Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 326 of 373
Found at i:109504459 original size:37 final size:40
Alignment explanation
Indices: 109504387--109504460 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
109504377 TCCTTCCCCT
109504387 TTCTTTTCCTTTTCTCTTCTTTCCTCCTTCTCCCTCTCTG
1 TTCTTTTCCTTTTCTCTTCTTTCCTCCTTCTCCCTCTCTG
** *
109504427 TTCTTTTTTTTTTCTCTT-TTT-CTCTTTC-CCCTCT
1 TTCTTTTCCTTTTCTCTTCTTTCCTCCTTCTCCCTCT
109504461 GACTACCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 6 0.19
38 6 0.19
39 3 0.10
40 16 0.52
ACGTcount: A:0.00, C:0.35, G:0.01, T:0.64
Consensus pattern (40 bp):
TTCTTTTCCTTTTCTCTTCTTTCCTCCTTCTCCCTCTCTG
Found at i:109512146 original size:6 final size:6
Alignment explanation
Indices: 109512135--109512165 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
109512125 AAGCAGAGTG
109512135 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA G
1 GGCTCA GGCTCA GGCTCA GGCTCA GGCTCA G
109512166 CCACTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.16
Consensus pattern (6 bp):
GGCTCA
Found at i:109517633 original size:2 final size:2
Alignment explanation
Indices: 109517628--109517664 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
109517618 ATATATATAT
109517628 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
109517665 AGCATGTAAA
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:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:109520757 original size:7 final size:7
Alignment explanation
Indices: 109520745--109520778 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
109520735 GAATATTACT
109520745 GCAAAAG
1 GCAAAAG
109520752 GCAAAAG
1 GCAAAAG
109520759 GCAAAAG
1 GCAAAAG
109520766 GCAAAAG
1 GCAAAAG
109520773 GCAAAA
1 GCAAAA
109520779 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.15, G:0.26, T:0.00
Consensus pattern (7 bp):
GCAAAAG
Found at i:109520785 original size:21 final size:21
Alignment explanation
Indices: 109520745--109520785 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
109520735 GAATATTACT
***
109520745 GCAAAAGGCAAAAGGCAAAAG
1 GCAAAAGGCAAAAAAAAAAAG
109520766 GCAAAAGGCAAAAAAAAAAA
1 GCAAAAGGCAAAAAAAAAAA
109520786 AAAAAAAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.12, G:0.22, T:0.00
Consensus pattern (21 bp):
GCAAAAGGCAAAAAAAAAAAG
Found at i:109528273 original size:64 final size:63
Alignment explanation
Indices: 109528166--109528387 Score: 372
Period size: 64 Copynumber: 3.5 Consensus size: 63
109528156 TGAGCTTATA
109528166 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCAAATTAGATTAATGTTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTC-AATTAGATTAATGTTGTAATGTATT
109528230 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTTCAATTAGATTAATGTTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTG-TTCAATTAGATTAATGTTGTAATGTATT
* * * *
109528294 TAATTTATATTACAAAATTTATATTACAAAGTTTGCTCCAATTAGATTAATGTTGTAATATTTT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTG-TTCAATTAGATTAATGTTGTAATGTATT
*
109528358 TAATTTATATTACAAAATTTATATTACAAA
1 TAATTTATATAACAAAATTTATATTACAAA
109528388 ACTAAGTTTG
Statistics
Matches: 152, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
64 149 0.98
65 3 0.02
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (63 bp):
TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCAATTAGATTAATGTTGTAATGTATT
Found at i:109528314 original size:14 final size:14
Alignment explanation
Indices: 109528295--109528323 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
109528285 TAATGTATTT
109528295 AATTTATATTACAA
1 AATTTATATTACAA
109528309 AATTTATATTACAA
1 AATTTATATTACAA
109528323 A
1 A
109528324 GTTTGCTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:109528378 original size:14 final size:14
Alignment explanation
Indices: 109528359--109528388 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
109528349 TAATATTTTT
109528359 AATTTATATTACAA
1 AATTTATATTACAA
109528373 AATTTATATTACAA
1 AATTTATATTACAA
109528387 AA
1 AA
109528389 CTAAGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTTATATTACAA
Found at i:109529654 original size:14 final size:14
Alignment explanation
Indices: 109529634--109529668 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
109529624 CAAATTACAT
109529634 ATTAGAATAGGATC
1 ATTAGAATAGGATC
* *
109529648 GTTAGAATAGTATC
1 ATTAGAATAGGATC
109529662 ATTAGAA
1 ATTAGAA
109529669 AAAAAATCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (14 bp):
ATTAGAATAGGATC
Found at i:109530354 original size:21 final size:17
Alignment explanation
Indices: 109530295--109530344 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
109530285 TATAAACATG
* *
109530295 TATTTAATTATTAATAGA
1 TATTT-ATTATTAAAAAA
109530313 TATTTATTATTAAAAAA
1 TATTTATTATTAAAAAA
109530330 TATTTATTAATTAAA
1 TATTTATT-ATTAAA
109530345 TAATTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 18 0.62
18 11 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TATTTATTATTAAAAAA
Found at i:109530355 original size:31 final size:30
Alignment explanation
Indices: 109530302--109530377 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
109530292 ATGTATTTAA
* *
109530302 TTATTAATAGATATTTATTATTAAAAAATAT
1 TTATTAATAAATAATTATTATTAAAAAAT-T
* *
109530333 TTATTAATTAAATAATTA-TATTATAAGATT
1 TTATTAA-TAAATAATTATTATTAAAAAATT
109530363 TTATGTAATAAATAA
1 TTAT-TAATAAATAA
109530378 ATTAAAAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 12 0.31
31 19 0.49
32 8 0.21
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (30 bp):
TTATTAATAAATAATTATTATTAAAAAATT
Found at i:109530494 original size:11 final size:12
Alignment explanation
Indices: 109530464--109530497 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
109530454 GTATGTTTAC
109530464 TTATTATATAAG
1 TTATTATATAAG
109530476 TATATTAT-TAAG
1 T-TATTATATAAG
109530488 TTATTATATA
1 TTATTATATA
109530498 TATATATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:109530597 original size:18 final size:19
Alignment explanation
Indices: 109530562--109530602 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
109530552 AATAGCAAAC
*
109530562 GGGAAAAGAATGAAGAAAA
1 GGGAAAAGAATAAAGAAAA
109530581 GGGAAAAGAA-AAAGAAAA
1 GGGAAAAGAATAAAGAAAA
109530599 GGGA
1 GGGA
109530603 GAATTAGGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.02
Consensus pattern (19 bp):
GGGAAAAGAATAAAGAAAA
Found at i:109534231 original size:119 final size:119
Alignment explanation
Indices: 109534099--109534335 Score: 370
Period size: 119 Copynumber: 2.0 Consensus size: 119
109534089 AAAATAAAAA
* * *
109534099 TTTTATATTAAAATATTAAAAATAATATGCCAATAAAAAATATAAAATAAAGAACATAACATAAA
1 TTTTATATTAAAATACTAAAAATAACATGCCAATAAAAAA-ATAAAACAAA-AACATAACATAAA
* *
109534164 CGATACATAATAAATA-TAA-ATATTATTATTATTTTGAAATGATAATAAGTAAAT
64 CGATACATAATAAATACGAATATATTATTATTATTTTAAAATGATAATAAGTAAAT
* *
109534218 TTTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAATATAACAAAAACATAACATAAATG
1 TTTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAATAAAACAAAAACATAACATAAACG
*
109534283 ATACATAATAAATACGAATATTTTATTATTATTTTAAAATGATAATAAGTAAA
66 ATACATAATAAATACGAATATATTATTATTATTTTAAAATGATAATAAGTAAA
109534336 CATTTTTGGT
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
117 28 0.26
118 10 0.09
119 70 0.65
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (119 bp):
TTTTATATTAAAATACTAAAAATAACATGCCAATAAAAAAATAAAACAAAAACATAACATAAACG
ATACATAATAAATACGAATATATTATTATTATTTTAAAATGATAATAAGTAAAT
Found at i:109535199 original size:27 final size:27
Alignment explanation
Indices: 109535158--109535220 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
109535148 TGCCAAAATG
* *
109535158 GTGCCGCCT-CTGCCAGCTCCTCCACCA
1 GTGCCGCCTGC-GCCAACTCCGCCACCA
* *
109535185 GTGCTGCCTGCGCCAACTCCGCCACGA
1 GTGCCGCCTGCGCCAACTCCGCCACCA
109535212 GTGCCGCCT
1 GTGCCGCCT
109535221 CTCCCCTAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.11, C:0.48, G:0.24, T:0.17
Consensus pattern (27 bp):
GTGCCGCCTGCGCCAACTCCGCCACCA
Found at i:109546874 original size:18 final size:18
Alignment explanation
Indices: 109546851--109547133 Score: 160
Period size: 18 Copynumber: 15.3 Consensus size: 18
109546841 GAATAATTAT
* *
109546851 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
109546869 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * *
109546887 TTATTCAATAATAACCAG
1 TTATTCAGTAACAATCAA
* * *
109546905 TTATTCGGTATCGATCAA
1 TTATTCAGTAACAATCAA
*
109546923 TTGATCGGCTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAATCAA
109546949 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
* *
109546967 -TATTCAGTAACTATTAA
1 TTATTCAGTAACAATCAA
* *
109546984 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAATCAA
* * *
109547002 TTCATTCAGTGATAATCAG
1 TT-ATTCAGTAACAATCAA
**
109547021 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * *
109547039 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
*
109547057 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
* *
109547076 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
109547093 TTATCCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* *
109547111 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAA
109547129 TTATT
1 TTATT
109547134 TTATACCTTA
Statistics
Matches: 202, Mismatches: 47, Indels: 32
0.72 0.17 0.11
Matches are distributed among these distances:
17 19 0.09
18 152 0.75
19 16 0.08
20 1 0.00
24 1 0.00
25 2 0.01
26 11 0.05
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:109546893 original size:36 final size:36
Alignment explanation
Indices: 109546851--109547133 Score: 187
Period size: 36 Copynumber: 7.6 Consensus size: 36
109546841 GAATAATTAT
* *
109546851 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * * *
109546887 TTATTCAATAATAACCAGTTATTCGGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* *
109546923 TTGATCGGCTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * *
109546967 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* * **
109547002 TTCATTCAGTGATAATCAGTTATTCAGTAATGATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
109547039 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * *
109547076 -TATCCAGTAACAGTCAATTATCCGGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
109547111 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
109547134 TTATACCTTA
Statistics
Matches: 187, Mismatches: 44, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
35 10 0.05
36 133 0.71
37 18 0.10
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:109546910 original size:54 final size:54
Alignment explanation
Indices: 109546838--109547133 Score: 197
Period size: 54 Copynumber: 5.4 Consensus size: 54
109546828 TCATTAACAC
* * *
109546838 TCAG-AATAATTATTTATTCAGTAACAGTCAGTTATTCGGTAACAATCAATTAT
1 TCAGTAATAATCAGTTATTCAGTAACAGTCAGTTATTCAGTAACAATCAATTAT
* * * * * * *
109546891 TCAATAATAACCAGTTATTCGGTATCGATCAATTGATCGGCTATCCAGTAACAGTCAATTAT
1 TCAGTAATAATCAGTTATTCAGTA---A-C-A--G-TCAGTTATTCAGTAACAATCAATTAT
* * * * *
109546953 TCAGTAA-AATCAGATATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-ATTCAT
1 TCAGTAATAATCAGTTATTCAGTAAC-AGTCAGTTATTCAGTAACAATCAATT-AT
* * * * * *
109547007 TCAGTGATAATCAGTTATTCAGTAA-TGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAATAATCAGTTATTCAGTAACAG-TCAGTTATTCAGTAACAATCAATTAT
* * * * * * *
109547061 TCAGTAACAGTCTA-ATATCCAGTAACAGTCAATTATCCGGTAACAATCAATTAT
1 TCAGTAATAATC-AGTTATTCAGTAACAGTCAGTTATTCAGTAACAATCAATTAT
109547115 TCAGTAATAATCAGTTATT
1 TCAGTAATAATCAGTTATT
109547134 TTATACCTTA
Statistics
Matches: 181, Mismatches: 46, Indels: 31
0.70 0.18 0.12
Matches are distributed among these distances:
53 7 0.04
54 107 0.59
55 20 0.11
57 3 0.02
58 2 0.01
59 1 0.01
61 14 0.08
62 27 0.15
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (54 bp):
TCAGTAATAATCAGTTATTCAGTAACAGTCAGTTATTCAGTAACAATCAATTAT
Found at i:109547066 original size:72 final size:71
Alignment explanation
Indices: 109546932--109547133 Score: 228
Period size: 72 Copynumber: 2.8 Consensus size: 71
109546922 ATTGATCGGC
* * *
109546932 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
109546996 CAGTC-AT
64 CAGTCTAA
* * * * *
109547003 TCATTCAGTGATAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
109547068 CAGTCTAA
64 CAGTCTAA
* * * *
109547076 TATCCAGTAACAGTCAATTATCCGGTAACAATCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
109547134 TTATACCTTA
Statistics
Matches: 108, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
71 1 0.01
72 91 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:109547356 original size:45 final size:45
Alignment explanation
Indices: 109547290--109547476 Score: 275
Period size: 45 Copynumber: 4.2 Consensus size: 45
109547280 ACAAATCCGG
* ** * *
109547290 AACAGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAACGGT
1 AACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
*
109547335 AACAATAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
1 AACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
** *
109547380 AACAGTAACAATATTCAACACACACAGTGCCGAATCGGTAACAGT
1 AACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
*
109547425 AGCAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
1 AACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
*
109547470 AGCAGTA
1 AACAGTA
109547477 GCGGTAACAA
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 128 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
AACAGTAACAATATTTGACACACAAAGTGCCGAATCGGTAACAGT
Found at i:109547415 original size:90 final size:90
Alignment explanation
Indices: 109547290--109547476 Score: 311
Period size: 90 Copynumber: 2.1 Consensus size: 90
109547280 ACAAATCCGG
* * *
109547290 AACAGTAACAGTATTCAACACACAAAGTGCTGAATCGGTAACGGTAACAATAACAATATTTGACA
1 AACAGTAACAATATTCAACACACAAAGTGCCGAATCGGTAACAGTAACAATAACAATATTTGACA
109547355 CACAAAGTGCCGAATCGGTAACAGT
66 CACAAAGTGCCGAATCGGTAACAGT
* * *
109547380 AACAGTAACAATATTCAACACACACAGTGCCGAATCGGTAACAGTAGCAGTAACAATATTTGACA
1 AACAGTAACAATATTCAACACACAAAGTGCCGAATCGGTAACAGTAACAATAACAATATTTGACA
109547445 CACAAAGTGCCGAATCGGTAACAGT
66 CACAAAGTGCCGAATCGGTAACAGT
*
109547470 AGCAGTA
1 AACAGTA
109547477 GCGGTAACAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (90 bp):
AACAGTAACAATATTCAACACACAAAGTGCCGAATCGGTAACAGTAACAATAACAATATTTGACA
CACAAAGTGCCGAATCGGTAACAGT
Found at i:109547896 original size:5 final size:5
Alignment explanation
Indices: 109547885--109547931 Score: 67
Period size: 5 Copynumber: 9.2 Consensus size: 5
109547875 AATTAATCAT
* *
109547885 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
109547932 CTTTTCCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 34 0.87
6 5 0.13
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:109548318 original size:21 final size:21
Alignment explanation
Indices: 109548293--109548353 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
109548283 TTCAATTTCA
109548293 ATTCAATAA-CAATTCACATAT
1 ATTCAATAATCAATTCA-ATAT
109548314 ATTC-ATAAATCAATTCAATAT
1 ATTCAAT-AATCAATTCAATAT
* * *
109548335 AATCAATATTCAATACAAT
1 ATTCAATAATCAATTCAAT
109548354 TCATATAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 23 0.68
22 9 0.26
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATAATCAATTCAATAT
Found at i:109549580 original size:26 final size:26
Alignment explanation
Indices: 109549546--109549600 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
109549536 CTTTCCCCTA
*
109549546 TTTCGTCTCCTTCTCTGTTTCTTTTTC
1 TTTCGTCTCCTTCTCT-TTTCTTTTAC
* *
109549573 TTTC-TCTCTTTCTCTTTTGTTTTAC
1 TTTCGTCTCCTTCTCTTTTCTTTTAC
109549598 TTT
1 TTT
109549601 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.44
26 10 0.40
27 4 0.16
ACGTcount: A:0.02, C:0.25, G:0.05, T:0.67
Consensus pattern (26 bp):
TTTCGTCTCCTTCTCTTTTCTTTTAC
Found at i:109549619 original size:9 final size:9
Alignment explanation
Indices: 109549600--109549643 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
109549590 TGTTTTACTT
109549600 TATAT-ATA
1 TATATAATA
109549608 TATATAATA
1 TATATAATA
109549617 TATATAATA
1 TATATAATA
*
109549626 -ACAATAATA
1 TA-TATAATA
109549635 TATATAATA
1 TATATAATA
109549644 ACAATAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 6 0.19
9 24 0.77
10 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (9 bp):
TATATAATA
Found at i:109549634 original size:18 final size:18
Alignment explanation
Indices: 109549611--109549652 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
109549601 ATATATATAT
109549611 ATAATATATATAATAACA
1 ATAATATATATAATAACA
109549629 ATAATATATATAATAACA
1 ATAATATATATAATAACA
109549647 ATAATA
1 ATAATA
109549653 ATAATGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAATATATATAATAACA
Found at i:109551149 original size:20 final size:18
Alignment explanation
Indices: 109551090--109551157 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 18
109551080 AGAGTTATAA
*
109551090 AAAATT-ATAAAA-AATT
1 AAAATTAATAAAATCATT
* *
109551106 AAAATTTATAAAATTATT
1 AAAATTAATAAAATCATT
109551124 AGAAATTAATTAAAATCATAT
1 A-AAATTAA-TAAAATCAT-T
*
109551145 AAAATTTATAAAA
1 AAAATTAATAAAA
109551158 AATTATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
16 6 0.14
17 6 0.14
18 4 0.09
19 11 0.26
20 14 0.33
21 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (18 bp):
AAAATTAATAAAATCATT
Found at i:109551192 original size:26 final size:25
Alignment explanation
Indices: 109551150--109551198 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
109551140 CATATAAAAT
* *
109551150 TTATAAAAAATTATTATTTTATATC
1 TTATAAAAAATAATTATATTATATC
*
109551175 TTATATAAAATAACTTATATTATA
1 TTATAAAAAATAA-TTATATTATA
109551199 ATATCAAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATAAAAAATAATTATATTATATC
Found at i:109554351 original size:16 final size:17
Alignment explanation
Indices: 109554313--109554353 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
109554303 AATAATCATA
109554313 TATAATTAAAATAATACT
1 TATAA-TAAAATAATACT
*
109554331 TATAATAAAATAAT-TT
1 TATAATAAAATAATACT
109554347 TATAATA
1 TATAATA
109554354 TATAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAATAAAATAATACT
Found at i:109563044 original size:19 final size:20
Alignment explanation
Indices: 109563005--109563044 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
109562995 AAAAATCTAA
*
109563005 TTTAATATTTTTATAGGTTT
1 TTTAATATTTTTATAAGTTT
109563025 TTTAA-ATTTTTATAA-TTT
1 TTTAATATTTTTATAAGTTT
109563043 TT
1 TT
109563045 AGAGAGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 9 0.47
20 5 0.26
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTAATATTTTTATAAGTTT
Found at i:109564891 original size:3 final size:3
Alignment explanation
Indices: 109564883--109564909 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
109564873 CAAATAAAAA
109564883 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
109564910 ATTATTATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:109565679 original size:21 final size:20
Alignment explanation
Indices: 109565649--109565688 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
109565639 AAATATATTT
*
109565649 TTAATTTAAAATTTTAAAAC
1 TTAATTTAAAAATTTAAAAC
109565669 TTAATTTTAAAAATTTAAAA
1 TTAA-TTTAAAAATTTAAAA
109565689 ACATTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATTTAAAAATTTAAAAC
Found at i:109574865 original size:15 final size:15
Alignment explanation
Indices: 109574831--109574866 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
109574821 TGTTTGATCA
*
109574831 ATTGAAAAATTAATT
1 ATTGAAAAATTAAGT
*
109574846 GTTGAAAAATTAAGT
1 ATTGAAAAATTAAGT
109574861 ATTGAA
1 ATTGAA
109574867 TTTATAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (15 bp):
ATTGAAAAATTAAGT
Found at i:109577923 original size:13 final size:13
Alignment explanation
Indices: 109577890--109577914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109577880 TAATTAAATA
109577890 AAATAAAAGAAAC
1 AAATAAAAGAAAC
109577903 AAATAAAAGAAA
1 AAATAAAAGAAA
109577915 GAATGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.08, T:0.08
Consensus pattern (13 bp):
AAATAAAAGAAAC
Found at i:109593038 original size:28 final size:28
Alignment explanation
Indices: 109593006--109593074 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
109592996 TGTGAATCTT
** *
109593006 GCACTAAGTGTGCGAATGTAGTTATTGA
1 GCACTAAGTGTGCGAATGTAAATATTAA
* *
109593034 GCACTAAGTGTGCGAGTTTAAATATTAA
1 GCACTAAGTGTGCGAATGTAAATATTAA
109593062 GCACTAAGTGTGC
1 GCACTAAGTGTGC
109593075 AAATTGTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAATGTAAATATTAA
Found at i:109593090 original size:31 final size:28
Alignment explanation
Indices: 109593006--109593090 Score: 73
Period size: 28 Copynumber: 2.9 Consensus size: 28
109592996 TGTGAATCTT
* ** *
109593006 GCACTAAGTGTGCGAA-TGTAGTTATTGA
1 GCACTAAGTGTGC-AAGTATAAATATTAA
* *
109593034 GCACTAAGTGTGCGAGTTTAAATATTAA
1 GCACTAAGTGTGCAAGTATAAATATTAA
109593062 GCACTAAGTGTGCAAATTGTATAAATATT
1 GCACTAAGTGTGC-AA--GTATAAATATT
109593091 TTCTGAGTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 1 0.02
28 34 0.74
29 1 0.02
31 10 0.22
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTATAAATATTAA
Found at i:109601717 original size:3 final size:3
Alignment explanation
Indices: 109601709--109601745 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
109601699 TGGTTTAACC
109601709 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
109601746 TTGAATTCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:109603510 original size:40 final size:39
Alignment explanation
Indices: 109603433--109603581 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 39
109603423 TTTAGTGGCT
* *
109603433 TTAGCGGCGCTTTTT-AAAATGCTGCTAAAGATCGAGTA
1 TTAGCGGCGCTTTTTGAAAACGCCGCTAAAGATCGAGTA
109603471 TTAGCGGCGCTTTTTGGAAAACGCCGCTAAAGATCGAGTA
1 TTAGCGGCGCTTTTT-GAAAACGCCGCTAAAGATCGAGTA
* * * *
109603511 TTAGCGGCGTTTTTTTAAAACGCCGCTATATG-TAC-ACCT-
1 TTAGCGGCGCTTTTTGAAAACGCCGCTA-AAGAT-CGA-GTA
109603550 TTAGCGGCGCTTTTTGAAAAACGCCGC-AAAGA
1 TTAGCGGCGCTTTTTG-AAAACGCCGCTAAAGA
109603582 ATTTTGCAAA
Statistics
Matches: 95, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
38 17 0.18
39 29 0.31
40 49 0.52
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (39 bp):
TTAGCGGCGCTTTTTGAAAACGCCGCTAAAGATCGAGTA
Found at i:109604036 original size:22 final size:22
Alignment explanation
Indices: 109604006--109604070 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
109603996 TTAATGGCTA
*
109604006 GGGATTAGGGGTTAAGTGTTAAG
1 GGGA-TAGGGGTTAAGCGTTAAG
*
109604029 GGGATAGGGGTTAGGCGTTAAG
1 GGGATAGGGGTTAAGCGTTAAG
* *
109604051 GGGACAGGGGTTAAGGGTTA
1 GGGATAGGGGTTAAGCGTTA
109604071 GAGGTTTATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 33 0.89
23 4 0.11
ACGTcount: A:0.25, C:0.03, G:0.48, T:0.25
Consensus pattern (22 bp):
GGGATAGGGGTTAAGCGTTAAG
Found at i:109604155 original size:15 final size:14
Alignment explanation
Indices: 109604140--109604188 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
109604130 GTGATGGGGT
*
109604140 TTAAGGTTTAGGGG
1 TTAAGGTTTAAGGG
109604154 TT-AGGTGTTAAGGG
1 TTAAGGT-TTAAGGG
*
109604168 TTTATGGTTTAAGGG
1 -TTAAGGTTTAAGGG
109604183 TTAAGG
1 TTAAGG
109604189 GATATGGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 4 0.14
14 13 0.45
15 9 0.31
16 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (14 bp):
TTAAGGTTTAAGGG
Found at i:109604176 original size:29 final size:28
Alignment explanation
Indices: 109604136--109604256 Score: 88
Period size: 29 Copynumber: 4.2 Consensus size: 28
109604126 TTATGTGATG
*
109604136 GGGTTTAAGGTTTAGGGGTTAGGTGTTAA
1 GGGTTTATGGTTTAGGGGTTAGG-GTTAA
* * *
109604165 GGGTTTATGGTTTAAGGGTTAAGGGATAT
1 GGGTTTATGGTTTAGGGGTT-AGGGTTAA
* *
109604194 GGG-TTATGAGTTTAGGGTTTAGGATTTAA
1 GGGTTTATG-GTTTAGGGGTTAGG-GTTAA
* *
109604223 -GATTTAGTGG--TAGGGGTTAGAGGTTTA
1 GGGTTTA-TGGTTTAGGGGTTAG-GGTTAA
109604250 GGGTTTA
1 GGGTTTA
109604257 GATTAATCAA
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
27 12 0.17
28 15 0.21
29 39 0.55
30 5 0.07
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (28 bp):
GGGTTTATGGTTTAGGGGTTAGGGTTAA
Found at i:109604188 original size:43 final size:43
Alignment explanation
Indices: 109604148--109604257 Score: 102
Period size: 42 Copynumber: 2.6 Consensus size: 43
109604138 GTTTAAGGTT
*
109604148 TAGGGGTTAGGTGTTAAGGGTTTATGG-TTTAAGGGTTAAGGGA
1 TAGGGGTTAGGAGTTAAGGGTTTA-GGATTTAAGGGTTAAGGGA
* * * * *
109604191 TATGGGTTATGAGTTTAGGGTTTAGGATTTAA-GATTTAGTGG-
1 TAGGGGTTAGGAGTTAAGGGTTTAGGATTTAAGGGTTAAG-GGA
*
109604233 TAGGGGTTA-GAGGTTTAGGGTTTAG
1 TAGGGGTTAGGA-GTTAAGGGTTTAG
109604258 ATTAATCAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.04
42 28 0.49
43 27 0.47
ACGTcount: A:0.23, C:0.00, G:0.39, T:0.38
Consensus pattern (43 bp):
TAGGGGTTAGGAGTTAAGGGTTTAGGATTTAAGGGTTAAGGGA
Found at i:109604686 original size:18 final size:18
Alignment explanation
Indices: 109604663--109604706 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
109604653 CCCAAAATAG
* *
109604663 ATTTCCCC-AATTCTCTAC
1 ATTTCCCCTAA-TCCCTAA
109604681 ATTTCCCCTAATCCCTAA
1 ATTTCCCCTAATCCCTAA
109604699 ATTTCCCC
1 ATTTCCCC
109604707 CAAAATCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (18 bp):
ATTTCCCCTAATCCCTAA
Found at i:109618276 original size:40 final size:41
Alignment explanation
Indices: 109618193--109618442 Score: 228
Period size: 40 Copynumber: 6.3 Consensus size: 41
109618183 ACCCAAGTAT
* *** *
109618193 CTTCGGGATTTAG-CCAGATA-TAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
* * * * *
109618231 CTTCGGGTCTTAGCCCAGATA-TGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
* * * *
109618271 CTTCGGGTCTTAGCTCGGATA-TAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
* *
109618311 CTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACCAATGC
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
*
109618351 CTTCGGGACTTAGCCCA-AAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
* * * * * *
109618391 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAAGGT
1 CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
*
109618431 CTTCAGGACTTA
1 CTTCGGGACTTA
109618443 ACCCCGTTAG
Statistics
Matches: 179, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
38 11 0.06
39 17 0.09
40 150 0.84
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCAGATATTAGTAACTCGCACAAATGC
Found at i:109618425 original size:120 final size:119
Alignment explanation
Indices: 109618218--109618442 Score: 267
Period size: 120 Copynumber: 1.9 Consensus size: 119
109618208 AGATATAACC
* * * * * *
109618218 ACTCGCACAAGGCCTTCGGGTCTTAGCCCAGATATGGTCACTAGCATAAATGCCTTCGGGTCTTA
1 ACTCGCACAAGGCCTTCGGGACTTAGCCCAAATATAGTAACTAGCACAAATGCCTTCGGGACTTA
* * * *
109618283 GCTCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
66 GCCCGGATATAGCAACTAGCACAAAGGCCTTCAGGACTTAGCCCGGAATTAGTA
* *
109618337 ACTCGCACCAATGCCTTCGGGACTTAGCCCAAA-ATTAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCA-CAAGGCCTTCGGGACTTAGCCCAAATA-TAGTAACTAGCACAAATGCCTTCGGGACT
* *
109618401 TAGCCCGGA-ATTAATC-ACTAGCACAAAGGTCTTCAGGACTTA
64 TAGCCCGGATA-T-AGCAACTAGCACAAAGGCCTTCAGGACTTA
109618443 ACCCCGTTAG
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
119 9 0.10
120 77 0.88
121 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
ACTCGCACAAGGCCTTCGGGACTTAGCCCAAATATAGTAACTAGCACAAATGCCTTCGGGACTTA
GCCCGGATATAGCAACTAGCACAAAGGCCTTCAGGACTTAGCCCGGAATTAGTA
Found at i:109629090 original size:44 final size:44
Alignment explanation
Indices: 109629011--109629097 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
109629001 CCGACATGTG
* * *
109629011 ATTTAGTGTAAGACCACATCTGGGACTTTGGCATCG-ATTTGAA
1 ATTTAGTGTAAGACCACATCTGGGACATCGACATCGTATTTGAA
**
109629054 ATTTATGTGTAAGACCATGTCTGGGACATCGACATCGTATTTGA
1 ATTTA-GTGTAAGACCACATCTGGGACATCGACATCGTATTTGA
109629098 TTTCATGTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 5 0.14
44 26 0.70
45 6 0.16
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (44 bp):
ATTTAGTGTAAGACCACATCTGGGACATCGACATCGTATTTGAA
Found at i:109642340 original size:48 final size:48
Alignment explanation
Indices: 109642269--109642589 Score: 265
Period size: 48 Copynumber: 6.6 Consensus size: 48
109642259 TATGTGTGCT
*
109642269 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * * * *
109642317 AGTGTAAGACCATGTCTGGGACATAGCATCGGCGTTGA-TGTGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCC
* * *
109642365 AGTGTAAGACCATGTTTGGGACATGGCATTGGCCCCATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * * * * * *
109642413 AGTGTAAGACCAAGCCTAGGACATGGCATCGGCCTCAATGTGCGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * * * * *
109642461 AATGTAAGACCATGTTTGGAACATGGCATC-G--ACATTGTTCTATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-AT-GA-GAGCC
* *
109642509 AGTGTAAGACCATGTCTAGGACTTGGCATCGG-CACCGATATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C-AT-TATGAGAGCC
* *
109642559 AGTGTAAGACCATGTCCGAGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
109642590 TCATTTTACC
Statistics
Matches: 209, Mismatches: 54, Indels: 18
0.74 0.19 0.06
Matches are distributed among these distances:
45 3 0.01
46 1 0.00
47 2 0.01
48 164 0.78
49 2 0.01
50 31 0.15
51 2 0.01
52 3 0.01
53 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:109642454 original size:96 final size:96
Alignment explanation
Indices: 109642261--109642491 Score: 311
Period size: 96 Copynumber: 2.4 Consensus size: 96
109642251 TTGGTTGATA
* *
109642261 TGTGTGCTAGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGAGAGCCAGTGTAAGA
1 TGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGA
* * * * **
109642326 CCATGTCTGGGACATAGCATCGGCGTTGATG
66 CCAAGCCTAGGACATAGCATCGGCCTCAATG
* *
109642357 TGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCCCATTATGAGAGCCAGTGTAAGA
1 TGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGA
*
109642422 CCAAGCCTAGGACATGGCATCGGCCTCAATG
66 CCAAGCCTAGGACATAGCATCGGCCTCAATG
* * * *
109642453 TGCGAG-TCAATGTAAGACCATGTTTGGAACATGGCATCG
1 TGTGTGCT-AGTGTAAGACCATGTTTGGGACATGGCATCG
109642492 ACATTGTTCT
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
95 1 0.01
96 117 0.99
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (96 bp):
TGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGA
CCAAGCCTAGGACATAGCATCGGCCTCAATG
Found at i:109642536 original size:144 final size:146
Alignment explanation
Indices: 109642269--109642589 Score: 380
Period size: 144 Copynumber: 2.2 Consensus size: 146
109642259 TATGTGTGCT
* * * * *
109642269 AGTGTAAGACCATGTCTGGGACATGGTATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGCCTAGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCT
* * * * * * * *
109642334 GGGACATAGCATCGGCGTTGATGTGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGC-
66 GGAACATAGCATCGACATTGATCTATGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
109642398 CCCAT-TATGAGAGCC
131 CCCATATATGAGAGCC
* * * * * *
109642413 AGTGTAAGACCAAGCCTAGGACATGGCATCGGCCTCAATGTGCGAGTCAATGTAAGACCATGTTT
1 AGTGTAAGACCATGCCTAGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCT
* * *
109642478 GGAACATGGCATCGACATTGTTCTATGTG-TCAGTGTAAGACCATGTCTAGGACTTGGCATCGGC
66 GGAACATAGCATCGACATTGATCTATGTGCT-AGTGTAAGACCATGTCTAGGACATGGCATCGGC
*
109642542 ACCGATATATGAGAGCC
130 ACCCATATATGAGAGCC
*
109642559 AGTGTAAGACCATGTCCGA-GACATGGCATCG
1 AGTGTAAGACCATG-CCTAGGACATGGCATCG
109642590 TCATTTTACC
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
143 1 0.01
144 105 0.71
145 4 0.03
146 35 0.24
147 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (146 bp):
AGTGTAAGACCATGCCTAGGACATGGCATCGGCCACAATATGAGAGCCAATGTAAGACCATGTCT
GGAACATAGCATCGACATTGATCTATGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
CCCATATATGAGAGCC
Found at i:109653785 original size:46 final size:45
Alignment explanation
Indices: 109653735--109653910 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 45
109653725 TGATTGAGCA
*
109653735 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
109653781 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
109653826 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
109653873 ACCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109653911 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.56
47 28 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:109653891 original size:93 final size:93
Alignment explanation
Indices: 109653732--109653903 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
109653722 GGATGATTGA
* **
109653732 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
*
109653797 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
109653825 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-CACCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACC-GAACTCGTTGAG
109653889 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
109653904 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:109655892 original size:42 final size:42
Alignment explanation
Indices: 109655762--109655920 Score: 130
Period size: 42 Copynumber: 3.8 Consensus size: 42
109655752 TACCAATGTT
* * * * *
109655762 ATATCCCAGATATGATCTTACATGTAA-TCTCGTATTGATGCC
1 ATATCTCAGATATGGTCTTACACG-AAGTCTCATATAGATGCC
* * * *
109655804 AATAGCCCA-ACTATGGTCTTACACGAAGTCTCATATTGATGTC
1 -ATATCTCAGA-TATGGTCTTACACGAAGTCTCATATAGATGCC
109655847 ATATC-CATGATATGGTCTTACACGAAGTCTCATATCAG-TGCC
1 ATATCTCA-GATATGGTCTTACACGAAGTCTCATAT-AGATGCC
* *
109655889 ATATCTCAGATTTGGTCTTCCACGTAA-TCTCA
1 ATATCTCAGATATGGTCTTACACG-AAGTCTCA
109655921 GTAACCCTAA
Statistics
Matches: 99, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
41 2 0.02
42 59 0.60
43 38 0.38
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (42 bp):
ATATCTCAGATATGGTCTTACACGAAGTCTCATATAGATGCC
Found at i:109679632 original size:16 final size:19
Alignment explanation
Indices: 109679611--109679648 Score: 55
Period size: 16 Copynumber: 2.2 Consensus size: 19
109679601 CAAAAAATGT
109679611 TTCCTAAA-AA-TAAA-AA
1 TTCCTAAATAATTAAACAA
109679627 TTCCTAAATAATTAAACAA
1 TTCCTAAATAATTAAACAA
109679646 TTC
1 TTC
109679649 TGACTATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 4 0.21
19 5 0.26
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (19 bp):
TTCCTAAATAATTAAACAA
Found at i:109681052 original size:12 final size:12
Alignment explanation
Indices: 109681035--109681064 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
109681025 CGTATTAAAA
*
109681035 TTTTTATATTAT
1 TTTTTATATAAT
109681047 TTTTTATATAAT
1 TTTTTATATAAT
109681059 TTTTTA
1 TTTTTA
109681065 AAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:109686650 original size:27 final size:27
Alignment explanation
Indices: 109686620--109686797 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
109686610 ATATTGAGCC
* * *
109686620 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
109686647 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
109686674 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
109686702 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
109686729 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
109686756 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
109686783 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
109686798 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:109686713 original size:55 final size:55
Alignment explanation
Indices: 109686620--109686797 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
109686610 ATATTGAGCC
* * *
109686620 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
109686674 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
109686729 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
109686783 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
109686798 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:109686759 original size:82 final size:81
Alignment explanation
Indices: 109686641--109686796 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
109686631 TGCTATACAA
* * *
109686641 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
109686706 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
109686723 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
109686787 CACTTAGTGC
65 CACTTAGTGC
109686797 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:109694541 original size:27 final size:27
Alignment explanation
Indices: 109694511--109694690 Score: 121
Period size: 27 Copynumber: 6.6 Consensus size: 27
109694501 GTATATTGAG
* *
109694511 CTCGCACACTCAGTGCTATACAATCAA
1 CTCGCACACTTAGTGCTACACAATCAA
* **
109694538 CTCGCACACTTAGTGCCACGTAATCAA
1 CTCGCACACTTAGTGCTACACAATCAA
* * * *
109694565 ATCGCACACTTAGTGCTACATAGTTAGA
1 CTCGCACACTTAGTGCTACACAATCA-A
** ***
109694593 CTCGCACACTTAGTGCCGCATGGTCAA
1 CTCGCACACTTAGTGCTACACAATCAA
* * * *
109694620 TTCGCACACTTAGTGC-ATCATATTCAT
1 CTCGCACACTTAGTGCTA-CACAATCAA
* * * *
109694647 TTCGCACACTTAGTGCAACATAGTCGAA
1 CTCGCACACTTAGTGCTACACAATC-AA
109694675 -TCGCACACTTAGTGCT
1 CTCGCACACTTAGTGCT
109694691 GTACAATTTA
Statistics
Matches: 126, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CTCGCACACTTAGTGCTACACAATCAA
Found at i:109694607 original size:55 final size:55
Alignment explanation
Indices: 109694512--109694690 Score: 206
Period size: 54 Copynumber: 3.3 Consensus size: 55
109694502 TATATTGAGC
* * *
109694512 TCGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAA
1 TCGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAA
* * *
109694566 TCGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAA
** * *
109694621 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAA
1 TCGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAA
109694675 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
109694691 GTACAATTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 57 0.54
55 45 0.43
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (55 bp):
TCGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAA
Found at i:109694652 original size:82 final size:81
Alignment explanation
Indices: 109694534--109694689 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
109694524 TGCTATACAA
* * *
109694534 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
109694599 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
109694616 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
109694680 CACTTAGTGC
65 CACTTAGTGC
109694690 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:109696528 original size:46 final size:44
Alignment explanation
Indices: 109696475--109696647 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 44
109696465 TTGGGCATCT
109696475 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA--TCC
*** * *
109696521 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATCC
* * *
109696568 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-GA-ATCC
*
109696614 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
109696648 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 1 0.01
46 67 0.63
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (44 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCC
Found at i:109696627 original size:93 final size:93
Alignment explanation
Indices: 109696468--109696639 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
109696458 AGAATATTTG
* * ***
109696468 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
109696533 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
109696561 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
109696626 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
109696640 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:109699046 original size:22 final size:22
Alignment explanation
Indices: 109699015--109699097 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 22
109699005 TGCTGAGAAT
*
109699015 GTCTCAAGACATAGATTGTTTG
1 GTCTCGAGACATAGATTGTTTG
109699037 GTCTCGAGACAAGACATAGATTGTTTG
1 GTCTC--G---AGACATAGATTGTTTG
* **
109699064 GTCTCGAGACATGAGGTTCATT-
1 GTCTCGAGACAT-AGATTGTTTG
109699086 GTCTCGAGACAT
1 GTCTCGAGACAT
109699098 GAGGTTCATT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
22 23 0.45
23 6 0.12
25 1 0.02
27 21 0.41
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (22 bp):
GTCTCGAGACATAGATTGTTTG
Found at i:109699049 original size:27 final size:27
Alignment explanation
Indices: 109699019--109699074 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
109699009 GAGAATGTCT
109699019 CAAGACATAGATTGTTTGGTCTCGAGA
1 CAAGACATAGATTGTTTGGTCTCGAGA
109699046 CAAGACATAGATTGTTTGGTCTCGAGA
1 CAAGACATAGATTGTTTGGTCTCGAGA
109699073 CA
1 CA
109699075 TGAGGTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (27 bp):
CAAGACATAGATTGTTTGGTCTCGAGA
Found at i:109699086 original size:27 final size:27
Alignment explanation
Indices: 109699029--109699107 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
109699019 CAAGACATAG
* ** **
109699029 ATTGTTTGGTCTCGAGACAAGACATAG
1 ATTGTTTGGTCTCGAGACATGAGGTTC
109699056 ATTGTTTGGTCTCGAGACATGAGGTTC
1 ATTGTTTGGTCTCGAGACATGAGGTTC
109699083 A----TT-GTCTCGAGACATGAGGTTC
1 ATTGTTTGGTCTCGAGACATGAGGTTC
109699105 ATT
1 ATT
109699108 TTCTCAAGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 20 0.44
23 2 0.04
27 23 0.51
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (27 bp):
ATTGTTTGGTCTCGAGACATGAGGTTC
Found at i:109699098 original size:22 final size:22
Alignment explanation
Indices: 109699064--109699118 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
109699054 AGATTGTTTG
109699064 GTCTCGAGACATGAGGTTCATT
1 GTCTCGAGACATGAGGTTCATT
109699086 GTCTCGAGACATGAGGTTCATT
1 GTCTCGAGACATGAGGTTCATT
* *
109699108 TTCTCAAGACA
1 GTCTCGAGACA
109699119 GGAAATATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (22 bp):
GTCTCGAGACATGAGGTTCATT
Found at i:109699883 original size:127 final size:127
Alignment explanation
Indices: 109699737--109699989 Score: 497
Period size: 127 Copynumber: 2.0 Consensus size: 127
109699727 TTCAATTTTT
109699737 AAAATTTAAAATTTAAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
1 AAAATTTAAAATTTAAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
109699802 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
66 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
*
109699864 AAAATTTAAAATTTTAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
1 AAAATTTAAAATTTAAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
109699929 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTT
66 ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTT
109699990 CCTGTTTTCA
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 125 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.36
Consensus pattern (127 bp):
AAAATTTAAAATTTAAAAAAAATTCAAATATCATCTAATATCTCAAATTTTCTTACTTCATAAAC
ATAAACGGGCTTCTTTCCCAAAGAAATCTACTAATTTGACTATCTTCTCTATCAACCGCTTA
Found at i:109705371 original size:16 final size:17
Alignment explanation
Indices: 109705347--109705382 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
109705337 GGAGTCTGGG
*
109705347 AAAGTAAAAAAA-AAAA
1 AAAGGAAAAAAAGAAAA
109705363 AAAGGAAAAAAAGAAAA
1 AAAGGAAAAAAAGAAAA
109705380 AAA
1 AAA
109705383 ACGAAGGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAGGAAAAAAAGAAAA
Found at i:109720283 original size:39 final size:39
Alignment explanation
Indices: 109720189--109720283 Score: 93
Period size: 39 Copynumber: 2.4 Consensus size: 39
109720179 CATGGCACAG
* * *
109720189 AAGTCCGATCAGGGGTATCGAAGTACAACAGGGGCTCGT
1 AAGTCCGATCAGGGGTACCAAAGTACAACAGGGGCACGT
* * * * *
109720228 AAGTGCGATGAAGGGTACCAAAGTACAATTA-GGTCACGT
1 AAGTCCGATCAGGGGTACCAAAGTACAA-CAGGGGCACGT
*
109720267 AAGTTCGATCAGGGGTA
1 AAGTCCGATCAGGGGTA
109720284 TAATTATATA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
39 43 0.98
40 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.20
Consensus pattern (39 bp):
AAGTCCGATCAGGGGTACCAAAGTACAACAGGGGCACGT
Found at i:109727257 original size:10 final size:10
Alignment explanation
Indices: 109727238--109727284 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
109727228 AAATTTGTTG
109727238 AAAA-TAATA
1 AAAATTAATA
109727247 AAAATTAATA
1 AAAATTAATA
*
109727257 AAAATTTGATA
1 AAAA-TTAATA
*
109727268 TAAAATTAATT
1 -AAAATTAATA
109727279 AAAATT
1 AAAATT
109727285 CAAAATGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.47
11 9 0.28
12 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTAATA
Found at i:109732308 original size:25 final size:25
Alignment explanation
Indices: 109732247--109732318 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
109732237 TATTTAAAAA
* *
109732247 AAAAAATTAATTAGTATAAAATATT
1 AAAAAATTAAATAATATAAAATATT
* *
109732272 -AAAAATTCAATAATTTGAAAA-ATT
1 AAAAAATTAAATAATAT-AAAATATT
*
109732296 AAAAAATTAAATAAAACTAAAAT
1 AAAAAATTAAATAATA-TAAAAT
109732319 TTAGGAGAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
24 15 0.42
25 20 0.56
26 1 0.03
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (25 bp):
AAAAAATTAAATAATATAAAATATT
Found at i:109734083 original size:19 final size:20
Alignment explanation
Indices: 109734059--109734100 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
109734049 GCTTTGTCGG
109734059 ATATGTTTCCAATGT-ATAT
1 ATATGTTTCCAATGTCATAT
109734078 ATATGTTTCCAATGTCATAT
1 ATATGTTTCCAATGTCATAT
109734098 ATA
1 ATA
109734101 CATATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (20 bp):
ATATGTTTCCAATGTCATAT
Found at i:109734883 original size:16 final size:17
Alignment explanation
Indices: 109734852--109734885 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
109734842 CATTCTTTGC
*
109734852 TCATACATTCCATCATT
1 TCATACAATCCATCATT
109734869 TCATACAAT-CATCATT
1 TCATACAATCCATCATT
109734885 T
1 T
109734886 AAATTCAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.41
Consensus pattern (17 bp):
TCATACAATCCATCATT
Found at i:109735962 original size:10 final size:10
Alignment explanation
Indices: 109735943--109735972 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
109735933 TATGAAATAA
109735943 TCAC-AACAT
1 TCACTAACAT
109735952 TCACTAACAT
1 TCACTAACAT
109735962 TCACTAACAT
1 TCACTAACAT
109735972 T
1 T
109735973 TCAAAATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (10 bp):
TCACTAACAT
Found at i:109756743 original size:34 final size:33
Alignment explanation
Indices: 109756677--109756748 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 33
109756667 TGTTATCGAC
* * *
109756677 ACTGAAATGGGCTAAGGCCCACACTGATACTGA
1 ACTGTAATGGGCTAAGGCCCACACTAAAACTGA
109756710 TACTGTAATGGGCTAAGGCCCTA-ACTAAAACTGA
1 -ACTGTAATGGGCTAAGGCCC-ACACTAAAACTGA
109756744 ACTGT
1 ACTGT
109756749 TACTGATACG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 5 0.15
34 28 0.82
35 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (33 bp):
ACTGTAATGGGCTAAGGCCCACACTAAAACTGA
Found at i:109762022 original size:30 final size:30
Alignment explanation
Indices: 109761986--109762043 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
109761976 CACAGACAGA
109761986 GACACAGGCGTGTGTCTCAGCCGTGTGAGG
1 GACACAGGCGTGTGTCTCAGCCGTGTGAGG
* *
109762016 GACACAGGCGTGTGTCTCGGGCGTGTGA
1 GACACAGGCGTGTGTCTCAGCCGTGTGA
109762044 AGTCTGCACC
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:0.16, C:0.22, G:0.41, T:0.21
Consensus pattern (30 bp):
GACACAGGCGTGTGTCTCAGCCGTGTGAGG
Found at i:109769403 original size:49 final size:49
Alignment explanation
Indices: 109769264--109769408 Score: 123
Period size: 49 Copynumber: 3.0 Consensus size: 49
109769254 ATCACATTGC
* * * * *
109769264 AACTCAAACTCCCAGTTCACAGTTGTTATAC-GATCACGGGTTGAAGTAT
1 AACTCAAGCCCCCAGTTGACAATGGTTATACTG-TCACGGGTTGAAGTAT
*** * * * *
109769313 AACTTGGGCTCCTAGTTGACAATGGCTAT-GTAGTCACGGGTTGAAGTAT
1 AACTCAAGCCCCCAGTTGACAATGGTTATACT-GTCACGGGTTGAAGTAT
* * *
109769362 AACTCAAGCCCCCAGTTGGCAATGGTTATACTGTCATGGGTTCAAGT
1 AACTCAAGCCCCCAGTTGACAATGGTTATACTGTCACGGGTTGAAGT
109769409 TTCATGATAC
Statistics
Matches: 73, Mismatches: 20, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
49 71 0.97
50 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (49 bp):
AACTCAAGCCCCCAGTTGACAATGGTTATACTGTCACGGGTTGAAGTAT
Found at i:109774742 original size:43 final size:42
Alignment explanation
Indices: 109774644--109774743 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
109774634 GATTTGAGAT
* **
109774644 TTACATGTAAGACCATGTCTGGGACATCGACATCATATCTGA
1 TTACATGTAAGACCATATCTGGGACAGAGACATCATATCTGA
* * * *
109774686 TTTCGTGTAAGACCCTATCTGGGACAGAGGCATCGATA-CTGAA
1 TTACATGTAAGACCATATCTGGGACAGAGACATC-ATATCTG-A
109774729 TTACATGTAAGACCA
1 TTACATGTAAGACCA
109774744 CGTTTTGGAC
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 30 0.65
43 16 0.35
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
TTACATGTAAGACCATATCTGGGACAGAGACATCATATCTGA
Found at i:109779762 original size:46 final size:46
Alignment explanation
Indices: 109779668--109779846 Score: 132
Period size: 46 Copynumber: 3.9 Consensus size: 46
109779658 GTAACCCGCC
* * * *
109779668 CATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--GCGTTCACATA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CT-AGATA
*
109779714 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGATA
* * * * * * * * *
109779760 CATTTCA-CGAACTTGAACTCAACTCAACGAGTTAGGACG-TTCGCATC
1 CA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-ATA
* * *
109779807 CACAAGTGAACTCAGACTCAACTCAACGGGTTCGGATGCC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
109779847 CAAATATCTG
Statistics
Matches: 101, Mismatches: 25, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
45 1 0.01
46 65 0.64
47 31 0.31
48 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGATA
Found at i:109789958 original size:13 final size:13
Alignment explanation
Indices: 109789940--109789965 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
109789930 GAAGCAATCA
109789940 CACACGGGCGTGT
1 CACACGGGCGTGT
109789953 CACACGGGCGTGT
1 CACACGGGCGTGT
109789966 TCCTGCGGAG
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:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:109792354 original size:40 final size:39
Alignment explanation
Indices: 109792294--109792382 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 39
109792284 TTCGATATCA
* *
109792294 CACACTTAGTGCCTCATATAGCTAAAGCTATTCCAACTCG
1 CACACTTAGTGCCTCATATAGCCAAAGCTATTCCAA-TAG
* **
109792334 CACACTTAGTG-CT-ATTTATAGCCGAAGCTATTTGAATAG
1 CACACTTAGTGCCTCA--TATAGCCAAAGCTATTCCAATAG
109792373 CACACTTAGT
1 CACACTTAGT
109792383 ACCGAACATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
38 1 0.02
39 14 0.33
40 27 0.64
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (39 bp):
CACACTTAGTGCCTCATATAGCCAAAGCTATTCCAATAG
Found at i:109799045 original size:49 final size:48
Alignment explanation
Indices: 109798942--109799166 Score: 235
Period size: 49 Copynumber: 4.6 Consensus size: 48
109798932 TGATATGCGT
* * * *
109798942 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAGATATGCAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATG-AA
*
109798990 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATATATGA-A
*
109799039 GCTAGTGTAAGACTTGTCTGGGACATGGCATC-AGCCTCGATATATGAAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCGATATATG-AA
* * *
109799088 G-TCAGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGATATGTG-A
1 GCT-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAA
* * **
109799135 GCCAGTGTAAGACCATGTTTGAAACATGGCAT
1 GCTAGTGTAAGACC-TGTCTGGGACATGGCAT
109799167 TGGCATCGTA
Statistics
Matches: 152, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
47 13 0.09
48 43 0.28
49 93 0.61
50 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAA
Found at i:109799110 original size:98 final size:97
Alignment explanation
Indices: 109798942--109799122 Score: 292
Period size: 98 Copynumber: 1.9 Consensus size: 97
109798932 TGATATGCGT
* *
109798942 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATGCAAGCTAGTGTAAGACCTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATGAAAGCTAGTGTAAGACCTGT
109799007 CTGGGACATGGCATCGACACCGATAGATGAGA
66 CTGGGACATGGCATCGACACCGATAGATGAGA
* * *
109799039 GCTAGTGTAAGACTTGTCTGGGACATGGCATCAGCCTCGATATATGAAAG-TCAGTGTAAGACCT
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCAAGATATGAAAGCT-AGTGTAAGACCT
109799103 GTCTGGGACATGGCATCGAC
64 GTCTGGGACATGGCATCGAC
109799123 TTAGATATGT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
97 26 0.34
98 51 0.66
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (97 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATATGAAAGCTAGTGTAAGACCTGT
CTGGGACATGGCATCGACACCGATAGATGAGA
Found at i:109817007 original size:43 final size:43
Alignment explanation
Indices: 109816959--109817112 Score: 166
Period size: 43 Copynumber: 3.6 Consensus size: 43
109816949 AATGCCATAA
* * ** *
109816959 CCCAGATATGGTTTTACATGTTTTCATATACCGATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCATATAACGATGCCAATGT
* * *
109817002 CCCAGACGTGGTCTTACAGGAAATCATATAACGATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCATATAACGATGCCAATGT
* * * *
109817045 CCTAGACATGGTCTTACATGTAATCACAATAA-AATTCCAATGT
1 CCCAGACATGGTCTTACATGTAATCA-TATAACGATGCCAATGT
* *
109817088 TCCATACATGGTCTTACATGTAATC
1 CCCAGACATGGTCTTACATGTAATC
109817113 TCATCTCGAT
Statistics
Matches: 92, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
43 88 0.96
44 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (43 bp):
CCCAGACATGGTCTTACATGTAATCATATAACGATGCCAATGT
Found at i:109824495 original size:39 final size:39
Alignment explanation
Indices: 109824441--109824519 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
109824431 ATCTGGAAAG
* *
109824441 ATCAAATAAAGAGTTAGATCGAGGAAAAGAAAATGTGAT
1 ATCAAATAAAAAGTTAGATCGAGGAAAAGAAAAGGTGAT
109824480 ATCAAATAAAAAGTTAGATCGAGGAAAAGAAAAGGTGAT
1 ATCAAATAAAAAGTTAGATCGAGGAAAAGAAAAGGTGAT
109824519 A
1 A
109824520 AATTAGCAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.53, C:0.05, G:0.23, T:0.19
Consensus pattern (39 bp):
ATCAAATAAAAAGTTAGATCGAGGAAAAGAAAAGGTGAT
Found at i:109826115 original size:42 final size:42
Alignment explanation
Indices: 109826059--109826166 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 42
109826049 GATGCCACTA
* * *
109826059 TCCCAGACAAGGTCTTACAC-AAAATCATATA-CAATGCTAATG
1 TCCCAGACATGGTCTTACACGAAAAT-AGA-AGCAATGCTAAAG
109826101 TCCCAGACATGGTCTTACACGTAAAATAGAAGTCAATGCTAAAG
1 TCCCAGACATGGTCTTACACG-AAAATAGAAG-CAATGCTAAAG
**
109826145 TCCCAGATGTGGTCTTACACGA
1 TCCCAGACATGGTCTTACACGA
109826167 TAACACATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
42 20 0.35
43 3 0.05
44 34 0.60
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGAAAATAGAAGCAATGCTAAAG
Found at i:109830317 original size:27 final size:27
Alignment explanation
Indices: 109830287--109830346 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
109830277 TATGTCAGTC
*
109830287 ATTTTACACTATAAAG-GTATTTCGATA
1 ATTTTAAACTA-AAAGTGTATTTCGATA
* *
109830314 ATTTAAAACTACAAGTGTATTTCGATA
1 ATTTTAAACTAAAAGTGTATTTCGATA
109830341 ATTTTA
1 ATTTTA
109830347 TAAATCGGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (27 bp):
ATTTTAAACTAAAAGTGTATTTCGATA
Found at i:109830363 original size:27 final size:27
Alignment explanation
Indices: 109830302--109830559 Score: 294
Period size: 27 Copynumber: 9.6 Consensus size: 27
109830292 ACACTATAAA
*
109830302 GGTATTTCGATAA-TTTA-AAACTACAAG
1 GGTATTTCGATAATTTTACAAA-T-CGAG
* * *
109830329 TGTATTTCGATAATTTTATAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
* *
109830356 GGTGTTTCGGTAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
109830383 GGTATTTCGATAGTTTTACAAA-CTGAG
1 GGTATTTCGATAATTTTACAAATC-GAG
* *
109830410 GGTGTTTTGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
109830437 GGTATTTCAATAATTTTACAAA-CTGAG
1 GGTATTTCGATAATTTTACAAATC-GAG
109830464 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATCGAG
*
109830491 GATATTTCGATAATTTTACAAATC-AG
1 GGTATTTCGATAATTTTACAAATCGAG
* * *
109830517 GGTACTTCGGTAATTTTACAAATCGGG
1 GGTATTTCGATAATTTTACAAATCGAG
*
109830544 GGTGTTTC-AGTAATTT
1 GGTATTTCGA-TAATTT
109830560 CTTTTTATTA
Statistics
Matches: 197, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
26 25 0.13
27 162 0.82
28 7 0.04
29 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAATCGAG
Found at i:109837433 original size:93 final size:94
Alignment explanation
Indices: 109837263--109837444 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 94
109837253 TAGTAATGCA
*
109837263 ATGTAAGAACATGTCTGGGACAAGGCATTGGCATCGATATGTAATCCCATGTAAGACCATGTCTG
1 ATGTAAGAACATGTCTGGGACAAGGCATTGGCATCGATATGTAATCCCATGTAAGACCATATCTG
109837328 GGACATGACATTGGCATCGATATGATCCC
66 GGACATGACATTGGCATCGATATGATCCC
* * *
109837357 ATGTAAG-ACATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCATATTTG
1 ATGTAAGAACATGTCTGGGACAAGGCATTGGCATCGATATGTAATCCCATGTAAGACCATATCTG
* *
109837421 GGATATGGCATTGGCATCGATATG
66 GGACATGACATTGGCATCGATATG
109837445 TGATTTCGTG
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 75 0.91
94 7 0.09
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (94 bp):
ATGTAAGAACATGTCTGGGACAAGGCATTGGCATCGATATGTAATCCCATGTAAGACCATATCTG
GGACATGACATTGGCATCGATATGATCCC
Found at i:109837446 original size:48 final size:48
Alignment explanation
Indices: 109837263--109837479 Score: 296
Period size: 48 Copynumber: 4.6 Consensus size: 48
109837253 TAGTAATGCA
* * *
109837263 ATGTAAGAACATGTCTGGGACAAGGCATTGGCATCGATATGTAATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
*
109837311 ATGTAAGACCATGTCTGGGACATGACATTGGCATCGATA--TGATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
109837357 ATGTAAGA-CATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
* * * **
109837404 ATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATGTGATTTC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
* * **
109837452 GTGTAAGGCCATGTCTATGACATGGCAT
1 ATGTAAGACCATGTCTGGGACATGGCAT
109837480 CGATATAAGA
Statistics
Matches: 149, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
45 29 0.19
46 14 0.09
47 15 0.10
48 91 0.61
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (48 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCC
Found at i:109837495 original size:42 final size:42
Alignment explanation
Indices: 109837432--109837522 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
109837422 GATATGGCAT
** * * *
109837432 TGGCATCGATATGTGATTTCGTGTAAGGCCAT-GTCTATGAC-A
1 TGGCATCGATATAAGACTTCGTCTAAGACCATAGT-TA-GACTA
109837474 TGGCATCGATATAAGACTTCGTCTAAGACCATAGTTAGACTA
1 TGGCATCGATATAAGACTTCGTCTAAGACCATAGTTAGACTA
109837516 TGGCATC
1 TGGCATC
109837523 AAGTAAACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.07
42 37 0.88
43 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATAAGACTTCGTCTAAGACCATAGTTAGACTA
Found at i:109843889 original size:46 final size:45
Alignment explanation
Indices: 109843822--109843996 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
109843812 TGTAACCCGC
* *
109843822 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* * *
109843868 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GGCTTAGCAT
* ** * * * *
109843914 ACATATCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
*
109843961 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
109843997 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCAT
Found at i:109843961 original size:93 final size:93
Alignment explanation
Indices: 109843830--109844001 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
109843820 GCCCATAAGT
* * *
109843830 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
109843895 CGAGCTCAGATGCCTAGTTACATATCTC
66 CGAGCTCAGATGCCTAGTTACATATCTC
* * *
109843923 GAACTCGGACTCAACTCAACGAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
109843988 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
109844002 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATATCTC
Found at i:109844016 original size:46 final size:46
Alignment explanation
Indices: 109843873--109844016 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 46
109843863 CGCATCCATA
* * * * *
109843873 AGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTA-CAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTATCCT
* * *
109843918 ATCTCGAACTCGGACTCAACTCAACGAGTTTGGA----CATTTGCATCCAT
1 A-GT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT--ATCC-T
*
109843965 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTATCCT
109844012 AGTGA
1 AGTGA
109844017 CATGTCAGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
43 3 0.04
45 2 0.03
46 35 0.45
47 29 0.38
48 5 0.06
50 3 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTATCCT
Found at i:109846519 original size:48 final size:48
Alignment explanation
Indices: 109846463--109846724 Score: 382
Period size: 48 Copynumber: 5.5 Consensus size: 48
109846453 GTATGACATC
* * ** *
109846463 TAAGACCATATCTAGGACATGGCATTGACATCGATATAAGATCCAATG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
* *
109846511 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCGATG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
*
109846559 TAAGACCATGTCTAGGACATGACATTGGCATCGATATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
* *
109846607 TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
* * **
109846655 TAAGACCATATCT-GGTATATGGCATTGGCATCGATATGTGATTTCATG
1 TAAGACCATGTCTAGG-ACATGGCATTGGCATCGATATGTGATCCCATG
109846703 TAAGACCATGTCTAGGACATGG
1 TAAGACCATGTCTAGGACATGG
109846725 AATCGATATG
Statistics
Matches: 193, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 2 0.01
48 189 0.98
49 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCATTGGCATCGATATGTGATCCCATG
Found at i:109862358 original size:6 final size:6
Alignment explanation
Indices: 109862347--109862381 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
109862337 TCATGGTTTA
109862347 AATATT AATATT AATATT AATATT AATATT AATAT
1 AATATT AATATT AATATT AATATT AATATT AATAT
109862382 ATTATAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
AATATT
Found at i:109864283 original size:94 final size:94
Alignment explanation
Indices: 109864118--109864333 Score: 272
Period size: 94 Copynumber: 2.3 Consensus size: 94
109864108 GATTTGTACA
* ** * * * *
109864118 CCAGTGTAAGACATGTCTGAGACATGTTTTGGCCACATTATGAGAGCCAGTGTAAGACTATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATTAGCCACACTATGAGAGCCAGTGTAAAACCATGTCT
* *
109864183 GGGACATGGCATCAGCATC-CAGACGAGGG
66 GCGACATGGCATCAGCA-CAAAGACGAGGG
* * * *
109864212 CTAGTGTAAGACATGTTTGGGACATGCATTAGCCATACTATGATAGCCAGTGTAAAACCATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGCATTAGCCACACTATGAGAGCCAGTGTAAAACCATGTCT
* * *
109864277 GCGACATGGCATCGGCACAAAGATGAGTG
66 GCGACATGGCATCAGCACAAAGACGAGGG
109864306 CCAGTGTAAGACATGTCTGGGACATGCA
1 CCAGTGTAAGACATGTCTGGGACATGCA
109864334 ACAGCCTCGA
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
93 1 0.01
94 102 0.99
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (94 bp):
CCAGTGTAAGACATGTCTGGGACATGCATTAGCCACACTATGAGAGCCAGTGTAAAACCATGTCT
GCGACATGGCATCAGCACAAAGACGAGGG
Found at i:109864321 original size:47 final size:47
Alignment explanation
Indices: 109864118--109864476 Score: 184
Period size: 47 Copynumber: 7.7 Consensus size: 47
109864108 GATTTGTACA
* ** ** ** *
109864118 CCAGTGTAAGACATGTCTGAGACAT-GTTTTGGCCACATTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAGATGAGTG
* * *
109864164 CCAGTGTAAGACTATGTCTGGGACATGGCATCAG-CATCCAGACGAGGG
1 CCAGTGTAAGAC-ATGTCTGGGACATGGCATCAGCCA-CAAGATGAGTG
* * * * **
109864212 CTAGTGTAAGACATGTTTGGGACAT-GCATTAGCCATACTATGA-TAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAGATGAGT-G
* * *
109864258 CCAGTGTAAAACCATGTCTGCGACATGGCATC-GGCACAAAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCAC-AAGATGAGTG
* *
109864306 CCAGTGTAAGACATGTCTGGGACAT-GCAACAGCCTCGAA-A-GAGATAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAGCCAC-AAGATGAG-T-G
* * * * * * * *
109864353 CTAGTGTAAGACGTGTCTGGGACA-CGCATCGGCTA-AGGGT-TGTG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAGATGAGTG
* * * * * * *
109864397 CTAGTGTAAGACATGTTTAGGACAT-GCATCAGCACGCGTATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGGCATCAGC-CAC-AAGATGAGTG
* *
109864445 CCAGTGTAATACCATGTCTAGGACATGGCATC
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATC
109864477 GGCACTATAT
Statistics
Matches: 233, Mismatches: 58, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
44 29 0.12
45 5 0.02
46 38 0.16
47 91 0.39
48 51 0.22
49 14 0.06
50 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
CCAGTGTAAGACATGTCTGGGACATGGCATCAGCCACAAGATGAGTG
Found at i:109864370 original size:94 final size:93
Alignment explanation
Indices: 109864162--109864481 Score: 267
Period size: 94 Copynumber: 3.4 Consensus size: 93
109864152 ACATTATGAG
* * * *
109864162 AGCCAGTGTAAGACTATGTCTGGGACATGGCATCAGCATC-CAGACGAGGGCTAGTGTAAGACAT
1 AGCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGGCA-CAAAGATGAGTGCTAGTGTAAGACAT
* * *
109864226 GTTTGGGACATGCATTAGCCATACTATGAT
64 GTTTGGGACATGCATCAGCCATACAAAGAT
* * *
109864256 AGCCAGTGTAAAACCATGTCTGCGACATGGCATCGGCACAAAGATGAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCACAAAGATGAGTGCTAGTGTAAGACATG
* *
109864321 TCTGGGACATGCAACAGCC-T-CGAAAGAGAT
65 TTTGGGACATGCATCAGCCATAC--AA-AGAT
* * * * * * *
109864351 AGCTAGTGTAAGACGTGTCTGGGACA-CGCATCGGC-TAAGGGT-TGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACAAAGATGAGTGCTAGTGTAAGACATGT
* * * * *
109864413 TTAGGACATGCATCAGCACGCGTA-TATGAG
66 TTGGGACATGCATCAG--C-CATACAAAGAT
* *
109864443 AGCCAGTGTAATACCATGTCTAGGACATGGCATCGGCAC
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCAC
109864482 TATATCCCAT
Statistics
Matches: 179, Mismatches: 34, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
91 31 0.17
92 18 0.10
93 23 0.13
94 91 0.51
95 16 0.09
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (93 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCACAAAGATGAGTGCTAGTGTAAGACATGT
TTGGGACATGCATCAGCCATACAAAGAT
Found at i:109871519 original size:48 final size:48
Alignment explanation
Indices: 109871293--109871534 Score: 297
Period size: 48 Copynumber: 5.0 Consensus size: 48
109871283 TGAGTATTGT
* * * *
109871293 GATCCCGTATAAGACCATATATAGGATATGGCATCAGCATCGAGATGA
1 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
* *
109871341 GATCCCGTACAAGACCATATCTGGGATATGGCATCGGCATCGATAAGA
1 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
* ** *
109871389 GATCACGTATAAGACCACGTCTGGGACATGGCATCGGCATC-AGTATGA
1 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGA-TATGA
* * *
109871437 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGA
1 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
* * * * * *
109871485 GGTCCCGTATAAGACCATATTTGGGACATGGCATTGACATCGTTATGA
1 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
109871533 GA
1 GA
109871535 CTTCGTGTAA
Statistics
Matches: 165, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
47 1 0.01
48 163 0.99
49 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (48 bp):
GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGA
Found at i:109871557 original size:48 final size:48
Alignment explanation
Indices: 109871293--109871616 Score: 224
Period size: 48 Copynumber: 6.9 Consensus size: 48
109871283 TGAGTATTGT
* * * * * ** *
109871293 GATCCCGTATAAGACCATA-TATAGGATATGGCATCAGCATCGAGATGA
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCG-TATGA
** * * * *
109871341 GATCCCGTACAAGACCATA-TCTGGGATATGGCATCGGCATCGATAAGA
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCG-TATGA
* * *
109871389 GATCACGTATAAGACCAC-GTCTGGGACATGGCATCGGCATCAGTATGA
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATC-GTATGA
* * *
109871437 GATCCCATGTAAGACCATA-TCTGGGATATGGCATTGGCATCGATATGA
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCG-TATGA
* * * * *
109871485 GGTCCCGTATAAGACCATA-TTTGGGACATGGCATTGACATCGTTATGA
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCG-TATGA
* * *
109871533 GA-CTTCGTGTAAGACCACAGT-TGGG-C-T---ATTGGCATCGATGTGT
1 GATC-CCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCG-TATGA
* *
109871576 GATCCCATGTAAGACCAC-GTCTGGGACATGGCTTTGGCATC
1 GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATC
109871617 CTATTCTGTG
Statistics
Matches: 228, Mismatches: 35, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
42 2 0.01
43 30 0.13
44 2 0.01
45 1 0.00
46 1 0.00
47 3 0.01
48 187 0.82
49 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (48 bp):
GATCCCGTGTAAGACCACAGTCTGGGACATGGCATTGGCATCGTATGA
Found at i:109875500 original size:43 final size:43
Alignment explanation
Indices: 109875380--109875526 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 43
109875370 GCTATTAAAT
* * * * ** * *
109875380 ATGGCACTGAGTGTACGAGAATATAATAGCCATGGCTGAATAA
1 ATGGCACTAAGTGTGCGATAATATTATAGCTTTGGATAAATAA
* * *
109875423 ATGGCACTATGTGTGCGAT-ATCGA-TATAAG-TTTGGTTTAATGAA
1 ATGGCACTAAGTGTGCGATAAT--ATTAT-AGCTTTGGATAAAT-AA
109875467 ATGGCACT-AGTGTGCGATAATATTATAGCTTTGGATAAATAA
1 ATGGCACTAAGTGTGCGATAATATTATAGCTTTGGATAAATAA
*
109875509 TTGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
109875527 GTTTAAAGAA
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
42 14 0.17
43 54 0.65
44 15 0.18
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (43 bp):
ATGGCACTAAGTGTGCGATAATATTATAGCTTTGGATAAATAA
Found at i:109880721 original size:48 final size:48
Alignment explanation
Indices: 109880669--109880900 Score: 257
Period size: 48 Copynumber: 4.8 Consensus size: 48
109880659 ATGAGTATCA
*
109880669 AGATCCCGTATAAGACCATATCTGGGATATGGCATTAGCATCAATATG
1 AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATCAATATG
* * * * * * *
109880717 AGATCCCGTGTAAGACCATATATAGGATATGACATCGGTATCAATAAG
1 AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATCAATATG
* * * * * * *
109880765 AGATCCCATATAAGACCACATTTGGGACATGGCATCGACATCAGTATG
1 AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATCAATATG
* * *
109880813 AGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATG
1 AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATCAATATG
* * * * *
109880861 AGGTCCCGTATAAGACCATGTTTGGGACATGGCATCGGCA
1 AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCA
109880901 CCGTTATGAA
Statistics
Matches: 150, Mismatches: 34, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 150 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (48 bp):
AGATCCCGTATAAGACCATATCTGGGATATGGCATTGGCATCAATATG
Found at i:109880813 original size:96 final size:97
Alignment explanation
Indices: 109880669--109880897 Score: 300
Period size: 96 Copynumber: 2.4 Consensus size: 97
109880659 ATGAGTATCA
* * * *
109880669 AGATCCCGTATAAGACCATATCTGGGATATGGCAT-TAGCATCAATATGAGATCCCGTGTAAGAC
1 AGATCCCGTATAAGACCATATTTGGGACATGGCATCGAGCATCAATATGAGATCCCATGTAAGAC
*
109880733 CATATATAGGATATGACATCGGTATCAATAAG
66 CATATATAGGATATGACATCGGCATCAATAAG
* * *
109880765 AGATCCCATATAAGACCACATTTGGGACATGGCATCGA-CATCAGTATGAGATCCCATGTAAGAC
1 AGATCCCGTATAAGACCATATTTGGGACATGGCATCGAGCATCAATATGAGATCCCATGTAAGAC
* * * * * *
109880829 CATATCTGGGATATGGCATTGGCATCGATATG
66 CATATATAGGATATGACATCGGCATCAATAAG
* *
109880861 AGGTCCCGTATAAGACCATGTTTGGGACATGGCATCG
1 AGATCCCGTATAAGACCATATTTGGGACATGGCATCG
109880898 GCACCGTTAT
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
96 113 0.99
97 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (97 bp):
AGATCCCGTATAAGACCATATTTGGGACATGGCATCGAGCATCAATATGAGATCCCATGTAAGAC
CATATATAGGATATGACATCGGCATCAATAAG
Found at i:109880993 original size:48 final size:48
Alignment explanation
Indices: 109880669--109880993 Score: 209
Period size: 48 Copynumber: 6.9 Consensus size: 48
109880659 ATGAGTATCA
* * * * * * *
109880669 AGATCCCGTATAAGACCATATCTGGGATATGGCATTAGCATCAATATG
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
* * * * * * * * * *
109880717 AGATCCCGTGTAAGACCATATATAGGATATGACATCGGTATCAATAAG
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
* ** * *
109880765 AGATCCCATATAAGACCACATTTGGGACATGGCATCGACATC-AGTATG
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGA-TATG
* * *
109880813 AGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATG
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
* * * * * *
109880861 AGGTCCCGTATAAGACCATGTTTGGGACATGGCATCGGCACCGTTATG
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
* * * * *
109880909 A-AACTTCGTGTAAGA-C-TG--T-AG-C-TGCGCTATTGGCATCGATGTG
1 AGATC-CCATGTAAGACCATGTTTGGGACATG-GC-ATTGGCATCGATATG
* *
109880952 TGATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCATC
1 AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATC
109880994 CTATTATGTG
Statistics
Matches: 216, Mismatches: 48, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
41 2 0.01
42 3 0.01
43 20 0.09
44 4 0.02
45 2 0.01
46 2 0.01
47 4 0.02
48 173 0.80
49 4 0.02
50 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (48 bp):
AGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
Found at i:109884232 original size:47 final size:47
Alignment explanation
Indices: 109884203--109884469 Score: 417
Period size: 47 Copynumber: 5.7 Consensus size: 47
109884193 ATATATGAGC
* * *
109884203 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
109884250 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
109884297 TAAGGCCGAATGGCCAATGTGATGAGTGTAAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
109884344 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
109884391 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
*
109884438 TAAGGCCGAATGGCCAATGTGATGAACGTGAA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAA
109884470 AGTGTATATA
Statistics
Matches: 206, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 206 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:109884270 original size:94 final size:94
Alignment explanation
Indices: 109884172--109884483 Score: 464
Period size: 94 Copynumber: 3.3 Consensus size: 94
109884162 TTAGGATTTT
* ** * *
109884172 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
109884237 TGCATTTGTGTGCTAAGGCCGAATGGCAA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * * * *
109884266 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCAATGTGATGAGTGTAAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
109884331 TGCATTTGTGTGATAAGACCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
*
109884360 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
109884425 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
*
109884454 ATGTGATGAACGTGAA-AGTGTATATATGTG
1 ATGTGATGAATGTGAACA-TGTATATATGTG
109884484 GGGAAGCCGA
Statistics
Matches: 195, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
93 1 0.01
94 194 0.99
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATTTGTGTGATAAGGCCGAATGGCCA
Found at i:109884293 original size:23 final size:23
Alignment explanation
Indices: 109884220--109884293 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
109884210 GAATGGCAAA
109884220 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
* * **
109884243 TGTG-TGCTAAGGCCG-A-ATGGCAAA
1 TGTGATG--AATG-TGAACAT-GCATT
109884267 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
109884290 TGTG
1 TGTG
109884294 TGCTAAGGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 13 0.36
25 3 0.08
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (23 bp):
TGTGATGAATGTGAACATGCATT
Found at i:109884413 original size:22 final size:22
Alignment explanation
Indices: 109884385--109884460 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
109884375 ACATGTATAT
109884385 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
109884407 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
109884429 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
109884454 ATGTGAT
1 ATGTGAT
109884461 GAACGTGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:109884497 original size:47 final size:47
Alignment explanation
Indices: 109884172--109884483 Score: 392
Period size: 47 Copynumber: 6.6 Consensus size: 47
109884162 TTAGGATTTT
* ** * * *
109884172 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
109884219 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
109884266 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * * *
109884313 ATGTGATGAGTGTAAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
109884360 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
109884407 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
109884454 ATGTGATGAACGTGAA-AGTGTATATATGTG
1 ATGTGATGAATGTGAACA-TGTATATATGTG
109884484 GGGAAGCCGA
Statistics
Matches: 241, Mismatches: 23, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
46 1 0.00
47 240 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:109884537 original size:46 final size:46
Alignment explanation
Indices: 109884477--109884567 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
109884467 GAAAGTGTAT
* * * *
109884477 ATATGTGGGGAAGCCGAATGGTTAATGCGA-AATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAA-ATGTATGAGATGG
* *
109884523 ATATGTGGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATG
109884568 TGTATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 36 0.95
47 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.33, T:0.26
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATGG
Found at i:109908289 original size:42 final size:42
Alignment explanation
Indices: 109908243--109908322 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
109908233 ACAACATAGC
*
109908243 ATCATATACGATGCTGATGTCCCAGACAAGGTCTTACATGAA
1 ATCATATACGATGCCGATGTCCCAGACAAGGTCTTACATGAA
* * *
109908285 ATCATATATGATGCCGATGTGCCAGACATGGTCTTACA
1 ATCATATACGATGCCGATGTCCCAGACAAGGTCTTACA
109908323 CGTAAATCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (42 bp):
ATCATATACGATGCCGATGTCCCAGACAAGGTCTTACATGAA
Found at i:109908909 original size:28 final size:28
Alignment explanation
Indices: 109908856--109908909 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
109908846 ATAACTTTCA
**
109908856 CTTATTTCACATTTTAACCCTCTAATTT
1 CTTATTTCACAAATTAACCCTCTAATTT
*
109908884 CTTATTTTCACAAATTAGCCCT-TAAT
1 CTTA-TTTCACAAATTAACCCTCTAAT
109908910 AATCAAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 8 0.36
29 14 0.64
ACGTcount: A:0.28, C:0.24, G:0.02, T:0.46
Consensus pattern (28 bp):
CTTATTTCACAAATTAACCCTCTAATTT
Found at i:109912178 original size:80 final size:80
Alignment explanation
Indices: 109912060--109912245 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
109912050 AGTAACTCAT
* * * *
109912060 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAGCTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
109912124 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
109912139 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
109912203 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
109912220 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
109912246 CAGGATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.12
80 71 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:109912205 original size:40 final size:40
Alignment explanation
Indices: 109912062--109912245 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
109912052 TAACTCATAC
* * *
109912062 AATGCCTTCGGGACTTAACCCGGATTTTAA-AGCTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
109912102 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
109912142 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
109912182 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
109912223 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
109912246 CAGGATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:109929932 original size:27 final size:27
Alignment explanation
Indices: 109929887--109930160 Score: 281
Period size: 27 Copynumber: 10.2 Consensus size: 27
109929877 TTAGTTTACC
* *
109929887 AAATTACC-AAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
109929913 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTTGTA
*
109929940 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
109929967 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
109929994 AACTTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
109930021 AAATTACCGAAATACCC-CTGATTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
109930048 AAATTACCGAAATA-CCTCCGATTTGCA
1 AAATTACCAAAATACCCT-CGATTTGTA
***
109930075 AAATTATTGAAATACCC-CGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
109930101 AAATTACTAAAATACCTTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
109930128 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
109930155 AAATTA
1 AAATTA
109930161 TCGAAACACC
Statistics
Matches: 219, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
26 34 0.16
27 181 0.83
28 4 0.02
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:109930171 original size:27 final size:26
Alignment explanation
Indices: 109929887--109930198 Score: 191
Period size: 27 Copynumber: 11.6 Consensus size: 26
109929877 TTAGTTTACC
* * * *
109929887 AAATTACCAAATACCCTCGATTAGCA
1 AAATTACGAAATACCCCCGATTTGTA
* * * *
109929913 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTA-CGAAATACCCCCGATTTGTA
* * *
109929940 AAATTACCAAAATACCCTCGATTAGTA
1 AAATTA-CGAAATACCCCCGATTTGTA
* *
109929967 AAATTACCAAAATA-CCCCTAGTTTGTA
1 AAATTA-CGAAATACCCCCGA-TTTGTA
* * *
109929994 AACTTACCAAAATA-CCCCTAGTTTGTA
1 AAATTA-CGAAATACCCCCGA-TTTGTA
*
109930021 AAATTACCGAAATACCCCTGATTTGTA
1 AAATTA-CGAAATACCCCCGATTTGTA
* *
109930048 AAATTACCGAAATACCTCCGATTTGCA
1 AAATTA-CGAAATACCCCCGATTTGTA
*
109930075 AAATTATTGAAATA-CCCCGATTTGTA
1 AAATTA-CGAAATACCCCCGATTTGTA
* ** *
109930101 AAATTACTAAAATACCTTCGACTTGTA
1 AAATTAC-GAAATACCCCCGATTTGTA
* **
109930128 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACGAAA-TACCCCCGATTTGTA
* * **
109930155 AAATTATCGAAACA-CCCCTATAGGGTA
1 AAATTA-CGAAATACCCCCGAT-TTGTA
109930182 AAATTATCGAAATACCC
1 AAATTA-CGAAATACCC
109930199 TTATAGGGTA
Statistics
Matches: 241, Mismatches: 36, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
26 40 0.17
27 191 0.79
28 10 0.04
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (26 bp):
AAATTACGAAATACCCCCGATTTGTA
Found at i:109930185 original size:107 final size:108
Alignment explanation
Indices: 109929887--109930198 Score: 264
Period size: 107 Copynumber: 2.9 Consensus size: 108
109929877 TTAGTTTACC
* * *
109929887 AAATTACC-AAATACCCTCGA--TTAGCAAAATTACCAAAATACCCTCGA-TTAGCAAAATTACC
1 AAATTACCAAAATACCC-CGAGCTT-GTAAAATTACCGAAATACCCCCGATTTA-CAAAATTACC
* * ** * * * *
109929948 AAAATACC-CTCGATTAGTAAAATTACCAAAATACCCCTAGTTTGTA
63 GAAACACCTC-CGATGGGCAAAATTATCGAAATACCCCGAGTTTGTA
* * * * **
109929994 AACTTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCCTGATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCCGAGCTTGTAAAATTACCGAAATACCCCCGATTTACAAAATTACCGAA
* ** *
109930059 ATACCTCCGATTTGCAAAATTATTGAAATACCCCGA-TTTGTA
66 ACACCTCCGATGGGCAAAATTATCGAAATACCCCGAGTTTGTA
* * *
109930101 AAATTACTAAAATACCTTCGA-CTTGTAAAATTACC-AAAGTACCCCCGATTTACAAAATTATCG
1 AAATTACCAAAATACC-CCGAGCTTGTAAAATTACCGAAA-TACCCCCGATTTACAAAATTACCG
* *
109930164 AAACACC-CCTATAGGGTAAAATTATCGAAATACCC
64 AAACACCTCCGAT-GGGCAAAATTATCGAAATACCC
109930199 TTATAGGGTA
Statistics
Matches: 167, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
106 7 0.04
107 86 0.51
108 69 0.41
109 5 0.03
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (108 bp):
AAATTACCAAAATACCCCGAGCTTGTAAAATTACCGAAATACCCCCGATTTACAAAATTACCGAA
ACACCTCCGATGGGCAAAATTATCGAAATACCCCGAGTTTGTA
Found at i:109930203 original size:27 final size:27
Alignment explanation
Indices: 109930154--109930375 Score: 223
Period size: 27 Copynumber: 8.3 Consensus size: 27
109930144 CCCGATTTAC
*
109930154 AAAATTATCGAAACACCCCTATAGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
*
109930181 AAAATTATCGAAATACCCTTATAGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
* *
109930208 AGAATTATCAAAATACCCCTATAGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
* ** *
109930235 AGAATTATTTAAATACCCC-GTAGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
* * * *
109930261 AGAATTACCGAAATACCCCTGTAGGAT
1 AAAATTATCGAAATACCCCTATAGGGT
* * *
109930288 AGAATTATCGAAATACCCTTGTAGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
*
109930315 AGAAA-TACCGAAATACCCCTATAGGGT
1 A-AAATTATCGAAATACCCCTATAGGGT
** * * * *
109930342 AAAATTCCCGAGATACCCTTGTGGGGT
1 AAAATTATCGAAATACCCCTATAGGGT
109930369 AAAATTA
1 AAAATTA
109930376 CCATTTTGCC
Statistics
Matches: 167, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 25 0.15
27 140 0.84
28 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
AAAATTATCGAAATACCCCTATAGGGT
Found at i:109930214 original size:54 final size:54
Alignment explanation
Indices: 109930156--109930377 Score: 275
Period size: 54 Copynumber: 4.1 Consensus size: 54
109930146 CGATTTACAA
* * *
109930156 AATTATCGAAACACCCCTATAGGGTAAAATTATCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAAAATTATCGAAATACCCTTGTAGGGTAG
* * * ** *
109930210 AATTATCAAAATACCCCTATAGGGTAGAATTATTTAAATACCC-CGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAAAATTATCGAAATACCCTTGTAGGGTAG
* * *
109930263 AATTACCGAAATACCCCTGTAGGATAGAATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAAAATTATCGAAATACCCTTGTAGGGTAG
* ** * * *
109930317 AAATACCGAAATACCCCTATAGGGTAAAATTCCCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTATAGGGTAAAATTATCGAAATACCCTTGTAGGGTAG
109930371 AATTACC
1 AATTACC
109930378 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
53 45 0.31
54 98 0.69
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCCTATAGGGTAAAATTATCGAAATACCCTTGTAGGGTAG
Done.