Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 263 of 310
Found at i:86860147 original size:39 final size:39
Alignment explanation
Indices: 86860052--86861015 Score: 1733
Period size: 39 Copynumber: 24.6 Consensus size: 39
86860042 TTGAATGATG
*
86860052 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
86860090 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
86860131 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860170 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860209 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860248 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860287 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860326 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860365 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860404 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860443 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860482 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860521 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860560 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860599 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860638 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860677 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860716 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860755 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860794 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860833 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
86860872 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
86860911 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
86860950 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-AT
*
86860991 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
86861016 AACGAGGAGC
Statistics
Matches: 906, Mismatches: 12, Indels: 13
0.97 0.01 0.01
Matches are distributed among these distances:
39 833 0.92
40 58 0.06
41 14 0.02
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:86863975 original size:44 final size:45
Alignment explanation
Indices: 86863902--86864007 Score: 128
Period size: 44 Copynumber: 2.4 Consensus size: 45
86863892 TGCTTTGAAC
** *
86863902 ATCCGCACACTTAGTGCTGTAACAGTTAACCGAAGCTAGAAT-GAT
1 ATCCGCACACTTAGTGCCATAACAATTAACCGAAGCTA-AATCGAT
**
86863947 -TCCGCACACTTAGTGCCATCTCAATTAACCGAAGCTAAATCGAT
1 ATCCGCACACTTAGTGCCATAACAATTAACCGAAGCTAAATCGAT
*
86863991 AT-CGTACACTTAGTGCC
1 ATCCGCACACTTAGTGCC
86864008 TCATATAGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
43 3 0.06
44 49 0.92
45 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (45 bp):
ATCCGCACACTTAGTGCCATAACAATTAACCGAAGCTAAATCGAT
Found at i:86864485 original size:21 final size:21
Alignment explanation
Indices: 86864459--86864498 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
86864449 CATTTATTTC
*
86864459 ACATTTTAGTCCCTCAAAATA
1 ACATTTTAGTCCCACAAAATA
86864480 ACATTTTAGTCCCACAAAA
1 ACATTTTAGTCCCACAAAA
86864499 GGACCTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (21 bp):
ACATTTTAGTCCCACAAAATA
Found at i:86866293 original size:22 final size:22
Alignment explanation
Indices: 86866268--86866311 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
86866258 TAGTCATATA
86866268 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
86866290 ATAATTTATTAGTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
86866312 TATTTACCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:86866415 original size:15 final size:15
Alignment explanation
Indices: 86866395--86866450 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
86866385 ATTCAATATT
86866395 AATATTTTAATAATA
1 AATATTTTAATAATA
*
86866410 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
86866429 AATATATTAATAATA
1 AATATTTTAATAATA
86866444 AAT-TTTT
1 AATATTTT
86866451 TGTAGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:86866433 original size:34 final size:32
Alignment explanation
Indices: 86866383--86866446 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 32
86866373 ATTATTGAAA
* *
86866383 TTATTCAATATTAATATTTTAATAATAAATAT
1 TTATTCAATATAAATATATTAATAATAAATAT
86866415 TTATTACAATTATAAATATATTAATAATAAAT
1 TTATT-CAA-TATAAATATATTAATAATAAAT
86866447 TTTTTGTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 5 0.18
33 3 0.11
34 20 0.71
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
TTATTCAATATAAATATATTAATAATAAATAT
Found at i:86871167 original size:46 final size:46
Alignment explanation
Indices: 86871117--86871292 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
86871107 TGGTTGAGCA
*
86871117 TCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
86871163 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
86871208 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
86871256 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
86871293 GTGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 28 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:86871273 original size:93 final size:93
Alignment explanation
Indices: 86871114--86871285 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
86871104 GGATGGTTGA
* ***
86871114 GCATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
86871179 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
*
86871207 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
86871272 TGAGTCTGAGTTCG
66 TGAGTCTGAGTTCG
86871286 CTTATGGGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:86873736 original size:33 final size:33
Alignment explanation
Indices: 86873691--86873756 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
86873681 GACTACTTCG
*
86873691 GCAGCCAGTGTAGGGAACTCGAGATTTGTTAAA
1 GCAGCCAATGTAGGGAACTCGAGATTTGTTAAA
86873724 GCAGCCAATGTAGGGAACTCGAGATTTGTTAAA
1 GCAGCCAATGTAGGGAACTCGAGATTTGTTAAA
86873757 CCTGAGTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (33 bp):
GCAGCCAATGTAGGGAACTCGAGATTTGTTAAA
Found at i:86881243 original size:41 final size:41
Alignment explanation
Indices: 86881183--86881265 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
86881173 TCCCAAAATT
*
86881183 ATGTCAAATTCATCTAAAGGTAAAAGCATCAGATCAGCAGG
1 ATGTCAAATTCATCGAAAGGTAAAAGCATCAGATCAGCAGG
86881224 ATGTCAAATTCATCGAAAGGTAAAAGCATCAGATCAGCAGG
1 ATGTCAAATTCATCGAAAGGTAAAAGCATCAGATCAGCAGG
86881265 A
1 A
86881266 AAACAGATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (41 bp):
ATGTCAAATTCATCGAAAGGTAAAAGCATCAGATCAGCAGG
Found at i:86885446 original size:24 final size:22
Alignment explanation
Indices: 86885403--86885451 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
86885393 AACTGAACAA
86885403 AAAACAAAATAAAAGCAGAAAAT
1 AAAACAAAATAAAAGCAG-AAAT
*
86885426 AAAACAAATTGAAAA-CAAGAAAT
1 AAAACAAAAT-AAAAGC-AGAAAT
86885449 AAA
1 AAA
86885452 TGTGCAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.10
Consensus pattern (22 bp):
AAAACAAAATAAAAGCAGAAAT
Found at i:86900678 original size:28 final size:28
Alignment explanation
Indices: 86900621--86900680 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
86900611 ACATACATGC
*
86900621 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCACTAGGCCCAATCTCAATT
*
86900649 ATATGGCCCA-TCCGGCCCAAT-TCACATT
1 ATATGGCCCACT-AGGCCCAATCTCA-ATT
86900677 ATAT
1 ATAT
86900681 TCATGCTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCTCAATT
Found at i:86900794 original size:19 final size:19
Alignment explanation
Indices: 86900749--86900785 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
86900739 TAGGCCCAAC
*
86900749 AGCCCA-TCGGGCCCATTT
1 AGCCCATTCTGGCCCATTT
86900767 AGCCCATTCTGGCCCATTT
1 AGCCCATTCTGGCCCATTT
86900786 GGCCTATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
AGCCCATTCTGGCCCATTT
Found at i:86900913 original size:16 final size:16
Alignment explanation
Indices: 86900892--86900934 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
86900882 GTAGCTAAAC
86900892 TTTCGGCTTTTCGACA
1 TTTCGGCTTTTCGACA
**
86900908 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGACA
*
86900924 TTTTGGCTTTT
1 TTTCGGCTTTT
86900935 GCCGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.19, G:0.21, T:0.53
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:86905145 original size:23 final size:23
Alignment explanation
Indices: 86905119--86905165 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
86905109 TGAATTTAAA
86905119 TGATGGTAAGAGCATTTCATGCT
1 TGATGGTAAGAGCATTTCATGCT
86905142 TGATGGTAAGAGCATTTCATGCT
1 TGATGGTAAGAGCATTTCATGCT
86905165 T
1 T
86905166 ACTCTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (23 bp):
TGATGGTAAGAGCATTTCATGCT
Found at i:86907787 original size:42 final size:42
Alignment explanation
Indices: 86907679--86907796 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 42
86907669 GTATCAATGT
* * *
86907679 CATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATAC
* * *
86907721 CAATAGCCTAGCTATGGTCTTACACG-AAGTCTCATATCGATAC
1 C-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCGATAC
86907764 CATATCCCAGATATGGTCTTACACGTAATCTCA
1 CATATCCCAGATATGGTCTTACACGTAATCTCA
86907797 GTAACCCTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATAC
Found at i:86914674 original size:70 final size:70
Alignment explanation
Indices: 86914561--86914700 Score: 223
Period size: 70 Copynumber: 2.0 Consensus size: 70
86914551 TCTGCTAGAC
*
86914561 AAAACCATAGCAAGGTAGTATTCTGAGTTCTGACAGTCAAAAAAAAAAAAAAAC-CAAGGGAGCT
1 AAAACCATAGCAAGGTAGTATTCTGAGTTCTGACAG-AAAAAAAAAAAAAAAACACAAGGGAGCT
86914625 TTTTTT
65 TTTTTT
86914631 AAAACCATAGCAAGGTAGTATTCTGAGTT-TG-CGAAGAAAAAAAAAAAAAAAACACAAGGGAGC
1 AAAACCATAGCAAGGTAGTATTCTGAGTTCTGAC--AGAAAAAAAAAAAAAAAACACAAGGGAGC
86914694 TTTTTTT
64 TTTTTTT
86914701 TTTTTTTTTG
Statistics
Matches: 66, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
68 1 0.02
69 18 0.27
70 47 0.71
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.24
Consensus pattern (70 bp):
AAAACCATAGCAAGGTAGTATTCTGAGTTCTGACAGAAAAAAAAAAAAAAAACACAAGGGAGCTT
TTTTT
Found at i:86916134 original size:26 final size:26
Alignment explanation
Indices: 86916088--86916141 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
86916078 TATACCATGT
86916088 AAGCTCTTATATTAAATACTTGAAGC
1 AAGCTCTTATATTAAATACTTGAAGC
86916114 AAGCTCTTATATTAAATACTTGAAGC
1 AAGCTCTTATATTAAATACTTGAAGC
86916140 AA
1 AA
86916142 ATGCAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (26 bp):
AAGCTCTTATATTAAATACTTGAAGC
Found at i:86916879 original size:145 final size:144
Alignment explanation
Indices: 86916617--86916880 Score: 379
Period size: 145 Copynumber: 1.8 Consensus size: 144
86916607 TTTCATGCTG
* * *
86916617 GACATAAGTGTTGGATTGGAGTAATTCGAGAAAAGTGAAGAGTTGGATTAAAATAAGTCTTAGGA
1 GACATAAGTGTTGGATTGGAGTAATTAGAGAAAAGTGAAGAGTCGGATTAAAATAAGTCTTAGAA
* ** *
86916682 ACAAGTGGAAACAGTTGATAAGCTGAATCTTTTCAAATGACACGCTAATGCATGCCATGTCTAGA
66 ACAAGTAGAAACAGTTGATAAGCAAAATCTTTTCAAATGACAAGCTAATGCATGCCATGTCTAGA
86916747 TATGTGTCGTGTTA
131 TATGTGTCGTGTTA
* * * *
86916761 GACATGAGTGTTGGATTGGAGTACTTAGAGAAAAAGTGAAGAGTCGGATTAACATAGGTCTTAGA
1 GACATAAGTGTTGGATTGGAGTAATTAGAG-AAAAGTGAAGAGTCGGATTAAAATAAGTCTTAGA
*
86916826 AACAAGTAGAAACGGTT-AGTAAGCAAAATC-TTTCTAAATGACAAGCTAATGCATG
65 AACAAGTAGAAACAGTTGA-TAAGCAAAATCTTTTC-AAATGACAAGCTAATGCATG
86916881 ATTTCTATCT
Statistics
Matches: 105, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
144 32 0.30
145 73 0.70
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (144 bp):
GACATAAGTGTTGGATTGGAGTAATTAGAGAAAAGTGAAGAGTCGGATTAAAATAAGTCTTAGAA
ACAAGTAGAAACAGTTGATAAGCAAAATCTTTTCAAATGACAAGCTAATGCATGCCATGTCTAGA
TATGTGTCGTGTTA
Found at i:86918552 original size:9 final size:9
Alignment explanation
Indices: 86918538--86918612 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
86918528 TTTGGTTAAA
86918538 AATTAACCG
1 AATTAACCG
*
86918547 AATTAAACG
1 AATTAACCG
*
86918556 AATTACCCG
1 AATTAACCG
86918565 AATTAACCG
1 AATTAACCG
86918574 AATTAACCG
1 AATTAACCG
*
86918583 -ATTACCCG
1 AATTAACCG
86918591 AATT-ACCTG
1 AATTAACC-G
*
86918600 AATTACCCG
1 AATTAACCG
86918609 AATT
1 AATT
86918613 GAATCACTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
8 9 0.16
9 45 0.80
10 2 0.04
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:86918593 original size:26 final size:26
Alignment explanation
Indices: 86918538--86918609 Score: 101
Period size: 26 Copynumber: 2.7 Consensus size: 26
86918528 TTTGGTTAAA
*
86918538 AATTAACCGAATTAAACGAATTACCCG
1 AATTAACCGAATTAACCG-ATTACCCG
86918565 AATTAACCGAATTAACCGATTACCCG
1 AATTAACCGAATTAACCGATTACCCG
*
86918591 AATT-ACCTGAATTACCCGA
1 AATTAACC-GAATTAACCGA
86918610 ATTGAATCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
25 3 0.07
26 22 0.52
27 17 0.40
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (26 bp):
AATTAACCGAATTAACCGATTACCCG
Found at i:86918652 original size:37 final size:37
Alignment explanation
Indices: 86918611--86918722 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
86918601 ATTACCCGAA
**
86918611 TTGAATCACTACATAATTAAAAACATTATGTAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
86918648 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
* *
86918685 ATGAATCACTACATAATTAAAAACATTACATGAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
86918722 T
1 T
86918723 GAAATTAACA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:86918679 original size:17 final size:17
Alignment explanation
Indices: 86918657--86918715 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
86918647 TTTGAATCAC
86918657 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
** *
86918674 TACATAAGTCTATGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
86918694 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
86918711 TACAT
1 TACAT
86918716 GAGTCTTGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
17 13 0.41
18 5 0.16
19 6 0.19
20 8 0.25
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:86918699 original size:20 final size:20
Alignment explanation
Indices: 86918641--86918700 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
86918631 AAACATTATG
*
86918641 TAAGTCTTTGAATCACTACA
1 TAAGTCTATGAATCACTACA
** *
86918661 TAA-T-TAAAAAT-ATTACA
1 TAAGTCTATGAATCACTACA
86918678 TAAGTCTATGAATCACTACA
1 TAAGTCTATGAATCACTACA
86918698 TAA
1 TAA
86918701 TTAAAAACAT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
17 8 0.27
18 5 0.17
19 6 0.20
20 11 0.37
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (20 bp):
TAAGTCTATGAATCACTACA
Found at i:86921499 original size:33 final size:33
Alignment explanation
Indices: 86921456--86921584 Score: 136
Period size: 33 Copynumber: 3.9 Consensus size: 33
86921446 TTTTCCTGAG
**
86921456 TGGTACACACAAAGTATACCTTTCCTTTTCATA
1 TGGTACACACAAAGTATACCTAACCTTTTCATA
* **
86921489 TGGTATACACAAAGTATACCTTTCCTTTTCA-A
1 TGGTACACACAAAGTATACCTAACCTTTTCATA
* * *
86921521 -GTGTACACACAAAGTGTACATAACCTTTTCATG
1 TG-GTACACACAAAGTATACCTAACCTTTTCATA
* **
86921554 TGATATGCACAAAGTATACCTAACCTTTTCA
1 TGGTACACACAAAGTATACCTAACCTTTTCA
86921585 CATTTGATAG
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
31 1 0.01
32 25 0.31
33 54 0.67
34 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (33 bp):
TGGTACACACAAAGTATACCTAACCTTTTCATA
Found at i:86921527 original size:65 final size:65
Alignment explanation
Indices: 86921458--86921584 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 65
86921448 TTCCTGAGTG
* ** * **
86921458 GTACACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATACCTTTCCTTTTCAAGT
1 GTACACACAAAGTATACATAACCTTTTCATATGATATACACAAAGTATACCTAACCTTTTCAAGT
* * *
86921523 GTACACACAAAGTGTACATAACCTTTTCATGTGATATGCACAAAGTATACCTAACCTTTTCA
1 GTACACACAAAGTATACATAACCTTTTCATATGATATACACAAAGTATACCTAACCTTTTCA
86921585 CATTTGATAG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (65 bp):
GTACACACAAAGTATACATAACCTTTTCATATGATATACACAAAGTATACCTAACCTTTTCAAGT
Found at i:86921622 original size:29 final size:29
Alignment explanation
Indices: 86921577--86921933 Score: 669
Period size: 29 Copynumber: 12.3 Consensus size: 29
86921567 GTATACCTAA
* *
86921577 CCTTTTCACATTTGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
86921606 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
86921635 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
86921664 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
86921693 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
86921722 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
86921751 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
86921780 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
86921809 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
86921838 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
86921867 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
*
86921896 CCTTTTCACATTCGATAGCTGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* *
86921925 ACTATTCAC
1 CCTTTTCAC
86921934 TAATCAGGTA
Statistics
Matches: 323, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 323 1.00
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.32
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:86921953 original size:31 final size:31
Alignment explanation
Indices: 86921621--86922150 Score: 312
Period size: 29 Copynumber: 17.7 Consensus size: 31
86921611 TCACATTCGA
* * *
86921621 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* * *
86921650 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* * *
86921679 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* * *
86921708 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* * *
86921737 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* * *
86921766 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* * *
86921795 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* * *
86921824 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* * *
86921853 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* * *
86921882 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GA
1 TAGCTGAAGCTA-CCACTTTTCACTAATCAGG
* *
86921911 TAGCTGAAGCTATCACTATTCACTAATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
*
86921942 TAACT-AGAGCTACCACTTTTCACTAATCAGG
1 TAGCTGA-AGCTACCACTTTTCACTAATCAGG
* * *
86921973 TAGCCGAAGCTACCACTTTTCACTGATTAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
*
86922004 TAGCTGAAGCTACCACTTTTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
** * *
86922035 TAGCCAAAGCTACCACTTTTCACTGACCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* * *
86922066 TAGCCGAAACTACCACTTTTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* *
86922097 TAGCCGAAGCTACCACTTTTCACTAATCAGA
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
* *
86922128 TAGCCGAAGTTACCACTTTTCAC
1 TAGCTGAAGCTACCACTTTTCAC
86922151 ATTGTACACA
Statistics
Matches: 472, Mismatches: 24, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
28 1 0.00
29 279 0.59
30 4 0.01
31 187 0.40
32 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (31 bp):
TAGCTGAAGCTACCACTTTTCACTAATCAGG
Found at i:86921996 original size:62 final size:62
Alignment explanation
Indices: 86921621--86922150 Score: 349
Period size: 58 Copynumber: 8.9 Consensus size: 62
86921611 TCACATTCGA
* * * *
86921621 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GATAGCCGAAGCTATCC-CTTTTCAC--ATTC-GA
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGGTAGCTGAAGCTA-CCACTTTTCACTGA-TCAGG
* * * *
86921679 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GATAGCCGAAGCTATCC-CTTTTCAC--ATTC-GA
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGGTAGCTGAAGCTA-CCACTTTTCACTGA-TCAGG
* * * *
86921737 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GATAGCCGAAGCTATCC-CTTTTCAC--ATTC-GA
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGGTAGCTGAAGCTA-CCACTTTTCACTGA-TCAGG
* * * *
86921795 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GATAGCCGAAGCTATCC-CTTTTCAC--ATTC-GA
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGGTAGCTGAAGCTA-CCACTTTTCACTGA-TCAGG
* * * *
86921853 TAGCCGAAGCTATCC-CTTTTCAC-ATTC-GATAGCCGAAGCTATCC-CTTTTCAC--ATTC-GA
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGGTAGCTGAAGCTA-CCACTTTTCACTGA-TCAGG
* * * * *
86921911 TAGCTGAAGCTATCACTATTCACTAATCAGGTAACT-AGAGCTACCACTTTTCACTAATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCTGA-AGCTACCACTTTTCACTGATCAGG
* *
86921973 TAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCTGAAGCTACCACTTTTCACTGATCAGG
* * * * *
86922035 TAGCCAAAGCTACCACTTTTCACTGACCAGGTAGCCGAAACTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCTGAAGCTACCACTTTTCACTGATCAGG
* * *
86922097 TAGCCGAAGCTACCACTTTTCACTAATCAGATAGCCGAAGTTACCACTTTTCAC
1 TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCTGAAGCTACCACTTTTCAC
86922151 ATTGTACACA
Statistics
Matches: 437, Mismatches: 26, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
57 1 0.00
58 250 0.57
59 6 0.01
60 17 0.04
61 2 0.00
62 160 0.37
63 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (62 bp):
TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCTGAAGCTACCACTTTTCACTGATCAGG
Found at i:86922033 original size:93 final size:93
Alignment explanation
Indices: 86921882--86922150 Score: 355
Period size: 93 Copynumber: 2.9 Consensus size: 93
86921872 TCACATTCGA
* * * *
86921882 TAGCCGAAGCTATCC-CTTTTCAC--ATTCGATAGCTGAAGCTATCACTATTCACTAATCAGGTA
1 TAGCCGAAGCTA-CCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTAATCAGGTA
* * *
86921944 ACTAGAGCTACCACTTTTCACTAATCAGG
65 ACCAAAGCTACCACTTTTCACTAACCAGG
* *
86921973 TAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTGATCAGGTAG
1 TAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTAATCAGGTAA
*
86922038 CCAAAGCTACCACTTTTCACTGACCAGG
66 CCAAAGCTACCACTTTTCACTAACCAGG
* * * * *
86922066 TAGCCGAAACTACCACTTTTCACTGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAGATAG
1 TAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTAATCAGGTAA
* *
86922131 CCGAAGTTACCACTTTTCAC
66 CCAAAGCTACCACTTTTCAC
86922151 ATTGTACACA
Statistics
Matches: 158, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
90 2 0.01
91 20 0.13
93 136 0.86
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (93 bp):
TAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCTGAAGCTACCACTTTTCACTAATCAGGTAA
CCAAAGCTACCACTTTTCACTAACCAGG
Found at i:86934005 original size:69 final size:69
Alignment explanation
Indices: 86933894--86934030 Score: 265
Period size: 69 Copynumber: 2.0 Consensus size: 69
86933884 ATCCTTAGAA
*
86933894 CAATGGTAAAACCTGAATCCAAGGGTTGAAGAAGTTTCGGCTATAAGCCCCTAAACTAATGGTAC
1 CAATGGTAAAACCTGAATCCAAGGGTTGAAGAAGTTTCGGCTATAAGCCCCTAAACCAATGGTAC
86933959 TTTC
66 TTTC
86933963 CAATGGTAAAACCTGAATCCAAGGGTTGAAGAAGTTTCGGCTATAAGCCCCTAAACCAATGGTAC
1 CAATGGTAAAACCTGAATCCAAGGGTTGAAGAAGTTTCGGCTATAAGCCCCTAAACCAATGGTAC
86934028 TTT
66 TTT
86934031 TGGCTTTTGG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (69 bp):
CAATGGTAAAACCTGAATCCAAGGGTTGAAGAAGTTTCGGCTATAAGCCCCTAAACCAATGGTAC
TTTC
Found at i:86934231 original size:83 final size:83
Alignment explanation
Indices: 86934132--86934296 Score: 312
Period size: 83 Copynumber: 2.0 Consensus size: 83
86934122 GTAGATTAAT
86934132 AAAAACAAAAGAACATAGAAGCACCTGGCTTTGAAGAAATCGACACAAGCAGTGATCACAGGATT
1 AAAAACAAAAGAACATAGAAGCACCTGGCTTTGAAGAAATCGACACAAGCAGTGATCACAGGATT
86934197 TCGACTTTTGCGACTTCG
66 TCGACTTTTGCGACTTCG
* *
86934215 AAAAACAAAAGAACATAGAAGCACCTGGCTTTGAAGAAATCGGCACAAGCAGTGATCACAGGTTT
1 AAAAACAAAAGAACATAGAAGCACCTGGCTTTGAAGAAATCGACACAAGCAGTGATCACAGGATT
86934280 TCGACTTTTGCGACTTC
66 TCGACTTTTGCGACTTC
86934297 AGCAAAGGTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (83 bp):
AAAAACAAAAGAACATAGAAGCACCTGGCTTTGAAGAAATCGACACAAGCAGTGATCACAGGATT
TCGACTTTTGCGACTTCG
Found at i:86934548 original size:153 final size:154
Alignment explanation
Indices: 86934356--86934660 Score: 567
Period size: 153 Copynumber: 2.0 Consensus size: 154
86934346 AAATAGAAAA
*
86934356 AGAAGAATTGGGGAAGTGGTAGTTTCGGCTAGGGAGGAAAAAGGAGAGAAAAGAAAACCTTCTGA
1 AGAAGAATTGGGGAAGTGGTAGTTTCGGCTAGGGAGGAAAAAAGAGAGAAAAGAAAACCTTCTGA
*
86934421 TGTCTGAGCAGAAGAGAACGTCACCACTCAATACCCTAGGTGGCGAAATACTAACCTCAAAA-CC
66 TGTCTGAGCAGAAGAGAACGGCACCACTCAATACCCTAGGTGGCGAAATACTAACCTCAAAACCC
86934485 CCTACCGATTTTCCCCTCTTCAGT
131 CCTACCGATTTTCCCCTCTTCAGT
86934509 AGAAGAATTGGGGAAGTGGTAGTTTCGGCTAGGGAGGAAAAAAGAGAGAAAAGAAAACCTTCTGA
1 AGAAGAATTGGGGAAGTGGTAGTTTCGGCTAGGGAGGAAAAAAGAGAGAAAAGAAAACCTTCTGA
*
86934574 TGTCTGAGCAGAAGAGAACGGCACCACTCAATACCCTCGGTGGCGAAATACTAACCTCAAAACCC
66 TGTCTGAGCAGAAGAGAACGGCACCACTCAATACCCTAGGTGGCGAAATACTAACCTCAAAACCC
*
86934639 CCTGCCGATTTTCCCCTCTTCA
131 CCTACCGATTTTCCCCTCTTCA
86934661 ATTCCCAAAA
Statistics
Matches: 147, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
153 124 0.84
154 23 0.16
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (154 bp):
AGAAGAATTGGGGAAGTGGTAGTTTCGGCTAGGGAGGAAAAAAGAGAGAAAAGAAAACCTTCTGA
TGTCTGAGCAGAAGAGAACGGCACCACTCAATACCCTAGGTGGCGAAATACTAACCTCAAAACCC
CCTACCGATTTTCCCCTCTTCAGT
Found at i:86936263 original size:55 final size:55
Alignment explanation
Indices: 86936189--86936298 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
86936179 CCACACCGAA
*
86936189 TCTTTCTTGGTGGGTGTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTT
1 TCTTTCTTGGTGGGAGTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTT
*
86936244 TCTTTCTTGGTGGGAGTCAAAGGTAACCCACTCACAAAGTCCATTGTTGCTCTTT
1 TCTTTCTTGGTGGGAGTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTT
86936299 CCCACTTCCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (55 bp):
TCTTTCTTGGTGGGAGTCAAAGGTAACCCACTCACAAAGTCCATTGTTACTCTTT
Found at i:86944789 original size:28 final size:28
Alignment explanation
Indices: 86944758--86944813 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
86944748 GTGAGATTTG
86944758 AATGACATTTTGATTGATAAAACTTTAA
1 AATGACATTTTGATTGATAAAACTTTAA
86944786 AATGACATTTTGATTGATAAAACTTTAA
1 AATGACATTTTGATTGATAAAACTTTAA
86944814 CTTTGCCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (28 bp):
AATGACATTTTGATTGATAAAACTTTAA
Found at i:86945147 original size:28 final size:28
Alignment explanation
Indices: 86945116--86945171 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
86945106 GTGAGATTTG
86945116 AATGACATTTTGATTGATAAAACTTTAA
1 AATGACATTTTGATTGATAAAACTTTAA
86945144 AATGACATTTTGATTGATAAAACTTTAA
1 AATGACATTTTGATTGATAAAACTTTAA
86945172 CTTTGCCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (28 bp):
AATGACATTTTGATTGATAAAACTTTAA
Found at i:86945300 original size:358 final size:358
Alignment explanation
Indices: 86944642--86945652 Score: 1523
Period size: 358 Copynumber: 2.9 Consensus size: 358
86944632 TGCTCAGTTA
* * *
86944642 GAGAAATTACAAAAATACCTTTTCGTATTTAAAATAAGTTATATTATTCTAGGGTACTTTAATAT
1 GAGAAATTATAAAAATGCCTTTTCGTATTTAAAATAAGTTATATTATTCTAGGGTACTTTAATCT
* *
86944707 TTTTATTTTTCTGAAAAAAATGAATAAGTTATTTGTATATGGTGAGATTTGAATGACATTTTGAT
66 TTTTATTTTTCT-TAAAAAATGAATAAGTAATTTGTATATGGTGAGATTTGAATGACATTTTGAT
86944772 TGATAAAACTTTAAAATGACATTTTGATTGATAAAACTTTAACTTTGCCACCCAACCAAAACTTT
130 TGATAAAACTTTAAAATGACATTTTGATTGATAAAACTTTAACTTTGCCACCCAACCAAAACTTT
86944837 AATTTAATGTGTTTTATGCATTTTAATTTTATTATGCACACTTTATTACCTTTATCAATTATATA
195 AATTTAATGTGTTTTATGCATTTTAATTTTATTATGCACACTTTATTACCTTTATCAATTATATA
*
86944902 TAGAGATAAATCCCAAAACTACACATGAAATTTGGTTAAATATGCAATGTTATACATGAACTTTG
260 TAGAGATAAATCCCAAAACTACACATGAAATTTGGTTAAATGTGCAATGTTATACATGAACTTTG
* * *
86944967 ATTTTGTACAACTTTATAGAGGACATTTCAATTT
325 ATTTTCTACAACTTTATACAAGACATTTCAATTT
* *
86945001 GAGAAATTATAAAAATGCCTTTTCATATTTAAAATAAGTTATATTACTCTAGGGTACTTTAATCT
1 GAGAAATTATAAAAATGCCTTTTCGTATTTAAAATAAGTTATATTATTCTAGGGTACTTTAATCT
86945066 TTTTATTTTTCTTAAAAAATGAATAAGTAATTTGTATATGGTGAGATTTGAATGACATTTTGATT
66 TTTTATTTTTCTTAAAAAATGAATAAGTAATTTGTATATGGTGAGATTTGAATGACATTTTGATT
86945131 GATAAAACTTTAAAATGACATTTTGATTGATAAAACTTTAACTTTGCCACCCAACCAAAACTTTA
131 GATAAAACTTTAAAATGACATTTTGATTGATAAAACTTTAACTTTGCCACCCAACCAAAACTTTA
86945196 ATTTAATGTGTTTTATGCATTTTAATTTTATTATGCACACTTTATTACCTTTATCAATTATATAT
196 ATTTAATGTGTTTTATGCATTTTAATTTTATTATGCACACTTTATTACCTTTATCAATTATATAT
86945261 AGAGATAAATCCCAAAACTACACATGAAATTTGGTTAAATGTGCAATGTTATAC----A-TTTGA
261 AGAGATAAATCCCAAAACTACACATGAAATTTGGTTAAATGTGCAATGTTATACATGAACTTTGA
*
86945321 TTTTCTACAACTTTATACAAGATATTTCAATTT
326 TTTTCTACAACTTTATACAAGACATTTCAATTT
*
86945354 GAGAAATTATAAAAATGCCTTTTCGTATTTCAAATAAGTTATATTATTCTAGGGTACTTTAATCT
1 GAGAAATTATAAAAATGCCTTTTCGTATTTAAAATAAGTTATATTATTCTAGGGTACTTTAATCT
* *
86945419 TTTTATTTTTCTT-AAAAATGAATAAGTAATTTGTATATGCTGTGATTTGAATGACATTTTGATT
66 TTTTATTTTTCTTAAAAAATGAATAAGTAATTTGTATATGGTGAGATTTGAATGACATTTTGATT
* * * *** *
86945483 GATAAAA-TTT----T-A-A-----CTT--T---AC---CAC--T--CAACCAA--AACTTTA--
131 GATAAAACTTTAAAATGACATTTTGATTGATAAAACTTTAACTTTGCCACCCAACCAAAACTTTA
* * *
86945520 ATTTAATGTGTTTTATACATTTTAATTTTATTATGCACACTTTATTACCTTTATGAATTGTATAT
196 ATTTAATGTGTTTTATGCATTTTAATTTTATTATGCACACTTTATTACCTTTATCAATTATATAT
* *
86945585 AGAGATAAATCCCAAAACTATACATGAAAATTTGTTTAAATGTGCAATGTTATACATGAACTTTG
261 AGAGATAAATCCCAAAACTACACATG-AAATTTGGTTAAATGTGCAATGTTATACATGAACTTTG
86945650 ATT
325 ATT
86945653 CTATTTCAAT
Statistics
Matches: 617, Mismatches: 29, Indels: 41
0.90 0.04 0.06
Matches are distributed among these distances:
324 87 0.14
325 27 0.04
326 3 0.00
328 6 0.01
329 1 0.00
330 8 0.01
332 2 0.00
335 2 0.00
338 1 0.00
340 2 0.00
345 1 0.00
346 1 0.00
347 1 0.00
351 3 0.00
352 56 0.09
353 109 0.18
354 1 0.00
358 234 0.38
359 72 0.12
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (358 bp):
GAGAAATTATAAAAATGCCTTTTCGTATTTAAAATAAGTTATATTATTCTAGGGTACTTTAATCT
TTTTATTTTTCTTAAAAAATGAATAAGTAATTTGTATATGGTGAGATTTGAATGACATTTTGATT
GATAAAACTTTAAAATGACATTTTGATTGATAAAACTTTAACTTTGCCACCCAACCAAAACTTTA
ATTTAATGTGTTTTATGCATTTTAATTTTATTATGCACACTTTATTACCTTTATCAATTATATAT
AGAGATAAATCCCAAAACTACACATGAAATTTGGTTAAATGTGCAATGTTATACATGAACTTTGA
TTTTCTACAACTTTATACAAGACATTTCAATTT
Found at i:86949968 original size:45 final size:45
Alignment explanation
Indices: 86949903--86950121 Score: 302
Period size: 45 Copynumber: 4.9 Consensus size: 45
86949893 TATCGTACGG
* * *
86949903 TACTATTCAGGCCTTGGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
86949948 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATACCAGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
86949993 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGTGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
86950038 TACTATTAGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
86950083 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCTA-AATGCCGGTG
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTG
86950122 GATGAATTCG
Statistics
Matches: 160, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
42 10 0.06
43 19 0.12
44 4 0.03
45 126 0.79
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:86950145 original size:41 final size:42
Alignment explanation
Indices: 86950057--86950163 Score: 119
Period size: 41 Copynumber: 2.5 Consensus size: 42
86950047 GGCCTTCGAG
** *
86950057 CCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCGAG
1 CCTAGCAGGCTA-AATGCCGGTGAAATGATATCGGGCTTAAAA
* *
86950100 CCTAGCAGGCTAAATGCCGGTG-GATGA-ATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAAATGATA-TCGGGCTTAAAA
* *
86950141 CCTAGCAGGCTAATTACCGGTGA
1 CCTAGCAGGCTAAATGCCGGTGA
86950164 TTTGATAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
40 1 0.02
41 32 0.58
42 10 0.18
43 12 0.22
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (42 bp):
CCTAGCAGGCTAAATGCCGGTGAAATGATATCGGGCTTAAAA
Found at i:86953389 original size:23 final size:23
Alignment explanation
Indices: 86953359--86953433 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 23
86953349 TATATAATAG
86953359 TTCATGTGTGAACAGTCGAACAA
1 TTCATGTGTGAACAGTCGAACAA
* *
86953382 TTCATGTGTGAACAGTATTACTAAAATAA
1 TTCATGTGTGAACAG---T-C--GAACAA
86953411 TTCATGTGTGAACAGTCGAACAA
1 TTCATGTGTGAACAGTCGAACAA
86953434 AATATAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
23 19 0.45
25 1 0.02
26 2 0.05
27 1 0.02
29 19 0.45
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (23 bp):
TTCATGTGTGAACAGTCGAACAA
Found at i:86954210 original size:5 final size:5
Alignment explanation
Indices: 86954200--86954231 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
86954190 ATAATTGTGA
86954200 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
86954232 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:86954220 original size:14 final size:14
Alignment explanation
Indices: 86954201--86954231 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
86954191 TAATTGTGAA
86954201 AAATAAAATAAAAT
1 AAATAAAATAAAAT
86954215 AAATAAAATAAAAT
1 AAATAAAATAAAAT
86954229 AAA
1 AAA
86954232 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:86958663 original size:5 final size:5
Alignment explanation
Indices: 86958653--86958684 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
86958643 CAATTTGTTA
86958653 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
86958685 GAATACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:86958678 original size:9 final size:9
Alignment explanation
Indices: 86958654--86958684 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
86958644 AATTTGTTAA
86958654 AAATAAAAT
1 AAATAAAAT
86958663 AAAATAAAAT
1 -AAATAAAAT
86958673 AAATAAAAT
1 AAATAAAAT
86958682 AAA
1 AAA
86958685 GAATACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:86959408 original size:24 final size:24
Alignment explanation
Indices: 86959293--86959408 Score: 119
Period size: 24 Copynumber: 4.9 Consensus size: 24
86959283 TCGGTCAAGG
* *
86959293 AAATTCGCACACAT-GTGCCATGC
1 AAATCCGCACACATAGTGCCATTC
* * * *
86959316 TAACCCACACACAAAGTGCC-TTGC
1 AAATCCGCACACATAGTGCCATT-C
* * *
86959340 TAATCCACACACGTAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
86959364 AAATCCGCACACATAGTGCCATTC
1 AAATCCGCACACATAGTGCCATTC
*
86959388 AAATCTGCACACATAGTGCCA
1 AAATCCGCACACATAGTGCCA
86959409 ATGTCATTTC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
23 10 0.13
24 65 0.84
25 2 0.03
ACGTcount: A:0.33, C:0.33, G:0.14, T:0.21
Consensus pattern (24 bp):
AAATCCGCACACATAGTGCCATTC
Found at i:86960745 original size:17 final size:17
Alignment explanation
Indices: 86960723--86960779 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
86960713 CCCCGCTTAA
86960723 TATATTATAACTTATTT
1 TATATTATAACTTATTT
*
86960740 TATATTATAACATATTT
1 TATATTATAACTTATTT
* * *
86960757 CAAATATATAATTTATTAT
1 TATAT-TATAACTTATT-T
86960776 TATA
1 TATA
86960780 AAAAGCATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
17 19 0.61
18 9 0.29
19 3 0.10
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATAACTTATTT
Found at i:86964387 original size:26 final size:26
Alignment explanation
Indices: 86964354--86964409 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
86964344 TCAAGGACAA
*
86964354 AAAGGGGCACAAATTTCGGATAAGGG
1 AAAGGGGCACAAATTTCGGATAAAGG
86964380 AAAGGGGCACAAATTTCGGATAAAGG
1 AAAGGGGCACAAATTTCGGATAAAGG
86964406 AAAG
1 AAAG
86964410 AGAAAGTAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.43, C:0.11, G:0.32, T:0.14
Consensus pattern (26 bp):
AAAGGGGCACAAATTTCGGATAAAGG
Found at i:86965498 original size:47 final size:47
Alignment explanation
Indices: 86965462--86965566 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
86965452 TAGTATTAAT
*
86965462 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
86965509 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
86965556 AATGTGATAAG
1 TATGTGATAAG
86965567 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:86970031 original size:30 final size:30
Alignment explanation
Indices: 86969995--86970054 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
86969985 TTCCCAAGCC
86969995 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
86970025 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
86970055 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:86970774 original size:49 final size:50
Alignment explanation
Indices: 86970701--86970933 Score: 317
Period size: 49 Copynumber: 4.7 Consensus size: 50
86970691 AGCTATTGTG
86970701 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
86970751 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
86970801 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTGCGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
86970851 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** *
86970901 -GGTGGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
86970934 TGCATACCAT
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
49 73 0.46
50 47 0.30
51 38 0.24
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:86970898 original size:101 final size:98
Alignment explanation
Indices: 86970704--86970933 Score: 325
Period size: 100 Copynumber: 2.3 Consensus size: 98
86970694 TATTGTGAGG
86970704 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
* *
86970769 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCGGATAA-TT-GA
* * ** *
86970804 TCACGTGTGTAGTACTAAGTGCAGGCTACTGCGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
* *
86970869 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCGGATAATTGA
** *
86970903 TGGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
86970934 TGCATACCAT
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
99 28 0.24
100 45 0.39
101 43 0.37
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:86974612 original size:5 final size:5
Alignment explanation
Indices: 86974598--86974643 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
86974588 TAACAATATA
* *
86974598 AAAAT AAAAT GAAAT AAAAT AAAAT AATATT AAAAT --AAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AA
86974644 TAAAAACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
3 3 0.09
5 27 0.79
6 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:86974618 original size:15 final size:16
Alignment explanation
Indices: 86974571--86974648 Score: 63
Period size: 16 Copynumber: 4.8 Consensus size: 16
86974561 ACTATAAAAC
*
86974571 AATAATATTAGTAATAA
1 AATAATATTA-AAATAA
* *
86974588 TAACAATATAAAAATAA
1 -AATAATATTAAAATAA
86974605 AATGAA-A-TAAAATAA
1 AAT-AATATTAAAATAA
86974620 AATAATATTAAAATAA
1 AATAATATTAAAATAA
*
86974636 TAA-AATAATAAAA
1 -AATAATATTAAAA
86974649 ACAAATGAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 2 0.04
15 11 0.22
16 20 0.40
17 9 0.18
18 8 0.16
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (16 bp):
AATAATATTAAAATAA
Found at i:86974646 original size:11 final size:11
Alignment explanation
Indices: 86974582--86974638 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
86974572 ATAATATTAG
86974582 TAATAATAACAA
1 TAATAATAA-AA
86974594 T-AT-A-AAAA
1 TAATAATAAAA
*
86974602 TAA-AATGAAA
1 TAATAATAAAA
86974612 TAA-AATAAAA
1 TAATAATAAAA
*
86974622 TAATATTAAAA
1 TAATAATAAAA
86974633 TAATAA
1 TAATAA
86974639 AATAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 16 0.43
11 13 0.35
12 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:86974787 original size:36 final size:36
Alignment explanation
Indices: 86974738--86974809 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
86974728 AGAAAATAAA
86974738 CCAGGGACAATGACGTATGAGTGCGAAGGGTGCAGG
1 CCAGGGACAATGACGTATGAGTGCGAAGGGTGCAGG
* *
86974774 CCAGGGACGATGACGTATGAGTGCGGAGGGTGCAGG
1 CCAGGGACAATGACGTATGAGTGCGAAGGGTGCAGG
86974810 GGCAGTGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.17, G:0.44, T:0.14
Consensus pattern (36 bp):
CCAGGGACAATGACGTATGAGTGCGAAGGGTGCAGG
Found at i:86975112 original size:21 final size:22
Alignment explanation
Indices: 86975061--86975114 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
86975051 TGCAGGGCTC
*
86975061 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGATCCAAGGG
* *
86975083 ACATGCCCGTGTGATCCTA-GG
1 ACACGCCCGTGTGATCCAAGGG
*
86975104 ACACACCCGTG
1 ACACGCCCGTG
86975115 CTGAAAGTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (22 bp):
ACACGCCCGTGTGATCCAAGGG
Found at i:86976625 original size:15 final size:15
Alignment explanation
Indices: 86976605--86976645 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
86976595 ATCAAACAAT
86976605 TCACATCAATATAAG
1 TCACATCAATATAAG
*
86976620 TCACATCAATATAAT
1 TCACATCAATATAAG
86976635 TCACATTCAAT
1 TCACA-TCAAT
86976646 TTAACATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (15 bp):
TCACATCAATATAAG
Found at i:86978408 original size:30 final size:30
Alignment explanation
Indices: 86978367--86978430 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
86978357 TGACTCGCCT
*
86978367 GTGTGTTTAGGCCGTGTATCACACACGACC
1 GTGTGTCTAGGCCGTGTATCACACACGACC
* *
86978397 GTGTGTCTAGGCCGTGTATTACACACGATC
1 GTGTGTCTAGGCCGTGTATCACACACGACC
86978427 GTGT
1 GTGT
86978431 CTCCAGGCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (30 bp):
GTGTGTCTAGGCCGTGTATCACACACGACC
Found at i:86978541 original size:16 final size:16
Alignment explanation
Indices: 86978520--86978550 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
86978510 AAATGAATGT
86978520 AATTTTTTTGAATTTA
1 AATTTTTTTGAATTTA
*
86978536 AATTTTTTTGGATTT
1 AATTTTTTTGAATTT
86978551 TTTTTAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (16 bp):
AATTTTTTTGAATTTA
Found at i:86979803 original size:27 final size:27
Alignment explanation
Indices: 86979765--86980041 Score: 378
Period size: 27 Copynumber: 10.3 Consensus size: 27
86979755 TTGGGATGAA
86979765 AAAATGACCGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
86979792 AAAATGACCGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* * **
86979819 AAAATAACAGAAATACCCTTATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
**
86979846 AAAATGACCGAAATA-CCCCATATTGT
1 AAAATGACCGAAATACCCCCATAGGGT
*
86979872 AAAATGACTGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* *
86979899 AAAATGACCGAAATACCCTCATAGGAT
1 AAAATGACCGAAATACCCCCATAGGGT
*
86979926 AAAATGACCGAAATACCCTCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* * *
86979953 CAAATGATCGAAATACCCTCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
*
86979980 AAAATAACCGAAATACCCCCATAGGGT
1 AAAATGACCGAAATACCCCCATAGGGT
* **
86980007 AAAATGA-CTATAATACCCCTGTAGGGT
1 AAAATGACCGA-AATACCCCCATAGGGT
86980034 AAAATGAC
1 AAAATGAC
86980042 TGTTTTGCCC
Statistics
Matches: 220, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
26 23 0.10
27 197 0.90
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCATAGGGT
Found at i:86979951 original size:107 final size:108
Alignment explanation
Indices: 86979765--86980014 Score: 394
Period size: 107 Copynumber: 2.3 Consensus size: 108
86979755 TTGGGATGAA
*
86979765 AAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATAACAGA
1 AAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATAACAGA
* **
86979830 AATACCCTTATAGGGTAAAATGACCGAAATACCC-CATATTGT
66 AATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGT
* * * *
86979872 AAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGATAAAATGACCGA
1 AAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATAACAGA
* *
86979937 AATACCCTCATAGGGTCAAATGATCGAAATACCCTCATAGGGT
66 AATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGT
*
86979980 AAAATAACCGAAATACCCCCATAGGGTAAAATGAC
1 AAAATGACCGAAATACCCCCATAGGGTAAAATGAC
86980015 TATAATACCC
Statistics
Matches: 130, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
107 91 0.70
108 39 0.30
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.18
Consensus pattern (108 bp):
AAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGATAAAATAACAGA
AATACCCTCATAGGGTAAAATGACCGAAATACCCTCATAGGGT
Found at i:86980063 original size:27 final size:27
Alignment explanation
Indices: 86980033--86980412 Score: 410
Period size: 27 Copynumber: 14.0 Consensus size: 27
86980023 CCCTGTAGGG
86980033 TAAAATGACTGTTTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
*
86980060 TAAAATGAC-GATTTTGCCTTTATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGA
*
86980087 TAAAATGACGGTTTTGCCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
* *
86980114 TAAAATGACTGTTTTACCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGA
* *
86980141 CAAAATGACTGTTTTGCCCTTGTGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
86980168 TAAAATGA-TGATTTTGCCCTTATGTGGA
1 TAAAATGACTG-TTTTGCCCTTATGT-GA
* *
86980196 -AAAATTACTGTTTTGCCCTTATGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGA
** *
86980222 TAAAATGAC-GATTTTTTCCATATGTGA
1 TAAAATGACTG-TTTTGCCCTTATGTGA
*
86980249 TAAAATGAC-GATTTTGCCCTTATGTGG
1 TAAAATGACTG-TTTTGCCCTTATGTGA
* * * *
86980276 CAAAATGATTGTTTTGCCCTTGTATGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
* *
86980303 TAAAATGACTATTTTGTCCTTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
* * *
86980330 TAAAATGACGGTTTTACCCTTTATGTGG
1 TAAAATGACTGTTTTGCCC-TTATGTGA
* * * *
86980358 TAAAATGACTATTTTGCCTTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGA
*** *
86980385 TTGGATGACTGTTTTGCCCCTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGA
86980412 T
1 T
86980413 GTATGTCCTT
Statistics
Matches: 293, Mismatches: 51, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.02
27 260 0.89
28 28 0.10
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGA
Found at i:86981640 original size:25 final size:26
Alignment explanation
Indices: 86981597--86981648 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
86981587 TCAAACATGC
86981597 ATTTCGGTCAATTTACTCCTAGGGGT
1 ATTTCGGTCAATTTACTCCTAGGGGT
*
86981623 ATTTCGGT-ACTTTACTCCTAGGGGT
1 ATTTCGGTCAATTTACTCCTAGGGGT
86981648 A
1 A
86981649 AAACTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTCGGTCAATTTACTCCTAGGGGT
Found at i:86982933 original size:24 final size:24
Alignment explanation
Indices: 86982894--86982999 Score: 140
Period size: 24 Copynumber: 4.4 Consensus size: 24
86982884 GCCGGCCAAC
* *
86982894 TCCTGCTCCTTGATCATCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
**
86982919 TTTTCTCCTTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
86982943 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
86982967 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
86982991 TCTTCTCCT
1 TCCTCTCCT
86983000 GACAGCCTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 70 0.97
25 2 0.03
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.39
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:86988817 original size:32 final size:32
Alignment explanation
Indices: 86988781--86988864 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
86988771 ATCGGGCCTA
*
86988781 AGCCC-ATTCAGATAACATTGATACTGGGCCAG
1 AGCCCTATTCAGATAACATT-AAACTGGGCCAG
* * **
86988813 AGCCCTTTTCAGATTACATTAAACTGGGCCTT
1 AGCCCTATTCAGATAACATTAAACTGGGCCAG
86988845 AGCCCCTTATTCAGATAACA
1 AG-CCC-TATTCAGATAACA
86988865 GTACGACCCA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
32 16 0.38
33 15 0.36
34 11 0.26
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (32 bp):
AGCCCTATTCAGATAACATTAAACTGGGCCAG
Found at i:86988832 original size:33 final size:34
Alignment explanation
Indices: 86988786--86988864 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 34
86988776 GCCTAAGCCC
*
86988786 ATTCAGATAACATTGATACTGGGCCAGAG-CCCTT
1 ATTCAGATAACATT-AAACTGGGCCAGAGCCCCTT
* **
86988820 -TTCAGATTACATTAAACTGGGCCTTAGCCCCTT
1 ATTCAGATAACATTAAACTGGGCCAGAGCCCCTT
86988853 ATTCAGATAACA
1 ATTCAGATAACA
86988865 GTACGACCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 11 0.29
33 17 0.45
34 10 0.26
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (34 bp):
ATTCAGATAACATTAAACTGGGCCAGAGCCCCTT
Found at i:86990524 original size:24 final size:24
Alignment explanation
Indices: 86990491--86990583 Score: 141
Period size: 24 Copynumber: 3.9 Consensus size: 24
86990481 CTGCTCTTTG
* * *
86990491 ATCAGTTCCTAAATCTTCTCCTTT
1 ATCAGCTCCTAAATCCTCTCCCTT
*
86990515 ATCAACTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
86990539 ATCAGCTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCCTCTCCCTT
*
86990563 ATCAGCTCCTAAATCTTCTCC
1 ATCAGCTCCTAAATCCTCTCC
86990584 TGACAGCCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.23, C:0.38, G:0.03, T:0.37
Consensus pattern (24 bp):
ATCAGCTCCTAAATCCTCTCCCTT
Found at i:86997282 original size:27 final size:27
Alignment explanation
Indices: 86997243--86997464 Score: 257
Period size: 27 Copynumber: 8.3 Consensus size: 27
86997233 TGGGATGAAT
* *
86997243 AAATGACTGAAATACCCCCATAGGTTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
86997270 AAATAACCAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
86997297 AAATGACTAAAATACCCCCATAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
86997324 AAATGATCGAAAT-TCCCTATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
86997350 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
86997377 AAATGACCTAAATACCCCCATATGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
86997404 AAATGATCGAAATACCTCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * **
86997431 AAATGACTGTAATACCCCTGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
86997458 AAATGAC
1 AAATGAC
86997465 TATTTTGCCC
Statistics
Matches: 162, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 21 0.13
27 141 0.87
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:86997377 original size:80 final size:81
Alignment explanation
Indices: 86997243--86997466 Score: 294
Period size: 80 Copynumber: 2.8 Consensus size: 81
86997233 TGGGATGAAT
* * * *
86997243 AAATGA-CTGAAATACCCCCATAGGTTAAAATAACCAAAATACCCCTATAGGGTAAAATGACTAA
1 AAATGATC-GAAATACCTCCATAGGATAAAATGACCGAAATACCCCTATAGGGTAAAATGACTAA
86997307 AATACCCCCATA-GAGTA
65 AATACCCCCATATG-GTA
* * *
86997324 AAATGATCGAAATTCC-CTATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCT-A
1 AAATGATCGAAATACCTCCATAGGATAAAATGACCGAAATACCCCTATAGGGTAAAATGA-CTAA
86997387 AATACCCCCATATGGTA
65 AATACCCCCATATGGTA
* * * *
86997404 AAATGATCGAAATACCTCCATAGGGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGACTA
1 AAATGATCGAAATACCTCCATAGGATAAAATGACCGAAATACCCCTATAGGGTAAAATGACTA
86997467 TTTTGCCCTT
Statistics
Matches: 125, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
80 71 0.57
81 53 0.42
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (81 bp):
AAATGATCGAAATACCTCCATAGGATAAAATGACCGAAATACCCCTATAGGGTAAAATGACTAAA
ATACCCCCATATGGTA
Found at i:86997432 original size:107 final size:107
Alignment explanation
Indices: 86997243--86997436 Score: 291
Period size: 107 Copynumber: 1.8 Consensus size: 107
86997233 TGGGATGAAT
* * *
86997243 AAATGACTGAAATACCCCCATAGGTTAAAATAACCAAAATACCCCTATAGGGTAAAATGACTAAA
1 AAATGACCGAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACTAAA
86997308 ATACCCCCATAGAGTAAAATGATCGAAATTCCCTATAGGATA
66 ATACCCCCATAGAGTAAAATGATCGAAATTCCCTATAGGATA
* * * *
86997350 AAATGACCGAAATACCCCCATAGGGTAAAATGACCTAAATACCCCCATATGGTAAAATGA-TCGA
1 AAATGACCGAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACT-AA
* *
86997414 AATACCTCCATAGGGTAAAATGA
65 AATACCCCCATAGAGTAAAATGA
86997437 CTGTAATACC
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 1 0.01
107 76 0.99
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (107 bp):
AAATGACCGAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCATAGGGTAAAATGACTAAA
ATACCCCCATAGAGTAAAATGATCGAAATTCCCTATAGGATA
Found at i:86997486 original size:27 final size:27
Alignment explanation
Indices: 86997456--86997751 Score: 244
Period size: 27 Copynumber: 11.0 Consensus size: 27
86997446 CCCTGTAGGG
86997456 TAAAATGACTATTTTGCCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
86997483 TAAAATGACGATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGA
* * * * *
86997510 CAAAATGACTGTTTTGCCCTTGTATAA
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
86997537 TAAAATGACGATTTTGTCCTTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
* * *
86997564 TAAAATGACGATTTTACCCTTATATGGA
1 TAAAATGACTATTTTGCCCTTATGT-GA
** **
86997592 -AAAATGACTGCTTTGCCC-T-TGTTT
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
86997616 TAAAATGACTGTTTTGCCCTTATGTGT
1 TAAAATGACTATTTTGCCCTTATGTGA
* *
86997643 TAAGATGAC-AGTTTTGTCCTTATGTTG-
1 TAAAATGACTA-TTTTGCCCTTATG-TGA
* ** *
86997670 TAAAATGA-TGGTTTTGCCCTTATAAGG
1 TAAAATGACT-ATTTTGCCCTTATGTGA
* *
86997697 TAAAATGACTATTTTGCCTTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGA
** * *
86997724 TAGGATGACTGTTTTGCCCCTATGTGA
1 TAAAATGACTATTTTGCCCTTATGTGA
86997751 T
1 T
86997752 GTATGTTCAT
Statistics
Matches: 213, Mismatches: 46, Indels: 20
0.76 0.16 0.07
Matches are distributed among these distances:
25 19 0.09
26 3 0.01
27 186 0.87
28 5 0.02
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGA
Found at i:86997515 original size:54 final size:54
Alignment explanation
Indices: 86997454--86997751 Score: 286
Period size: 54 Copynumber: 5.6 Consensus size: 54
86997444 ACCCCTGTAG
* *
86997454 GGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGT
* * * *
86997508 GGCAAAATGACTGTTTTGCCCTTGTATAATAAAATGACGATTTTGTCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGT
* * *
86997562 GATAAAATGAC-GATTTTACCCTTATATGGA-AAAATGACTG-CTTTGCCC-T-TGT
1 GGTAAAATGACTG-TTTTGCCCTTATAT-GATAAAATGAC-GATTTTGCCCTTATGT
** * * * *
86997614 TTTAAAATGACTGTTTTGCCCTTATGTGTTAAGATGAC-AGTTTTGTCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATATGATAAAATGACGA-TTTTGCCCTTATGT
* * * * *
86997668 TGTAAAATGA-TGGTTTTGCCCTTATAAGGTAAAATGACTATTTTGCCTTTATGT
1 GGTAAAATGACT-GTTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGT
** * *
86997722 GGTAGGATGACTGTTTTGCCCCTATGTGAT
1 GGTAAAATGACTGTTTTGCCCTTATATGAT
86997752 GTATGTTCAT
Statistics
Matches: 197, Mismatches: 35, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
51 1 0.01
52 37 0.19
53 5 0.03
54 150 0.76
55 4 0.02
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.40
Consensus pattern (54 bp):
GGTAAAATGACTGTTTTGCCCTTATATGATAAAATGACGATTTTGCCCTTATGT
Found at i:86997515 original size:81 final size:80
Alignment explanation
Indices: 86997430--86997749 Score: 324
Period size: 81 Copynumber: 4.0 Consensus size: 80
86997420 TCCATAGGGT
** * *
86997430 AAAATGACTGTAATACCCCTGTAGGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGAT
1 AAAATGACTGTTTTGCCCTTGTA-GGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGAT
*
86997495 TTTGCCCTTATGTGGC
65 TTTGCCCTTATGTGGA
** * *
86997511 AAAATGACTGTTTTGCCCTTGTATAATAAAATGACGATTTTGTCCTTATGTGATAAAATGACGAT
1 AAAATGACTGTTTTGCCCTTGTA-GGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGAT
* *
86997576 TTTACCCTTATATGGA
65 TTTGCCCTTATGTGGA
* ** * * *
86997592 AAAATGACTGCTTTGCCCTTGT-TTTAAAATGACTGTTTTGCCCTTATGTGTTAAGATGAC-AGT
1 AAAATGACTGTTTTGCCCTTGTAGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGA-T
* * *
86997655 TTTGTCCTTATGTTGT
65 TTTGCCCTTATGTGGA
* * * **
86997671 AAAATGA-TGGTTTTGCCCTTATAAGGTAAAATGACTATTTTGCCTTTATGTGGTAGGATGACTG
1 AAAATGACT-GTTTTGCCCTTGT-AGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGAC-G
*
86997735 -TTTTGCCCCTATGTG
63 ATTTTGCCCTTATGTG
86997750 ATGTATGTTC
Statistics
Matches: 197, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
78 2 0.01
79 61 0.31
81 134 0.68
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (80 bp):
AAAATGACTGTTTTGCCCTTGTAGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACGATT
TTGCCCTTATGTGGA
Found at i:86997666 original size:106 final size:106
Alignment explanation
Indices: 86997511--86997706 Score: 270
Period size: 106 Copynumber: 1.8 Consensus size: 106
86997501 CTTATGTGGC
*
86997511 AAAATGACTGTTTTGCCCTTGTATAATAAAATGACGATTTTGTCCTTATG-TGATAAAATGACGA
1 AAAATGACTGTTTTGCCCTTATATAATAAAATGACGATTTTGTCCTTATGTTG-TAAAATGACGA
*
86997575 TTTTACCCTTATATGGAAAAATGACTGCTTTGCCCTTGTTTT
65 TTTTACCCTTATAAGGAAAAATGACTGCTTTGCCCTTGTTTT
* ** * * *
86997617 AAAATGACTGTTTTGCCCTTATGTGTTAAGATGAC-AGTTTTGTCCTTATGTTGTAAAATGATGG
1 AAAATGACTGTTTTGCCCTTATATAATAAAATGACGA-TTTTGTCCTTATGTTGTAAAATGACGA
* *
86997681 TTTTGCCCTTATAAGGTAAAATGACT
65 TTTTACCCTTATAAGGAAAAATGACT
86997707 ATTTTGCCTT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
105 1 0.01
106 75 0.96
107 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (106 bp):
AAAATGACTGTTTTGCCCTTATATAATAAAATGACGATTTTGTCCTTATGTTGTAAAATGACGAT
TTTACCCTTATAAGGAAAAATGACTGCTTTGCCCTTGTTTT
Found at i:87002148 original size:15 final size:15
Alignment explanation
Indices: 87002105--87002162 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
87002095 AGAATCAAAC
*
87002105 AAAAGAAAAAAAA-T
1 AAAATAAAAAAAATT
**
87002119 AAAAT-GTAAAAATT
1 AAAATAAAAAAAATT
87002133 -AAATAAAAAAATATT
1 AAAATAAAAAAA-ATT
87002148 AAAATAAAAATAAAT
1 AAAATAAAAA-AAAT
87002163 ATGGCTAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
13 9 0.26
14 9 0.26
15 3 0.09
16 11 0.32
17 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAATAAAAAAAATT
Found at i:87004835 original size:46 final size:46
Alignment explanation
Indices: 87004783--87005046 Score: 397
Period size: 46 Copynumber: 5.7 Consensus size: 46
87004773 TGCTATAGTG
* * *
87004783 TCTTTCAACTATGGTCTTACTA-ATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTAC-ACA-TTTCATATCAGGTTGCCATGGTA
*
87004829 TCTTTCAAACATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
87004875 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* * *
87004921 TCTTTCAACCATGGTCTTACACATTTCATATCAAGCTGTCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* * *
87004967 TCTTTCAACCATGGTCTTATACATTTCATATCAGGCTACCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
87005013 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
87005047 AGAGCACACT
Statistics
Matches: 201, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
45 5 0.02
46 196 0.98
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:87007502 original size:30 final size:29
Alignment explanation
Indices: 87007466--87007533 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
87007456 CACCCTTAAA
* * *
87007466 ATATTTACACTATTAGTCCTTTAACTTTTC
1 ATATTTACACT-TTAATCCTTCAAATTTTC
*
87007496 ATATTTACACTTTAATCCTTCAAATTTTG
1 ATATTTACACTTTAATCCTTCAAATTTTC
87007525 AGTATTTAC
1 A-TATTTAC
87007534 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (29 bp):
ATATTTACACTTTAATCCTTCAAATTTTC
Found at i:87012533 original size:40 final size:41
Alignment explanation
Indices: 87012474--87012625 Score: 220
Period size: 40 Copynumber: 3.8 Consensus size: 41
87012464 CATTTGAATG
* *
87012474 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
87012514 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
87012554 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
87012594 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
87012626 TTGTGGTTAT
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 100 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:87012637 original size:80 final size:80
Alignment explanation
Indices: 87012474--87012645 Score: 222
Period size: 80 Copynumber: 2.2 Consensus size: 80
87012464 CATTTGAATG
* * * * *
87012474 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
87012539 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
*
87012554 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
87012618 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
87012634 ATATCC-GGCTAA
1 ATATCCGGGCTAA
87012646 ATTCCGAAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 6 0.08
80 72 0.90
81 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:87015674 original size:50 final size:50
Alignment explanation
Indices: 87015615--87015709 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
87015605 TTTAGTTCTA
** * *
87015615 TCCATATGATGTCATAACCCACCAATTATGGTCTTATATGATATGTTATT
1 TCCATATGATACCATAACCCACCAACTATGGTCTTACATGATATGTTATT
* *
87015665 TCCATATGATACCATATCCCACCAGCTATGGTCTTACATGATATG
1 TCCATATGATACCATAACCCACCAACTATGGTCTTACATGATATG
87015710 GTGCCATGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (50 bp):
TCCATATGATACCATAACCCACCAACTATGGTCTTACATGATATGTTATT
Found at i:87016426 original size:17 final size:17
Alignment explanation
Indices: 87016404--87016437 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
87016394 CAACATAAAT
87016404 CATAACAATAATATTCA
1 CATAACAATAATATTCA
87016421 CATAACAATAATATTCA
1 CATAACAATAATATTCA
87016438 AACTCATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (17 bp):
CATAACAATAATATTCA
Found at i:87023054 original size:40 final size:40
Alignment explanation
Indices: 87023010--87023139 Score: 197
Period size: 40 Copynumber: 3.2 Consensus size: 40
87023000 GCTATCGATA
87023010 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* *
87023050 TAATATATATCCGGGTTAAATCCCACCGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* *
87023090 TAATATATATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGG
1 T-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
87023132 TACTATAT
1 TAATATAT
87023140 TCGGACTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 44 0.54
41 2 0.02
42 35 0.43
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (40 bp):
TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:87023098 original size:42 final size:42
Alignment explanation
Indices: 87023012--87023139 Score: 197
Period size: 42 Copynumber: 3.1 Consensus size: 42
87023002 TATCGATATA
87023012 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
87023052 ATATATATCCGGGTTAAATCCCACCGGCTTCGTGCTGGTAAT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
87023094 ATATATATCCGAGTTAAATCCCGCAGGCTTAGTGCTGGTACT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
87023136 ATAT
1 ATAT
87023140 TCGGACTTAA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 37 0.47
41 1 0.01
42 41 0.52
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (42 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:87039621 original size:48 final size:48
Alignment explanation
Indices: 87039540--87039806 Score: 286
Period size: 48 Copynumber: 5.5 Consensus size: 48
87039530 GTACCAATGA
* * ** * *
87039540 CATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCGTCTATGC
1 CATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATCGCCGATGC
* * *
87039588 CATGTCCTAGACATGGTCTTACACTGGCACACATATCATTGCCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCGATGC
* * * * * *
87039636 CATGTCCAAGACACGGTCTTACACTGGCACATATATGATCGCTGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCGATGC
* * * **
87039684 CATGCCCCAGACATGGTCTTACACAGGCACATATATCATCACCGATAA
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCGATGC
* * *
87039732 CATGTCCCAGACATGGTCCTACACAGGCACACATCTCAGAT-GTCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACACATATC--ATCGCCGATGC
87039781 CATGTCCCAGACATGGTCTTACACAG
1 CATGTCCCAGACATGGTCTTACACAG
87039807 AATCTCATTT
Statistics
Matches: 183, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 151 0.83
49 29 0.16
50 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.24
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCCGATGC
Found at i:87040210 original size:36 final size:36
Alignment explanation
Indices: 87040163--87040235 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
87040153 GTTTTCTTTG
87040163 TCTAACATTTCAAATGTAGCTTATTTATTATTCACA
1 TCTAACATTTCAAATGTAGCTTATTTATTATTCACA
87040199 TCTAACATTTCAAATGTAGCTTATTTATTATTCACA
1 TCTAACATTTCAAATGTAGCTTATTTATTATTCACA
87040235 T
1 T
87040236 TATTCGAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.45
Consensus pattern (36 bp):
TCTAACATTTCAAATGTAGCTTATTTATTATTCACA
Found at i:87040605 original size:5 final size:5
Alignment explanation
Indices: 87040595--87040621 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
87040585 GTGAGCATTC
87040595 AATCG AATCG AATCG AATCG AATCG AA
1 AATCG AATCG AATCG AATCG AATCG AA
87040622 AATTTTCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
AATCG
Found at i:87044109 original size:15 final size:15
Alignment explanation
Indices: 87044097--87044129 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
87044087 ATAGAGAAGA
87044097 CCAAGACAAAGAAAT
1 CCAAGACAAAGAAAT
87044112 CCAAGACAAAGAAAT
1 CCAAGACAAAGAAAT
87044127 CCA
1 CCA
87044130 TGATAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (15 bp):
CCAAGACAAAGAAAT
Found at i:87047872 original size:48 final size:48
Alignment explanation
Indices: 87047786--87048007 Score: 216
Period size: 48 Copynumber: 4.6 Consensus size: 48
87047776 ATAAAGTACT
* * * * *
87047786 AATGCCATGTCCCCGACATGATCTTACA-T-GAATCCACATATCATTGCC
1 AATGACATGTCCCAGACATGGTCTTACACTGGCA--CACATATCATCGCC
**
87047834 AATGACATGTCATAGACATGGTCTTACACTGGCACACATATCATCGCC
1 AATGACATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
* * * * * *
87047882 GATGCCATGTCCTAGACATGGTCTTACAATGGCACATATATCATCACC
1 AATGACATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
* * * * *
87047930 GATGATATGTCCCAGACATGGTCTTACACAGGCACACATCTCAAAT-GTC
1 AATGACATGTCCCAGACATGGTCTTACACTGGCACACATATC--ATCGCC
*
87047979 AATGCCATGTCCCAGACATGGTCTTACAC
1 AATGACATGTCCCAGACATGGTCTTACAC
87048008 GGAATCTCAT
Statistics
Matches: 145, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
48 113 0.78
49 28 0.19
50 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (48 bp):
AATGACATGTCCCAGACATGGTCTTACACTGGCACACATATCATCGCC
Found at i:87048626 original size:28 final size:28
Alignment explanation
Indices: 87048594--87048687 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
87048584 AAACATCATG
87048594 CAGTAACAGTTTGGGCCTTAGCCCTATA
1 CAGTAACAGTTTGGGCCTTAGCCCTATA
87048622 CAGTAATAGTGCAGTTTGGGCCTTAGCCCTATA
1 CAGT-A-A---CAGTTTGGGCCTTAGCCCTATA
* * *
87048655 CAGTAACTA-TGTGGGCCTAAGCCCAATA
1 CAGTAAC-AGTTTGGGCCTTAGCCCTATA
87048683 CAGTA
1 CAGTA
87048688 TTAGAACAGT
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
28 26 0.46
29 2 0.04
30 1 0.02
31 1 0.02
32 1 0.02
33 26 0.46
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (28 bp):
CAGTAACAGTTTGGGCCTTAGCCCTATA
Found at i:87048847 original size:27 final size:27
Alignment explanation
Indices: 87048817--87048908 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
87048807 AGCAAAGTTG
* * *
87048817 CCAGAAACAGTAAACGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
* *
87048844 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
* *
87048871 CCAGTAACAGTGAATGTGACATAGCCA
1 CCAGTAACAGTAAATGTGGCATAGCCA
87048898 CCAGT-ACAGTA
1 CCAGTAACAGTA
87048909 CTTCCTCCAT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 5 0.09
27 50 0.91
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGGCATAGCCA
Found at i:87049130 original size:27 final size:27
Alignment explanation
Indices: 87049079--87049130 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
87049069 TCGGTCATTT
*
87049079 TACCCTATAGGGGTATTATGGTAATCC
1 TACCCTATAGGGGTATTATGATAATCC
87049106 TACCCTATAGGGGTATT-TCGATAAT
1 TACCCTATAGGGGTATTAT-GATAAT
87049131 TTTGCAAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (27 bp):
TACCCTATAGGGGTATTATGATAATCC
Found at i:87049172 original size:54 final size:54
Alignment explanation
Indices: 87049114--87049227 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
87049104 CCTACCCTAT
** *
87049114 AGGGGTATTTCGATAATTTTGCAAACC-GGGGCTATTTTAGTAATTTCACAAATC
1 AGGGGTATTTCGATAAGCTTAC-AACCTGGGGCTATTTTAGTAATTTCACAAATC
* * * *
87049168 AGGGGTATTTCGGTAAGCTTACAACCTGGGGGTATTTTGGTAATTTCATAAATC
1 AGGGGTATTTCGATAAGCTTACAACCTGGGGCTATTTTAGTAATTTCACAAATC
*
87049222 AAGGGT
1 AGGGGT
87049228 CTTAACGACC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 4 0.08
54 47 0.92
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (54 bp):
AGGGGTATTTCGATAAGCTTACAACCTGGGGCTATTTTAGTAATTTCACAAATC
Found at i:87049183 original size:27 final size:27
Alignment explanation
Indices: 87049114--87049227 Score: 72
Period size: 27 Copynumber: 4.2 Consensus size: 27
87049104 CCTACCCTAT
* **
87049114 AGGGGTATTTCGATAATTTTGCAAA-C
1 AGGGGTATTTCGGTAATTTCACAAATC
* **
87049140 CGGGGCTATTTTAGTAATTTCACAAATC
1 AGGGG-TATTTCGGTAATTTCACAAATC
* *
87049168 AGGGGTATTTCGGTAAGCTT-AC-AACC
1 AGGGGTATTTCGGTAA-TTTCACAAATC
* * *
87049194 TGGGGGTATTTTGGTAATTTCATAAATC
1 -AGGGGTATTTCGGTAATTTCACAAATC
*
87049222 AAGGGT
1 AGGGGT
87049228 CTTAACGACC
Statistics
Matches: 64, Mismatches: 18, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
26 9 0.14
27 45 0.70
28 10 0.16
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTCACAAATC
Found at i:87051160 original size:106 final size:106
Alignment explanation
Indices: 87050975--87051186 Score: 388
Period size: 106 Copynumber: 2.0 Consensus size: 106
87050965 AAATAAATAC
*
87050975 CTCGTTTATGTTGTGCCACACTCAAACCTCAGACCTTAAGGTTCCCTTACATGCCACCTTGCCAC
1 CTCGTTTATGTTGTGCCACACTCAAACCTCAGACCTTAAGGTTCCCTTACACGCCACCTTGCCAC
**
87051040 TACTGTAACATCCCAAAATAGGGCCTAGTTGAATAGTGGTT
66 TACTGTAACATCCCAAAATAGGGCCTAGTCAAATAGTGGTT
*
87051081 CTCGTTTGTGTTGTGCCACACTCAAACCTCAGACCTTAAGGTTCCCTTACACGCCACCTTGCCAC
1 CTCGTTTATGTTGTGCCACACTCAAACCTCAGACCTTAAGGTTCCCTTACACGCCACCTTGCCAC
87051146 TACTGTAACATCCCAAAATAGGGCCTAGTCAAATAGTGGTT
66 TACTGTAACATCCCAAAATAGGGCCTAGTCAAATAGTGGTT
87051187 TGGGGACCAC
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (106 bp):
CTCGTTTATGTTGTGCCACACTCAAACCTCAGACCTTAAGGTTCCCTTACACGCCACCTTGCCAC
TACTGTAACATCCCAAAATAGGGCCTAGTCAAATAGTGGTT
Found at i:87059516 original size:11 final size:11
Alignment explanation
Indices: 87059500--87059539 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
87059490 GCCACTTTTC
87059500 ATAATTAATTA
1 ATAATTAATTA
*
87059511 ATAATT--TTC
1 ATAATTAATTA
87059520 ATAATTAATTA
1 ATAATTAATTA
87059531 ATAA-TAATT
1 ATAATTAATT
87059540 TATTTAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.32
10 5 0.20
11 12 0.48
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
ATAATTAATTA
Found at i:87059520 original size:20 final size:20
Alignment explanation
Indices: 87059495--87059535 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
87059485 ACTGGGCCAC
87059495 TTTTCATAATTAATTAATAA
1 TTTTCATAATTAATTAATAA
87059515 TTTTCATAATTAATTAATAA
1 TTTTCATAATTAATTAATAA
87059535 T
1 T
87059536 AATTTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTCATAATTAATTAATAA
Found at i:87059592 original size:22 final size:22
Alignment explanation
Indices: 87059550--87059594 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
87059540 TATTTAACCC
*
87059550 AAATTAAATTGTATATAAATTA
1 AAATTAAATTATATATAAATTA
*
87059572 AAATT-AATTATATTATGAATTA
1 AAATTAAATTATA-TATAAATTA
87059594 A
1 A
87059595 TACATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAATTAAATTATATATAAATTA
Found at i:87059758 original size:22 final size:22
Alignment explanation
Indices: 87059733--87059774 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
87059723 AAAAAACCAA
87059733 AATTAATCAAAATTAATTATAG
1 AATTAATCAAAATTAATTATAG
* *
87059755 AATTAATTAAAATTCATTAT
1 AATTAATCAAAATTAATTAT
87059775 GTTAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTAATCAAAATTAATTATAG
Found at i:87059773 original size:10 final size:10
Alignment explanation
Indices: 87059731--87059773 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
87059721 GAAAAAAACC
*
87059731 AAAATTAATC
1 AAAATTAATT
87059741 AAAATTAATT
1 AAAATTAATT
87059751 ATAGAATTAATT
1 A-A-AATTAATT
*
87059763 AAAATTCATT
1 AAAATTAATT
87059773 A
1 A
87059774 TGTTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 18 0.62
11 2 0.07
12 9 0.31
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (10 bp):
AAAATTAATT
Found at i:87064650 original size:79 final size:79
Alignment explanation
Indices: 87064519--87064679 Score: 232
Period size: 79 Copynumber: 2.0 Consensus size: 79
87064509 GCCTGTGTGT
* * *
87064519 CCAGGCCGTGCCAAACCTGTAGGGTATATTGACTTAATTCGTAGGGCTACCCCAAGGGAGACACA
1 CCAGGCCATGCCAAACCTGTAGGGTATATTGACTTAATTCATAGGGCTACCCCAAGGGACACACA
*
87064584 ACCTTGTAACATGA
66 ACCGTGTAACATGA
* * * * *
87064598 CCAGGCCATGTCAAACCTGTAGGTTATATTGTCTTAATTCATAGGGCTACCCCAGGGGACACACG
1 CCAGGCCATGCCAAACCTGTAGGGTATATTGACTTAATTCATAGGGCTACCCCAAGGGACACACA
*
87064663 GCCGTGTAACATGA
66 ACCGTGTAACATGA
87064677 CCA
1 CCA
87064680 TGTGTCGCAC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (79 bp):
CCAGGCCATGCCAAACCTGTAGGGTATATTGACTTAATTCATAGGGCTACCCCAAGGGACACACA
ACCGTGTAACATGA
Found at i:87065646 original size:47 final size:48
Alignment explanation
Indices: 87065569--87065700 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 48
87065559 CACAATCGAT
* * * ***
87065569 AAGTACTTATACCATGGCCTATAGCTAAATCAAGGTAACTTAT-CTTG
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCAA
* * *
87065616 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTCTCCCAA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCAA
* *
87065664 AAATACCTATATCATGGCCCATAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTA
87065701 TTATTTGCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 37 0.52
48 34 0.48
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCAA
Found at i:87069310 original size:24 final size:25
Alignment explanation
Indices: 87069282--87069394 Score: 90
Period size: 25 Copynumber: 4.5 Consensus size: 25
87069272 TGAGCTTTTC
*
87069282 GATTATGGCTCTTCGTGAGTTTCCT
1 GATTATGGCTCTTCGTGAGCTTCCT
*
87069307 -ATTAATTGGCTCTTTGTGAGCTTCCT
1 GATT-A-TGGCTCTTCGTGAGCTTCCT
* * *
87069333 GA-TATGGCTC-TCTTGAACTTCCC
1 GATTATGGCTCTTCGTGAGCTTCCT
* * *
87069356 GATATATGGCTC-TCCTGAGATCCCT
1 GAT-TATGGCTCTTCGTGAGCTTCCT
87069381 GATTACTGGCTCTT
1 GATTA-TGGCTCTT
87069395 TAGAGCTACC
Statistics
Matches: 70, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
23 11 0.16
24 11 0.16
25 27 0.39
26 20 0.29
27 1 0.01
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (25 bp):
GATTATGGCTCTTCGTGAGCTTCCT
Found at i:87069820 original size:49 final size:49
Alignment explanation
Indices: 87069748--87069846 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
87069738 TCAGTATTTA
87069748 TATGAACTATATAACTAACATGCTTGATGAGGATTTATGTGTGATTAGG
1 TATGAACTATATAACTAACATGCTTGATGAGGATTTATGTGTGATTAGG
*
87069797 TATGAACTATATAACTAACATGCTTGATGAGGATTTCTGTGTGATTAGG
1 TATGAACTATATAACTAACATGCTTGATGAGGATTTATGTGTGATTAGG
87069846 T
1 T
87069847 TATTGATTTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.37
Consensus pattern (49 bp):
TATGAACTATATAACTAACATGCTTGATGAGGATTTATGTGTGATTAGG
Found at i:87076491 original size:57 final size:58
Alignment explanation
Indices: 87076422--87076570 Score: 162
Period size: 57 Copynumber: 2.6 Consensus size: 58
87076412 ATAGTATAAC
* *
87076422 AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCT-GAAAAGAG-CGCA-ATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATACTCG-AAAG-GTAGCATATT
* * * **
87076479 AGGATTACCAGTCCAGGCTAAA-CCCTAATCATAACGTATACTCGAGAGGTATTATATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTAT-ATAACGTATACTCGAAAGGTAGCATATT
* *
87076537 AGGATTACCAGTCCAGGCTAAATTCTTTCTATAA
1 AGGATTACCAGTCCAGGCTAAATCCTTTATATAA
87076571 TGAGTTCGAT
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
56 6 0.08
57 37 0.49
58 30 0.39
59 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (58 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATACTCGAAAGGTAGCATATT
Found at i:87087982 original size:47 final size:47
Alignment explanation
Indices: 87087913--87088038 Score: 180
Period size: 47 Copynumber: 2.7 Consensus size: 47
87087903 TCAATAAGTG
* *
87087913 CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTATCCCGGAGTA
1 CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCGGAATA
* * * ***
87087960 CCTATACCATGGCCCGTAGCCAAATTAAGGTAACTCCTCTTTGAATA
1 CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCGGAATA
87088007 CCTATACCATGGCCTGTAGCCAAATCAAGGTA
1 CCTATACCATGGCCTGTAGCCAAATCAAGGTA
87088039 CCATTCGCAC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCGGAATA
Found at i:87099064 original size:43 final size:42
Alignment explanation
Indices: 87099017--87099118 Score: 98
Period size: 43 Copynumber: 2.4 Consensus size: 42
87099007 GGATAGGATC
* * *
87099017 TTACATGAAATCAATTAACGATGCCAATGTCCCAGACATGGTA
1 TTACATGAAATCAAAT-ACAATGCCAATATCCCAGACATGGTA
* * * *
87099060 TTACA-CATAATCACAATACAATGCGAATATCCTAGACATGGTC
1 TTACATGA-AATCA-AATACAATGCCAATATCCCAGACATGGTA
*
87099103 TTACATGTAATCAAAT
1 TTACATGAAATCAAAT
87099119 CTCGATAACT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
42 4 0.09
43 41 0.87
44 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (42 bp):
TTACATGAAATCAAATACAATGCCAATATCCCAGACATGGTA
Found at i:87101476 original size:15 final size:15
Alignment explanation
Indices: 87101456--87101541 Score: 64
Period size: 15 Copynumber: 6.2 Consensus size: 15
87101446 CTTCCCATCC
87101456 TCTTCTTATTCTCCT
1 TCTTCTTATTCTCCT
*
87101471 TCTTCTCA-T-T-C-
1 TCTTCTTATTCTCCT
87101482 TC-T-TTATTCTCCT
1 TCTTCTTATTCTCCT
87101495 TCTTCTTA-T-T-CT
1 TCTTCTTATTCTCCT
*
87101507 TCTTCTTTTTCTTCCT
1 TCTTCTTATTC-TCCT
*
87101523 CTCTTCTTATTCTTCT
1 -TCTTCTTATTCTCCT
87101539 TCT
1 TCT
87101542 ATTGTCACAC
Statistics
Matches: 55, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
9 2 0.04
10 2 0.04
11 3 0.05
12 11 0.20
13 5 0.09
14 3 0.05
15 14 0.25
16 5 0.09
17 10 0.18
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (15 bp):
TCTTCTTATTCTCCT
Found at i:87101493 original size:24 final size:26
Alignment explanation
Indices: 87101443--87101541 Score: 103
Period size: 24 Copynumber: 3.7 Consensus size: 26
87101433 ATCTCCATTT
* *
87101443 CTTCTTCCCATCCTCTTCTTATTCTC
1 CTTCTTCTCATTCTCTTCTTATTCTC
87101469 CTTCTTCTCATTCTC-T-TTATTCTC
1 CTTCTTCTCATTCTCTTCTTATTCTC
* *
87101493 CTTCTTCTTATTCTTCTTCTTTTTCTTC
1 CTTCTTCTCATTC-TCTTCTTATTC-TC
*
87101521 CTCTCTTCTTATTCTTCTTCT
1 CT-TCTTCTCATTC-TCTTCT
87101542 ATTGTCACAC
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
24 20 0.31
25 3 0.05
26 14 0.22
27 5 0.08
28 4 0.06
29 18 0.28
ACGTcount: A:0.06, C:0.34, G:0.00, T:0.60
Consensus pattern (26 bp):
CTTCTTCTCATTCTCTTCTTATTCTC
Found at i:87101506 original size:6 final size:6
Alignment explanation
Indices: 87101456--87101541 Score: 61
Period size: 6 Copynumber: 14.5 Consensus size: 6
87101446 CTTCCCATCC
* * * * *
87101456 TCTTCT TATTCT CCTTCT TC-TCAT TC-TCTT TATTCT CCTTCT TCTTAT
1 TCTTCT TCTTCT TCTTCT TCTTC-T TCTTC-T TCTTCT TCTTCT TCTTCT
* * *
87101504 TCTTCT TCTTTT TCTTCC TC-TCT TCTTAT TCTTCT TCT
1 TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCTTCT TCT
87101542 ATTGTCACAC
Statistics
Matches: 60, Mismatches: 17, Indels: 6
0.72 0.20 0.07
Matches are distributed among these distances:
5 6 0.10
6 52 0.87
7 2 0.03
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (6 bp):
TCTTCT
Found at i:87102969 original size:15 final size:15
Alignment explanation
Indices: 87102949--87102979 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
87102939 AAATATGAAA
87102949 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
87102964 GATATGTTTTGTATT
1 GATATGTTTTGGATT
87102979 G
1 G
87102980 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:87104085 original size:18 final size:17
Alignment explanation
Indices: 87104062--87104098 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
87104052 CTTGGCCCAT
87104062 TGCAGTAATAGTAAACAG
1 TGCAGTAATAGT-AACAG
87104080 TGCAGTAATAGTAACAG
1 TGCAGTAATAGTAACAG
87104097 TG
1 TG
87104099 TAATAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (17 bp):
TGCAGTAATAGTAACAG
Found at i:87104474 original size:27 final size:27
Alignment explanation
Indices: 87104444--87104664 Score: 290
Period size: 27 Copynumber: 8.3 Consensus size: 27
87104434 GGTAAAACAA
* *
87104444 TCATCTTACCATAAAAGGGCAAAATAG
1 TCATTTTACCATATAAGGGCAAAATAG
87104471 TCATTTTACC-TCATAAGGGCAAAATAG
1 TCATTTTACCAT-ATAAGGGCAAAATAG
87104498 TCATTTTACC-TCATAAGGGCAAAATAG
1 TCATTTTACCAT-ATAAGGGCAAAATAG
* * *
87104525 TCATTTTACCCTATAAGGACAAAATAA
1 TCATTTTACCATATAAGGGCAAAATAG
87104552 TCATTTTACC-TCATAAGGGCAAAATAG
1 TCATTTTACCAT-ATAAGGGCAAAATAG
* *
87104579 TCATTTTATCATATAAGGGTAAAATAG
1 TCATTTTACCATATAAGGGCAAAATAG
* *
87104606 TCA-TTTACCATATAAGGGTAAAACAG
1 TCATTTTACCATATAAGGGCAAAATAG
*
87104632 TCA-TTTACCACATAAGGGCAAAATAG
1 TCATTTTACCATATAAGGGCAAAATAG
87104658 TCATTTT
1 TCATTTT
87104665 GTCTCATAAG
Statistics
Matches: 176, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
26 49 0.28
27 125 0.71
28 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.30
Consensus pattern (27 bp):
TCATTTTACCATATAAGGGCAAAATAG
Found at i:87104584 original size:81 final size:81
Alignment explanation
Indices: 87104444--87104676 Score: 328
Period size: 81 Copynumber: 2.9 Consensus size: 81
87104434 GGTAAAACAA
* *
87104444 TCATCTTACCATAAAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCT
1 TCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCT
87104509 CATAAGGGCAAAATAG
66 CATAAGGGCAAAATAG
* * * *
87104525 TCATTTTACCCTATAAGGACAAAATAATCATTTTACCTCATAAGGGCAAAATAGTCATTTTATCA
1 TCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTA-CC
*
87104590 T-ATAAGGGTAAAATAG
65 TCATAAGGGCAAAATAG
* * * **
87104606 TCA-TTTACCATATAAGGGTAAAACAGTCA-TTTACCACATAAGGGCAAAATAGTCATTTTGTCT
1 TCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCT
87104669 CATAAGGG
66 CATAAGGG
87104677 TTTAGGTACG
Statistics
Matches: 134, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 36 0.27
80 21 0.16
81 74 0.55
82 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (81 bp):
TCATTTTACCATATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTACCT
CATAAGGGCAAAATAG
Found at i:87106862 original size:45 final size:41
Alignment explanation
Indices: 87106787--87106909 Score: 113
Period size: 41 Copynumber: 2.9 Consensus size: 41
87106777 ATATGTGTTC
* * * *
87106787 TCGTGTAAGACCACGTCTGGGGCGTTGGCATCGATATATGTGGT
1 TCGTGTAAGACCATGTCTGGGAC-ATGGCATCGATAT-T-TGAT
* *
87106831 TACGTGTAAGACCATGTCTAGGACATCGGCATTG-TATTTGAT
1 T-CGTGTAAGACCATGTCTGGGACAT-GGCATCGATATTTGAT
* *
87106873 TCGTGTAAGACCCTGTATGGGACAGTGGCATCGATAT
1 TCGTGTAAGACCATGTCTGGGACA-TGGCATCGATAT
87106910 GAGATAGCAC
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
41 26 0.40
42 8 0.12
43 1 0.02
44 5 0.08
45 25 0.38
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACATGGCATCGATATTTGAT
Found at i:87109790 original size:30 final size:30
Alignment explanation
Indices: 87109775--87110081 Score: 363
Period size: 30 Copynumber: 10.5 Consensus size: 30
87109765 AAACCAAATG
* *
87109775 AGAATCAAAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
87109805 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
87109835 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
87109866 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
87109896 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
87109926 AGAATCAGAATCAGAATTAGGT----G-A-C
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
87109951 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
* *
87109981 AGAATCAGAATCAGTATTAATAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
87110011 AGAATCAG-----G-ATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
* *
87110036 AGAATCAGAACCAGTAA-CAG-AATCAGAATC
1 AGAATCAGAATCAG-AATTAGTAA-CAGAATC
87110066 AGAATCAGAATCAGAA
1 AGAATCAGAATCAGAA
87110082 CCAGAATTAG
Statistics
Matches: 241, Mismatches: 19, Indels: 35
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.02
25 37 0.15
26 1 0.00
27 1 0.00
28 1 0.00
29 4 0.02
30 159 0.66
31 31 0.13
32 1 0.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:87109792 original size:6 final size:6
Alignment explanation
Indices: 87109775--87110119 Score: 298
Period size: 6 Copynumber: 56.8 Consensus size: 6
87109765 AAACCAAATG
* * *
87109775 AGAATC AAAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* *
87109823 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
87109872 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* *
87109920 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
87109969 AGTAA-C AGAATC AGAATC AGAATC AGTATT A-ATAAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC
* * * *
87110017 AGGATT AG-GTGAC AGAATC AGAATC AGAACC AGTAA-C AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * * *
87110066 AGAATC AGAATC AGAACC AGAATT AGAATT ACGTGA-C AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
87110115 AGAAT
1 AGAAT
87110120 GTGAATGCAA
Statistics
Matches: 277, Mismatches: 36, Indels: 52
0.76 0.10 0.14
Matches are distributed among these distances:
5 16 0.06
6 238 0.86
7 19 0.07
8 4 0.01
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:87109870 original size:79 final size:79
Alignment explanation
Indices: 87109783--87110118 Score: 386
Period size: 79 Copynumber: 4.2 Consensus size: 79
87109773 TGAGAATCAA
87109783 AATCAGAATCAGTAA-CAG-AATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 AATCAGAATCAG-AACCAGTAA-CAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
87109846 CAGAATTAGGTGACAG
64 CAGAATTAGGTGACAG
87109862 AATCAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCA
1 AATCAGAATCAGAA-C-----CAGT-----AA-CAGAATCAGAATCAGTATTAGTAACAGAATCA
87109927 GAATCAGAATCAGAATTAGGTGACAG
54 GAATCAGAATCAGAATTAGGTGACAG
* * * *
87109953 AATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTA-ATAA-CAGAATCAGAAT
1 AATCAGAATCAGAACCAGTAACAGAATCAGAATCAGTATTAGTA--ACAGAATCAGAATCAGAAT
*
87110016 CAGGATTAGGTGACAG
64 CAGAATTAGGTGACAG
* *
87110032 AATCAGAATCAGAACCAGTAACAGAATCAGAATCAG-A--A-T--CAGAATCAGAACCAGAATTA
1 AATCAGAATCAGAACCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCA
*
87110091 GAATTACGTGACAG
66 GAATTAGGTGACAG
87110105 AATCAGAATCAGAA
1 AATCAGAATCAGAA
87110119 TGTGAATGCA
Statistics
Matches: 229, Mismatches: 11, Indels: 40
0.82 0.04 0.14
Matches are distributed among these distances:
72 3 0.01
73 38 0.17
75 1 0.00
76 1 0.00
78 3 0.01
79 95 0.41
80 5 0.02
81 1 0.00
85 7 0.03
91 75 0.33
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (79 bp):
AATCAGAATCAGAACCAGTAACAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCA
GAATTAGGTGACAG
Found at i:87109874 original size:85 final size:85
Alignment explanation
Indices: 87109775--87110073 Score: 475
Period size: 91 Copynumber: 3.5 Consensus size: 85
87109765 AAACCAAATG
*
87109775 AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
87109840 CAGAATCAGAATTAGGTGACAGAATC
66 CAGAATCAGAATTAGGT----G-A-C
87109866 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
87109931 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
*
87109951 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAATAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
87110016 CAG-----G-ATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
*
87110030 AGAATCAGAATCAGAACCAGTAACAGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAG
87110074 AATCAGAACC
Statistics
Matches: 205, Mismatches: 3, Indels: 12
0.93 0.01 0.05
Matches are distributed among these distances:
79 53 0.26
80 1 0.00
85 68 0.33
86 1 0.00
87 1 0.00
91 81 0.40
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:87109878 original size:91 final size:91
Alignment explanation
Indices: 87109775--87110079 Score: 467
Period size: 85 Copynumber: 3.5 Consensus size: 91
87109765 AAACCAAATG
*
87109775 AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
87109840 CAGAATCAGAATTAGGTGACAGAATC
66 CAGAATCAGAATTAGGTGACAGAATC
87109866 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
87109931 CAGAATCAGAATTAGGT----G-A-C
66 CAGAATCAGAATTAGGTGACAGAATC
*
87109951 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAATAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
87110016 CAG-----G-ATTAGGTGACAGAATC
66 CAGAATCAGAATTAGGTGACAGAATC
*
87110036 AGAATCAGAACCAGTAA-CAG-AATCAGAATCAGAATCAGAATCAG
1 AGAATCAGAATCAG-AATCAGTAA-CAGAATCAGAATCAGAATCAG
87110080 AACCAGAATT
Statistics
Matches: 203, Mismatches: 3, Indels: 22
0.89 0.01 0.10
Matches are distributed among these distances:
79 7 0.03
80 1 0.00
83 1 0.00
84 3 0.01
85 106 0.52
86 3 0.01
87 1 0.00
91 81 0.40
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (91 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGACAGAATC
Found at i:87110274 original size:27 final size:26
Alignment explanation
Indices: 87110237--87110302 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
87110227 AGCATGGCTG
*
87110237 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
87110263 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
87110290 CCAGAATCAGATA
1 CCAGAA-CAGATA
87110303 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Done.