* *
18181138 AAACACTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
*
18181160 AAACCCTAAACTCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
*
18181182 AAACACT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
*
18181203 AAACCCTAAAGCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
*
18181225 AAACCCT-AACTCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
* *
18181246 AAACCCTAAA-TCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
*
18181267 AAACCCTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
*
18181289 AAACCCTAAACCCTTAACT-T
1 AAACCCTAAACCCTTAACTAA
* * *
18181309 AAAGCCTTAACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
**
18181331 AAACATTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
*
18181353 AAACCAT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
*
18181374 AAACCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
*
18181395 AAACCCTAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
18181417 AAACCCTAAATCCC-TAACTTAA
1 AAACCCTAAA-CCCTTAAC-TAA
* *
18181439 AAACCCT-GACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
*
18181460 AAACACT-AACCCTTAACTAA
1 AAACCCTAAACCCTTAACTAA
*
18181480 AAACCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
*
18181501 AAACCCTAGACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
18181523 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
*
18181545 AAATCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
**
18181566 AAACCCT-AACATTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
* *
18181587 AAACCCTAAA-CTTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
* *
18181608 AAACCCTAGACCCTTAATTTAA
1 AAACCCTAAACCCTTAA-CTAA
18181630 AAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
** *
18181652 AAACAAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
*
18181673 AAACCCTAAACCCTTAATTTAA
1 AAACCCTAAACCCTTAA-CTAA
*
18181695 AAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
** *
18181717 AAACAATAAA-CCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
18181738 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
*
18181760 AAACCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
* *
18181781 AAACCTTAAACCCTTAACTTAG
1 AAACCCTAAACCCTTAAC-TAA
* *
18181803 AAACCATAAACCATTAACTTAA
1 AAACCCTAAACCCTTAAC-TAA
* *
18181825 AAACCAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTT-AACTAA
18181846 AAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
*
18181868 AAACCAT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAA
* *
18181889 AAACCTTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAA
*
18181910 AAACCCTAGACCCTTAACT
1 AAACCCTAAACCCTTAACT
18181929 TAAATATAAT
Statistics
Matches: 973, Mismatches: 141, Indels: 142
0.77 0.11 0.11
Matches are distributed among these distances:
20 45 0.05
21 441 0.45
22 445 0.46
23 24 0.02
24 1 0.00
27 4 0.00
28 13 0.01
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (21 bp):
AAACCCTAAACCCTTAACTAA
Found at i:18180810 original size:43 final size:43
Alignment explanation
Indices: 18180722--18181932 Score: 1087
Period size: 43 Copynumber: 28.0 Consensus size: 43
18180712 TTTAATTGAC
** * *
18180722 AAACCCTTAAACCCTTAACCCCAAAACCCT-AACTCTTAACTTTA
1 AAACCC-TAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* * *
18180766 AAACCCTAAACCCTTAAGCTAAAAATCATAAACCCTTAAATTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* * * * * *
18180810 AAACACT-AACCCATAAATTCAAAACCCTAAACCTTTAAATTAA
1 AAACCCTAAACCC-TTAACTAAAAACCCTAAACCCTTAACTTAA
* * **
18180853 AAACCCT-AACCCTTAACCTAAAAACACT-AACCTTTAACTTTT
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* * * *
18180895 AAACCCTAGACTCTGAACTTAAAACCCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTAAAAACCC-TAAACCCTTAACTTAA
* * * * * **
18180939 AAACACT-AATCCTTAAATTAATAACCCTTAACCCTTAACCAAA
1 AAACCCTAAACCCTT-AACTAAAAACCCTAAACCCTTAACTTAA
* *
18180982 AAACCCT-AACCCTTAACCTAAAAACCCTAAA-TCTTAACTTTA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
*
18181024 AAACCCTAGA-CCTCTAACTTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCT-TAAC-TAAAAACCCTAAACCCTTAACTTAA
* * *
18181068 AAACCAT-AACCCTTAAATTAAAAACACTAAACCC-TAACCTTTAACCTGA
1 AAACCCTAAACCCTT-AACTAAAAACCCTAAACCCTTAA-C-TT-A----A
* * *
18181117 AAACCCTAAA-CCTTAACTTTAAAACACTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* *
18181160 AAACCCTAAACTCTTAACTTAAAAACACT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* * *
18181203 AAACCCTAAAGCCTTAACCTAAAAACCCT-AACTCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* * *
18181246 AAACCCTAAA-TCTTAACTTTAAAACCCTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* * * *
18181289 AAACCCTAAACCCTTAACT-TAAAGCCTTAACCCTTAAATTAA
1 AAACCCTAAACCCTTAACTAAAAACCCTAAACCCTTAACTTAA
** * *
18181331 AAACATTAAACCCTTAACCTAAAAACCAT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* *
18181374 AAACCCTAAA-CCTTAACTTTAAAACCCTAAACCCTTAACTTTA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* *
18181417 AAACCCTAAATCCC-TAACTTAAAAACCCT-GACCCTTAAATTAA
1 AAACCCTAAA-CCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* *
18181460 AAACACT-AACCCTTAACTAAAAACCCTAAA-CCTTAACTTTA
1 AAACCCTAAACCCTTAACTAAAAACCCTAAACCCTTAACTTAA
*
18181501 AAACCCTAGACCCTTAACCTAAAAACCCTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* ** *
18181545 AAATCCT-AACCCTTAACTTAAAAACCCT-AACATTTAACCTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* * * *
18181587 AAACCCTAAA-CTTTAACTTTAAAACCCTAGACCCTTAATTTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
** *
18181630 AAACCCTAAACCCTTAACTTAAAAACAAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* *
18181673 AAACCCTAAACCCTTAATTTAAAAACCCTAAACCTTTAACTTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
** * *
18181717 AAACAATAAA-CCTTAAATTAAAAACCCTAAACCCTTAACCTAA
1 AAACCCTAAACCCTT-AACTAAAAACCCTAAACCCTTAACTTAA
* * *
18181760 AAACCCTAAA-CCTTAACTTTAAAACCTTAAACCCTTAACTTAG
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* * * *
18181803 AAACCATAAACCATTAACTTAAAAACCAT-AACCCTTAAATTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
* *
18181846 AAACCCTAAACCCTTAACCTAAAAACCAT-AACCCTTAACCTAA
1 AAACCCTAAACCCTTAA-CTAAAAACCCTAAACCCTTAACTTAA
* * *
18181889 AAACCTTAAA-CCTTAACTTTAAAACCCTAGACCCTTAACTTAA
1 AAACCCTAAACCCTTAAC-TAAAAACCCTAAACCCTTAACTTAA
18181932 A
1 A
18181933 TATAATTTGA
Statistics
Matches: 960, Mismatches: 155, Indels: 105
0.79 0.13 0.09
Matches are distributed among these distances:
41 31 0.03
42 178 0.19
43 528 0.55
44 184 0.19
45 3 0.00
47 1 0.00
48 4 0.00
49 26 0.03
50 5 0.01
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (43 bp):
AAACCCTAAACCCTTAACTAAAAACCCTAAACCCTTAACTTAA
Found at i:18181929 original size:22 final size:21
Alignment explanation
Indices: 18180744--18181932 Score: 1150
Period size: 21 Copynumber: 55.1 Consensus size: 21
18180734 CCTTAACCCC
* *
18180744 AAAACCCTAACTCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
18180765 AAAACCCTAAACCCTTAAGC-TA
1 AAAACCCT-AACCCTTAA-CTTA
* * *
18180787 AAAATCATAAACCCTTAAATTA
1 AAAACCCT-AACCCTTAACTTA
* * * *
18180809 AAAACACTAACCCATAAATTC
1 AAAACCCTAACCCTTAACTTA
* *
18180830 AAAACCCTAAACCTTTAAATTA
1 AAAACCCT-AACCCTTAACTTA
*
18180852 AAAACCCTAACCCTTAACCTA
1 AAAACCCTAACCCTTAACTTA
* * *
18180873 AAAACACTAACCTTTAACTTT
1 AAAACCCTAACCCTTAACTTA
* * *
18180894 TAAACCCTAGACTCTGAACTT-
1 AAAACCCTA-ACCCTTAACTTA
18180915 AAAACCCTTAAACCCTTAACTTA
1 AAAACCC-T-AACCCTTAACTTA
* * *
18180938 AAAACACTAATCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
* **
18180959 ATAACCCTTAACCCTTAACCAA
1 AAAACCC-TAACCCTTAACTTA
*
18180981 AAAACCCTAACCCTTAACCTA
1 AAAACCCTAACCCTTAACTTA
** *
18181002 AAAACCCTAAATCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
18181023 AAAACCCTAGA-CCTCTAACTTA
1 AAAACCCTA-ACCCT-TAACTTA
18181045 AAAACCCTAAACCCTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
* *
18181067 AAAACCATAACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
*
18181088 AAAACACTAAACCC-TAACCTTTAA
1 AAAACCCT-AACCCTTAA-C-TT-A
* *
18181112 CCTGAAAACCCTAAACCTTAACTTT
1 ----AAAACCCTAACCCTTAACTTA
*
18181137 AAAACACTAGACCCTTAACTTA
1 AAAACCCTA-ACCCTTAACTTA
*
18181159 AAAACCCTAAACTCTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
*
18181181 AAAACACTAACCCTTAACTTA
1 AAAACCCTAACCCTTAACTTA
* *
18181202 AAAACCCTAAAGCCTTAACCTA
1 AAAACCCT-AACCCTTAACTTA
* *
18181224 AAAACCCTAACTCTTAACCTA
1 AAAACCCTAACCCTTAACTTA
** *
18181245 AAAACCCTAAATCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
18181266 AAAACCCTAGACCCTTAACTTA
1 AAAACCCTA-ACCCTTAACTTA
18181288 AAAACCCTAAACCCTTAACTT-
1 AAAACCCT-AACCCTTAACTTA
* * *
18181309 AAAGCCTTAACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
** *
18181330 AAAACATTAAACCCTTAACCTA
1 AAAACCCT-AACCCTTAACTTA
* *
18181352 AAAACCATAACCCTTAACCTA
1 AAAACCCTAACCCTTAACTTA
* *
18181373 AAAACCCTAAACCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
*
18181394 AAAACCCTAAACCCTTAACTTT
1 AAAACCCT-AACCCTTAACTTA
18181416 AAAACCCTAAATCCC-TAACTTA
1 AAAACCCT-AA-CCCTTAACTTA
* *
18181438 AAAACCCTGACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
*
18181459 AAAACACTAACCCTTAAC-TA
1 AAAACCCTAACCCTTAACTTA
* *
18181479 AAAACCCTAAACCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
*
18181500 AAAACCCTAGACCCTTAACCTA
1 AAAACCCTA-ACCCTTAACTTA
18181522 AAAACCCTAAACCCTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
*
18181544 AAAATCCTAACCCTTAACTTA
1 AAAACCCTAACCCTTAACTTA
** *
18181565 AAAACCCTAACATTTAACCTA
1 AAAACCCTAACCCTTAACTTA
* * *
18181586 AAAACCCTAAACTTTAACTTT
1 AAAACCCTAACCCTTAACTTA
*
18181607 AAAACCCTAGACCCTTAATTTA
1 AAAACCCTA-ACCCTTAACTTA
18181629 AAAACCCTAAACCCTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
** *
18181651 AAAACAATAACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
*
18181672 AAAACCCTAAACCCTTAATTTA
1 AAAACCCT-AACCCTTAACTTA
*
18181694 AAAACCCTAAACCTTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
** * *
18181716 AAAACAATAAACCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
*
18181737 AAAACCCTAAACCCTTAACCTA
1 AAAACCCT-AACCCTTAACTTA
* *
18181759 AAAACCCTAAACCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
*
18181780 AAAACCTTAAACCCTTAACTTA
1 AAAACCCT-AACCCTTAACTTA
* * *
18181802 GAAACCATAAACCATTAACTTA
1 AAAACCCT-AACCCTTAACTTA
* *
18181824 AAAACCATAACCCTTAAATTA
1 AAAACCCTAACCCTTAACTTA
*
18181845 AAAACCCTAAACCCTTAACCTA
1 AAAACCCT-AACCCTTAACTTA
* *
18181867 AAAACCATAACCCTTAACCTA
1 AAAACCCTAACCCTTAACTTA
* * *
18181888 AAAACCTTAAACCTTAACTTT
1 AAAACCCTAACCCTTAACTTA
18181909 AAAACCCTAGACCCTTAACTTA
1 AAAACCCTA-ACCCTTAACTTA
18181931 AA
1 AA
18181933 TATAATTTGA
Statistics
Matches: 972, Mismatches: 154, Indels: 83
0.80 0.13 0.07
Matches are distributed among these distances:
20 32 0.03
21 454 0.47
22 447 0.46
23 21 0.02
24 1 0.00
26 2 0.00
27 5 0.01
28 10 0.01
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (21 bp):
AAAACCCTAACCCTTAACTTA
Found at i:18185371 original size:126 final size:124
Alignment explanation
Indices: 18185105--18185670 Score: 679
Period size: 126 Copynumber: 4.5 Consensus size: 124
18185095 CCAAACATGT
*
18185105 TACTATAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * * *
18185170 AGAAGCGATTTTATACTATTTGTTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACC
66 TGAAGCGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* * *
18185229 AACTGTAGCAAAAGCGCGTCCATGAT-GGCGCGATTTCACAAATTCTTCTCA-AATAGCATGCTG
1 TACTGTAGCAAAAGCGCGTCCACG-TGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * *
18185292 CTT-ATAGCGTTGTTTTATACCATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACC
64 CTTGA-AGCG-T-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* * * * * * *
18185355 TACTATAGTAAAAGCGCGTCCACGTGGGCGCGACTTCACAAACTCTTCTTATAAATCATTCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* *
18185420 TGAAGCGTTTTTAAACTATTTGGTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACC
66 TGAAGCGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACC
* * * * * *
18185480 AACTGTAGTAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCACAAAGCATCCTACT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * *
18185545 TGAAGCATTTTTTAAACTATTTGCTCAGAAAAGTCAAGTCGAAATTATTTTTCCACGACC
66 TGAAGC-GTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* * * * * * * * *
18185605 TACTGTAGCAAAATCGCGTACATGTGGGCGCAACTTCAAAAATCCTTCTGATAAATCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
18185670 T
66 T
18185671 TGATTTTATC
Statistics
Matches: 374, Mismatches: 58, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
123 3 0.01
124 96 0.26
125 132 0.35
126 140 0.37
127 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (124 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
Found at i:18185569 original size:250 final size:250
Alignment explanation
Indices: 18185105--18185670 Score: 771
Period size: 250 Copynumber: 2.3 Consensus size: 250
18185095 CCAAACATGT
* * *
18185105 TACTATAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTATAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAAATCTTCTCATAAATCATCCTGCT
* * * * *
18185170 AGAAGCGATTTTATACTATTTGTTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACCAACTGT
66 TGAAGCGATTTTAAACTATTTGGTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCAACTGT
* * * * *
18185235 AGCAAAAGCGCGTCCATGATGGCGCGATTTCACAAATTCTTCTCAAATAGCATGCTGCTTATAGC
131 AGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTACTTATAGC
* * * * *
18185300 GTTGTTTTATACCATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACC
196 ATTGTTTTAAACCATTTGCTCAGAAAAGTCAACTCAAAATTATTTTTCCACGACC
* * * *
18185355 TACTATAGTAAAAGCGCGTCCACGTGGGCGCGACTTCACAAACTCTTCTTATAAATCATTCTGCT
1 TACTATAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAAATCTTCTCATAAATCATCCTGCT
*
18185420 TGAAGCGTTTTTAAACTATTTGGTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACTG
66 TGAAGCGATTTTAAACTATTTGGTCAAAAACGTCAACTCGAAATTATTT-TTCCAGGACCAACTG
*
18185485 TAGTAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCACAA-AGCATCCTACTTGA-
130 TAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCA-AATAGCATCCTACTT-AT
* * *
18185548 AGCATT-TTTTAAACTATTTGCTCAGAAAAGTCAAGTCGAAATTATTTTTCCACGACC
193 AGCATTGTTTTAAACCATTTGCTCAGAAAAGTCAACTCAAAATTATTTTTCCACGACC
* * * * * *
18185605 TACTGTAGCAAAATCGCGTACATGTGGGCGCAACTTCA-AAAATCCTTCTGATAAATCATCCTGC
1 TACTATAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAAAT-CTTCTCATAAATCATCCTGC
18185669 TT
65 TT
18185671 TGATTTTATC
Statistics
Matches: 277, Mismatches: 35, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
249 4 0.01
250 198 0.71
251 72 0.26
252 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (250 bp):
TACTATAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAAATCTTCTCATAAATCATCCTGCT
TGAAGCGATTTTAAACTATTTGGTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCAACTGT
AGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTACTTATAGC
ATTGTTTTAAACCATTTGCTCAGAAAAGTCAACTCAAAATTATTTTTCCACGACC
Found at i:18186215 original size:45 final size:45
Alignment explanation
Indices: 18186161--18186248 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
18186151 TACACAAACG
* * *
18186161 AAGACAATAATAAGAGTACAAATAAAAATATGGGGAACAATAATA
1 AAGACAATAATAACAATACAAATAAAAATATGGAGAACAATAATA
* * * *
18186206 AAGAGAATAATAACAATATAAATAATAATATGGAGAATAATAA
1 AAGACAATAATAACAATACAAATAAAAATATGGAGAACAATAA
18186249 GAGTGATATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.61, C:0.05, G:0.14, T:0.20
Consensus pattern (45 bp):
AAGACAATAATAACAATACAAATAAAAATATGGAGAACAATAATA
Found at i:18189686 original size:20 final size:20
Alignment explanation
Indices: 18189661--18189699 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18189651 TGAGTGCAAA
*
18189661 ATTAAAAAATTTAAAAAATT
1 ATTAAAAAAGTTAAAAAATT
*
18189681 ATTAAAAAAGTTATAAAAT
1 ATTAAAAAAGTTAAAAAAT
18189700 ATATAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
ATTAAAAAAGTTAAAAAATT
Found at i:18190720 original size:39 final size:39
Alignment explanation
Indices: 18190676--18190807 Score: 146
Period size: 39 Copynumber: 3.4 Consensus size: 39
18190666 AAAATTTATT
*
18190676 TTAAAAATTAAAAAAATTTATTTTAAAAATATTTTAAAA
1 TTAAAAATTAAAAAAATGTATTTTAAAAATATTTTAAAA
18190715 TTAAAAA--AAATTAAAATGTATTTTAAAAATATTTTAAAA
1 TTAAAAATTAAA--AAAATGTATTTTAAAAATATTTTAAAA
** *
18190754 TTAAAAAAAATTTTAAAAA-GTATTTTAAAAGTA-TTTAAAA
1 TT---AAAAATTAAAAAAATGTATTTTAAAAATATTTTAAAA
*
18190794 TTAAAAAATAAAAA
1 TTAAAAATTAAAAA
18190808 TATTTATTAT
Statistics
Matches: 79, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
37 12 0.15
39 35 0.44
40 9 0.11
41 13 0.16
42 9 0.11
44 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (39 bp):
TTAAAAATTAAAAAAATGTATTTTAAAAATATTTTAAAA
Found at i:18190749 original size:11 final size:11
Alignment explanation
Indices: 18190733--18190793 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
18190723 AATTAAAATG
18190733 TATTTTAAAAA
1 TATTTTAAAAA
18190744 TATTTT--AAA
1 TATTTTAAAAA
*
18190753 -A-TTAAAAAA
1 TATTTTAAAAA
*
18190762 AATTTTAAAAA
1 TATTTTAAAAA
*
18190773 GTATTTTAAAAG
1 -TATTTTAAAAA
18190785 TA-TTTAAAA
1 TATTTTAAAA
18190794 TTAAAAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
7 2 0.05
8 1 0.02
9 6 0.15
10 8 0.20
11 15 0.37
12 9 0.22
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:18192688 original size:17 final size:18
Alignment explanation
Indices: 18192666--18192702 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18192656 CTTTCATTCC
18192666 CTTTCACA-AAAAAAAAT
1 CTTTCACAGAAAAAAAAT
*
18192683 CTTTCAGAGAAAAAAAAT
1 CTTTCACAGAAAAAAAAT
18192701 CT
1 CT
18192703 AGAACTCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.54, C:0.16, G:0.05, T:0.24
Consensus pattern (18 bp):
CTTTCACAGAAAAAAAAT
Found at i:18193659 original size:109 final size:106
Alignment explanation
Indices: 18193484--18193688 Score: 284
Period size: 109 Copynumber: 1.9 Consensus size: 106
18193474 TGGATTAAGA
* ** * *
18193484 TTTAAGAGAATATTTGACTATTTGGTCAAATGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGAATATTTGACTATTTGGTCAAAAAAAAAATCGAAACCCAGCACATTAGGACACATTT
* *
18193549 TCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTGAAAT
66 TCTCGAATTT-CCAAAAGCAAAACATTACCTTATTTTGAAAT
* * *
18193591 TTTAAAAGGATATTTGGCTATTTGGTCGAACAAAAAAAATCGAAACCCAGCACATTAGGACACGT
1 TTTAAAAGAATATTTGACTATTTGGTC-AA-AAAAAAAATCGAAACCCAGCACATTAGGACACAT
*
18193656 TTTCTCGAATTTCCAAAAGCAAAATATTACCTT
64 TTTCTCGAATTTCCAAAAGCAAAACATTACCTT
18193689 TGTTATTTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
107 24 0.28
108 20 0.24
109 41 0.48
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (106 bp):
TTTAAAAGAATATTTGACTATTTGGTCAAAAAAAAAATCGAAACCCAGCACATTAGGACACATTT
TCTCGAATTTCCAAAAGCAAAACATTACCTTATTTTGAAAT
Found at i:18194460 original size:3 final size:3
Alignment explanation
Indices: 18194452--18194546 Score: 75
Period size: 3 Copynumber: 30.7 Consensus size: 3
18194442 TAAGTGGGTA
* * * *
18194452 AAT AAT AAT AAT AAGG AA- AGT AAT AAT AAT AAAT GCAAT AAC AAG AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT
* * **
18194500 AAT AAT CAT AAT AAG CTT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18194547 AAGGATTAGA
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
2 1 0.01
3 64 0.88
4 5 0.07
5 3 0.04
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:18196202 original size:110 final size:111
Alignment explanation
Indices: 18196050--18196252 Score: 300
Period size: 110 Copynumber: 1.8 Consensus size: 111
18196040 TCTGTTCCGT
* * * *
18196050 TGCAACTTCAGAAAGATAAGATCTGTGGCTCTTCGAGGAAACATTTGCTATCTT-TCTGCTATAC
1 TGCAACTTCAGAAAGATAAGATCTGTGGCTCTTCAAGAAAACATTTACTATCTTATCTGCTACAC
* * *
18196114 TGCAACTTTAGTGAGATAAGACTTGTTATGGTGTAATCCACTCTAC
66 TACAACCTCAGTGAGATAAGACTTGTTATGGTGTAATCCACTCTAC
*
18196160 TGCAACTTCAGAGAGATAAGATCTGTGGCTCTTCAAGAAAACATTTACTATCTTCAGTCTGCTAC
1 TGCAACTTCAGAAAGATAAGATCTGTGGCTCTTCAAGAAAACATTTACTATCTT-A-TCTGCTAC
*
18196225 ATTACAACCTCAGTGAGATAAGACTTGT
64 ACTACAACCTCAGTGAGATAAGACTTGT
18196253 AGCTTCAACT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
110 50 0.62
113 31 0.38
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (111 bp):
TGCAACTTCAGAAAGATAAGATCTGTGGCTCTTCAAGAAAACATTTACTATCTTATCTGCTACAC
TACAACCTCAGTGAGATAAGACTTGTTATGGTGTAATCCACTCTAC
Found at i:18196696 original size:128 final size:128
Alignment explanation
Indices: 18196279--18196680 Score: 635
Period size: 128 Copynumber: 3.1 Consensus size: 128
18196269 ACTGCAACTT
18196279 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCATT
1 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTC-TT
* *
18196344 -GATCTGCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC
65 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * * * *
18196407 TAGGGAAATAGGACTTATGGCTTAAATCTGCTTCATTACTCTTGAAGATAAGATTTACCGTCTTC
1 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
* * * *
18196472 GATCTGCACCGTTACTGCTTAAGGAGACAATATCTGTAATTTCCAACCTACTCCACTGCTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
* * *
18196535 CAGGGAGATGGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCATCTTC
1 CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
* *
18196600 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACACCACTGTTGAC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
*
18196663 CAGGGAGATAGGATTTGT
1 CAGGGAAATAGGATTTGT
18196681 AACTTCGATC
Statistics
Matches: 247, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
127 2 0.01
128 245 0.99
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (128 bp):
CAGGGAAATAGGATTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:18196744 original size:88 final size:88
Alignment explanation
Indices: 18196683--18197698 Score: 1482
Period size: 88 Copynumber: 11.6 Consensus size: 88
18196673 GGATTTGTAA
* *
18196683 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCCTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* * **
18196748 ACCGAGGGAGGCAAGGCTTGCAT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * * *
18196771 CTTCGATCTGCTTTGCTGTCAATGCAGGAAAG-AAG-TTTCGCTGTCTTCAACCAGCTCCACCAC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT-GTTGTCTTCAACCAGCTCCACTAC
18196834 AACCGAGAGAGGCAAGGTTTGTGT
65 AACCGAGAGAGGCAAGGTTTGTGT
* * * * *
18196858 CTTCGACCTTCTTCGCTGTCAATACAGGAAGGCAAGATCTATTGTCTTCAACCATCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* *
18196923 ACCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * *
18196946 CTTCGATCCGCTTCGCTGTCAATACAGGAAGGCAAGATATGTTGTCTTCAACCAGCTCCACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
* *
18197011 ACCGAGGGAGGCAAGGCTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * * *
18197034 CTTCGATCCGCTTCGCTGTCGATTCAGGAAGGCAAGATCTGTTGTCATCAACCAGCTCTACTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
18197099 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
** * *
18197122 CTTCGATCTGCTTCATTGTCAATGCAGGAAGGCAAGATCTGTTTTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
*
18197187 ACCGAGAGAAGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * **
18197210 CTTCGATCTGCTTCGCTGTCAATACAGGAAGGAAAGATCTGTTGTCTTCAACCAGCTCTGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
*
18197275 ACTGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
18197298 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGA-TAC
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCC-ACTAC
18197362 AACCGAGAGAGGCAAGGTTTGTGT
65 AACCGAGAGAGGCAAGGTTTGTGT
* * * * *** *
18197386 CTTGGATCTTCTTCGCTGTCAATGCAGGAAGGTAAGATCTGTTGTCTTCAACCAGTTTTGCGACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
18197451 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * * * * *
18197474 CTTCGATCTACTTCGCTGTCAATGTAGGAAGGAAATATATGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
*
18197539 ACCGAGAGAGGCAAGG-TTATGT
66 ACCGAGAGAGGCAAGGTTTGTGT
* * *
18197561 CTTTGATCTGCTTCGCTGTCAATGCAGGAATGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
18197626 ACCGAGAGAGGCAAGGTTTGTGT
66 ACCGAGAGAGGCAAGGTTTGTGT
18197649 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
1 CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
18197699 TTGATCTGTT
Statistics
Matches: 834, Mismatches: 88, Indels: 12
0.89 0.09 0.01
Matches are distributed among these distances:
86 2 0.00
87 149 0.18
88 681 0.82
89 2 0.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (88 bp):
CTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
ACCGAGAGAGGCAAGGTTTGTGT
Found at i:18196906 original size:45 final size:43
Alignment explanation
Indices: 18196855--18197346 Score: 133
Period size: 44 Copynumber: 11.2 Consensus size: 43
18196845 GCAAGGTTTG
18196855 TGTCTTCGACCTTCTTCGCTGTCAATACAGGAAGGCAAGATCTAT
1 TGTCTTCGACC-TCTTCGCTGTCAATACAGGAAGGCAAGATCT-T
* * * * * * *
18196900 TGTCTTCAACCATCTCCACT-ACAA-CCGAGGGAGGCAAG-GCTT
1 TGTCTTCGACC-TCTTCGCTGTCAATAC-AGGAAGGCAAGATCTT
* *
18196942 GTGTCTTCGATCCGCTTCGCTGTCAATACAGGAAGGCAAGATATGT
1 -TGTCTTCGA-CCTCTTCGCTGTCAATACAGGAAGGCAAGATCT-T
* * * * * * * *
18196988 TGTCTTCAACCAGCTCCACT-ACAA-CCGAGGGAGGCAAG-GCTT
1 TGTCTTCGACC-TCTTCGCTGTCAATAC-AGGAAGGCAAGATCTT
* * *
18197030 GTGTCTTCGATCCGCTTCGCTGTCGATTCAGGAAGGCAAGATCTGT
1 -TGTCTTCGA-CCTCTTCGCTGTCAATACAGGAAGGCAAGATCT-T
* * * * * * *
18197076 TGTCATCAACCAGC-TCTACT-AC-A-ACCGAGAGAGGCAAGGT-TT
1 TGTCTTCGACC-TCTTC-GCTGTCAATACAG-GA-AGGCAAGATCTT
* ** *
18197118 GTGTCTTCGATCTGCTTCATTGTCAATGCAGGAAGGCAAGATCTGT
1 -TGTCTTCGACCT-CTTCGCTGTCAATACAGGAAGGCAAGATCT-T
* * * * * * *
18197164 TTTCTTCAACCAGCTCCGCT-ACAA-CCGAGAGAA-GCAAGGT-TT
1 TGTCTTCGACC-TCTTCGCTGTCAATAC-AG-GAAGGCAAGATCTT
* *
18197206 GTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGAAAGATCTGT
1 -TGTCTTCGACCT-CTTCGCTGTCAATACAGGAAGGCAAGATCT-T
* * * * *
18197252 TGTCTTCAACCAGC-TCTGCT-AC-A-ACTGAGAGAGGCAAGGT-TT
1 TGTCTTCGACC-TCTTC-GCTGTCAATACAG-GA-AGGCAAGATCTT
* *
18197294 GTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGT
1 -TGTCTTCGACCT-CTTCGCTGTCAATACAGGAAGGCAAGATCT-T
18197340 TGTCTTC
1 TGTCTTC
18197347 AACCAGCTCC
Statistics
Matches: 316, Mismatches: 82, Indels: 98
0.64 0.17 0.20
Matches are distributed among these distances:
42 10 0.03
43 83 0.26
44 123 0.39
45 91 0.29
46 9 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (43 bp):
TGTCTTCGACCTCTTCGCTGTCAATACAGGAAGGCAAGATCTT
Found at i:18198944 original size:7 final size:7
Alignment explanation
Indices: 18198931--18198971 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
18198921 TTAGCCTCTC
18198931 CATTTTT
1 CATTTTT
*
18198938 TATTTTT
1 CATTTTT
*
18198945 TATTTTT
1 CATTTTT
18198952 CATTTTT
1 CATTTTT
18198959 CA-TTTT
1 CATTTTT
18198965 CATTTTT
1 CATTTTT
18198972 TTGGGGCTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.76
Consensus pattern (7 bp):
CATTTTT
Found at i:18202109 original size:19 final size:17
Alignment explanation
Indices: 18202087--18202129 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
18202077 GTGAAATTTG
18202087 ATGCATGCAATGAAATGTA
1 ATGCATGC-ATGAAATG-A
18202106 ATGCAGATGCATGAAATGA
1 ATGC--ATGCATGAAATGA
18202125 ATGCA
1 ATGCA
18202130 AAAAGAGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
19 9 0.41
20 8 0.36
21 4 0.18
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (17 bp):
ATGCATGCATGAAATGA
Found at i:18204253 original size:25 final size:27
Alignment explanation
Indices: 18204225--18204285 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
18204215 AATTATAAAT
*
18204225 TATAAAATATATG-A-ATGTATGTACA
1 TATAAAATATATGCATATCTATGTACA
* *
18204250 TATAAAAAATATGCATATCTATGTATA
1 TATAAAATATATGCATATCTATGTACA
18204277 TATATAAAT
1 TATA-AAAT
18204286 TATAAAGCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 12 0.41
26 1 0.03
27 13 0.45
28 3 0.10
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (27 bp):
TATAAAATATATGCATATCTATGTACA
Found at i:18204501 original size:3 final size:3
Alignment explanation
Indices: 18204493--18204602 Score: 105
Period size: 3 Copynumber: 35.7 Consensus size: 3
18204483 TAAGTGGGTA
* * * *
18204493 AAT AAT AAT AAT AAGG AA- AGT AAT AAT AAT AAAT GCAAT AAC AAG AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT -AAT --AAT AAT AAT AAT
* * **
18204541 AAT AAT CAT AAT AAG CTT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18204589 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
18204603 AAGGATTAGA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
2 1 0.01
3 79 0.90
4 5 0.06
5 3 0.03
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:18206802 original size:98 final size:94
Alignment explanation
Indices: 18206585--18206804 Score: 255
Period size: 94 Copynumber: 2.3 Consensus size: 94
18206575 AAATTATGTT
** *
18206585 ATTAGAAAGGAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTGTATAAGTTATC
1 ATTAGAAATTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATC
18206650 TAAAATTAGAAATTGATGTGTACTTAGAA
66 TAAAATTAGAAATTGATGTGTACTTAGAA
* ** *
18206679 ATTAGAAATTAATATTAAACGAGTTATGTAATT-AGAAATTTTATCTTAATATTATTTAAGTTAA
1 ATTAGAAATTAATATTATATAAGTTATGTAATTCA-AAATTTTATCTTAATATTATATAAGTT-A
* *
18206743 TTTTATGTAATTAGAAATTGATGTGTGA-TTAGAA
64 -TCTA--AAATTAGAAATTGATGTGT-ACTTAGAA
** **
18206777 ATTTTATCTTAATATTATATAAGTTATG
1 ATTAGAAATTAATATTATATAAGTTATG
18206805 AAGTGTCCTG
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
93 1 0.01
94 53 0.51
95 1 0.01
96 3 0.03
98 45 0.43
99 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (94 bp):
ATTAGAAATTAATATTATATAAGTTATGTAATTCAAAATTTTATCTTAATATTATATAAGTTATC
TAAAATTAGAAATTGATGTGTACTTAGAA
Found at i:18209030 original size:72 final size:72
Alignment explanation
Indices: 18208951--18209175 Score: 201
Period size: 72 Copynumber: 3.1 Consensus size: 72
18208941 ATAAAACATA
18208951 TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATA
1 TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATA
18209016 ATACACT
66 ATACACT
** * * * * ** *
18209023 TTTGCGGCG-TTTACAAAAAAACACCACAACTTATATAGA-G--AAAATA-GCACCGTTTATGTA
1 TTTGCGGCGCTTTA-AGGAAAGCACCACTA--TAGA-AAATGCCAAACGACGCA--GTTTCT-TA
** *
18209083 AAACATAAAACA-T
59 ACTCATAATACACT
* * *
18209096 ATTTGCGGTGCTTTAAGGAAAGCGCCACTATAGACAATGCCAAACGACGCAGTTTCTTAACTCAT
1 -TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCAT
18209161 AATACACT
65 AATACACT
18209169 TTTGCGG
1 TTTGCGG
18209176 TGTTTACAAA
Statistics
Matches: 112, Mismatches: 27, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
71 8 0.07
72 46 0.41
73 12 0.11
74 37 0.33
75 9 0.08
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (72 bp):
TTTGCGGCGCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATA
ATACACT
Found at i:18209050 original size:146 final size:146
Alignment explanation
Indices: 18208894--18209188 Score: 518
Period size: 146 Copynumber: 2.0 Consensus size: 146
18208884 GCGTTTTTAG
* *
18208894 AAAACGCCACAACTTATATAGAGAAAACGGCACCATTTATGTAAAACATAAAACATATTTGCGGC
1 AAAACACCACAACTTATATAGAGAAAACAGCACCATTTATGTAAAACATAAAACATATTTGCGGC
18208959 GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
66 GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
18209024 TTGCGGCGTTTACAAA
131 TTGCGGCGTTTACAAA
* * *
18209040 AAAACACCACAACTTATATAGAGAAAATAGCACCGTTTATGTAAAACATAAAACATATTTGCGGT
1 AAAACACCACAACTTATATAGAGAAAACAGCACCATTTATGTAAAACATAAAACATATTTGCGGC
* *
18209105 GCTTTAAGGAAAGCGCCACTATAGACAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
66 GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
*
18209170 TTGCGGTGTTTACAAA
131 TTGCGGCGTTTACAAA
18209186 AAA
1 AAA
18209189 GCGCCACCAA
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 141 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (146 bp):
AAAACACCACAACTTATATAGAGAAAACAGCACCATTTATGTAAAACATAAAACATATTTGCGGC
GCTTTAAGGAAAGCACCACTATAGAAAATGCCAAACGACGCAGTTTCTTAACTCATAATACACTT
TTGCGGCGTTTACAAA
Found at i:18209773 original size:14 final size:14
Alignment explanation
Indices: 18209730--18209774 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
18209720 CGTAAATCTT
**
18209730 AAACCCCAAACTAT
1 AAACCCCAAACTCC
*
18209744 AAACCCTAAACTCC
1 AAACCCCAAACTCC
*
18209758 AAACCCCAAACCCC
1 AAACCCCAAACTCC
18209772 AAA
1 AAA
18209775 TTGTAAATCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.42, G:0.00, T:0.09
Consensus pattern (14 bp):
AAACCCCAAACTCC
Found at i:18209983 original size:14 final size:13
Alignment explanation
Indices: 18209960--18210008 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
18209950 AAAACTAGCC
*
18209960 AAACCCTAAAGTCT
1 AAACCATAAA-TCT
18209974 AAACCATAAATCAT
1 AAACCATAAATC-T
18209988 AAACCAT-AATCCT
1 AAACCATAAAT-CT
18210001 AAACCATA
1 AAACCATA
18210009 TCTTTGGGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 13 0.42
14 18 0.58
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (13 bp):
AAACCATAAATCT
Found at i:18210003 original size:13 final size:13
Alignment explanation
Indices: 18209972--18210008 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
18209962 ACCCTAAAGT
18209972 CTAAACCATAAATC
1 CTAAACCAT-AATC
*
18209986 ATAAACCATAATC
1 CTAAACCATAATC
18209999 CTAAACCATA
1 CTAAACCATA
18210009 TCTTTGGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (13 bp):
CTAAACCATAATC
Found at i:18210690 original size:114 final size:114
Alignment explanation
Indices: 18210392--18210911 Score: 747
Period size: 114 Copynumber: 4.6 Consensus size: 114
18210382 AATTGCTCTA
* * *
18210392 TAGCGGCATTTTTACATAAGCGCCACCAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
1 TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
* * * *
18210457 TTAAGATATTTTGCGGCGTTTTTTATAAGGCGCCGCTAATACTGTGCTT
66 TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACTATGCTT
18210506 TAGCGGCGTTTTTTGCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTG
1 TAGCGGCGTTTTTT-CATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTG
* * * * *
18210571 ATTAAGCTATTTTGCGACGCTTTTTATAATGCTCCGCTAATACTAAGCTT
65 GTTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACTATGCTT
* * *
18210621 TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACGTTGTGTTTTGG
1 TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
18210686 TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATAC-AGTGCTT
66 TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACTA-TGCTT
* * * * *
18210735 TAGCAGCGATTTTTCATAAGCACAACTAGTTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
1 TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
* *
18210800 TTAAGATTTTTTGCGGCG-TTTTTATAATGCACCGCTAATACTCTGCTT
66 TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACTATGCTT
* * * * * * *
18210848 TAACGGTGTTTTTTCATAAGCACTACTAAATCTAATACACCTCAAGACCAAACGATGCGTTTTG
1 TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTG
18210912 TCAGCATTAT
Statistics
Matches: 365, Mismatches: 38, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
113 84 0.23
114 176 0.48
115 105 0.29
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (114 bp):
TAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGG
TTAAGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACTATGCTT
Found at i:18210977 original size:227 final size:228
Alignment explanation
Indices: 18210395--18210911 Score: 622
Period size: 229 Copynumber: 2.3 Consensus size: 228
18210385 TGCTCTATAG
* * * * * * * *
18210395 CGGCATTTTTACATAAGCGCCACCAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTA
1 CGGCGTTTTTTCATAAGCACCACTAAATCTAATACACCTCAAGACAAAACGATGCGTTTTGGTTA
* * * * ** * * *
18210460 AGATATTTTGCGGCGTTTTTTATAAGGCGCCGCTAATACTGTGCTTTAGCGGCGTTTTTTGCATA
66 AGATATATTACAGCGCTTTTTATAAAACACCACTAATACAGTGCTTTAGCGGCGTTTTTT-CATA
* * *
18210525 AGCGCCACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGATTAAGCTATTTTGCGACG
130 AGCACAACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGATTAAGATATTTTGCGACG
* *
18210590 CTTTTTATAATGCTCCGCTAATACTAAGCTTTAG
195 CTTTTTATAATGCACCGCTAATACTAAGCTTTAA
* * * * *
18210624 CGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACAAAACGTTGTGTTTTGGTTA
1 CGGCGTTTTTTCATAAGCACCACTAAATCTAATACACCTCAAGACAAAACGATGCGTTTTGGTTA
* * * ** * * *
18210689 AGATATTTTGCGGCGCTTTTTATAATGCACCGCTAATACAGTGCTTTAGCAGCGATTTTTCATAA
66 AGATATATTACAGCGCTTTTTATAAAACACCACTAATACAGTGCTTTAGCGGCGTTTTTTCATAA
* * * *
18210754 GCACAACTAGTTCTAATATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATTTTTTGCGGCG-
131 GCACAACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGATTAAGATATTTTGCGACGC
**
18210818 TTTTTATAATGCACCGCTAATACTCTGCTTTAA
196 TTTTTATAATGCACCGCTAATACTAAGCTTTAA
* * *
18210851 CGGTGTTTTTTCATAAGCACTACTAAATCTAATACACCTCAAGACCAAACGATGCGTTTTG
1 CGGCGTTTTTTCATAAGCACCACTAAATCTAATACACCTCAAGACAAAACGATGCGTTTTG
18210912 TCAGCATTAT
Statistics
Matches: 257, Mismatches: 31, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
227 82 0.32
228 62 0.24
229 113 0.44
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (228 bp):
CGGCGTTTTTTCATAAGCACCACTAAATCTAATACACCTCAAGACAAAACGATGCGTTTTGGTTA
AGATATATTACAGCGCTTTTTATAAAACACCACTAATACAGTGCTTTAGCGGCGTTTTTTCATAA
GCACAACTAATTCTAATATACCTCAAGACCAAACGCTGCGTTTTGATTAAGATATTTTGCGACGC
TTTTTATAATGCACCGCTAATACTAAGCTTTAA
Found at i:18212106 original size:8 final size:8
Alignment explanation
Indices: 18212083--18212123 Score: 73
Period size: 8 Copynumber: 5.0 Consensus size: 8
18212073 AATAAATAAG
18212083 TATTATAT
1 TATTATAT
18212091 TAATTATAT
1 T-ATTATAT
18212100 TATTATAT
1 TATTATAT
18212108 TATTATAT
1 TATTATAT
18212116 TATTATAT
1 TATTATAT
18212124 ATATATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 24 0.75
9 8 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTATAT
Found at i:18213093 original size:25 final size:24
Alignment explanation
Indices: 18213065--18213127 Score: 94
Period size: 22 Copynumber: 2.6 Consensus size: 24
18213055 ATTCTAGCGC
18213065 GCTCTCTGATTATTAGCACTTCAGT
1 GCTCTCTG-TTATTAGCACTTCAGT
18213090 GCTCTCTG-TA-TAGCACTTCAGT
1 GCTCTCTGTTATTAGCACTTCAGT
18213112 GCTCTCTGTTCATTAG
1 GCTCTCTGTT-ATTAG
18213128 TGCATAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 20 0.57
23 3 0.09
24 1 0.03
25 11 0.31
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (24 bp):
GCTCTCTGTTATTAGCACTTCAGT
Found at i:18233626 original size:18 final size:18
Alignment explanation
Indices: 18233603--18233639 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18233593 TCATCATTAT
18233603 TATTAGTATTAT-TATTTA
1 TATTAGT-TTATATATTTA
18233621 TATTAGTTTATATATTTA
1 TATTAGTTTATATATTTA
18233639 T
1 T
18233640 CTACATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTTTATATATTTA
Found at i:18237231 original size:38 final size:38
Alignment explanation
Indices: 18237174--18237249 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
18237164 AAGTAAGTAG
* * *
18237174 TTGGGACTTCAACTTGGGTGTTTGAATCGGAAAAGAAA
1 TTGGGACTTCAACTAGGGTGTTTAAACCGGAAAAGAAA
*
18237212 TTGGGACTTCAGCTAGGGTGTTTAAACCGGAAAAGAAA
1 TTGGGACTTCAACTAGGGTGTTTAAACCGGAAAAGAAA
18237250 ATAAAGCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (38 bp):
TTGGGACTTCAACTAGGGTGTTTAAACCGGAAAAGAAA
Found at i:18240343 original size:25 final size:25
Alignment explanation
Indices: 18240308--18240383 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
18240298 CTCTCGAGCT
*
18240308 ATATAACAGGAAGCTCATATGAGTC
1 ATATAACAGGAAGCTCATAAGAGTC
* * ** *
18240333 ATGTAACAGGAAGCTTATCCG-GGC
1 ATATAACAGGAAGCTCATAAGAGTC
18240357 -TATAACAGGAAGCTCATAAGAGTC
1 ATATAACAGGAAGCTCATAAGAGTC
18240381 ATA
1 ATA
18240384 CTCAAGAAGT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
23 16 0.41
24 4 0.10
25 19 0.49
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.22
Consensus pattern (25 bp):
ATATAACAGGAAGCTCATAAGAGTC
Found at i:18247743 original size:20 final size:20
Alignment explanation
Indices: 18247720--18247758 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18247710 AAAAATCATT
**
18247720 AAAATTATTGAAAAAGTATA
1 AAAATTATAAAAAAAGTATA
18247740 AAAATTATAAAAAAAGTAT
1 AAAATTATAAAAAAAGTAT
18247759 TTTTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAATTATAAAAAAAGTATA
Found at i:18247752 original size:29 final size:28
Alignment explanation
Indices: 18247683--18247752 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
18247673 AAATTCGAAT
*
18247683 AAATTATAAAATTTATTTTCAAAAATTAA
1 AAATTATAAAAATTA-TTTCAAAAATTAA
* * *
18247712 AAATCATTAAAATTA-TTGAAAAAGTATAA
1 AAATTATAAAAATTATTTCAAAAA-T-TAA
18247741 AAATTATAAAAA
1 AAATTATAAAAA
18247753 AAGTATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 25 0.76
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATTATAAAAATTATTTCAAAAATTAA
Found at i:18248914 original size:30 final size:30
Alignment explanation
Indices: 18248868--18248991 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
18248858 TTTTATTATG
*
18248868 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
18248899 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
18248929 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
18248959 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
18248989 CCA
1 CCA
18248992 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:18248923 original size:15 final size:15
Alignment explanation
Indices: 18248878--18248985 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
18248868 CCAATATCTC
18248878 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
18248893 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
18248908 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
18248923 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
18248938 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
18248953 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
18248968 GATACCCATATCTTT
1 GATACCCATATCTTT
18248983 GAT
1 GAT
18248986 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:18251043 original size:18 final size:21
Alignment explanation
Indices: 18251009--18251067 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
18250999 TTATTTTCAC
18251009 AAATT-AAATACATTA-TTA-
1 AAATTAAAATACATTATTTAG
*
18251027 AAATTAAAATAGA-TATTTAG
1 AAATTAAAATACATTATTTAG
*
18251047 AAATAAAAATA-ATTATTTAG
1 AAATTAAAATACATTATTTAG
18251067 A
1 A
18251068 TTTAATTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.20
19 10 0.29
20 18 0.51
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATTAAAATACATTATTTAG
Found at i:18252274 original size:23 final size:23
Alignment explanation
Indices: 18252245--18252293 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
18252235 AAGAAGAAGC
*
18252245 TTTTTTTACTATTTTCTTGCTGT
1 TTTTTTTACTATTTTCTTGCTAT
* * *
18252268 TTTTTTTATTGTTTTGTTGCTAT
1 TTTTTTTACTATTTTCTTGCTAT
18252291 TTT
1 TTT
18252294 CTTCTTCTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.73
Consensus pattern (23 bp):
TTTTTTTACTATTTTCTTGCTAT
Found at i:18256812 original size:29 final size:28
Alignment explanation
Indices: 18256743--18256812 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
18256733 AAATTCGAAT
* *
18256743 AAATTATAAAACTTATTTTTAAAAATTAA
1 AAATTATAAAAATTA-TTTGAAAAATTAA
* *
18256772 AAATCATTAAAATTA-TTGAAAAAGTATAA
1 AAATTATAAAAATTATTTGAAAAA-T-TAA
18256801 AAATTATAAAAA
1 AAATTATAAAAA
18256813 AAAGTATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 7 0.21
28 1 0.03
29 25 0.76
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (28 bp):
AAATTATAAAAATTATTTGAAAAATTAA
Found at i:18273105 original size:18 final size:19
Alignment explanation
Indices: 18273082--18273118 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
18273072 AAAATATTTT
*
18273082 TTTATATATAT-AAAAATA
1 TTTATAAATATCAAAAATA
18273100 TTTATAAATATCAAAAATA
1 TTTATAAATATCAAAAATA
18273119 AAATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTATAAATATCAAAAATA
Found at i:18274922 original size:17 final size:16
Alignment explanation
Indices: 18274897--18274946 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
18274887 ATTTATATTT
*
18274897 TAATTATTATTAAATTA
1 TAATCATTA-TAAATTA
18274914 TAATCATTATAAATT-
1 TAATCATTATAAATTA
*
18274929 TAAAT-ATTATATATTA
1 T-AATCATTATAAATTA
18274945 TA
1 TA
18274947 TATTTGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 11 0.38
16 10 0.34
17 8 0.28
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATCATTATAAATTA
Found at i:18274944 original size:22 final size:25
Alignment explanation
Indices: 18274910--18274957 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
18274900 TTATTATTAA
18274910 ATTATAATCATTATAAATTT-AAAT
1 ATTATAATCATTATAAATTTGAAAT
*
18274934 ATTAT-AT-ATTATATATTTGAAAT
1 ATTATAATCATTATAAATTTGAAAT
18274957 A
1 A
18274958 AATTTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 7 0.32
24 5 0.23
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTATAATCATTATAAATTTGAAAT
Found at i:18277554 original size:31 final size:33
Alignment explanation
Indices: 18277518--18277578 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
18277508 TTAAATTTTG
*
18277518 AGTTGGAGTTATTTTGAA-TATG-AATTTTCTT
1 AGTTGGAATTATTTTGAATTATGTAATTTTCTT
18277549 AGTTGGAATTATTTTGAATTATGTAATTTT
1 AGTTGGAATTATTTTGAATTATGTAATTTT
18277579 AGATCTTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 17 0.63
32 4 0.15
33 6 0.22
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.52
Consensus pattern (33 bp):
AGTTGGAATTATTTTGAATTATGTAATTTTCTT
Found at i:18278565 original size:24 final size:24
Alignment explanation
Indices: 18278525--18278573 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
18278515 CAAATAATTT
18278525 AAAAATATAAAATATTCAAAATAAA
1 AAAAATATAAAATATTCAAAA-AAA
18278550 AAAAAT-TATAAA-ATTCAAAAAAA
1 AAAAATATA-AAATATTCAAAAAAA
18278573 A
1 A
18278574 TGAAATACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 9 0.39
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (24 bp):
AAAAATATAAAATATTCAAAAAAA
Found at i:18291297 original size:92 final size:83
Alignment explanation
Indices: 18291119--18291300 Score: 204
Period size: 92 Copynumber: 2.1 Consensus size: 83
18291109 CTTAAGGGCG
* * *
18291119 TAAAAAACCCTCAAACTTTTTCAAAAAAAGTAATTAAGCCTTGTTTTTTTCACTCAATTGGGTAC
1 TAAAAAACCCTCAAACTCTTTCAAAAAAAGCAATTAAGCCTTGTTTTTTTCACTCAATTGGATAC
* *
18291184 TTGAACTTTCAAAATGTA
66 TTGAACTTCCAAAATGCA
* *
18291202 TAAAAAAGGCCCTCAAACTCTTTCAAAAAAAAGCAATTAAGCCCCTACTTTTTTTTTTGCACTTA
1 TAAAAAA--CCCTCAAACTCTTTC-AAAAAAAGCAATTAAG---C--CTTGTTTTTTT-CACTCA
18291267 ATTGGATACTTGAA-TTGCCAAAATGCA
57 ATTGGATACTTGAACTT-CCAAAATGCA
18291294 TAAAAAA
1 TAAAAAA
18291301 AACCCTTTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
83 7 0.09
85 14 0.17
86 15 0.18
89 1 0.01
91 12 0.15
92 33 0.40
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (83 bp):
TAAAAAACCCTCAAACTCTTTCAAAAAAAGCAATTAAGCCTTGTTTTTTTCACTCAATTGGATAC
TTGAACTTCCAAAATGCA
Found at i:18291493 original size:19 final size:19
Alignment explanation
Indices: 18291459--18291507 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
18291449 AAAATTTTAA
*
18291459 TAAAAA-TATAAAAAATATT
1 TAAAAATTAT-AAAAATAGT
18291478 TAAAAATTATAAAAATAGT
1 TAAAAATTATAAAAATAGT
*
18291497 AAAAAATTATA
1 TAAAAATTATA
18291508 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAATTATAAAAATAGT
Found at i:18291620 original size:20 final size:20
Alignment explanation
Indices: 18291592--18291644 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
18291582 AAGTTTTAAG
18291592 AAAAA-TATAAAAAATGTAA
1 AAAAATTATAAAAAATGTAA
**
18291611 AAAAATTATAAAATTTGTAA
1 AAAAATTATAAAAAATGTAA
18291631 AAAAATTATAAAAA
1 AAAAATTATAAAAA
18291645 TTACCGTACC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAAATTATAAAAAATGTAA
Found at i:18291888 original size:9 final size:9
Alignment explanation
Indices: 18291855--18291913 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
18291845 AAAAATACAT
18291855 TTTTTTAATA
1 TTTTTT-ATA
18291865 TTTTTTATGA
1 TTTTTTAT-A
18291875 -TTTTTATA
1 TTTTTTATA
*
18291883 TTTTTTCTAA
1 TTTTTTAT-A
18291893 TTTTTTA-A
1 TTTTTTATA
*
18291901 TTTTTAATA
1 TTTTTTATA
18291910 TTTT
1 TTTT
18291914 ATTAAAGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
8 8 0.19
9 20 0.48
10 14 0.33
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTTTATA
Found at i:18291918 original size:18 final size:17
Alignment explanation
Indices: 18291856--18291969 Score: 63
Period size: 19 Copynumber: 6.3 Consensus size: 17
18291846 AAAATACATT
18291856 TTTTTAATATTTT-TTATGA
1 TTTTT-ATATTTTATTA--A
*
18291875 TTTTTATATTTTTTCTAA
1 TTTTTATATTTTAT-TAA
*
18291893 TTTTT-TAATTT-TTAA
1 TTTTTATATTTTATTAA
* *
18291908 TATTTTATTAAAGTTTAATAA
1 T-TTTTA-T--ATTTTATTAA
*
18291929 TTTTTATAAGTTTTATTGA
1 TTTTTAT-A-TTTTATTAA
*
18291948 TTTTTATTTTTTATTAA
1 TTTTTATATTTTATTAA
18291965 TTTTT
1 TTTTT
18291970 TTGTCACATG
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
15 4 0.05
16 5 0.06
17 18 0.23
18 16 0.21
19 20 0.26
20 11 0.14
21 4 0.05
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (17 bp):
TTTTTATATTTTATTAA
Found at i:18291934 original size:10 final size:10
Alignment explanation
Indices: 18291856--18291969 Score: 52
Period size: 10 Copynumber: 12.5 Consensus size: 10
18291846 AAAATACATT
18291856 TTTTTAAT-A
1 TTTTTAATAA
* *
18291865 TTTTTTATGA
1 TTTTTAATAA
18291875 TTTTT-AT-A
1 TTTTTAATAA
**
18291883 TTTTTTCTAA
1 TTTTTAATAA
18291893 TTTTT--TAA
1 TTTTTAATAA
18291901 TTTTTAAT-A
1 TTTTTAATAA
*
18291910 -TTTTATTAA
1 TTTTTAATAA
**
18291919 AGTTTAATAA
1 TTTTTAATAA
18291929 TTTTT-ATAA
1 TTTTTAATAA
* * *
18291938 GTTTTATTGA
1 TTTTTAATAA
18291948 TTTTT-AT--
1 TTTTTAATAA
*
18291955 TTTTTATTAA
1 TTTTTAATAA
18291965 TTTTT
1 TTTTT
18291970 TTGTCACATG
Statistics
Matches: 81, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
7 5 0.06
8 21 0.26
9 21 0.26
10 34 0.42
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:18291970 original size:18 final size:18
Alignment explanation
Indices: 18291875--18291970 Score: 70
Period size: 18 Copynumber: 5.3 Consensus size: 18
18291865 TTTTTTATGA
**
18291875 TTTTTATATTTTTTCTAAT
1 TTTTTA-ATTTTTAATAAT
18291894 TTTTTAATTTTTAAT-AT
1 TTTTTAATTTTTAATAAT
**
18291911 TTTATTAAAGTTTAATAAT
1 TTT-TTAATTTTTAATAAT
* * *
18291930 TTTTATAAGTTTTATTGA-
1 TTTT-TAATTTTTAATAAT
* *
18291948 TTTTTATTTTTTATTAAT
1 TTTTTAATTTTTAATAAT
18291966 TTTTT
1 TTTTT
18291971 TGTCACATGT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
17 15 0.24
18 27 0.44
19 20 0.32
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTAATTTTTAATAAT
Found at i:18292279 original size:87 final size:87
Alignment explanation
Indices: 18292074--18292302 Score: 225
Period size: 87 Copynumber: 2.6 Consensus size: 87
18292064 ATCAAATGGT
* *
18292074 CTTTTTAATGCATTTTGACAA-TTTAAGTACCCAATTGAGTGTAAAAAAAAAGTAAGGGCTTAAT
1 CTTTTTAATGCATTTT-AAAAGTTTAAGTACCTAATTGAGTG-AAAAAAAAAG--AGGGCTTAAT
* *
18292138 TGCTTTTTTTGAAAAAGGTTAAGGGT
62 AGCTTTTTTTGAAAAAGGTTAAGGGC
* * * * *
18292164 CTTTTTGATGCATTTTGAAAGTTCAAGTACCTAATTGAGTGCAAAAAAAAG-GGGCTTTATAGCT
1 CTTTTTAATGCATTTTAAAAGTTTAAGTACCTAATTGAGTGAAAAAAAAAGAGGGCTTAATAGC-
* **
18292228 TTTTTTTTG-AAAATGTTCGGGGGC
65 -TTTTTTTGAAAAAGGTT-AAGGGC
18292252 CTTTTT-ATGCATTTTAAAAGTTTAAGTA-CTAAATTGAGTGGAAAAAGAAAA
1 CTTTTTAATGCATTTTAAAAGTTTAAGTACCT-AATTGAGT-GAAAAA-AAAA
18292303 AGGCAGGAGC
Statistics
Matches: 117, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
86 12 0.10
87 35 0.30
88 22 0.19
89 15 0.13
90 33 0.28
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (87 bp):
CTTTTTAATGCATTTTAAAAGTTTAAGTACCTAATTGAGTGAAAAAAAAAGAGGGCTTAATAGCT
TTTTTTGAAAAAGGTTAAGGGC
Found at i:18314021 original size:16 final size:16
Alignment explanation
Indices: 18314002--18314051 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
18313992 ATATTTAATC
18314002 ATATAATAAATTATTA
1 ATATAATAAATTATTA
18314018 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
18314031 ATTTAATAAAATATTTA
1 ATATAATAAATTA-TTA
18314048 ATAT
1 ATAT
18314052 TGTGATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
13 12 0.44
16 9 0.33
17 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:18314026 original size:29 final size:30
Alignment explanation
Indices: 18313994--18314051 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
18313984 ACATATTTAT
* *
18313994 ATTTAATCATATAATAAATTA-TTAATATA
1 ATTTAATAATATAATAAAATATTTAATATA
* *
18314023 ATTTATTAATTTAATAAAATATTTAATAT
1 ATTTAATAATATAATAAAATATTTAATAT
18314052 TGTGATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
ATTTAATAATATAATAAAATATTTAATATA
Found at i:18314136 original size:21 final size:22
Alignment explanation
Indices: 18314094--18314160 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
18314084 AACAAAAAAA
*
18314094 ATTAATATTTTAA-GTAATATTC
1 ATTAATATTTTAATG-AAAATTC
*
18314116 -TTAATAATTTAATGAAAATTC
1 ATTAATATTTTAATGAAAATTC
18314137 ATATTAATATTTTAATGATAAATT
1 --ATTAATATTTTAATGA-AAATT
18314161 AGTTTTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 17 0.46
22 1 0.03
24 14 0.38
25 5 0.14
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTAATATTTTAATGAAAATTC
Found at i:18318553 original size:22 final size:22
Alignment explanation
Indices: 18318525--18318569 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
18318515 GATCCTTAAC
*
18318525 TTTGAAAGTAATTTAATGAAAT
1 TTTGAAAATAATTTAATGAAAT
18318547 TTTGAAAATAATTTAATGAAAT
1 TTTGAAAATAATTTAATGAAAT
18318569 T
1 T
18318570 CAAGCTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (22 bp):
TTTGAAAATAATTTAATGAAAT
Found at i:18318802 original size:26 final size:28
Alignment explanation
Indices: 18318737--18318808 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
18318727 ATAAGAAAAT
* *
18318737 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
*
18318767 TTATTATTAAATTATATGTAATAATA-A
1 TTATTATTAAATTATATGAAATAATATA
18318794 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
18318809 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 14 0.36
29 1 0.03
30 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:18318998 original size:18 final size:17
Alignment explanation
Indices: 18318970--18319004 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18318960 ATTATTAAGA
*
18318970 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18318987 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18319005 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18319006 original size:28 final size:27
Alignment explanation
Indices: 18318974--18319046 Score: 76
Period size: 28 Copynumber: 2.7 Consensus size: 27
18318964 TTAAGAATTT
18318974 TATTAAATTATATATTTTAATTAAAATA
1 TATTAAATTATATATTTT-ATTAAAATA
* * * *
18319002 TATTAAATAATA-ATTATGTTTAAATA
1 TATTAAATTATATATTTTATTAAAATA
*
18319028 TGATTAAATTATTTATTTT
1 T-ATTAAATTATATATTTT
18319047 TGATAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 8 0.22
27 13 0.36
28 15 0.42
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
TATTAAATTATATATTTTATTAAAATA
Found at i:18319215 original size:44 final size:45
Alignment explanation
Indices: 18319166--18319260 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
18319156 TTACACCTCT
* *
18319166 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
18319210 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
18319255 ATTACA
1 ATTACA
18319261 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:18319260 original size:16 final size:16
Alignment explanation
Indices: 18319241--18319292 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
18319231 GATTTGCTAT
* *
18319241 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
18319257 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18319273 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18319289 TACA
1 TACA
18319293 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18329483 original size:16 final size:16
Alignment explanation
Indices: 18329451--18329480 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18329441 AACAGTTTAA
18329451 AAAATAATAGTATAAT
1 AAAATAATAGTATAAT
18329467 AAAATAATA-TATAA
1 AAAATAATAGTATAA
18329481 ATAGGTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAATAATAGTATAAT
Found at i:18330390 original size:10 final size:10
Alignment explanation
Indices: 18330377--18330406 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
18330367 AAAAATCAAG
18330377 GAAAATCCCC
1 GAAAATCCCC
18330387 GAAAATCCCC
1 GAAAATCCCC
18330397 GAAAATCCCC
1 GAAAATCCCC
18330407 TATGTTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.10, T:0.10
Consensus pattern (10 bp):
GAAAATCCCC
Found at i:18331247 original size:129 final size:129
Alignment explanation
Indices: 18331027--18331288 Score: 346
Period size: 129 Copynumber: 2.0 Consensus size: 129
18331017 TCTAGTCGGC
* ** * * *
18331027 AAGACTTGATGCGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACCTTAATCCGCCC
* * * * *
18331092 CACTACAACTTCAGGAAGGTAGGATTATCGACCTCAATCTGCTCCACTGCAATCTCAGGGATAT
66 CACTACAACTTCAGGAAGATAAGATTATCGACCTCAATCTGCTACACTGCAACCTCAGGGAGAT
** * *
18331156 AAGACCTGATGCGATCCACTCTGTTGCAACTTCAGAGAGGTAAGATCTATTACCTTAATTCGCCC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACCTTAATCCGCCC
* * *
18331221 CACTACAACTTTA-GAGAGATAAGATTATCGGCTTCAATCTGCTACACTGCAACCTCAGGGAGAT
66 CACTACAACTTCAGGA-AGATAAGATTATCGACCTCAATCTGCTACACTGCAACCTCAGGGAGAT
18331285 AAGA
1 AAGA
18331289 TTTGCTTCTT
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
128 2 0.02
129 112 0.98
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (129 bp):
AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACCTTAATCCGCCC
CACTACAACTTCAGGAAGATAAGATTATCGACCTCAATCTGCTACACTGCAACCTCAGGGAGAT
Found at i:18331300 original size:44 final size:43
Alignment explanation
Indices: 18331252--18331377 Score: 121
Period size: 44 Copynumber: 2.9 Consensus size: 43
18331242 AGATTATCGG
* * *
18331252 CTTCAATCTG-CTACACTGCAACCTCAGGGAGATAAGATTTGCTT
1 CTTCAGTCTGCCT-CACTGCAACTTCAGGGAGATAAGACTTG-TT
** *
18331296 CTTCAGTCTGCCTCACTGTGACTTCAGGGGGATAAGACTTGTT
1 CTTCAGTCTGCCTCACTGCAACTTCAGGGAGATAAGACTTGTT
* * *
18331339 TTCTCAGTC-GTCTCCGCTGCAACTTCAGGGAGATAAGAC
1 CT-TCAGTCTGCCT-CACTGCAACTTCAGGGAGATAAGAC
18331378 CCGATGCGAT
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 6 0.09
44 59 0.88
45 2 0.03
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.29
Consensus pattern (43 bp):
CTTCAGTCTGCCTCACTGCAACTTCAGGGAGATAAGACTTGTT
Found at i:18331676 original size:87 final size:87
Alignment explanation
Indices: 18331557--18331819 Score: 427
Period size: 87 Copynumber: 3.0 Consensus size: 87
18331547 ACTTGTAATC
* * * * * *
18331557 TTCGATCTGCTTCACTGTCGACGTAAGAAGGCAAGATCTACTATCTTTAACCAGTTCCACTAAAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
18331622 CCAATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * *
18331644 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCAACTACAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
*
18331709 CCGATGGAGGCAAGGCTTTATT
66 CCGATGGAGGCAAGGCTTTGTT
18331731 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
18331796 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
18331818 TT
1 TT
18331820 TTATCTTCAC
Statistics
Matches: 161, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 161 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:18331765 original size:43 final size:43
Alignment explanation
Indices: 18331629--18331765 Score: 104
Period size: 43 Copynumber: 3.2 Consensus size: 43
18331619 AAACCAATGG
* * *
18331629 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTATTTTCGATCTGCTTCACTGTCAACGCAGGA
* * * * * *
18331672 AGGCAAGATCTGCTATCTTT-AACCAGC-TCAACT-ACAAC-CGATGG-
1 AGGCAAG-GCT-TTAT-TTTCGATCTGCTTC-ACTGTCAACGC-A-GGA
18331716 AGGCAAGGCTTTATTTTCGATCTGCTTCACTGTCAACGCAGGA
1 AGGCAAGGCTTTATTTTCGATCTGCTTCACTGTCAACGCAGGA
18331759 AGGCAAG
1 AGGCAAG
18331766 ATCTGCTATC
Statistics
Matches: 68, Mismatches: 15, Indels: 22
0.65 0.14 0.21
Matches are distributed among these distances:
41 3 0.04
42 12 0.18
43 24 0.35
44 16 0.24
45 10 0.15
46 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (43 bp):
AGGCAAGGCTTTATTTTCGATCTGCTTCACTGTCAACGCAGGA
Found at i:18333434 original size:22 final size:20
Alignment explanation
Indices: 18333394--18333434 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
18333384 CGTCTTGGCC
*
18333394 TCTCTTTTTCTTTTCTTTTT
1 TCTCTTTTTCTTTTATTTTT
18333414 TCTCTTTTTCATATTTATTTT
1 TCTCTTTTTC-T-TTTATTTT
18333435 AACTTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (20 bp):
TCTCTTTTTCTTTTATTTTT
Found at i:18340288 original size:13 final size:13
Alignment explanation
Indices: 18340270--18340295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18340260 TTTTATTTAT
18340270 TTATTCCCACCGG
1 TTATTCCCACCGG
18340283 TTATTCCCACCGG
1 TTATTCCCACCGG
18340296 CTCGATGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (13 bp):
TTATTCCCACCGG
Found at i:18345667 original size:49 final size:49
Alignment explanation
Indices: 18345614--18345717 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
18345604 TCATGTGTTA
* * *
18345614 TAATTTTATACAGTGTTGAATTTTTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTGAACTTTTGATTCATGATATTAAACTCAATTT
* * *
18345663 TAATTTTATAAAGTGTTTACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTGAACTTTTGATTCATGATATTAAACTCAATTT
18345712 TAATTT
1 TAATTT
18345718 GTTTTTTTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.51
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTGAACTTTTGATTCATGATATTAAACTCAATTT
Found at i:18347219 original size:18 final size:18
Alignment explanation
Indices: 18347198--18347332 Score: 99
Period size: 18 Copynumber: 7.9 Consensus size: 18
18347188 ATACTAAAAA
18347198 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
18347216 TTTTATTAAA--ATATA-
1 TTTTATTAAATTATATAT
* *
18347231 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * * *
18347246 TTTAAATTATATTTTATAG
1 TTT-TATTAAATTATATAT
* * *
18347265 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
18347280 TTTTAGTAAATTCATATAT
1 TTTTATTAAATT-ATATAT
18347299 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
18347317 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
18347333 TTAATAATAA
Statistics
Matches: 91, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
13 2 0.02
14 7 0.08
15 6 0.07
16 13 0.14
17 11 0.12
18 37 0.41
19 15 0.16
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:18347305 original size:59 final size:58
Alignment explanation
Indices: 18347118--18347314 Score: 177
Period size: 59 Copynumber: 3.3 Consensus size: 58
18347108 ATTATATTTA
18347118 ATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
1 ATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
* * * * * * ** * * *
18347177 A-AGAATATTTAATACTAAAAATTTTATTA-AATTATATATTTTTATTAAAATATATTTA-AT
1 ATA-ATTATTTAA-A-T-TATATTTTA-TAGTATTATATATTATGATTTTAGTAAATTCATAT
18347237 AATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
1 -ATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
**
18347297 ATTTTTA-TTAAATTATAT
1 ATAATTATTTAAATTATAT
18347315 ATTTTTATTA
Statistics
Matches: 104, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 38 0.37
60 6 0.06
61 33 0.32
62 8 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (58 bp):
ATAATTATTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATAT
Found at i:18347586 original size:16 final size:16
Alignment explanation
Indices: 18347565--18347600 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
18347555 AGGATTACCT
18347565 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
18347581 ATTACGCCTCTATTTC
1 ATTACGCCTCTATTCC
18347597 ATTA
1 ATTA
18347601 AAGCGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:18350386 original size:68 final size:69
Alignment explanation
Indices: 18350301--18350436 Score: 188
Period size: 69 Copynumber: 2.0 Consensus size: 69
18350291 TTCCCTTGCT
* *
18350301 GTTGATTTCATGTTCTTTT-CTGATTTTTATTTCAG-TTTT-TATGTCATTAAATACTGGTTTAA
1 GTTGATTTCATGCTCTTTTCCT-A-ATTTATTTCAGTTTTTATATGTCATTAAATACTGGTTTAA
18350363 GTTGAA
64 GTTGAA
* * *
18350369 GTTGATTTCATGCTCTTTTCCTAATTTATTTCTGTTTTTATATGTCATTAAATATTTGTTTAAGT
1 GTTGATTTCATGCTCTTTTCCTAATTTATTTCAGTTTTTATATGTCATTAAATACTGGTTTAAGT
18350434 TGA
66 TGA
18350437 CATTATTGTG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
67 9 0.15
68 23 0.38
69 28 0.47
ACGTcount: A:0.22, C:0.10, G:0.13, T:0.55
Consensus pattern (69 bp):
GTTGATTTCATGCTCTTTTCCTAATTTATTTCAGTTTTTATATGTCATTAAATACTGGTTTAAGT
TGAA
Found at i:18355421 original size:20 final size:20
Alignment explanation
Indices: 18355396--18355445 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
18355386 ACTTACAAGA
*
18355396 TGTATGGGTAGAAGTGGACT
1 TGTATGGGTAGAAATGGACT
18355416 TGTATGGGTAGAAATGGACT
1 TGTATGGGTAGAAATGGACT
*
18355436 TGTATCGGTA
1 TGTATGGGTA
18355446 TAACTAGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.26, C:0.06, G:0.36, T:0.32
Consensus pattern (20 bp):
TGTATGGGTAGAAATGGACT
Found at i:18356530 original size:91 final size:90
Alignment explanation
Indices: 18356384--18356558 Score: 210
Period size: 91 Copynumber: 1.9 Consensus size: 90
18356374 TGAGAGAGAG
* ** *
18356384 AAATCTTTTCAAAAAAAAAAAAGTTAAGCTCCGGTTTCTTTTCTCTCGCTTGGGTATTTAAACTT
1 AAATCTTTTCAAAAAAAAAAAAGTTAAGCTCCGGTTTCTTTTCACTCAATTGGGTACTTAAACTT
*
18356449 TCACAATACATAAAAAAGAACTTCA
66 TCAAAATACATAAAAAAGAACTTCA
* * * *
18356474 AAAT-TTTTCAAAAAAAAAACAA-TTAAGGCTCTGTTTTTTTTTTCACTCAATTGGGTACTTGAA
1 AAATCTTTTCAAAAAAAAAA-AAGTTAA-GCTCCG-GTTTCTTTTCACTCAATTGGGTACTTAAA
* *
18356537 CTTTCAAAATGCATTAAAAAGA
63 CTTTCAAAATACATAAAAAAGA
18356559 CCCTCAAACT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
89 19 0.27
90 11 0.15
91 41 0.58
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (90 bp):
AAATCTTTTCAAAAAAAAAAAAGTTAAGCTCCGGTTTCTTTTCACTCAATTGGGTACTTAAACTT
TCAAAATACATAAAAAAGAACTTCA
Found at i:18356696 original size:6 final size:7
Alignment explanation
Indices: 18356679--18356713 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
18356669 TGACACGTGG
18356679 AAAAAAT
1 AAAAAAT
18356686 AAAAAAT
1 AAAAAAT
18356693 AAAAAAT
1 AAAAAAT
18356700 AAAAAAT
1 AAAAAAT
18356707 ATAAAAA
1 A-AAAAA
18356714 AATTAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:18356729 original size:28 final size:26
Alignment explanation
Indices: 18356697--18356773 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 26
18356687 AAAAATAAAA
18356697 AATAAAAAATATAAAAAAATTAAATTTT
1 AATAAAAAAT-TAAAAAAATTAAA-TTT
*
18356725 AATAAAAAATTTAAAAAATTTTAAATTT
1 AATAAAAAA-TTAAAAAA-ATTAAATTT
*
18356753 -ATTAAAAATTAGAAAAAATTA
1 AATAAAAAATTA-AAAAAATTA
18356774 GAAAAATTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
26 6 0.14
27 12 0.28
28 19 0.44
29 6 0.14
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (26 bp):
AATAAAAAATTAAAAAAATTAAATTT
Found at i:18356762 original size:27 final size:29
Alignment explanation
Indices: 18356697--18356760 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
18356687 AAAAATAAAA
* *
18356697 AATAAAAAATATAAAAAA-ATTAAATTTT
1 AATAAAAAATTTAAAAAATTTTAAATTTT
18356725 AATAAAAAATTTAAAAAATTTTAAA-TTT
1 AATAAAAAATTTAAAAAATTTTAAATTTT
*
18356753 ATTAAAAA
1 AATAAAAA
18356761 TTAGAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 27 0.84
29 5 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
AATAAAAAATTTAAAAAATTTTAAATTTT
Found at i:18356832 original size:29 final size:30
Alignment explanation
Indices: 18356800--18356883 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 30
18356790 TTTAAAAGTA
18356800 TATAGAAATATAGACAAATTATAAAAT-TT-
1 TATAGAAATATAGA-AAATTATAAAATATTG
* *
18356829 TATA-AAGTCGTAAGAAAATTATAAAATATTG
1 TATAGAAAT-AT-AGAAAATTATAAAATATTG
* *
18356860 TAAAGAAATATA-AAATTTATAAAA
1 TATAGAAATATAGAAAATTATAAAA
18356884 AAATATAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
28 3 0.07
29 28 0.64
30 6 0.14
31 4 0.09
32 3 0.07
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.32
Consensus pattern (30 bp):
TATAGAAATATAGAAAATTATAAAATATTG
Found at i:18356887 original size:19 final size:20
Alignment explanation
Indices: 18356843--18356893 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
18356833 AAGTCGTAAG
* *
18356843 AAAATTATAAAATATTGTAA
1 AAAAATATAAAATATTATAA
*
18356863 AGAAATATAAAAT-TTATAA
1 AAAAATATAAAATATTATAA
18356882 AAAAATATAAAA
1 AAAAATATAAAA
18356894 AATATCGTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAATATAAAATATTATAA
Found at i:18380279 original size:19 final size:18
Alignment explanation
Indices: 18380242--18380280 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
18380232 AATTTGAAAC
**
18380242 AAAACATAAATTTTTGGA
1 AAAACATAAATTTCGGGA
18380260 AAAACATGAAATTTCGGGA
1 AAAACAT-AAATTTCGGGA
18380279 AA
1 AA
18380281 CTGGGTCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.26
Consensus pattern (18 bp):
AAAACATAAATTTCGGGA
Found at i:18385627 original size:40 final size:40
Alignment explanation
Indices: 18385581--18385658 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
18385571 TACTTATCGG
18385581 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATATTT
1 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATATTT
18385621 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATAT
1 ATAAGCATTCATACTTTCATAAATATGGCTAAGCATAT
18385659 CTGTCGATCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (40 bp):
ATAAGCATTCATACTTTCATAAATATGGCTAAGCATATTT
Found at i:18394177 original size:26 final size:27
Alignment explanation
Indices: 18394097--18394195 Score: 112
Period size: 27 Copynumber: 3.7 Consensus size: 27
18394087 CCCTTATAGG
*
18394097 GTAAAATTATCGAAATACCCCTAGTTT
1 GTAAAATTATCGAAATACCCCCAGTTT
*
18394124 GTAAAATTATCGAAATACCCTC-GATTT
1 GTAAAATTATCGAAATACCCCCAG-TTT
* *
18394151 GTGAAATTATTG-AATACCCCCAGTTT
1 GTAAAATTATCGAAATACCCCCAGTTT
* * *
18394177 GCAAAATTACCAAAATACC
1 GTAAAATTATCGAAATACC
18394196 TCTGTAGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 19 0.32
27 40 0.68
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCCCAGTTT
Found at i:18394686 original size:27 final size:26
Alignment explanation
Indices: 18394596--18394700 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 26
18394586 ATCTTGATTA
*
18394596 TGGCTTTGTGCCAATCATATTTACCCG
1 TGGCTATGTGCCAATCATA-TTACCCG
* **
18394623 TGGCTATGTGTCTAA-CATATATA-TTG
1 TGGCTATGTG-CCAATCATAT-TACCCG
* *
18394649 ATGACTCTGTGCCAATCATAATTACCCG
1 -TGGCTATGTGCCAATCAT-ATTACCCG
* *
18394677 TGGCTGTGTGCCAATTATATTACC
1 TGGCTATGTGCCAATCATATTACC
18394701 GTCACTGATG
Statistics
Matches: 60, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
26 11 0.18
27 43 0.72
28 6 0.10
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
TGGCTATGTGCCAATCATATTACCCG
Found at i:18395803 original size:37 final size:37
Alignment explanation
Indices: 18395747--18395952 Score: 265
Period size: 37 Copynumber: 5.6 Consensus size: 37
18395737 CTTAGTGTTG
* * * *
18395747 TGGCGTGTAATCAATTGGATTAGATCTTATGAGCATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
18395784 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
* *
18395821 TGGCGTGTTTTCGAGTAGATTAGCTCTTATGAGCATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
* * *
18395858 TGGCGTGCTATCTAGTGGATTAGCTCTTATGAACATT
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
* * *
18395895 TGGCATGTTATTGGGTGGATTAGCTCTTATGAGCGA-T
1 TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGC-ATT
18395932 TGGCGTGTT-TCG-GTTGGATTA
1 TGGCGTGTTATCGAG-TGGATTA
18395953 CTTGTGTACT
Statistics
Matches: 148, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
35 1 0.01
36 9 0.06
37 137 0.93
38 1 0.01
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.39
Consensus pattern (37 bp):
TGGCGTGTTATCGAGTGGATTAGCTCTTATGAGCATT
Found at i:18400648 original size:41 final size:41
Alignment explanation
Indices: 18400587--18400700 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
18400577 TTAATTTAAA
* * *
18400587 CAGATTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
18400629 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
* *
18400670 CAGATTACCGGCACGTAGCCTGCTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTA
18400701 AAGTCTGAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 61 0.94
42 4 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
Found at i:18408280 original size:41 final size:41
Alignment explanation
Indices: 18408219--18408332 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 41
18408209 TTAATTTAAA
* * *
18408219 CAGATTCAACGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
* *
18408261 CAGATCACTGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
* *
18408302 CAGATCACCGGCACGTAGCCTGTTAGACTTA
1 CAGATCACCGGCACGTAGCCTGCTAGGCTTA
18408333 AAGTCTGAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
41 59 0.94
42 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
Found at i:18417486 original size:22 final size:20
Alignment explanation
Indices: 18417438--18417488 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 20
18417428 GATGAGATTG
18417438 TTAAAA-AAAATTATTTTCT
1 TTAAAATAAAATTATTTTCT
18417457 TTCAAAAATAAAATTATTTTACT
1 TT--AAAATAAAATTATTTT-CT
18417480 ATTAAAATA
1 -TTAAAATA
18417489 TTAAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.07
21 4 0.15
22 17 0.63
23 2 0.07
24 2 0.07
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAATAAAATTATTTTCT
Found at i:18436219 original size:23 final size:21
Alignment explanation
Indices: 18436179--18436220 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
18436169 ATTTCTAAAA
*
18436179 TAATATAAAAAATGATTTATT
1 TAATATAAAAAATAATTTATT
18436200 TAATGATAAAAAATTAATTTA
1 TAAT-ATAAAAAA-TAATTTA
18436221 ACCTGACTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TAATATAAAAAATAATTTATT
Done.