Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 373 of 444
Found at i:108388835 original size:19 final size:20
Alignment explanation
Indices: 108388811--108388853 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
108388801 GGTCTTTTCG
* *
108388811 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGAA
108388830 TGAAATGTAATGCAAATGAA
1 TGAAATGTAATGCAAATGAA
108388850 TGAA
1 TGAA
108388854 TGCAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGAA
Found at i:108393001 original size:25 final size:25
Alignment explanation
Indices: 108392955--108393002 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
108392945 TTGGAAACAT
*
108392955 TTTAAAATGAACATTATATAAAAAA
1 TTTAAAATGAACAATATATAAAAAA
* * *
108392980 TTTAAATTGAATAATATGTAAAA
1 TTTAAAATGAACAATATATAAAA
108393003 TAGTAAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
TTTAAAATGAACAATATATAAAAAA
Found at i:108393116 original size:49 final size:48
Alignment explanation
Indices: 108393063--108393159 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
108393053 ATAAAGAGGG
* * *
108393063 TTTAAAATAAATAATATATATAATAGTTTA-ACTACATAATGTATATAAA
1 TTTAAAATAAATAATATATA-AA-AGTCTAGAATAAATAATGTATATAAA
*
108393112 TTTAAAATAAATAATATGTAAAAGTCTAGAATAAATAATGTATATAAA
1 TTTAAAATAAATAATATATAAAAGTCTAGAATAAATAATGTATATAAA
108393160 AAAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 5 0.12
48 19 0.44
49 19 0.44
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (48 bp):
TTTAAAATAAATAATATATAAAAGTCTAGAATAAATAATGTATATAAA
Found at i:108394373 original size:18 final size:18
Alignment explanation
Indices: 108394350--108394395 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
108394340 GTTTTTTTGC
*
108394350 TTTTTGTTTCCTGCTTCT
1 TTTTTGTTTCCTCCTTCT
**
108394368 TTTTTGTTTTTTCCTTCT
1 TTTTTGTTTCCTCCTTCT
*
108394386 TTTTTTTTTC
1 TTTTTGTTTC
108394396 TTGTGTTTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.76
Consensus pattern (18 bp):
TTTTTGTTTCCTCCTTCT
Found at i:108399426 original size:23 final size:23
Alignment explanation
Indices: 108399396--108399452 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
108399386 ATGGAATATG
*
108399396 ATTAGCACTTCGATGCTTCTATA
1 ATTAGCACTTCGATGCATCTATA
* *
108399419 ATTAGCACTTCGATGCATCTGTT
1 ATTAGCACTTCGATGCATCTATA
*
108399442 ATTGGCACTTC
1 ATTAGCACTTC
108399453 AATATATTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (23 bp):
ATTAGCACTTCGATGCATCTATA
Found at i:108400592 original size:14 final size:14
Alignment explanation
Indices: 108400573--108400608 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
108400563 TAAATTAAAA
108400573 ATAATATTTTTTAT
1 ATAATATTTTTTAT
108400587 ATAATA-TTTTTAT
1 ATAATATTTTTTAT
108400600 ATTAATATT
1 A-TAATATT
108400609 AGAATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.40
14 11 0.55
15 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATAATATTTTTTAT
Found at i:108400631 original size:24 final size:24
Alignment explanation
Indices: 108400587--108400649 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
108400577 TATTTTTTAT
*
108400587 ATAATATTTTTATATTAATATT-AGA
1 ATAATA-TTTTATTTTAATATTGA-A
*
108400612 ATAATATTTTATTTTTATATTGAA
1 ATAATATTTTATTTTAATATTGAA
*
108400636 AAAATTATTTTATT
1 ATAA-TATTTTATT
108400650 AAATATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (24 bp):
ATAATATTTTATTTTAATATTGAA
Found at i:108402426 original size:8 final size:9
Alignment explanation
Indices: 108402405--108402435 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
108402395 TATAATTTAC
108402405 AAAAATATT
1 AAAAATATT
108402414 AAAAATATT
1 AAAAATATT
108402423 AAAAATA-T
1 AAAAATATT
108402431 AAAAA
1 AAAAA
108402436 AGAAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAATATT
Found at i:108403985 original size:5 final size:5
Alignment explanation
Indices: 108403975--108404000 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
108403965 GATTTAAGCA
108403975 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
108404001 CAAAGAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:108411087 original size:17 final size:17
Alignment explanation
Indices: 108411060--108411102 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
108411050 ATTGTGTTAA
108411060 AAATT-ATTTAATT-GT
1 AAATTAATTTAATTAGT
108411075 GAAATTAATTTAATTAAGT
1 -AAATTAATTTAATT-AGT
108411094 AAATTAATT
1 AAATTAATT
108411103 AAATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.21
17 8 0.33
18 9 0.38
19 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (17 bp):
AAATTAATTTAATTAGT
Found at i:108414517 original size:5 final size:5
Alignment explanation
Indices: 108414507--108414539 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
108414497 AGAGTTGCCC
108414507 ATAAT ATAAT ATAAT ATAAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT AT-AAT ATAAT ATAAT AT
108414540 TGCAACTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:108414530 original size:11 final size:11
Alignment explanation
Indices: 108414507--108414536 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
108414497 AGAGTTGCCC
108414507 ATAATAT-AAT
1 ATAATATAAAT
108414517 ATAATATAAAT
1 ATAATATAAAT
108414528 ATAATATAA
1 ATAATATAA
108414537 TATTGCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:108414530 original size:16 final size:16
Alignment explanation
Indices: 108414509--108414539 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
108414499 AGTTGCCCAT
108414509 AATATAATATAATATA
1 AATATAATATAATATA
108414525 AATATAATATAATAT
1 AATATAATATAATAT
108414540 TGCAACTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATATAATATAATATA
Found at i:108417844 original size:29 final size:30
Alignment explanation
Indices: 108417779--108417850 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
108417769 ATTAGTAATA
*
108417779 ATAAAATTATACTTTAACTTTCTTAAAATG
1 ATAAAATTATAATTTAACTTTCTTAAAATG
* *
108417809 ATAAAAATT-TAATTTAA-TTTTTTAAAAATT
1 AT-AAAATTATAATTTAACTTTCTT-AAAATG
*
108417839 ATAAAAATATAA
1 ATAAAATTATAA
108417851 ACTACTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 10 0.29
30 19 0.54
31 6 0.17
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (30 bp):
ATAAAATTATAATTTAACTTTCTTAAAATG
Found at i:108423013 original size:21 final size:24
Alignment explanation
Indices: 108422978--108423020 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
108422968 ATCCACTGCA
108422978 CTCCCAGTCTCCTT-CCCTCCCTT
1 CTCCCAGTCTCCTTCCCCTCCCTT
108423001 CTCCCA-T-TCCTTCCCCTCCC
1 CTCCCAGTCTCCTTCCCCTCCC
108423021 CTATTAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.05, C:0.60, G:0.02, T:0.33
Consensus pattern (24 bp):
CTCCCAGTCTCCTTCCCCTCCCTT
Found at i:108426203 original size:12 final size:12
Alignment explanation
Indices: 108426176--108426217 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
108426166 AATCTGTGAT
108426176 AATTATAATT-A
1 AATTATAATTGA
108426187 TAATTATAATTGA
1 -AATTATAATTGA
108426200 AATTGA-AATTGA
1 AATT-ATAATTGA
108426212 AATTAT
1 AATTAT
108426218 TAGTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 24 0.89
13 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (12 bp):
AATTATAATTGA
Found at i:108426729 original size:38 final size:36
Alignment explanation
Indices: 108426675--108426752 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 36
108426665 ATTGTTCAAT
* *
108426675 ATATTATTAAATTAATATTAAAA-TAATAATTAGTTA
1 ATATTATTAAATTAATAATAAAAGTAAT-ATTAATTA
*
108426711 ATATTATTATATGATAATAATAAAAGTAATATTAATTA
1 ATATTATTAAAT--TAATAATAAAAGTAATATTAATTA
108426749 ATAT
1 ATAT
108426753 GATGGTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 11 0.31
38 21 0.58
39 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (36 bp):
ATATTATTAAATTAATAATAAAAGTAATATTAATTA
Found at i:108426732 original size:30 final size:30
Alignment explanation
Indices: 108426679--108426755 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
108426669 TTCAATATAT
* * *
108426679 TATTAAATTAATATTAAAATAATAATTAGTTAA
1 TATT-AATTAATATGATAATAATAA-AAG-TAA
108426712 TATT-ATT-ATATGATAATAATAAAAGTAA
1 TATTAATTAATATGATAATAATAAAAGTAA
108426740 TATTAATTAATATGAT
1 TATTAATTAATATGAT
108426756 GGTATATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 7 0.18
29 5 0.13
30 20 0.51
31 3 0.08
33 4 0.10
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (30 bp):
TATTAATTAATATGATAATAATAAAAGTAA
Found at i:108427417 original size:23 final size:24
Alignment explanation
Indices: 108427390--108427439 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
108427380 TTTAATTAGT
108427390 AAATATA-TATTTTAAAATTTTAA
1 AAATATATTATTTTAAAATTTTAA
108427413 AAATATATTATTTTAAAATTTTAA
1 AAATATATTATTTTAAAATTTTAA
108427437 AAA
1 AAA
108427440 ATAAACACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAATATATTATTTTAAAATTTTAA
Found at i:108428616 original size:38 final size:38
Alignment explanation
Indices: 108428560--108428643 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
108428550 AACCGTTGAA
* *
108428560 ATTAAAAATAAGATTGTAAAATAAATTTGTTAGCACTT
1 ATTAGAAATAAGATTGTAAAATAAATTTGTTACCACTT
* *
108428598 ATTAGAAATAAGATTGTAAAATAATTTTGTTACCGCTT
1 ATTAGAAATAAGATTGTAAAATAAATTTGTTACCACTT
*
108428636 AATAGAAA
1 ATTAGAAA
108428644 ATAAACCAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (38 bp):
ATTAGAAATAAGATTGTAAAATAAATTTGTTACCACTT
Found at i:108431532 original size:27 final size:27
Alignment explanation
Indices: 108431494--108431547 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
108431484 AATCTAGGTG
108431494 AATTCTTTCTTGGGTATTGTTTCGCTT
1 AATTCTTTCTTGGGTATTGTTTCGCTT
108431521 AATTCTTTCTTGGGTATTGTTTCGCTT
1 AATTCTTTCTTGGGTATTGTTTCGCTT
108431548 CTTGGTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.11, C:0.15, G:0.19, T:0.56
Consensus pattern (27 bp):
AATTCTTTCTTGGGTATTGTTTCGCTT
Found at i:108440786 original size:19 final size:20
Alignment explanation
Indices: 108440743--108440786 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
108440733 TTAGATTAGG
*
108440743 TAATTTTACATTTGACTACT
1 TAATTTTACATTTGACTAAT
*
108440763 TAATTTTATATTTGA-TAAT
1 TAATTTTACATTTGACTAAT
108440782 TAATT
1 TAATT
108440787 GAGTTGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TAATTTTACATTTGACTAAT
Found at i:108452554 original size:17 final size:18
Alignment explanation
Indices: 108452515--108452554 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
108452505 AATGTTTATC
*
108452515 AATAATAATTATGCATGT
1 AATAATAATTATGCATAT
*
108452533 TATAAT-ATTATGCATAT
1 AATAATAATTATGCATAT
108452550 AATAA
1 AATAA
108452555 ACTTTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (18 bp):
AATAATAATTATGCATAT
Found at i:108453187 original size:3 final size:3
Alignment explanation
Indices: 108453179--108453211 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
108453169 CTCCACCAAT
108453179 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
108453212 AAAAAGAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:108460543 original size:24 final size:23
Alignment explanation
Indices: 108460515--108460561 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 23
108460505 GGAAAAGTGA
108460515 AAAGAAAATAAATTTGAAGTGTGC
1 AAAGAAAATAAATTTG-AGTGTGC
108460539 AAAGAAAATAAATTTGAGTGTGC
1 AAAGAAAATAAATTTGAGTGTGC
108460562 TTGGTTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.49, C:0.04, G:0.21, T:0.26
Consensus pattern (23 bp):
AAAGAAAATAAATTTGAGTGTGC
Found at i:108464132 original size:42 final size:42
Alignment explanation
Indices: 108464018--108464146 Score: 129
Period size: 42 Copynumber: 3.1 Consensus size: 42
108464008 TCATGTTTAC
* * * * *
108464018 TTTCCGTTTAGCTATTACGAGCTTTTGTTTAA-CTCATATGAG
1 TTTCCGTTCAGCTCTTACGAGCTTTCGTTTAACCT-TTATGGG
* * *
108464060 TGTCTGTTCAGCTCTT-TGAGC-TTCTGTTTAACCTTTATGGG
1 TTTCCGTTCAGCTCTTACGAGCTTTC-GTTTAACCTTTATGGG
* *
108464101 TTTCCGTTCAACTCTTACGAGCTTTCGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTTACGAGCTTTCGTTTAACCTTTATGGG
108464143 TTTC
1 TTTC
108464147 TATTTAGCTC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
40 2 0.03
41 28 0.40
42 37 0.53
43 3 0.04
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTACGAGCTTTCGTTTAACCTTTATGGG
Found at i:108467381 original size:11 final size:11
Alignment explanation
Indices: 108467365--108467390 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
108467355 AATAATAATT
108467365 TTATTATATAA
1 TTATTATATAA
108467376 TTATTATATAA
1 TTATTATATAA
108467387 TTAT
1 TTAT
108467391 AAAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTATTATATAA
Found at i:108467391 original size:19 final size:19
Alignment explanation
Indices: 108467367--108467403 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
108467357 TAATAATTTT
* *
108467367 ATTATATAATTATTATATA
1 ATTATAAAAATATTATATA
108467386 ATTATAAAAATATTATAT
1 ATTATAAAAATATTATAT
108467404 TTAAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTATAAAAATATTATATA
Found at i:108469516 original size:14 final size:14
Alignment explanation
Indices: 108469499--108469543 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
108469489 TTTTGGTCGT
*
108469499 ACTTTTTGGCTTGC
1 ACTTTTTGGCTTAC
* *
108469513 ACTTTTTTGCTTAT
1 ACTTTTTGGCTTAC
108469527 AC-TTTTGGCTTAC
1 ACTTTTTGGCTTAC
108469540 ACTT
1 ACTT
108469544 GTTAGCTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (14 bp):
ACTTTTTGGCTTAC
Found at i:108472111 original size:35 final size:35
Alignment explanation
Indices: 108472065--108472134 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
108472055 ATTGTTAGAC
108472065 GTGCTATTGCTGCAAATAATTTTGAACTTAAACCT
1 GTGCTATTGCTGCAAATAATTTTGAACTTAAACCT
108472100 GTGCTATTGCTGCAAATAATTTTGAACTTAAACCT
1 GTGCTATTGCTGCAAATAATTTTGAACTTAAACCT
108472135 AACACTATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (35 bp):
GTGCTATTGCTGCAAATAATTTTGAACTTAAACCT
Found at i:108474009 original size:30 final size:29
Alignment explanation
Indices: 108473935--108474062 Score: 168
Period size: 29 Copynumber: 4.4 Consensus size: 29
108473925 TATGTGTACC
* * *
108473935 ATGTGAAAAAGGATAGTTGCGGCTATAGA
1 ATGTGAAAAGGGATAGTTTCGGCTATCGA
*
108473964 ATGTGAAAAGGGATAGTTTCGTCTATCGA
1 ATGTGAAAAGGGATAGTTTCGGCTATCGA
* * *
108473993 ATTTAAAAAGGGGATAGCTTCGGCTATCGA
1 ATGTGAAAA-GGGATAGTTTCGGCTATCGA
108474023 ATGTGAAAAGGGATAGCTTT-GGCTATCGA
1 ATGTGAAAAGGGATAG-TTTCGGCTATCGA
108474052 ATGTGAAAAGG
1 ATGTGAAAAGG
108474063 TTAGGTATCC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
29 59 0.69
30 27 0.31
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGTTTCGGCTATCGA
Found at i:108474017 original size:59 final size:59
Alignment explanation
Indices: 108473945--108474062 Score: 168
Period size: 59 Copynumber: 2.0 Consensus size: 59
108473935 ATGTGAAAAA
* *
108473945 GGATAGTTGCGGCTATAGAATGTGAAAAGGGATAG-TTTCGTCTATCGAATTTAAAAAGG
1 GGATAGTTGCGGCTATAGAATGTGAAAAGGGATAGCTTT-GGCTATCGAATGTAAAAAGG
* *
108474004 GGATAGCTT-CGGCTATCGAATGTGAAAAGGGATAGCTTTGGCTATCGAATGTGAAAAGG
1 GGATAG-TTGCGGCTATAGAATGTGAAAAGGGATAGCTTTGGCTATCGAATGTAAAAAGG
108474063 TTAGGTATCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
59 48 0.91
60 5 0.09
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (59 bp):
GGATAGTTGCGGCTATAGAATGTGAAAAGGGATAGCTTTGGCTATCGAATGTAAAAAGG
Found at i:108474130 original size:32 final size:32
Alignment explanation
Indices: 108474055--108474159 Score: 140
Period size: 32 Copynumber: 3.2 Consensus size: 32
108474045 CTATCGAATG
* * * *
108474055 TGAAAAGGTTAGGTATC-CTTTATGTATACCACA
1 TGAAAAGGTTATGTA-CACTTTGTGTGTA-CACT
*
108474088 TAAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
108474120 TGAAAAGGTTATGTACACTTTGTGTGTACACT
1 TGAAAAGGTTATGTACACTTTGTGTGTACACT
108474152 TGAAAAGG
1 TGAAAAGG
108474160 AAAGGTATAC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
32 43 0.66
33 22 0.34
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (32 bp):
TGAAAAGGTTATGTACACTTTGTGTGTACACT
Found at i:108474172 original size:32 final size:33
Alignment explanation
Indices: 108474104--108474248 Score: 172
Period size: 33 Copynumber: 4.5 Consensus size: 33
108474094 GGTTATGTAC
** * *
108474104 ACTTTGTGTGTA-CACT-TGAAAAGGTTATGTAC
1 ACTTTGTGTGTACCA-TATGAAAAGGAAAGGTAT
108474136 ACTTTGTGTGTA-CACT-TGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCA-TATGAAAAGGAAAGGTAT
*
108474168 ACTTTGTGTATACCATATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCATATGAAAAGGAAAGGTAT
* * *
108474201 ACTTTGTGTATACCTTATGAAAAGGAAAGATAT
1 ACTTTGTGTGTACCATATGAAAAGGAAAGGTAT
108474234 ACTTTGTGTGTACCA
1 ACTTTGTGTGTACCA
108474249 CTCAGAAAGA
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
32 40 0.39
33 62 0.61
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (33 bp):
ACTTTGTGTGTACCATATGAAAAGGAAAGGTAT
Found at i:108474193 original size:33 final size:33
Alignment explanation
Indices: 108474055--108474248 Score: 171
Period size: 33 Copynumber: 5.9 Consensus size: 33
108474045 CTATCGAATG
** * * *
108474055 TGAAAAGGTTAGGTATCCTTTATGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
* ** * * *
108474088 TAAAAAGGTTATGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA-TA
** * * *
108474120 TGAAAAGGTTATGTACACTTTGTGTGTA-CACT-
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA-TA
108474152 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
*
108474185 TGAAAAGGAAAGGTATACTTTGTGTATACCTTA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
* *
108474218 TGAAAAGGAAAGATATACTTTGTGTGTACCA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA
108474249 CTCAGAAAGA
Statistics
Matches: 141, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
32 57 0.40
33 84 0.60
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.34
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATA
Found at i:108477842 original size:20 final size:20
Alignment explanation
Indices: 108477817--108477857 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
108477807 CTTACCGAAG
108477817 AATAACTTTTGAATTATGTA
1 AATAACTTTTGAATTATGTA
108477837 AATAACTTTTGAATTATGTA
1 AATAACTTTTGAATTATGTA
108477857 A
1 A
108477858 CGCTCCTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
AATAACTTTTGAATTATGTA
Found at i:108481404 original size:21 final size:19
Alignment explanation
Indices: 108481355--108481393 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
108481345 CTTTACCCAT
108481355 TCTTTATTTTATTTTATTTAA
1 TCTTTA-TTTA-TTTATTTAA
108481376 TCTTTATTTATTTATTTA
1 TCTTTATTTATTTATTTA
108481394 TTACTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TCTTTATTTATTTATTTAA
Found at i:108483079 original size:6 final size:6
Alignment explanation
Indices: 108483051--108483120 Score: 61
Period size: 6 Copynumber: 11.5 Consensus size: 6
108483041 ATTGAATCCA
* * *
108483051 TTTATT TTTATAT TTT-CT CTTATT TTTATT TTTAGTT CTTATT TTTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT
* * *
108483100 TTTCTA CTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTT
108483121 CTAGACTTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
5 3 0.06
6 37 0.76
7 9 0.18
ACGTcount: A:0.16, C:0.07, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:108483131 original size:18 final size:18
Alignment explanation
Indices: 108483052--108483123 Score: 101
Period size: 18 Copynumber: 3.9 Consensus size: 18
108483042 TTGAATCCAT
108483052 TTATTTTTATATTTTCT-C
1 TTATTTTTAT-TTTTCTAC
* *
108483070 TTATTTTTATTTTTAGTTC
1 TTATTTTTATTTTT-CTAC
108483089 TTATTTTTATTTTTCTAC
1 TTATTTTTATTTTTCTAC
108483107 TTATTTTTATTTTTCTA
1 TTATTTTTATTTTTCTA
108483124 GACTTTTTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
17 4 0.08
18 30 0.61
19 15 0.31
ACGTcount: A:0.17, C:0.08, G:0.01, T:0.74
Consensus pattern (18 bp):
TTATTTTTATTTTTCTAC
Found at i:108487957 original size:27 final size:26
Alignment explanation
Indices: 108487913--108487988 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 26
108487903 TTGTTAGCTC
108487913 ACACTTTTAGCTTGTACTTTTGGCTT
1 ACACTTTTAGCTTGTACTTTTGGCTT
* *
108487939 ACACTTTTTGACTTTTACTTTTGGCTT
1 ACACTTTTAG-CTTGTACTTTTGGCTT
*
108487966 ACACTTGTTGGCTTGCT-CTTTTG
1 ACACTT-TTAGCTTG-TACTTTTG
108487989 CACAGAGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 9 0.21
27 30 0.70
28 4 0.09
ACGTcount: A:0.13, C:0.20, G:0.16, T:0.51
Consensus pattern (26 bp):
ACACTTTTAGCTTGTACTTTTGGCTT
Found at i:108487976 original size:14 final size:13
Alignment explanation
Indices: 108487913--108487979 Score: 62
Period size: 13 Copynumber: 5.0 Consensus size: 13
108487903 TTGTTAGCTC
*
108487913 ACACTTTTAGCTT
1 ACACTTTTGGCTT
**
108487926 GTACTTTTGGCTT
1 ACACTTTTGGCTT
*
108487939 ACACTTTTTGACTT
1 ACAC-TTTTGGCTT
**
108487953 TTACTTTTGGCTT
1 ACACTTTTGGCTT
108487966 ACACTTGTTGGCTT
1 ACACTT-TTGGCTT
108487980 GCTCTTTTGC
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
13 24 0.59
14 17 0.41
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.51
Consensus pattern (13 bp):
ACACTTTTGGCTT
Found at i:108489142 original size:15 final size:15
Alignment explanation
Indices: 108489124--108489175 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
108489114 TTTTAATATT
108489124 ATATATTTTAAATAA
1 ATATATTTTAAATAA
* *
108489139 ATATAATTATTCAATTA
1 ATAT-ATT-TTAAATAA
*
108489156 ATATATCTTAAATAA
1 ATATATTTTAAATAA
108489171 ATATA
1 ATATA
108489176 ATTATTAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 15 0.50
16 5 0.17
17 10 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATTTTAAATAA
Found at i:108489158 original size:17 final size:17
Alignment explanation
Indices: 108489131--108489184 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
108489121 ATTATATATT
108489131 TTAAATAAATATAATTA
1 TTAAATAAATATAATTA
* * *
108489148 TTCAATTAATAT-A-TC
1 TTAAATAAATATAATTA
108489163 TTAAATAAATATAATTA
1 TTAAATAAATATAATTA
108489180 TTAAA
1 TTAAA
108489185 GTCTATTCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 11 0.38
16 2 0.07
17 16 0.55
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAATAAATATAATTA
Found at i:108489207 original size:42 final size:42
Alignment explanation
Indices: 108489146--108489228 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
108489136 TAAATATAAT
* * * *
108489146 TATTCAATTAATATATCTTAAATAAATATAATTATTAAAGTC
1 TATTCAAATAACATATCTTAAATAAACATAACTATTAAAGTC
* *
108489188 TATTCAAATAACATCTCTTAAATAAACATAACTATTCAAGT
1 TATTCAAATAACATATCTTAAATAAACATAACTATTAAAGT
108489229 AATATTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (42 bp):
TATTCAAATAACATATCTTAAATAAACATAACTATTAAAGTC
Found at i:108502354 original size:4 final size:4
Alignment explanation
Indices: 108502345--108502369 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
108502335 AGCAAACGTG
108502345 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
108502370 TAGAAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:108508039 original size:16 final size:14
Alignment explanation
Indices: 108507994--108508045 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
108507984 GGTCTTTGAT
*
108507994 TTTATATTTT-TAA
1 TTTATTTTTTCTAA
* *
108508007 ATTAATTTTTCTAA
1 TTTATTTTTTCTAA
108508021 TTTATGTTTTTCTATA
1 TTTAT-TTTTTCTA-A
108508037 TTTATTTTT
1 TTTATTTTT
108508046 AAAAAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 7 0.23
14 6 0.19
15 12 0.39
16 6 0.19
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTATTTTTTCTAA
Found at i:108510065 original size:63 final size:64
Alignment explanation
Indices: 108509958--108510086 Score: 161
Period size: 63 Copynumber: 2.0 Consensus size: 64
108509948 ACGAGCATCT
* * * * * *
108509958 TGATCGGTATCGATCTTGCATGTATTGCGGATATACTGCAGCTCTTTGTGAGCGTCCTGTTATA
1 TGATCGGTATCGATCTTGCATGTATTGCAGACATACCGCAGCTCTTTATGAGCGTCCCGATATA
* * * *
108510022 TGAT-GGTATTGATCTTGTATGTATTGCAGACATACCGCTGCTCTTTATGAGTGTCCCGATATA
1 TGATCGGTATCGATCTTGCATGTATTGCAGACATACCGCAGCTCTTTATGAGCGTCCCGATATA
108510085 TG
1 TG
108510087 GCTCTTAATG
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
63 51 0.93
64 4 0.07
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (64 bp):
TGATCGGTATCGATCTTGCATGTATTGCAGACATACCGCAGCTCTTTATGAGCGTCCCGATATA
Found at i:108510591 original size:22 final size:23
Alignment explanation
Indices: 108510566--108510611 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
108510556 CAACCAAATC
108510566 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
108510588 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
108510611 A
1 A
108510612 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:108510617 original size:23 final size:23
Alignment explanation
Indices: 108510573--108510617 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
108510563 ATCAATTCAA
*
108510573 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
108510596 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
108510618 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:108511285 original size:54 final size:54
Alignment explanation
Indices: 108511203--108511331 Score: 249
Period size: 54 Copynumber: 2.4 Consensus size: 54
108511193 CTTGCAGCGG
108511203 GATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGACGA
1 GATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGACGA
108511257 GATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGACGA
1 GATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGACGA
*
108511311 AATTACCAGTCCAGGCTAAAT
1 GATTACCAGTCCAGGCTAAAT
108511332 TCAGACCCTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (54 bp):
GATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGACGA
Found at i:108514077 original size:51 final size:49
Alignment explanation
Indices: 108514011--108514124 Score: 192
Period size: 51 Copynumber: 2.3 Consensus size: 49
108514001 CTTTTAACAA
*
108514011 AATTATTTAATCAAAACCTATTGATGAATGGTCAAAATTGATTAACACTT
1 AATTATTTAATCAAAACCTATTGATGAATGATCAAAATTGA-TAACACTT
*
108514061 AAGTTATTTAATCAAAACCTATTGATGAATGATCATAATTGATAACACTT
1 AA-TTATTTAATCAAAACCTATTGATGAATGATCAAAATTGATAACACTT
108514111 AATTATTTAATCAA
1 AATTATTTAATCAA
108514125 TTTAACAAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
49 12 0.20
50 12 0.20
51 37 0.61
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (49 bp):
AATTATTTAATCAAAACCTATTGATGAATGATCAAAATTGATAACACTT
Found at i:108520214 original size:25 final size:24
Alignment explanation
Indices: 108520186--108520263 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 24
108520176 ATGCTCTTTC
*
108520186 GAGCTATAATCGGTAAGCTCCTCCT
1 GAGCTATAA-CGGTAAGCTCCTACT
* *
108520211 GAGCTGATGAACAGTAAGCT-CTATT
1 GAGCT-AT-AACGGTAAGCTCCTACT
* *
108520236 GAGCTAAAACGGTAAGCTCC-AAT
1 GAGCTATAACGGTAAGCTCCTACT
108520259 GAGCT
1 GAGCT
108520264 GAAAACAGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 17 0.39
24 2 0.05
25 13 0.30
26 10 0.23
27 2 0.05
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (24 bp):
GAGCTATAACGGTAAGCTCCTACT
Found at i:108520254 original size:23 final size:24
Alignment explanation
Indices: 108520210--108520279 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 24
108520200 AAGCTCCTCC
* *
108520210 TGAGCTGATGAACAGTAAGCTCTAT
1 TGAGCTGA-AAACAGTAAGCTCTAA
* *
108520235 TGAGCT-AAAACGGTAAGCTCCAA
1 TGAGCTGAAAACAGTAAGCTCTAA
*
108520258 TGAGCTGAAAACAGTAAACTCT
1 TGAGCTGAAAACAGTAAGCTCT
108520280 TACGAGCTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 18 0.49
24 13 0.35
25 6 0.16
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (24 bp):
TGAGCTGAAAACAGTAAGCTCTAA
Found at i:108520287 original size:47 final size:49
Alignment explanation
Indices: 108520179--108520289 Score: 120
Period size: 47 Copynumber: 2.3 Consensus size: 49
108520169 ATCATTTATG
* * ** * *
108520179 CTCTTTCGAGCTATAATCGGTAAGCTCCTCCTGAGCTGATGAACAGTAAG
1 CTCTTACGAGCTA-AAACGGTAAGCTCCTAATGAGCTGATAAACAGTAAA
*
108520229 CTC-TATTGAGCTAAAACGGTAAGCTCC-AATGAGCTGA-AAACAGTAAA
1 CTCTTA-CGAGCTAAAACGGTAAGCTCCTAATGAGCTGATAAACAGTAAA
108520276 CTCTTACGAGCTAA
1 CTCTTACGAGCTAA
108520290 TATATTGGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
47 18 0.35
48 10 0.20
49 14 0.27
50 9 0.18
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (49 bp):
CTCTTACGAGCTAAAACGGTAAGCTCCTAATGAGCTGATAAACAGTAAA
Found at i:108521825 original size:26 final size:26
Alignment explanation
Indices: 108521796--108521903 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
108521786 TGGTACAAAT
108521796 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
108521822 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
108521848 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
108521874 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
108521900 TGAT
1 TGAT
108521904 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:108525013 original size:13 final size:13
Alignment explanation
Indices: 108524963--108525013 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
108524953 TAAACCAAAA
108524963 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
108524976 TTCTT-AAAAGTAC
1 TT-TTCAAAAGCAC
* *
108524989 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
108525002 TTTTCAAAAGCA
1 TTTTCAAAAGCA
108525014 TTGCCAAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 2 0.07
13 26 0.87
14 2 0.07
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:108529601 original size:22 final size:20
Alignment explanation
Indices: 108529573--108529622 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
108529563 TTCATGCCTT
*
108529573 TTTTTAATTAATAAATATATTA
1 TTTTTAATTAAGAAAT-TA-TA
*
108529595 TTTTTAA-AAAGAAATTATA
1 TTTTTAATTAAGAAATTATA
108529614 TTTTTAATT
1 TTTTTAATT
108529623 TATCTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 9 0.38
20 2 0.08
21 6 0.25
22 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTTAATTAAGAAATTATA
Found at i:108538413 original size:5 final size:5
Alignment explanation
Indices: 108538405--108538443 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
108538395 CCATCTATCC
108538405 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
108538444 GCAAGTTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:108539019 original size:17 final size:16
Alignment explanation
Indices: 108538997--108539043 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
108538987 ATTAATCAGA
108538997 TAATTTATTATTTTATT
1 TAATTTA-TATTTTATT
*
108539014 TAATTTAAATATTTATT
1 TAATTTATAT-TTTATT
108539031 TATATTTATATTT
1 TA-ATTTATATTT
108539044 GTAATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 2 0.08
17 17 0.65
18 7 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TAATTTATATTTTATT
Found at i:108539450 original size:18 final size:18
Alignment explanation
Indices: 108539396--108539451 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
108539386 TTAAATTACT
* *
108539396 TAATTTATATTTTATCAT-
1 TAATTTA-ATATTATCTTA
* * *
108539414 TAATTTAAAATAATTTTA
1 TAATTTAATATTATCTTA
108539432 TAATTTAATATTATCTTA
1 TAATTTAATATTATCTTA
108539450 TA
1 TA
108539452 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTTAATATTATCTTA
Found at i:108543445 original size:22 final size:23
Alignment explanation
Indices: 108543408--108543452 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
108543398 AAAAATTAAG
108543408 TTTTCAAAAAATTATAAAAAATA
1 TTTTCAAAAAATTATAAAAAATA
*
108543431 TTTTTAAAAAA-TATAAAAAATA
1 TTTTCAAAAAATTATAAAAAATA
108543453 AATAAATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TTTTCAAAAAATTATAAAAAATA
Found at i:108554165 original size:101 final size:101
Alignment explanation
Indices: 108554034--108554297 Score: 447
Period size: 101 Copynumber: 2.6 Consensus size: 101
108554024 ACTTCTGATC
*
108554034 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
*
108554099 AGTGGTAGTTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
108554135 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
*
108554200 AGTGGTGGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
* * * * * *
108554236 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTCTCTGATCAATGACAAGTGATAAATG
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATG
108554298 TGATCAGTGT
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 154 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (101 bp):
AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
Found at i:108554294 original size:51 final size:51
Alignment explanation
Indices: 108554034--108554291 Score: 367
Period size: 51 Copynumber: 5.1 Consensus size: 51
108554024 ACTTCTGATC
* *
108554034 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * *
108554085 AGTGACAAATGATAAGTGGTAG-TTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * *
108554135 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * *
108554186 AGTGACAAATGATAAGTGGT-GGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * * *
108554236 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTCTCTGATCAATGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
108554287 AGTGA
1 AGTGA
108554292 TAAATGTGAT
Statistics
Matches: 181, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
50 88 0.49
51 93 0.51
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
Found at i:108558310 original size:16 final size:16
Alignment explanation
Indices: 108558289--108558319 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108558279 CATATTAGAG
108558289 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
108558305 CATATATATTTGAAA
1 CATATAAATTTGAAA
108558320 ACTTTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:108558506 original size:17 final size:18
Alignment explanation
Indices: 108558486--108558520 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
108558476 TTTTTAAAAA
108558486 TATAAAT-TTTGGAATTT
1 TATAAATATTTGGAATTT
*
108558503 TATAAATATTTTGAATTT
1 TATAAATATTTGGAATTT
108558521 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
TATAAATATTTGGAATTT
Found at i:108559786 original size:14 final size:14
Alignment explanation
Indices: 108559767--108559814 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
108559757 TAAGGATTAC
108559767 AAATTTGAAATTGA
1 AAATTTGAAATTGA
108559781 AAATTTGAAGATTGA
1 AAATTTGAA-ATTGA
* *
108559796 AAATATAAAATTGA
1 AAATTTGAAATTGA
108559810 AAATT
1 AAATT
108559815 GGGGATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.33
Consensus pattern (14 bp):
AAATTTGAAATTGA
Found at i:108559795 original size:7 final size:7
Alignment explanation
Indices: 108559771--108559844 Score: 62
Period size: 7 Copynumber: 10.6 Consensus size: 7
108559761 GATTACAAAT
108559771 TTGAA-A
1 TTGAAGA
*
108559777 TTGAAAA
1 TTGAAGA
108559784 TTTGAAGA
1 -TTGAAGA
*
108559792 TTGAAAA
1 TTGAAGA
*
108559799 TAT-AAAA
1 T-TGAAGA
*
108559806 TTGAAAA
1 TTGAAGA
**
108559813 TTGGGGA
1 TTGAAGA
108559820 TTGAAGA
1 TTGAAGA
108559827 TTGAAGA
1 TTGAAGA
108559834 TTGAAGA
1 TTGAAGA
108559841 TTGA
1 TTGA
108559845 GAATTTAGGA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
6 6 0.11
7 44 0.77
8 7 0.12
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (7 bp):
TTGAAGA
Found at i:108564663 original size:19 final size:19
Alignment explanation
Indices: 108564639--108564677 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
108564629 CTTCATGTAG
108564639 TAAGATTATTTCCAAAAAA
1 TAAGATTATTTCCAAAAAA
108564658 TAAGATTATTTCCAAAAAA
1 TAAGATTATTTCCAAAAAA
108564677 T
1 T
108564678 TCCTCCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAGATTATTTCCAAAAAA
Found at i:108565604 original size:69 final size:69
Alignment explanation
Indices: 108565493--108565626 Score: 189
Period size: 69 Copynumber: 1.9 Consensus size: 69
108565483 CACGACATCT
* * ** *
108565493 CCGTGTTGCAACACCGTATCCAGAATCAGAGAAATCGAGAAAACTATCTCGATTTTGTGACAGAG
1 CCGTGTTGCAACACCGCATCCAGAACCAGAGAAATAAAGAAAACTATCTCGATTTTATGACAGAG
108565558 TATG
66 TATG
* *
108565562 CCGTGTTGCGACACCGCATCTAGAACC-GAAGAAATAAAGAAAACTATCTCGATTTTATGACAGA
1 CCGTGTTGCAACACCGCATCCAGAACCAG-AGAAATAAAGAAAACTATCTCGATTTTATGACAGA
108565626 G
65 G
108565627 CACCTCTATG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 1 0.02
69 56 0.98
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (69 bp):
CCGTGTTGCAACACCGCATCCAGAACCAGAGAAATAAAGAAAACTATCTCGATTTTATGACAGAG
TATG
Found at i:108569988 original size:21 final size:21
Alignment explanation
Indices: 108569962--108570003 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
108569952 GAATTATGTG
108569962 AATATTTGAATGTATATTGAT
1 AATATTTGAATGTATATTGAT
108569983 AATATTTGAATGTATATTGAT
1 AATATTTGAATGTATATTGAT
108570004 TGAAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (21 bp):
AATATTTGAATGTATATTGAT
Found at i:108571375 original size:24 final size:25
Alignment explanation
Indices: 108571323--108571376 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
108571313 TGAAAGTCCG
*
108571323 GTAATGCTTCGTAACCCTGATTCGA
1 GTAATGCTTCGTAACCCTGATTCCA
108571348 -TAATGC-TCTGTAACCCTG-TTCCA
1 GTAATGCTTC-GTAACCCTGATTCCA
108571371 GTAATG
1 GTAATG
108571377 GTTTAGGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (25 bp):
GTAATGCTTCGTAACCCTGATTCCA
Found at i:108575181 original size:46 final size:46
Alignment explanation
Indices: 108575123--108575380 Score: 365
Period size: 46 Copynumber: 5.6 Consensus size: 46
108575113 TCTGATATGG
* * *
108575123 AATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGA
1 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
** *
108575169 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGA
1 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
*
108575215 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGA
1 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
* **
108575261 AATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAA
1 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-A
108575308 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAA
1 AATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-A
* * * *
108575354 AACGAGTAAAACCATAGTTGAAAGATA
1 AATGAATAAGACCATGGTTGAAAGATA
108575381 TATGACATCA
Statistics
Matches: 195, Mismatches: 16, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
46 153 0.78
47 42 0.22
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
AATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGA
Found at i:108575272 original size:92 final size:92
Alignment explanation
Indices: 108575115--108575380 Score: 408
Period size: 92 Copynumber: 2.9 Consensus size: 92
108575105 GTGTGCTCTC
* * * *
108575115 TGATATGGAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGA
108575180 CCATGGTTGAAAGATACCATGGCAACA
66 CCATGGTTGAAAGATACCATGGCAACA
108575207 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGA
108575272 CCATGGTTGAAAGATACCATGGCAACA
66 CCATGGTTGAAAGATACCATGGCAACA
*** * *
108575299 TGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAGTAA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAGTAA
* *
108575363 AACCATAGTTGAAAGATA
64 GACCATGGTTGAAAGATA
108575381 TATGACATCA
Statistics
Matches: 161, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
92 93 0.58
93 68 0.42
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAACA
Found at i:108579848 original size:18 final size:15
Alignment explanation
Indices: 108579816--108579849 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
108579806 AATATTTTTT
108579816 ATATTTTTTTAAAAA
1 ATATTTTTTTAAAAA
108579831 ATATTATTTTTAATAAA
1 ATATT-TTTTTAA-AAA
108579848 AT
1 AT
108579850 TGATAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTTTTTTAAAAA
Found at i:108582064 original size:18 final size:18
Alignment explanation
Indices: 108582038--108582073 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
108582028 CCAGTTTGCC
*
108582038 ATTCAAGTTATTTAAATT
1 ATTCAAGTTATTCAAATT
*
108582056 ATTCGAGTTATTCAAATT
1 ATTCAAGTTATTCAAATT
108582074 GTAAAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTCAAGTTATTCAAATT
Found at i:108588358 original size:2 final size:2
Alignment explanation
Indices: 108588351--108588387 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
108588341 CTGACATTGC
108588351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108588388 AATGCTATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:108590645 original size:132 final size:135
Alignment explanation
Indices: 108590250--108590685 Score: 406
Period size: 132 Copynumber: 3.2 Consensus size: 135
108590240 TTTACGCCTA
* * * * *
108590250 TACCTTAGATGGGGATCTGATAGGGAAG-AGTAGTCATAGGCTACACAATGTAAATTCCTATGCT
1 TACCTTTGATGGGGATTTGATAGGGAAGAACTAGTCATA----ACACCATATAAATTCCTATGCT
*
108590314 TTTCAATGAA--TGTGAATGCACTCTGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTG
62 TTTCAA-GAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTG
108590377 CTTATGCCCT
126 CTTATGCCCT
* * * * **
108590387 TACCTTTGATGGGGATTTGATAGGGAAG-AGTAGTCATAAGCTACCCGATGTCAATTTCTAACCT
1 TACCTTTGATGGGGATTTGATAGGGAAGAACTAGTCATAA-C-A-CC-ATATAAATTCCTATGCT
* * * * * * * * * * * *
108590451 TTTAAATAATTTGTGACTGCACAATGGCAGATTCTCGGTAGTGGGATTTAATAG-TTCGATTGTG
62 TTTCAAGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACT-GCTTCCATTGTG
*
108590515 CTT-TACACCTT
126 CTTATGC-CC-T
* * * * *
108590526 TGCCATAGATGGAGATTTGATAGGGAAGAACT-GTGATAA-A-C-TATAAATTCCTATGCTTTTC
1 TACCTTTGATGGGGATTTGATAGGGAAGAACTAGTCATAACACCATATAAATTCCTATGCTTTTC
* *
108590587 AAGAATTTGTGAATGCACTATGGCAGGTTTTCTGAATTAGGAGTTGCTGCTTCCATTGTGCTTAT
66 AAGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTGCTTAT
108590652 GCCCT
131 GCCCT
108590657 TACCTTTGATGGGGATTTGATAGGGAAGA
1 TACCTTTGATGGGGATTTGATAGGGAAGA
108590686 GTTGTCATAG
Statistics
Matches: 236, Mismatches: 51, Indels: 30
0.74 0.16 0.09
Matches are distributed among these distances:
131 27 0.11
132 64 0.27
133 3 0.01
134 2 0.01
135 1 0.00
136 4 0.02
137 56 0.24
138 45 0.19
139 32 0.14
140 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (135 bp):
TACCTTTGATGGGGATTTGATAGGGAAGAACTAGTCATAACACCATATAAATTCCTATGCTTTTC
AAGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTGCTTAT
GCCCT
Found at i:108590731 original size:270 final size:263
Alignment explanation
Indices: 108590300--108591021 Score: 891
Period size: 270 Copynumber: 2.7 Consensus size: 263
108590290 CTACACAATG
*
108590300 TAAATTCCTATGCTTTTCAATGAA--TGTGAATGCACTCTGGCAGGTTTTCTGAAGTAGGAGTTA
1 TAAATTCCTATGCTTTTCAATGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTA
* *
108590363 CTGCTTCCATTGTGCTTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTAGTCATAAGC
66 CTGCTTCCATTGTGCTTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCATAGGC
* * * * ** **
108590428 TACCCGATGTCAATTTCTAACCTTTTAAATAATTTGTGACTGCACAATGGCAGATTCTCGGTAGT
131 TACCCAATGTGAATTTCTAAGCTTTTCAATAATTTGTGAAAGCACAATGGCAGATTCTCGAAAGT
* *
108590493 GGGATTTAATAGTTCGATTGTGC-TTTACACCTTTGCCA-TAGATGGAGATTTGATAGGGAAGAA
196 AGGA--T--T--TTC---TGTGCTTTTACACATTT-CCATTAGATGGAGATTTGATAGGGAAGAA
* *
108590556 CTGTGATAAACTA
251 CCGTAATAAACTA
* *
108590569 TAAATTCCTATGCTTTTCAA-GAATTTGTGAATGCACTATGGCAGGTTTTCTGAATTAGGAGTTG
1 TAAATTCCTATGCTTTTCAATGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTA
*
108590633 CTGCTTCCATTGTGCTTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCATAGGT
66 CTGCTTCCATTGTGCTTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCATAGGC
*
108590698 TACCCAATGTGAA-TTCATAAGCTTTTCAATAATTTGTGAAAGCACAATGTCAGATTCTCGAAAG
131 TACCCAATGTGAATTTC-TAAGCTTTTCAATAATTTGTGAAAGCACAATGGCAGATTCTCGAAAG
* * *
108590762 TAGGATTTTCTGTGCTTTTACACATTTTCATTAGGTGGAGATTTGATAGGGAAGAACCGTAATAG
195 TAGGATTTTCTGTGCTTTTACACATTTCCATTAGATGGAGATTTGATAGGGAAGAACCGTAATAA
108590827 ACTA
260 ACTA
* * * * *
108590831 TAAATTCCTAATATGGTTTTCAATG-ATTTGTGAATGCACTGTGACAGATTTTCTGAAGTAGGAT
1 TAAATTCC---TATGCTTTTCAATGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAG
* * * * * *
108590895 TTATTGGTTCCGTTGTGCTTTATGCTCTTACCTTTGATGGGAATTTGATAGGGAAGAGTTGTAAT
63 TTACTGCTTCCATTGTGC-TTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCAT
* * * ** * * *
108590960 TGGCTACCCAAAGTGAATTTCCAAGCTTCACAATAATTTGTGAAGGCACAACGGCTGATTCT
127 AGGCTACCCAATGTGAATTTCTAAGCTTTTCAATAATTTGTGAAAGCACAATGGCAGATTCT
108591022 TAGAAGTGGG
Statistics
Matches: 397, Mismatches: 45, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
261 7 0.02
262 52 0.13
264 3 0.01
265 59 0.15
266 93 0.23
267 3 0.01
268 4 0.01
269 23 0.06
270 153 0.39
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (263 bp):
TAAATTCCTATGCTTTTCAATGAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTA
CTGCTTCCATTGTGCTTATGCCCTTACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCATAGGC
TACCCAATGTGAATTTCTAAGCTTTTCAATAATTTGTGAAAGCACAATGGCAGATTCTCGAAAGT
AGGATTTTCTGTGCTTTTACACATTTCCATTAGATGGAGATTTGATAGGGAAGAACCGTAATAAA
CTA
Found at i:108590734 original size:138 final size:138
Alignment explanation
Indices: 108590250--108591008 Score: 518
Period size: 138 Copynumber: 5.6 Consensus size: 138
108590240 TTTACGCCTA
* * *
108590250 TACCTTAGATGGGGATCTGATAGGGAAGAGTAGTCATAGGCTACACAATGTAAATTCCTATGCTT
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCTAAGCTT
*
108590315 TTCAATGAA--TGTGAATGCACTCTGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTGC
66 TTCAAT-AATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTGC
108590378 TTATGCCCT
130 TTATGCCCT
* * * * * *
108590387 TACCTTTGATGGGGATTTGATAGGGAAGAGTAGTCATAAGCTACCCGATGTCAATTTCTAACCTT
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCTAAGCTT
* * * * * * * * * * *
108590452 TTAAATAATTTGTGACTGCACAATGGCAGATTCTCGGTAGTGGGATTTAATAG-TTCGATTGTGC
66 TTCAATAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACT-GCTTCCATTGTGC
*
108590516 TT-TACACCTT
130 TTATGC-CC-T
* * * * * *
108590526 TGCCATAGATGGAGATTTGATAGGGAAGA--A--C-T-GTGATA---AACTATAAATTCCTATGC
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAG-GCTACCCAA-TGTAAATTCCTAAGC
* * *
108590582 TTTTCAAGAATTTGTGAATGCACTATGGCAGGTTTTCTGAATTAGGAGTTGCTGCTTCCATTGTG
64 TTTTCAATAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTG
108590647 CTTATGCCCT
129 CTTATGCCCT
* * * * *
108590657 TACCTTTGATGGGGATTTGATAGGGAAGAGTTGTCATAGGTTACCCAATGTGAATTCATAAGCTT
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCTAAGCTT
* * * * *
108590722 TTCAATAATTTGTGAAAGCACAATGTCAGATTCTC-GAAAGTAGGA--T--T--TT-C--TGTGC
66 TTCAATAATTTGTGAATGCACTATGGCAGGTTTTCTG-AAGTAGGAGTTACTGCTTCCATTGTGC
* * *
108590777 TTTTACACATT
130 TTATGC-C-CT
* * * * *** * *
108590788 TTCATTAGGTGGAGATTTGATAGGGAAGAACCGTAATA-G--A--C--TATAAATTCCTAATATG
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCT-A-A-G
* * * * * * * * *
108590846 GTTTTCAATGATTTGTGAATGCACTGTGACAGATTTTCTGAAGTAGGATTTATTGGTTCCGTTGT
63 CTTTTCAATAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGT
*
108590911 GCTTTATGCTCT
128 GC-TTATGCCCT
* * * * * * *
108590923 TACCTTTGATGGGAATTTGATAGGGAAGAGTTGTAATTGGCTACCCAAAGTGAATTTCC-AAGCT
1 TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGT-AAATTCCTAAGCT
** *
108590987 TCACAATAATTTGTGAAGGCAC
65 TTTCAATAATTTGTGAATGCAC
108591009 AACGGCTGAT
Statistics
Matches: 469, Mismatches: 110, Indels: 84
0.71 0.17 0.13
Matches are distributed among these distances:
124 8 0.02
125 1 0.00
126 2 0.00
127 40 0.09
128 2 0.00
129 10 0.02
130 2 0.00
131 60 0.13
132 66 0.14
133 4 0.01
134 6 0.01
135 31 0.07
136 13 0.03
137 70 0.15
138 95 0.20
139 49 0.10
140 2 0.00
141 1 0.00
142 1 0.00
143 6 0.01
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (138 bp):
TACCTTAGATGGGGATTTGATAGGGAAGAGTAGTCATAGGCTACCCAATGTAAATTCCTAAGCTT
TTCAATAATTTGTGAATGCACTATGGCAGGTTTTCTGAAGTAGGAGTTACTGCTTCCATTGTGCT
TATGCCCT
Found at i:108593032 original size:19 final size:20
Alignment explanation
Indices: 108592996--108593033 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
108592986 TTACAAAGAA
108592996 TACAATTGAATAATTATAAT
1 TACAATTGAATAATTATAAT
*
108593016 TACAATT-AATTATTATAA
1 TACAATTGAATAATTATAA
108593034 AGTATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TACAATTGAATAATTATAAT
Found at i:108594161 original size:37 final size:38
Alignment explanation
Indices: 108594093--108594178 Score: 122
Period size: 37 Copynumber: 2.3 Consensus size: 38
108594083 TGATATTTAG
* *
108594093 CTAAGTTACTTAAAGAGGCTAATAGTATTTCTACTCGA
1 CTAAGTGACTTAAAGAGGCTAACAGTATTTCTACTCGA
*
108594131 CTAAGTGACTTAATA-A-GCTAACAGTGTTTCTACTCGA
1 CTAAGTGACTTAA-AGAGGCTAACAGTATTTCTACTCGA
108594168 CTAAGTGACTT
1 CTAAGTGACTT
108594179 GAGAGGTTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 30 0.68
38 13 0.30
39 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (38 bp):
CTAAGTGACTTAAAGAGGCTAACAGTATTTCTACTCGA
Found at i:108594297 original size:46 final size:46
Alignment explanation
Indices: 108594213--108594301 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
108594203 TTAACTTAGC
* *
108594213 GAGTAGTATCCCCAAGGGGCAACAATGTTTCTGCTATCAATTTAAT
1 GAGTAGTATCCCCAAGGGGCAACAATGTTACTACTATCAATTTAAT
** * *
108594259 GAGTAGTATCCCCAAGGGGCAGTAGTGTTACTATTATCAATTT
1 GAGTAGTATCCCCAAGGGGCAACAATGTTACTACTATCAATTT
108594302 TGTAAAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (46 bp):
GAGTAGTATCCCCAAGGGGCAACAATGTTACTACTATCAATTTAAT
Found at i:108595727 original size:39 final size:40
Alignment explanation
Indices: 108595682--108595774 Score: 118
Period size: 39 Copynumber: 2.3 Consensus size: 40
108595672 AAAATTTATA
* *
108595682 TTTAATAAAATAAAATATTTATTATATTTAT-TA-ATGTTT
1 TTTAATAAAATAAAACATTTATTATAATTATGTAGA-GTTT
*
108595721 TTTAATATAATAAAACATTTATTATAATTATGGTAGAGTTT
1 TTTAATAAAATAAAACATTTATTATAATTAT-GTAGAGTTT
108595762 TTTAATATAAATA
1 TTTAATA-AAATA
108595775 CATTTTAATG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
39 28 0.61
41 13 0.28
42 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (40 bp):
TTTAATAAAATAAAACATTTATTATAATTATGTAGAGTTT
Found at i:108596604 original size:31 final size:32
Alignment explanation
Indices: 108596540--108596608 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
108596530 TTAATTTTAA
* * *
108596540 TTTTTAATATTATTTAATATTTTTATTTCATT
1 TTTTTAATATTAATTAATATTTTTATATAATT
108596572 TTTTTAAT-TTAATTAATATTTGTT-TATAATT
1 TTTTTAATATTAATTAATATTT-TTATATAATT
108596603 TTTTTA
1 TTTTTA
108596609 TAACAGCCGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 23 0.70
32 10 0.30
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (32 bp):
TTTTTAATATTAATTAATATTTTTATATAATT
Found at i:108598331 original size:24 final size:24
Alignment explanation
Indices: 108598299--108598347 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
108598289 ATCCCCATCA
*
108598299 CCTTATGGGGGATTCAAACACCTC
1 CCTTATGGGGGATGCAAACACCTC
* * *
108598323 CCTTGTGGGTGATGCAAACATCTC
1 CCTTATGGGGGATGCAAACACCTC
108598347 C
1 C
108598348 GCAATTTTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (24 bp):
CCTTATGGGGGATGCAAACACCTC
Found at i:108599965 original size:22 final size:22
Alignment explanation
Indices: 108599939--108599987 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
108599929 ATATCCAAAC
108599939 AATAACAATAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
* * * *
108599961 CATAATAGTAAAATGGTAGCAA
1 AATAACAATAAAATAGTAGCAA
108599983 AATAA
1 AATAA
108599988 GGAGAATATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.20
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:108600441 original size:25 final size:25
Alignment explanation
Indices: 108600413--108600467 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
108600403 AGTTTCTCGT
*
108600413 TATTTAGCTC-TCATGAACTTTCCAA
1 TATTTAGCTCGT-AAGAACTTTCCAA
* *
108600438 TATTTGGCTCGTAAGAGCTTTCCAA
1 TATTTAGCTCGTAAGAACTTTCCAA
108600463 TATTT
1 TATTT
108600468 GTATAAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (25 bp):
TATTTAGCTCGTAAGAACTTTCCAA
Found at i:108601739 original size:125 final size:127
Alignment explanation
Indices: 108601546--108601807 Score: 318
Period size: 125 Copynumber: 2.1 Consensus size: 127
108601536 GAGTATGAGC
* *
108601546 TTGCCTTCTATTTCATTTAGAACTCATGTATTTAAATTTTAAAAAGGATATTCAGATATTTAGAT
1 TTGCCTT-TATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATATTCAGATACTTAGAT
* * *
108601611 CAAACGGAAAATGGAAACCAAGTACGTTAAGG-CACGA-CTACTCAAATTTCTAAATACGGAATA
65 CAAACGAAAAATCGAAACCAAGTACGTT-AGGACACGATCTA-TCAAATTTCTAAATACCGAATA
* * * *
108601674 TTGTCTTTATTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATT-AGTTACTTAGAT
1 TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGAT-ATTCAGATACTTAGAT
* * * ** *
108601736 CAAACTAAAAATCGAAACCTAGTACGTTAGGACACGATTTATTGAATTTCTAAGTACCGAATA
65 CAAACGAAAAATCGAAACCAAGTACGTTAGGACACGATCTATCAAATTTCTAAATACCGAATA
108601799 TTGCCTTTA
1 TTGCCTTTA
108601808 CTTGAAAAAT
Statistics
Matches: 115, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
124 3 0.03
125 73 0.63
126 8 0.07
127 25 0.22
128 6 0.05
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (127 bp):
TTGCCTTTATTTCATTTAAAACTCATGTATTTAAATTTTAAAAAGGATATTCAGATACTTAGATC
AAACGAAAAATCGAAACCAAGTACGTTAGGACACGATCTATCAAATTTCTAAATACCGAATA
Found at i:108601869 original size:25 final size:26
Alignment explanation
Indices: 108601826--108601877 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
108601816 ATCCAGACAA
* *
108601826 AGATAATAATAAATAAAATAATATAG
1 AGATAATAAAAAATAAAATAACATAG
*
108601852 AGATAA-AAAAAATGAAATAACATAG
1 AGATAATAAAAAATAAAATAACATAG
108601877 A
1 A
108601878 AAATTCGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (26 bp):
AGATAATAAAAAATAAAATAACATAG
Found at i:108601984 original size:3 final size:3
Alignment explanation
Indices: 108601970--108602456 Score: 139
Period size: 3 Copynumber: 161.3 Consensus size: 3
108601960 AATAGGACGG
* * * * * *
108601970 ATA ATA AAA ATA ATA GTA ATA ATA AAA AAA AT- ATA ATG GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
108602017 TTA AAA AAA AGTA A-A TATA ATG ATG ATA ATA GTG TTA ATA ATA ATA
1 ATA ATA ATA A-TA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
108602063 ATA ATA GTA ATA ATA A-A CA-A ACGA CATA TTA ATG ATA ATA GAAA ATA
1 ATA ATA ATA ATA ATA ATA -ATA A-TA -ATA ATA ATA ATA ATA -ATA ATA
* * *
108602110 ATG ATA ATA ATA ATGA A-A GTA ATGA A-A ATA ATA ATA ATA GA-A ACA
1 ATA ATA ATA ATA AT-A ATA ATA AT-A ATA ATA ATA ATA ATA -ATA ATA
* * * *
108602155 ATA GTA ATA A-A AGTA ATA GAAA ATA ACA ATG ATA CATTA ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA -ATA ATA ATA ATA ATA -A-TA ATA ATA ATA
* * * * * * *
108602203 AT- ATA CGTG CTA ATA ATA ATA ACA AT- ATA AAA AAA AGA A-A ATA
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
108602246 ATG CT- ATA TTA ATA A-A ATA ATA ATA GTA GGTTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA
* * * * * *
108602291 ATA AAA AGGTA AAA ATA ATA ATA A-A ATA ATA AAA ATA CTA TTA CGTTA
1 ATA ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA
* * * * * ** * *
108602339 CTA CTA CTA ATA ATA A-A A-A AGA A-A ACA GCA ATA GT- ATA TAGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * *
108602381 ATA ACA GTA A-A AGTA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
108602426 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
108602457 CACTCTCCCC
Statistics
Matches: 362, Mismatches: 83, Indels: 78
0.69 0.16 0.15
Matches are distributed among these distances:
2 31 0.09
3 299 0.83
4 22 0.06
5 10 0.03
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:108602011 original size:23 final size:23
Alignment explanation
Indices: 108601970--108602026 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
108601960 AATAGGACGG
*
108601970 ATAATAAAAATAATAGTAATAAT
1 ATAAAAAAAATAATAGTAATAAT
*
108601993 A-AAAAAAATATAATGGTAATAAT
1 ATAAAAAAA-ATAATAGTAATAAT
108602016 ATTAAAAAAAA
1 A-TAAAAAAAA
108602027 GTAAATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 6 0.21
23 15 0.52
24 1 0.03
25 7 0.24
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (23 bp):
ATAAAAAAAATAATAGTAATAAT
Found at i:108603352 original size:131 final size:132
Alignment explanation
Indices: 108603211--108603816 Score: 717
Period size: 132 Copynumber: 4.6 Consensus size: 132
108603201 ATCTACTCTG
* * *
108603211 CTACTACTTAGGGAGATAAGATCTACAATCTTCGGCCTGCT-CACTGCTGCTCAGAGAGATAAAG
1 CTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGAGAGATAAGG
* * * * * * *
108603275 CTAGTGGCTTAAATCTACTTCCCTACTACCCCAGGAAAATAAGATTCGCTATCTTCGATCTGTTT
66 CTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCACTGTCTTCGATCTGATC
108603340 CA
131 CA
* ** * *
108603342 CTGCTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCAT-CTCCACTGTTGCTCAGGGAGATAAG
1 CTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCC-TGCTCCACTGCTGCTCAGAGAGATAAG
* *
108603406 GCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCGTCTTCGATCT-AC
65 GCTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCACTGTCTTCGATCTGA-
108603470 TCCA
129 TCCA
* * * *
108603474 TTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCT-CACTACTACTCAGAGAGTTAAGG
1 CTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGAGAGATAAGG
*
108603538 CTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATGAGATTCACTGTCTTCGATCTGATC
66 CTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCACTGTCTTCGATCTGATC
108603603 CA
131 CA
* * ** * *
108603605 CCACTGCTTAGGGAGATAAGATATGTAATCTTCAGCCTACTCCACTGCTGCTCAGGGAGATAAGG
1 CTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGAGAGATAAGG
* * * * *
108603670 CTAGTGGCTTAAATCTGC-T--CTATTGTCGCTACATGG-AGATAAGATTTA-TCGTCTTCGATC
66 CTAGTGGCTTAAATCTACTTCCCTACT-AC-CT-C-GGGAAGATAAGATTCACT-GTCTTCGATC
*
108603730 TGCTCCA
126 TGATCCA
* * ** *
108603737 CTACTGCTTAGGGAGATAAGATCTACAATTTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGC-TCAGAGAGATAAG
*
108603802 GCTGGTGGCTTAAAT
65 GCTAGTGGCTTAAAT
108603817 TTGCTCCATT
Statistics
Matches: 407, Mismatches: 56, Indels: 22
0.84 0.12 0.05
Matches are distributed among these distances:
129 4 0.01
130 1 0.00
131 154 0.38
132 219 0.54
133 29 0.07
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
CTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGAGAGATAAGG
CTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATAAGATTCACTGTCTTCGATCTGATC
CA
Found at i:108603663 original size:263 final size:263
Alignment explanation
Indices: 108603196--108603816 Score: 856
Period size: 263 Copynumber: 2.4 Consensus size: 263
108603186 AGATTTTTAG
** * * *
108603196 CTTCGATCTACTCTGCTACTACTTAGGGAGATAAGATCTACAATCTTCGGCCTGCTCACTGCTGC
1 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGCTAC
* *
108603261 TCAGAGAGATAAAGCTAGTGGCTTAAATCTACTTCCCTACTACCCCAGGAAAATAAGATTCGCTA
66 TCAGAGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCCCAGGAAAATAAGATTCACTA
* * ** * *
108603326 TCTTCGATCTGTTTCACTGCTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCATCTCCACTGTT
131 TCTTCGATCTGATCCACCACTGCTTAGGGAGATAAGATATGTAATCTTCAGCCATCTCCACTGCT
108603391 GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACT-AC-CT-C-GGGAAGATAAGAT
196 GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGC-T--CTACTGACGCTACAGGG-AGATAAGAT
108603452 TCACCGT
257 TCACCGT
* *
108603459 CTTCGATCTACTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTACTAC
1 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGCTAC
* * * * * *
108603524 TCAGAGAGTTAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCTCGGGAAGATGAGATTCACTG
66 TCAGAGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCCCAGGAAAATAAGATTCACTA
108603589 TCTTCGATCTGATCCACCACTGCTTAGGGAGATAAGATATGTAATCTTCAGCC-TACTCCACTGC
131 TCTTCGATCTGATCCACCACTGCTTAGGGAGATAAGATATGTAATCTTCAGCCAT-CTCCACTGC
* * * *
108603653 TGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCTATTGTCGCTACATGGAGATAAGATTTA
195 TGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCTACTGACGCTACAGGGAGATAAGATTCA
*
108603718 TCGT
260 CCGT
* * * *
108603722 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAGTCTGCTCCACTGCAA
1 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCT-CACTGCTA
* *
108603787 CTTCAGGGAGATAAGGCTGGTGGCTTAAAT
65 C-TCAGAGAGATAAGGCTAGTGGCTTAAAT
108603817 TTGCTCCATT
Statistics
Matches: 316, Mismatches: 35, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
260 4 0.01
261 1 0.00
262 4 0.01
263 273 0.86
264 9 0.03
265 25 0.08
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (263 bp):
CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCTCACTGCTAC
TCAGAGAGATAAGGCTAGTGGCTTAAATCTACTTCCCTACTACCCCAGGAAAATAAGATTCACTA
TCTTCGATCTGATCCACCACTGCTTAGGGAGATAAGATATGTAATCTTCAGCCATCTCCACTGCT
GCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCTACTGACGCTACAGGGAGATAAGATTCAC
CGT
Found at i:108603911 original size:177 final size:178
Alignment explanation
Indices: 108603728--108604077 Score: 497
Period size: 177 Copynumber: 2.0 Consensus size: 178
108603718 TCGTCTTCGA
** * **
108603728 TCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATTTTCAGTCTGCTCCACTGCAACTTCA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-CTACAATCTTCAACCTGCTCCACTGCAACTTCA
* * * * *
108603792 GGGAGATAAGGCTGGTGGCTTAAATTTGCTCCATTGTCGCTACATAGAGATAAGATTTTCCATCT
65 GGGAGATAAGGCTGGTGGCTTAAATCTACTCCATTGCCACTACATAGAGATAAGATTTGCCATCT
* *
108603857 TCGATCTGCTCCACTATTGCTTAGGGAGATAAGATTTGT-AATTTTCAG
130 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGAATTTTCAG
* * *** *
108603905 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTATCTTGAACCTGCTCCACTGCAACTTCAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTACAATCTTCAACCTGCTCCACTGCAACTTCAG
*
108603970 GTAGATAAGGCTGGTGGCTTAAATCTACTCCATTGCCACTACATAGAGATAAGATTTGCCATCTT
66 GGAGATAAGGCTGGTGGCTTAAATCTACTCCATTGCCACTACATAGAGATAAGATTTGCCATCTT
*
108604035 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGAATT
131 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGAATT
108604078 CACCGATGTT
Statistics
Matches: 151, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
177 135 0.89
178 16 0.11
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (178 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGACTACAATCTTCAACCTGCTCCACTGCAACTTCAG
GGAGATAAGGCTGGTGGCTTAAATCTACTCCATTGCCACTACATAGAGATAAGATTTGCCATCTT
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGAATTTTCAG
Found at i:108603954 original size:44 final size:45
Alignment explanation
Indices: 108603879--108603978 Score: 130
Period size: 44 Copynumber: 2.2 Consensus size: 45
108603869 ACTATTGCTT
* * ** *
108603879 AGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCATTGCAACTTC
1 AGGGAGATAAGACTTGTAATCTTCAACCTGCTCCACTGCAACTTC
*
108603924 AGGGAGATAAGACTTGT-ATCTTGAACCTGCTCCACTGCAACTTC
1 AGGGAGATAAGACTTGTAATCTTCAACCTGCTCCACTGCAACTTC
*
108603968 AGGTAGATAAG
1 AGGGAGATAAG
108603979 GCTGGTGGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 32 0.67
45 16 0.33
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (45 bp):
AGGGAGATAAGACTTGTAATCTTCAACCTGCTCCACTGCAACTTC
Found at i:108603978 original size:133 final size:133
Alignment explanation
Indices: 108603325--108603934 Score: 571
Period size: 132 Copynumber: 4.6 Consensus size: 133
108603315 AAGATTCGCT
* * * * * *
108603325 ATCTTCGATCTGTTTCACTGCTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCAT-CTCCACTG
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTCAGTC-TGCTCCACTG
*** * ** *
108603389 TTGC-TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTAC-CT-C-GGGAAGATAAG
65 CAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGC-TCCATTGT-CGCTACATGG-AGATAAG
* *
108603450 ATTCACC
127 ATTTATC
* * * * ** * * *
108603457 GTCTTCGATCTACTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTGCT-CACTAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTCAGTCTGCTCCACTGC
* * * * * ** * *
108603521 TAC-TCAGAGAGTTAAGGCTAGTGGCTTAAATCTACTTCCCTACTAC-CT-C-GGGAAGATGAGA
66 AACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGC-TCCATTGT-CGCTACATGG-AGATAAGA
*
108603582 TTCA-C
128 TTTATC
* * * * * *
108603587 TGTCTTCGATCTGATCCACCACTGCTTAGGGAGATAAGATATGTAATCTTCAGCCTACTCCACTG
1 -ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTCAGTCTGCTCCACTG
** *
108603652 CTGC-TCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCTATTGTCGCTACATGGAGATAAGATT
65 CAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGCTACATGGAGATAAGATT
108603716 TATC
130 TATC
* * **
108603720 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAGTCTGCTCCACTGC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTCAGTCTGCTCCACTGC
* * *
108603785 AACTTCAGGGAGATAAGGCTGGTGGCTTAAATTTGCTCCATTGTCGCTACATAGAGATAAGATTT
66 AACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGCTACATGGAGATAAGATTT
108603850 -TCC
131 AT-C
* * *
108603853 ATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCCATTGC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTCAGTCTGCTCCACTGC
108603918 AACTTCAGGGAGATAAG
66 AACTTCAGGGAGATAAG
108603935 ACTTGTATCT
Statistics
Matches: 414, Mismatches: 55, Indels: 17
0.85 0.11 0.03
Matches are distributed among these distances:
130 2 0.00
131 121 0.29
132 154 0.37
133 137 0.33
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (133 bp):
ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATGTAATTTTCAGTCTGCTCCACTGC
AACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGTCGCTACATGGAGATAAGATTT
ATC
Found at i:108604001 original size:44 final size:44
Alignment explanation
Indices: 108603909--108604001 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
108603899 TTTCAGTCTG
* * * * *
108603909 CTCCATTGCAACTTCAGGGAGATAAGACTTGTATCTTGAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAACCTA
* * * *
108603953 CTCCACTGCAACTTCAGGTAGATAAGGCTGGTGGCTTAAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAACCTA
108603997 CTCCA
1 CTCCA
108604002 TTGCCACTAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAACCTA
Found at i:108604513 original size:46 final size:46
Alignment explanation
Indices: 108604407--108604517 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 46
108604397 AGGAGATAAA
* * *
108604407 ATTTGTGGTTTCTTCTATCCATCCCACTGCAACTAAGGGGTATAGG
1 ATTTGTGGCTTCTTCAATCCATCCCACTGCAACTAAGGGGTATACG
** * ** *
108604453 ATTTGTACCATCTTCAATTTATCCCACTGCAACTCAGGGGTATACG
1 ATTTGTGGCTTCTTCAATCCATCCCACTGCAACTAAGGGGTATACG
108604499 ATTTGTGGCTTCTTCAATC
1 ATTTGTGGCTTCTTCAATC
108604518 AATTGATCTG
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (46 bp):
ATTTGTGGCTTCTTCAATCCATCCCACTGCAACTAAGGGGTATACG
Found at i:108604957 original size:65 final size:65
Alignment explanation
Indices: 108604888--108605009 Score: 147
Period size: 65 Copynumber: 1.9 Consensus size: 65
108604878 ATAACAATGG
* *
108604888 ATAAGAAAGAAAATAATTTGGAGCATAGCTCGAAACAAAT-AAGTTAATCAAAGATAGCAACTAC
1 ATAAGAAAGAAAATAATTGGGAGCATAGCTCGAAACAAATAAAG-TAATCAAAAATAGCAACTAC
108604952 A
65 A
* * * * * * *
108604953 ATAAGAAGGAAATTTATTGGGAGCGTATCTTGAAACGAATAAAGTAATCAAAAATAG
1 ATAAGAAAGAAAATAATTGGGAGCATAGCTCGAAACAAATAAAGTAATCAAAAATAG
108605010 TAAATTCAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 44 0.94
66 3 0.06
ACGTcount: A:0.50, C:0.10, G:0.18, T:0.22
Consensus pattern (65 bp):
ATAAGAAAGAAAATAATTGGGAGCATAGCTCGAAACAAATAAAGTAATCAAAAATAGCAACTACA
Found at i:108611869 original size:14 final size:14
Alignment explanation
Indices: 108611852--108611878 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
108611842 TCCTGTGCCT
108611852 GGCCGTGTGTGCTA
1 GGCCGTGTGTGCTA
108611866 GGCCGTGTGTGCT
1 GGCCGTGTGTGCT
108611879 TTAGAAAGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.22, G:0.44, T:0.30
Consensus pattern (14 bp):
GGCCGTGTGTGCTA
Found at i:108616498 original size:19 final size:19
Alignment explanation
Indices: 108616474--108616519 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
108616464 GTGAAAATCT
*
108616474 AATGCAAAT-AATGTAATG
1 AATGCAAATGAATGGAATG
*
108616492 CAATGCAAATGCATGGAATG
1 -AATGCAAATGAATGGAATG
108616512 AATGCAAA
1 AATGCAAA
108616520 AGAAAGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (19 bp):
AATGCAAATGAATGGAATG
Found at i:108618476 original size:23 final size:22
Alignment explanation
Indices: 108618427--108618477 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
108618417 GGACATATAA
108618427 TAAAAATAATAGTAATAAAAAT
1 TAAAAATAATAGTAATAAAAAT
* * * *
108618449 AAAAATATAATGGTAATAATATT
1 TAAAA-ATAATAGTAATAAAAAT
108618472 TAAAAA
1 TAAAAA
108618478 AGTAAATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (22 bp):
TAAAAATAATAGTAATAAAAAT
Found at i:108618513 original size:3 final size:3
Alignment explanation
Indices: 108618507--108618777 Score: 66
Period size: 3 Copynumber: 90.0 Consensus size: 3
108618497 ATAGTGTTAT
* * * *
108618507 TAA TAA TAA TAA TAA TAA -ACA -AA CAA -CA TAT TAA TGA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A
* * *
108618551 AAA TAA TGA TAA TAA TAA TAGA -AG TAA TGAA -AA TAA TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA T-AA TAA TAA TAA TAA TA-A
* * * * *
108618597 -AA CAA TAG TAA TAA -AA GTAA TAA TAA -AA TAGA AAA TAA CAA TGA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* ** *
108618641 TACA TTAA TAA TAA TAA T-A TACG TTC TAA TAA TAA TAA CAA T-A TAA
1 TA-A -TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
108618687 AAA AAA GAA -AA TAA T-A TTA TAT TAA TAA -AA GTAA TAA TAG TAGGT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA--A
* * * *
108618732 TAA TAA TAA TAG TAA TAA AAA GGTAA AAA TAA TAT TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TAA TAA TAA
108618778 AAACACTATT
Statistics
Matches: 196, Mismatches: 44, Indels: 56
0.66 0.15 0.19
Matches are distributed among these distances:
2 22 0.11
3 153 0.78
4 15 0.08
5 6 0.03
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:108618580 original size:21 final size:22
Alignment explanation
Indices: 108618538--108618591 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
108618528 AACAACATAT
*
108618538 TAATGATAATAGAAAATAATGA
1 TAATAATAATAGAAAATAATGA
*
108618560 TAATAATAATAG-AAGTAATGA
1 TAATAATAATAGAAAATAATGA
*
108618581 AAATAATAATA
1 TAATAATAATA
108618592 ATAGAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (22 bp):
TAATAATAATAGAAAATAATGA
Found at i:108618633 original size:15 final size:16
Alignment explanation
Indices: 108618538--108618659 Score: 74
Period size: 15 Copynumber: 7.7 Consensus size: 16
108618528 AACAACATAT
*
108618538 TAATGATAATAGAAAA
1 TAATAATAATAGAAAA
* *
108618554 TAATGATAATA-ATAA
1 TAATAATAATAGAAAA
*
108618569 TAGA-AGTAAT-GAAAA
1 TA-ATAATAATAGAAAA
108618584 TAATAATAATAG-AAA
1 TAATAATAATAGAAAA
* * *
108618599 CAATAGTAATA-AAAG
1 TAATAATAATAGAAAA
108618614 TAATAATAAAATAGAAAA
1 TAATAAT--AATAGAAAA
* * * *
108618632 TAACAATGATACATTAA
1 TAATAATAATAGA-AAA
108618649 TAATAATAATA
1 TAATAATAATA
108618660 TACGTTCTAA
Statistics
Matches: 80, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
14 1 0.01
15 38 0.47
16 17 0.21
17 15 0.19
18 9 0.11
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.26
Consensus pattern (16 bp):
TAATAATAATAGAAAA
Found at i:108620327 original size:13 final size:13
Alignment explanation
Indices: 108620309--108620334 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108620299 TCTTGTATTC
108620309 CATAGTACCCATA
1 CATAGTACCCATA
108620322 CATAGTACCCATA
1 CATAGTACCCATA
108620335 AAGCACATGC
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:0.38, C:0.31, G:0.08, T:0.23
Consensus pattern (13 bp):
CATAGTACCCATA
Found at i:108643834 original size:10 final size:10
Alignment explanation
Indices: 108643819--108643848 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
108643809 TACTGGAATC
108643819 GAAGAGAAAT
1 GAAGAGAAAT
108643829 GAAGAGAAAT
1 GAAGAGAAAT
108643839 GAAGAGAAAT
1 GAAGAGAAAT
108643849 CTAGATATTT
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:0.60, C:0.00, G:0.30, T:0.10
Consensus pattern (10 bp):
GAAGAGAAAT
Found at i:108649332 original size:14 final size:14
Alignment explanation
Indices: 108649313--108649342 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
108649303 TTATATCGAG
108649313 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
108649327 ACCAATCCAATTCA
1 ACCAATCCAAATCA
108649341 AC
1 AC
108649343 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:108656226 original size:2 final size:2
Alignment explanation
Indices: 108656221--108656249 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
108656211 GAAAAAAAAA
108656221 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
108656250 CATGTATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108658792 original size:29 final size:29
Alignment explanation
Indices: 108658760--108658824 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
108658750 TAGCAAAATA
108658760 ATTTTTTCAGAACACATCACGTCAAATTT
1 ATTTTTTCAGAACACATCACGTCAAATTT
* * * * **
108658789 ATTTTTGCATATCCCATCTTGTCAAATTT
1 ATTTTTTCAGAACACATCACGTCAAATTT
108658818 ATTTTTT
1 ATTTTTT
108658825 TCTAAAACAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (29 bp):
ATTTTTTCAGAACACATCACGTCAAATTT
Found at i:108662264 original size:33 final size:33
Alignment explanation
Indices: 108662227--108662290 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
108662217 ATTAATCTAA
108662227 AACTTAACAGGGTGGTTAACTTTATATTAACTG
1 AACTTAACAGGGTGGTTAACTTTATATTAACTG
*
108662260 AACTTAATAGGGTGGTTAACTTTATATTAAC
1 AACTTAACAGGGTGGTTAACTTTATATTAAC
108662291 CGAAATAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (33 bp):
AACTTAACAGGGTGGTTAACTTTATATTAACTG
Found at i:108675865 original size:2 final size:2
Alignment explanation
Indices: 108675858--108675884 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
108675848 GTAATAATCC
108675858 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
108675885 CACGTATGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108677672 original size:17 final size:17
Alignment explanation
Indices: 108677650--108677682 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
108677640 ATTTATTTTT
108677650 ATCCAATTATGTTAACC
1 ATCCAATTATGTTAACC
*
108677667 ATCCAATTCTGTTAAC
1 ATCCAATTATGTTAAC
108677683 TATTATTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (17 bp):
ATCCAATTATGTTAACC
Found at i:108677759 original size:32 final size:32
Alignment explanation
Indices: 108677695--108677759 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
108677685 TTATTAACTT
* * **
108677695 TGTCATAAAAAAATGACGTGGCAATTTTAAAA
1 TGTCATAAAAAAATGACATGACAATTCAAAAA
* *
108677727 TGTCATAGAAAAATGACATTACAATTCAAAAA
1 TGTCATAAAAAAATGACATGACAATTCAAAAA
108677759 T
1 T
108677760 TGACATGATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (32 bp):
TGTCATAAAAAAATGACATGACAATTCAAAAA
Found at i:108684118 original size:15 final size:15
Alignment explanation
Indices: 108684098--108684146 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
108684088 GGACACGGGC
*
108684098 GTGTGACTCAGCCGT
1 GTGTGACACAGCCGT
*
108684113 GTGTGACACA-CAGT
1 GTGTGACACAGCCGT
*
108684127 GATGTTACACAGCCGT
1 G-TGTGACACAGCCGT
108684143 GTGT
1 GTGT
108684147 CCCTTGGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (15 bp):
GTGTGACACAGCCGT
Found at i:108689749 original size:47 final size:47
Alignment explanation
Indices: 108689678--108689807 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
108689668 TCAATTGATA
** * * *
108689678 AGTACCTATACCATGGCCTATAGCCAAATCAAGGTAATTTATCTCGG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAG
*
108689725 AGTACCTATACCATGGCCCGTAGCCAAATCAAGATAACTTATCCCAG
1 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAG
* * *
108689772 AGTACCTATACCCCT-ACTCGTAGCCAAATCAAGGTA
1 AGTACCTATA-CCATGGCCCGTAGCCAAATCAAGGTA
108689808 TTATTCACAC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 69 0.96
48 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (47 bp):
AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAG
Found at i:108694793 original size:30 final size:30
Alignment explanation
Indices: 108694759--108694816 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
108694749 ACTTATTTTA
108694759 TTGTTAATTTTGTTATTATTTTAAAGACCT
1 TTGTTAATTTTGTTATTATTTTAAAGACCT
* *
108694789 TTGTTAGTTTTGTTATTATTTTAGAGAC
1 TTGTTAATTTTGTTATTATTTTAAAGAC
108694817 AATTTGCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACCT
Found at i:108697875 original size:45 final size:45
Alignment explanation
Indices: 108697791--108697876 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
108697781 GCTATACTCC
* *
108697791 AAAATTAGTAAGACCATAGCTAAAAGATGTTATGACATCATGATA
1 AAAATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATA
* *
108697836 AAAATGAGTAAGACCA-AGGCTAAAAGATGCTGTGGCATCAT
1 AAAATGAGTAAGACCATA-GCTAAAAGATGCTATGACATCAT
108697877 ATGAAAGTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.03
45 35 0.97
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTAAAAGATGCTATGACATCATGATA
Found at i:108698038 original size:74 final size:74
Alignment explanation
Indices: 108697935--108698147 Score: 291
Period size: 74 Copynumber: 2.9 Consensus size: 74
108697925 GTACTATGAT
** *
108697935 ATCCTTTGATAGTCTGCCGAGACAATAAACACAGGGTTATATTGTGTAAGACCATAGCTGAAAGA
1 ATCCTTTGATAGTCCACCGAGACAGTAAACACAGGGTTATATTGTGTAAGACCATAGCTGAAAGA
108698000 CGCTATGGC
66 CGCTATGGC
* * * * *
108698009 ATTCTTTGATAGTCCACCGGGACAGTAAACACTGGGTTATATTATGTAAGACCATAGGTGAAAGA
1 ATCCTTTGATAGTCCACCGAGACAGTAAACACAGGGTTATATTGTGTAAGACCATAGCTGAAAGA
*
108698074 CGTTATGGC
66 CGCTATGGC
* ** * * *
108698083 ATCCTTTGATAGTTCATTGAAACAGAAAACACGGGGTTATATTGTGTAAGACCATAGCTGAAAGA
1 ATCCTTTGATAGTCCACCGAGACAGTAAACACAGGGTTATATTGTGTAAGACCATAGCTGAAAGA
108698148 TGTTACAACA
Statistics
Matches: 120, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 120 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (74 bp):
ATCCTTTGATAGTCCACCGAGACAGTAAACACAGGGTTATATTGTGTAAGACCATAGCTGAAAGA
CGCTATGGC
Found at i:108698211 original size:27 final size:27
Alignment explanation
Indices: 108698181--108698251 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
108698171 GTCAGGGCAC
* *
108698181 TAAACACAAGATAGTCTAATGAGACAT
1 TAAACACAAGATAGTCCAACGAGACAT
* * *
108698208 TAAACATAGGATGGTCCAACGAGACAT
1 TAAACACAAGATAGTCCAACGAGACAT
*
108698235 TAAACACAAAATAGTCC
1 TAAACACAAGATAGTCC
108698252 GCTGGGACAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.20
Consensus pattern (27 bp):
TAAACACAAGATAGTCCAACGAGACAT
Done.