Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 173 of 203
Found at i:54973992 original size:56 final size:50
Alignment explanation
Indices: 54973927--54974104 Score: 191
Period size: 50 Copynumber: 3.5 Consensus size: 50
54973917 GGTAAAGAGA
* **
54973927 CCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCATTGAAGTTATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGATATGGCATTGGCA-C--CG-A--TATGAGAACT
* *
54973983 CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
1 CCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGATATGAGAACT
* **
54974033 CCCATGTAAGACCATATCTGGGATATGGCATTGGCA---ATACAAGAAACAT
1 CCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGATATGAG-AAC-T
54974082 CCCATGTAAGACCATGTCTGGGA
1 CCCATGTAAGACCATGTCTGGGA
54974105 CATGAATTTG
Statistics
Matches: 109, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
47 5 0.05
48 3 0.03
49 23 0.21
50 41 0.38
52 1 0.01
53 1 0.01
55 1 0.01
56 34 0.31
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGATATGGCATTGGCACCGATATGAGAACT
Found at i:54980139 original size:40 final size:40
Alignment explanation
Indices: 54980095--54980319 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
54980085 GCTCCTCGTT
* * * *
54980095 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
54980135 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
54980175 CAAATGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
54980215 GAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
54980254 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
54980295 TAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
54980320 CATCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 115 0.72
41 12 0.08
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:54980236 original size:119 final size:120
Alignment explanation
Indices: 54980096--54980319 Score: 278
Period size: 119 Copynumber: 1.9 Consensus size: 120
54980086 CTCCTCGTTC
* *
54980096 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGTACAAATGCCTTCGGGA-CTTAACCC
1 AAATGCCTTCGGGACATAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACCC
* *
54980158 GGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCAG
63 GGATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGAAACTCGCAG
* **
54980216 AAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AAATGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGA
* * * *
54980280 TATGGTCACTTAGCATAAAGCCTTCGGGACTTAGCCCGGA
66 TATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
54980320 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 5 0.06
119 63 0.71
120 21 0.24
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (120 bp):
AAATGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGAAACTCGCAG
Found at i:54984121 original size:77 final size:77
Alignment explanation
Indices: 54983994--54984147 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
54983984 GTCGGTAATA
54983994 ACCGGCGAGCCCCAAAAAGCTCCGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATGG
1 ACCGGCGAGCCCCAAAAAGCTCCGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATGG
54984059 CTGAAATTTTAC
66 CTGAAATTTTAC
54984071 ACCGGCGAGCCCCAAAAAGCTCCGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATGG
1 ACCGGCGAGCCCCAAAAAGCTCCGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATGG
54984136 CTGAAATTTTAC
66 CTGAAATTTTAC
54984148 TCGGGTCAAC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (77 bp):
ACCGGCGAGCCCCAAAAAGCTCCGAACCTCAGTAATATTTCTCGGAGGTTTCCAGTTAAGTATGG
CTGAAATTTTAC
Found at i:54985287 original size:327 final size:327
Alignment explanation
Indices: 54984693--54985346 Score: 1290
Period size: 327 Copynumber: 2.0 Consensus size: 327
54984683 GTCGAGCAAA
*
54984693 ACCTCTATCCGTCAATTCTTGCAACTGAGCTTTCAACTCTTTTAACTCGGTTGGTGCCATACGAT
1 ACCTCTATCCGTCAATTCTTGCAACTGAGATTTCAACTCTTTTAACTCGGTTGGTGCCATACGAT
54984758 ACGGAGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACA
66 ACGGAGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACA
54984823 GGTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTC
131 GGTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTC
54984888 GGGTTTCTTTTCTAATTCTTTGTCATCAAGTACATACACAAGGTATGCTTCGCACCCTTTTCTTA
196 GGGTTTCTTTTCTAATTCTTTGTCATCAAGTACATACACAAGGTATGCTTCGCACCCTTTTCTTA
54984953 CATATTTCTGGGCCAACATTGCTGATATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACT
261 CATATTTCTGGGCCAACATTGCTGATATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACT
54985018 CG
326 CG
*
54985020 ACCTCTATCCGTCAATTCTTGCAACTGAGATTTTAACTCTTTTAACTCGGTTGGTGCCATACGAT
1 ACCTCTATCCGTCAATTCTTGCAACTGAGATTTCAACTCTTTTAACTCGGTTGGTGCCATACGAT
54985085 ACGGAGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACA
66 ACGGAGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACA
54985150 GGTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTC
131 GGTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTC
54985215 GGGTTTCTTTTCTAATTCTTTGTCATCAAGTACATACACAAGGTATGCTTCGCACCCTTTTCTTA
196 GGGTTTCTTTTCTAATTCTTTGTCATCAAGTACATACACAAGGTATGCTTCGCACCCTTTTCTTA
54985280 CATATTTCTGGGCCAACATTGCTGATATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACT
261 CATATTTCTGGGCCAACATTGCTGATATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACT
54985345 CG
326 CG
54985347 GATTACTTCG
Statistics
Matches: 325, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
327 325 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (327 bp):
ACCTCTATCCGTCAATTCTTGCAACTGAGATTTCAACTCTTTTAACTCGGTTGGTGCCATACGAT
ACGGAGCTATCGAAATCGGCGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACA
GGTGGTAAACCCGGTAATTCTTCAGGAAAAACATCCGGGTATTCACAAACCACCGGCACAGATTC
GGGTTTCTTTTCTAATTCTTTGTCATCAAGTACATACACAAGGTATGCTTCGCACCCTTTTCTTA
CATATTTCTGGGCCAACATTGCTGATATTACAGCTGGCATCCCCTCCAAGTCCGTAGACTCAACT
CG
Found at i:54987429 original size:75 final size:75
Alignment explanation
Indices: 54987306--54987455 Score: 275
Period size: 75 Copynumber: 2.0 Consensus size: 75
54987296 GTTTCACAAC
54987306 TCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATAT-TTGTTT
1 TCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATGTT-TTT
54987370 CTAGAATTTTT
65 CTAGAATTTTT
*
54987381 TCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATGTTTTTC
1 TCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATGTTTTTC
54987446 TAGAATTTTT
66 TAGAATTTTT
54987456 GGTCGGGCCA
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
75 71 0.97
76 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (75 bp):
TCGAAAATCAGTTTCGTGATTTTTCCCTGAAACTAGACTCATATGCCCATCTACATATGTTTTTC
TAGAATTTTT
Found at i:54987762 original size:62 final size:62
Alignment explanation
Indices: 54987681--54987804 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
54987671 TCGGAACAGA
*
54987681 AAATCCAGAAACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCC
1 AAATACAGAAACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCC
54987743 AAATACAGAAACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCC
1 AAATACAGAAACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCC
54987805 GTATGATTGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (62 bp):
AAATACAGAAACCGTTCTGGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCC
Found at i:54988892 original size:39 final size:40
Alignment explanation
Indices: 54988655--54988997 Score: 484
Period size: 40 Copynumber: 8.7 Consensus size: 40
54988645 GCTCCTCGTT
* *
54988655 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
54988695 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
54988735 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
54988775 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
54988815 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
54988855 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
54988894 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
54988933 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
54988974 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54988998 CATCATTCAA
Statistics
Matches: 285, Mismatches: 12, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
38 2 0.01
39 88 0.31
40 186 0.65
41 9 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:54991366 original size:87 final size:87
Alignment explanation
Indices: 54991220--54991528 Score: 618
Period size: 87 Copynumber: 3.6 Consensus size: 87
54991210 GGGTAAAATC
54991220 ATAAATGTGAGTATTAAATAAACTAAATTTACTATTATAGATCAATAAATGCAATATTTTTTTAA
1 ATAAATGTGAGTATTAAATAAACTAAATTTACTATTATAGATCAATAAATGCAATATTTTTTTAA
54991285 AGTTAGAGCGAGGGCTGTTTTG
66 AGTTAGAGCGAGGGCTGTTTTG
54991307 ATAAATGTGAGTATTAAATAAACTAAATTTACTATTATAGATCAATAAATGCAATATTTTTTTAA
1 ATAAATGTGAGTATTAAATAAACTAAATTTACTATTATAGATCAATAAATGCAATATTTTTTTAA
54991372 AGTTAGAGCGAGGGCTGTTTTG
66 AGTTAGAGCGAGGGCTGTTTTG
54991394 ATAAATGTGAGTATTAAATAAACTAAATTTACTATTATAGATCAATAAATGCAATATTTTTTTAA
1 ATAAATGTGAGTATTAAATAAACTAAATTTACTATTATAGATCAATAAATGCAATATTTTTTTAA
54991459 AGTTAGAGCGAGGGCTGTTTTG
66 AGTTAGAGCGAGGGCTGTTTTG
54991481 ATAAATGTGAGTATTAAATAAACTAAATTTACTATTATAGATCAATAA
1 ATAAATGTGAGTATTAAATAAACTAAATTTACTATTATAGATCAATAA
54991529 GAACGAAATC
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 222 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.38
Consensus pattern (87 bp):
ATAAATGTGAGTATTAAATAAACTAAATTTACTATTATAGATCAATAAATGCAATATTTTTTTAA
AGTTAGAGCGAGGGCTGTTTTG
Found at i:54991920 original size:50 final size:50
Alignment explanation
Indices: 54991770--54991962 Score: 138
Period size: 50 Copynumber: 3.7 Consensus size: 50
54991760 ATTTGGGTAA
* * * **
54991770 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAAGTTATG
1 AGAGGTCCCCTGTAAGACCATGTCTGAGACATGGCA-TGG-A-CACCG-AG--ATG
* ** *
54991826 AGAGG-CCCCATGTAAGACCATGTCTGGGACATGGTGTTGACACCGAGATG
1 AGAGGTCCCC-TGTAAGACCATGTCTGAGACATGGCATGGACACCGAGATG
* * *
54991876 AGAGGTCCCCCGTAAGACCATG-CTTGAGACATGGCATGGGCACCGATATG
1 AGAGGTCCCCTGTAAGACCATGTC-TGAGACATGGCATGGACACCGAGATG
** * * * *
54991926 AGAACTCCCATGTAAGACCATATCTGGGATATGGCAT
1 AGAGGTCCCCTGTAAGACCATGTCTGAGACATGGCAT
54991963 TGATAGTAAA
Statistics
Matches: 112, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
49 1 0.01
50 67 0.60
51 5 0.04
52 2 0.02
53 3 0.03
54 1 0.01
55 5 0.04
56 28 0.25
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCCTGTAAGACCATGTCTGAGACATGGCATGGACACCGAGATG
Found at i:54992139 original size:25 final size:25
Alignment explanation
Indices: 54992097--54992158 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
54992087 TATGTTCCAT
*
54992097 GAAAGTTCAGGTAAAAGCATAAATA
1 GAAATTTCAGGTAAAAGCATAAATA
54992122 GCAAATTT-AGGTAAAAGCATAAATA
1 G-AAATTTCAGGTAAAAGCATAAATA
54992147 GAAATTTCAGGT
1 GAAATTTCAGGT
54992159 GAGTTATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
24 6 0.18
25 23 0.68
26 5 0.15
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.24
Consensus pattern (25 bp):
GAAATTTCAGGTAAAAGCATAAATA
Found at i:55001024 original size:16 final size:17
Alignment explanation
Indices: 55000997--55001028 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55000987 AGTATAGGGG
55000997 CAAAATAGTAATTTTTC
1 CAAAATAGTAATTTTTC
55001014 CAAAATA-TAATTTTT
1 CAAAATAGTAATTTTT
55001029 GTTAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (17 bp):
CAAAATAGTAATTTTTC
Found at i:55001475 original size:24 final size:24
Alignment explanation
Indices: 55001443--55001536 Score: 145
Period size: 24 Copynumber: 3.9 Consensus size: 24
55001433 TCCGACCCAC
*
55001443 AGCTTGTGAGAGCATACCA-ATTAT
1 AGCTCGTGAGAGCATA-CAGATTAT
55001467 AGCTCGTGAGAGCATACAGATTAT
1 AGCTCGTGAGAGCATACAGATTAT
*
55001491 AGCTCATGAGAGCATACAGATTAT
1 AGCTCGTGAGAGCATACAGATTAT
*
55001515 AGCTCGTGAGAGCATACTGATT
1 AGCTCGTGAGAGCATACAGATT
55001537 TATGACTTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
23 2 0.03
24 63 0.97
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (24 bp):
AGCTCGTGAGAGCATACAGATTAT
Found at i:55006553 original size:15 final size:15
Alignment explanation
Indices: 55006508--55006546 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
55006498 ATTGACAATG
55006508 TTCTCAGTAGATTCT
1 TTCTCAGTAGATTCT
* *
55006523 TTCTCAGCAGCTTCT
1 TTCTCAGTAGATTCT
55006538 TTCTCAGTA
1 TTCTCAGTA
55006547 TTTTCTTCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.26, G:0.13, T:0.44
Consensus pattern (15 bp):
TTCTCAGTAGATTCT
Found at i:55010909 original size:17 final size:17
Alignment explanation
Indices: 55010879--55010915 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
55010869 ATGCACTAAC
* *
55010879 ATGAATATGTAATGACA
1 ATGAAAATGCAATGACA
55010896 ATGAAAATGCAATGACA
1 ATGAAAATGCAATGACA
55010913 ATG
1 ATG
55010916 TATACTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.08, G:0.19, T:0.24
Consensus pattern (17 bp):
ATGAAAATGCAATGACA
Found at i:55021997 original size:24 final size:21
Alignment explanation
Indices: 55021934--55021988 Score: 87
Period size: 19 Copynumber: 2.7 Consensus size: 21
55021924 ATCTTCAAGG
*
55021934 ATATGTAATCTTAGATAT--T
1 ATATGCAATCTTAGATATGAT
55021953 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
55021974 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
55021989 AGATATGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 17 0.52
21 16 0.48
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:55023019 original size:22 final size:23
Alignment explanation
Indices: 55022985--55023028 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
55022975 TATTTACTAT
*
55022985 TTGTATTATTTA-TATGCCATTG
1 TTGTATTATTTATTATGACATTG
55023007 TTGTATT-TGTTATTATGACATT
1 TTGTATTAT-TTATTATGACATT
55023029 CATACATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 1 0.05
22 10 0.53
23 8 0.42
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.57
Consensus pattern (23 bp):
TTGTATTATTTATTATGACATTG
Found at i:55023202 original size:94 final size:94
Alignment explanation
Indices: 55023094--55023281 Score: 376
Period size: 94 Copynumber: 2.0 Consensus size: 94
55023084 TTCAAAATAG
55023094 AGATAATACTCGTATTTAGGATTTTCAAGAAAATTGAGCCCTAACATATTGGGTTTCGATTTTCT
1 AGATAATACTCGTATTTAGGATTTTCAAGAAAATTGAGCCCTAACATATTGGGTTTCGATTTTCT
55023159 TCGTTAAATCTAACAATCGAGAATTACTC
66 TCGTTAAATCTAACAATCGAGAATTACTC
55023188 AGATAATACTCGTATTTAGGATTTTCAAGAAAATTGAGCCCTAACATATTGGGTTTCGATTTTCT
1 AGATAATACTCGTATTTAGGATTTTCAAGAAAATTGAGCCCTAACATATTGGGTTTCGATTTTCT
55023253 TCGTTAAATCTAACAATCGAGAATTACTC
66 TCGTTAAATCTAACAATCGAGAATTACTC
55023282 TTTGATAAAA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (94 bp):
AGATAATACTCGTATTTAGGATTTTCAAGAAAATTGAGCCCTAACATATTGGGTTTCGATTTTCT
TCGTTAAATCTAACAATCGAGAATTACTC
Found at i:55026766 original size:26 final size:26
Alignment explanation
Indices: 55026731--55026797 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
55026721 ATAAAATACA
**
55026731 TCTTTGCATTCATTTTTGAGCTAA-TAT
1 TCTTT-CATTC-TTTTTGAAATAATTAT
* *
55026758 TTTTTCATTCCTTTTGAAATAATTAT
1 TCTTTCATTCTTTTTGAAATAATTAT
55026784 TCTTTCATTCTTTT
1 TCTTTCATTCTTTT
55026798 GGATTTTCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 9 0.27
26 20 0.61
27 4 0.12
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.58
Consensus pattern (26 bp):
TCTTTCATTCTTTTTGAAATAATTAT
Found at i:55029108 original size:44 final size:43
Alignment explanation
Indices: 55029060--55029203 Score: 101
Period size: 44 Copynumber: 3.3 Consensus size: 43
55029050 AATAGCAGAT
*
55029060 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACTAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATAC-AGC
**** * * ** * *
55029104 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATA-CAG-C
* * * * *
55029148 CTTGCCTTCCTGCACCGAAAGCAAAGCAAATCGAAGACACCAGC
1 CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATA-CAGC
55029192 CTTGCCTCCCTG
1 CTTGCCTCCCTG
55029204 GGTTGTAACA
Statistics
Matches: 69, Mismatches: 28, Indels: 6
0.67 0.27 0.06
Matches are distributed among these distances:
43 18 0.26
44 36 0.52
45 15 0.22
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.19
Consensus pattern (43 bp):
CTTGCCTCCCTGCACCGACAGCGAAGCAGATCGAAGATACAGC
Found at i:55029183 original size:88 final size:88
Alignment explanation
Indices: 55028969--55029619 Score: 901
Period size: 88 Copynumber: 7.4 Consensus size: 88
55028959 TGAAGATAAT
* * * * *
55028969 AGATCTTTCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACATCAACCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
55029034 TAGCGGAGCAGGTT-AAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* *
55029056 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACTAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
55029121 CAGCGGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * *
55029144 AGATCTTGCCTTCCTGCACCGAAAGCAAAGCAAATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* * * *
55029209 TAACAGAGTAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * * * * *
55029232 AGATTTTG-CTTGCCTGCACCGACAGCAAAGTAGATCAAAGACACCAACTTTGCCTCCCTGGGTT
1 AGATCTTGCCTT-CCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
55029296 GTAGCGGAGCAGGTTAAAAATAGT
65 GCAGCGGAGCAGGTTAAAAATAGC
* * * *
55029320 AGATCTTGCCTTCCTGCACCAACAGCGAAGTAGATCGAAAACACCAGCCTTGCCTCCCTAGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
55029385 CAGCAGAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* ** * *
55029408 AGATCTTGCCTTCTTGCACCGACAATGAAGCAGATCGAAGACACCATCCTTGCCTCCTTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
* *
55029473 CAGCGAAACAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * *
55029496 AGAGCTTGCCTTCGTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
*
55029561 CAGCGAAGCAGGTTAAAAATAGC
66 CAGCGGAGCAGGTTAAAAATAGC
* * *
55029584 ATATCTTGCGTTCCTGCACCGACAGTGAAGCAGATC
1 AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATC
55029620 AATGACCCCA
Statistics
Matches: 496, Mismatches: 65, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
87 74 0.15
88 419 0.84
89 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.22
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
CAGCGGAGCAGGTTAAAAATAGC
Found at i:55029567 original size:43 final size:43
Alignment explanation
Indices: 55029434--55029571 Score: 114
Period size: 43 Copynumber: 3.2 Consensus size: 43
55029424 CACCGACAAT
* *
55029434 GAAGCAGATCGAAGACACCATCCTTGCCTCCTTGGGTTGCAGC
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC
* * ** * * * * * * ****
55029477 GAAACAGGTTAAAAATAGCAGAGCTTGCCTTCGTGTACCGACAGC
1 GAAGCAGATCGAAGACACCAG-CCTTGCCTCCCTGGGTTG-CAGC
55029522 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC
1 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC
55029565 GAAGCAG
1 GAAGCAG
55029572 GTTAAAAATA
Statistics
Matches: 64, Mismatches: 29, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
43 24 0.38
44 22 0.34
45 18 0.28
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.18
Consensus pattern (43 bp):
GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGC
Found at i:55030128 original size:44 final size:44
Alignment explanation
Indices: 55030073--55030184 Score: 172
Period size: 44 Copynumber: 2.5 Consensus size: 44
55030063 GAAGATGGCG
*
55030073 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
*
55030116 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* *
55030161 GATCTTATCTCTCTGAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAG
55030185 CAGAGTAGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 61 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
Found at i:55030676 original size:21 final size:21
Alignment explanation
Indices: 55030628--55030703 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
55030618 ATCTTCAAGG
*
55030628 ATATGTAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
55030647 ATATCCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
55030668 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
55030689 TTATGCAATCTTAGA
1 ATATGCAATCTTAGA
55030704 AGATATGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.33
21 34 0.67
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:55030725 original size:23 final size:24
Alignment explanation
Indices: 55030659--55030726 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 24
55030649 ATCCAATCTT
*
55030659 AGATATGATATATGCAATCTT---
1 AGATATGATTTATGCAATCTTAGA
55030680 AGATATGATTTATGCAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
*
55030704 AGATATGATTT-TGTAATCTTAGA
1 AGATATGATTTATGCAATCTTAGA
55030727 GATTTAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.48
23 11 0.26
24 11 0.26
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (24 bp):
AGATATGATTTATGCAATCTTAGA
Found at i:55037166 original size:18 final size:18
Alignment explanation
Indices: 55037145--55037184 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55037135 ACATGCATTT
*
55037145 CATGAATTCCATGCAACC
1 CATGAATTCCATGCAAAC
* *
55037163 CATGGATTTCATGCAAAC
1 CATGAATTCCATGCAAAC
55037181 CATG
1 CATG
55037185 CATCTCATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (18 bp):
CATGAATTCCATGCAAAC
Found at i:55037192 original size:18 final size:18
Alignment explanation
Indices: 55037154--55037196 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
55037144 TCATGAATTC
* * *
55037154 CATGCAACCCATGGATTT
1 CATGCAAACCATGCATCT
55037172 CATGCAAACCATGCATCT
1 CATGCAAACCATGCATCT
55037190 CATGCAA
1 CATGCAA
55037197 TATGATGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (18 bp):
CATGCAAACCATGCATCT
Found at i:55037193 original size:27 final size:27
Alignment explanation
Indices: 55037136--55037195 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
55037126 TTATGCAAAA
*
55037136 CATGCATTTCATGAATTCCATGCAACC
1 CATGCATTTCATGAATACCATGCAACC
* * *
55037163 CATGGATTTCATGCAA-ACCATGCATCT
1 CATGCATTTCATG-AATACCATGCAACC
55037190 CATGCA
1 CATGCA
55037196 ATATGATGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
CATGCATTTCATGAATACCATGCAACC
Found at i:55043695 original size:18 final size:18
Alignment explanation
Indices: 55043610--55043698 Score: 88
Period size: 18 Copynumber: 4.9 Consensus size: 18
55043600 GGCATGCACT
*
55043610 CCATGCATTCCATACAAA
1 CCATGCATTCCATGCAAA
* ** *
55043628 ACATGTGTTCCATGTAAA
1 CCATGCATTCCATGCAAA
* * *
55043646 ACATGCATTTCATGCAAC
1 CCATGCATTCCATGCAAA
*
55043664 CCATGCATTTCATGCAAA
1 CCATGCATTCCATGCAAA
*
55043682 CCATGCATCCCATGCAA
1 CCATGCATTCCATGCAA
55043699 TATGCTGCAT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (18 bp):
CCATGCATTCCATGCAAA
Found at i:55045282 original size:41 final size:41
Alignment explanation
Indices: 55045225--55045306 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
55045215 ATATCAAGAG
55045225 CAGAGATTGTGATAAGAGAGGGAAAGAGAGAGATTAGAGTA
1 CAGAGATTGTGATAAGAGAGGGAAAGAGAGAGATTAGAGTA
* *
55045266 CAGAGATTGTGATAAGAGGGGGAAAGAGAGAGCTTAGAGTA
1 CAGAGATTGTGATAAGAGAGGGAAAGAGAGAGATTAGAGTA
55045307 AAAATAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.41, C:0.04, G:0.38, T:0.17
Consensus pattern (41 bp):
CAGAGATTGTGATAAGAGAGGGAAAGAGAGAGATTAGAGTA
Found at i:55056600 original size:26 final size:27
Alignment explanation
Indices: 55056557--55056625 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 27
55056547 ATCAACGGTG
* *
55056557 ATGAAAAAATTATAAAAAATTATA-AA
1 ATGAAAAAATTATTAAAAATTACATAA
55056583 AT-AAAAAATTAATT-AAAATTACATAA
1 ATGAAAAAATT-ATTAAAAATTACATAA
*
55056609 ATGAAAAAAATATTAAA
1 ATGAAAAAATTATTAAA
55056626 TAATATTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
25 16 0.44
26 11 0.31
27 9 0.25
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (27 bp):
ATGAAAAAATTATTAAAAATTACATAA
Found at i:55056626 original size:25 final size:25
Alignment explanation
Indices: 55056572--55056625 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
55056562 AAAATTATAA
* *
55056572 AAAATTATAAAATAAAAAATTAATT
1 AAAATTACAAAATAAAAAAATAATT
55056597 AAAATTACATAAATGAAAAAAAT-ATT
1 AAAATTACA-AAAT-AAAAAAATAATT
55056623 AAA
1 AAA
55056626 TAATATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 10 0.40
27 7 0.28
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
AAAATTACAAAATAAAAAAATAATT
Found at i:55056644 original size:30 final size:29
Alignment explanation
Indices: 55056585--55056644 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
55056575 ATTATAAAAT
* *
55056585 AAAAAATTAATTAAAATTACATAAATGAA
1 AAAAAATTAAATAAAATTACAAAAATGAA
*
55056614 AAAAATATTAAATAATATT-CAAAAATTGAA
1 AAAAA-ATTAAATAAAATTACAAAAA-TGAA
55056644 A
1 A
55056645 TTAACCCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAAAATTAAATAAAATTACAAAAATGAA
Found at i:55057351 original size:24 final size:24
Alignment explanation
Indices: 55057315--55057367 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
55057305 TCTTAATATA
* *
55057315 ATTTCAATTTGTTATGAAACATT-T
1 ATTTTAATGTGTT-TGAAACATTAT
*
55057339 ATTTTAATGTGTTTGATACATTAT
1 ATTTTAATGTGTTTGAAACATTAT
55057363 ATTTT
1 ATTTT
55057368 TTTAATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTTAATGTGTTTGAAACATTAT
Found at i:55068209 original size:13 final size:13
Alignment explanation
Indices: 55068193--55068245 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
55068183 TTTTAAAAAT
*
55068193 ACTTATCAAAAGC
1 ACTTTTCAAAAGC
*
55068206 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
* *
55068219 ACCTTTCAAAAAC
1 ACTTTTCAAAAGC
55068232 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
55068245 A
1 A
55068246 TTGTTAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 4 0.12
13 24 0.75
14 4 0.12
ACGTcount: A:0.42, C:0.28, G:0.04, T:0.26
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:55069726 original size:40 final size:40
Alignment explanation
Indices: 55069682--55069775 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
55069672 GTAATTCTGA
* * * * **
55069682 TGGCTTGTCCACAATA-TTGCTAGCTTGTTTGCAATTTTGG
1 TGGCTTGTCCACAACACTAGC-AGCTTATTTACAATACTGG
* *
55069722 TGGCTTATCCACAACACTAGCAGTTTATTTACAATACTGG
1 TGGCTTGTCCACAACACTAGCAGCTTATTTACAATACTGG
55069762 TGGCTTGTCCACAA
1 TGGCTTGTCCACAA
55069776 AATGGTGTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (40 bp):
TGGCTTGTCCACAACACTAGCAGCTTATTTACAATACTGG
Found at i:55085501 original size:24 final size:24
Alignment explanation
Indices: 55085469--55085542 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
55085459 ATGATATAAT
* *
55085469 AACCATTTCAATGATATCATTTTC
1 AACCATTTCAATGGTATCCTTTTC
* *
55085493 AACCTTTTCAATGGTATCCTTTTT
1 AACCATTTCAATGGTATCCTTTTC
* *
55085517 GACCATTTCATTGGTATCCTTTTC
1 AACCATTTCAATGGTATCCTTTTC
55085541 AA
1 AA
55085543 ACTTTTCCTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (24 bp):
AACCATTTCAATGGTATCCTTTTC
Found at i:55086170 original size:23 final size:24
Alignment explanation
Indices: 55086139--55086195 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
55086129 ATGATATAAT
*
55086139 AACCATTTCAATGATAT-CATTTC
1 AACCTTTTCAATGATATCCATTTC
* *
55086162 AACCTTTTCAATGGTATCCTTTTC
1 AACCTTTTCAATGATATCCATTTC
*
55086186 GACCTTTTCA
1 AACCTTTTCA
55086196 TTGTTTCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (24 bp):
AACCTTTTCAATGATATCCATTTC
Found at i:55098777 original size:56 final size:52
Alignment explanation
Indices: 55098710--55098845 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 52
55098700 AGAACCCATT
*
55098710 TAAGACCATGTCTGGGACATGGCATTGGCATTATTAAGGTTATAAGAGGTC-CCACG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-TATCAA-G--ATAAGAGGTCTCC-CG
* * *
55098766 TAAGACCATGTCTGGGACATGGCGTTGG--TATCGAGATGAGAGGTCTCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCATATCAAGATAAGAGGTCTCCCG
*
55098816 TAAGACCATGTCTGGGACATGGCATGGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
55098846 CCGATATGAG
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
50 37 0.52
51 2 0.03
52 1 0.01
53 4 0.06
56 27 0.38
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (52 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATATCAAGATAAGAGGTCTCCCG
Found at i:55098855 original size:50 final size:50
Alignment explanation
Indices: 55098754--55098890 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 50
55098744 TAAGGTTATA
* * * *
55098754 AGAGGTC-CCACGTAAGACCATGTCTGGGACATGGCGTTGGTATCGAGATG
1 AGAGGTCTCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
*
55098804 AGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** ** * * *
55098854 AGAACTCTCATGTAAGACCATATTTGGGATATGGCAT
1 AGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCAT
55098891 TTGCAGTACA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 72 0.97
51 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCTCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:55099163 original size:12 final size:12
Alignment explanation
Indices: 55099146--55099196 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
55099136 ATGAGTTATT
55099146 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
55099158 TAAGTAAACAAG
1 TAAGTAAGCAAG
*
55099170 TAAG-AGAGTAAG
1 TAAGTA-AGCAAG
* *
55099182 TAAATAAGAAAG
1 TAAGTAAGCAAG
55099194 TAA
1 TAA
55099197 AGATCATGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.22, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:55099172 original size:20 final size:20
Alignment explanation
Indices: 55099147--55099185 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
55099137 TGAGTTATTT
55099147 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
55099167 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
55099186 TAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:55112101 original size:25 final size:25
Alignment explanation
Indices: 55112065--55112125 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
55112055 CTCCTAAATT
*
55112065 TTAATTTAATTATCTAAT-TTTTCA-A
1 TTAATTAAATTAT-TAATATTTT-ATA
*
55112090 TTTATTAAATTATTAATATTTTATA
1 TTAATTAAATTATTAATATTTTATA
55112115 TTAATTAAATT
1 TTAATTAAATT
55112126 TTTGAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATTAATATTTTATA
Found at i:55113021 original size:3 final size:3
Alignment explanation
Indices: 55113013--55113037 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
55113003 GATCCCAAAA
55113013 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
55113038 TCCCGTAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:55126966 original size:40 final size:40
Alignment explanation
Indices: 55126915--55128339 Score: 2555
Period size: 40 Copynumber: 35.6 Consensus size: 40
55126905 CATTTGAATG
55126915 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55126955 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55126995 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127035 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127075 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127115 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127155 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127195 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127235 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127275 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127315 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127355 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127395 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127435 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127475 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127515 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127555 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127595 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127635 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
55127675 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55127715 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55127755 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
55127795 ATATCCGGGATAAGACCCGAAGGCATTTGTGCAAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55127835 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55127875 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
55127915 ATATCCGGGATAAGACCCGAAGGCATTTGTGCAAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55127955 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55127995 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
55128035 ATATCCGGGATAAGACCCGAAGGCATTTGTGCAAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55128075 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55128115 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
55128155 ATATCCGGGATAAGACCCGAAGGCATTTGTGCAAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55128195 ATATCCGGGCTAAGACCCGACGGCGTTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
*
55128235 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * *
55128275 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
55128315 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
55128340 ATTGAGCTTG
Statistics
Matches: 1328, Mismatches: 55, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
39 2 0.00
40 1325 1.00
41 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
Found at i:55131079 original size:27 final size:27
Alignment explanation
Indices: 55131049--55131119 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
55131039 CTAGCTAACA
* * *
55131049 CCCATGTCTAGTGTC-CCAACGGAGTTC
1 CCCATGTATAATGTCTCCAA-GGACTTC
*
55131076 CCCATGTATAATGTCTCGAAGGACTTC
1 CCCATGTATAATGTCTCCAAGGACTTC
*
55131103 CCCATGTTTAATGTCTC
1 CCCATGTATAATGTCTC
55131120 AGTGGACTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.31
Consensus pattern (27 bp):
CCCATGTATAATGTCTCCAAGGACTTC
Found at i:55131126 original size:27 final size:27
Alignment explanation
Indices: 55131073--55131156 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
55131063 CCCAACGGAG
*
55131073 TTCCCCATGTATAATGTCTCGAAGGAC
1 TTCCCCATGTTTAATGTCTCGAAGGAC
*
55131100 TTCCCCATGTTTAATGTCTC-AGTGGAC
1 TTCCCCATGTTTAATGTCTCGA-AGGAC
* * *
55131127 TTCCTCGTGTTTAGTGTCTCGATAGG-C
1 TTCCCCATGTTTAATGTCTCGA-AGGAC
55131154 TTC
1 TTC
55131157 TAAAGGATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 44 0.92
28 3 0.06
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (27 bp):
TTCCCCATGTTTAATGTCTCGAAGGAC
Found at i:55131333 original size:40 final size:43
Alignment explanation
Indices: 55131231--55131346 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 43
55131221 CACATGACGC
* *
55131231 CATAGCATCTTTCAACTATGGTCTTACTCATTTCTATCATGATGT
1 CATAACATCTTTCAGCTATGGTCTTACTCA--TCTATCATGATGT
* * *
55131276 CATAACATATTTTAGCTATGATCTTACTCAT-T-T-ATGATGT
1 CATAACATCTTTCAGCTATGGTCTTACTCATCTATCATGATGT
*
55131316 CATAACATCTTTCAGCTATGGCCTTACTCAT
1 CATAACATCTTTCAGCTATGGTCTTACTCAT
55131347 AATTGGCTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
40 34 0.55
41 1 0.02
42 1 0.02
43 1 0.02
45 25 0.40
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (43 bp):
CATAACATCTTTCAGCTATGGTCTTACTCATCTATCATGATGT
Found at i:55135657 original size:62 final size:62
Alignment explanation
Indices: 55135583--55135707 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
55135573 CCGCTATAAG
* *
55135583 TAAGTGTCTACATCCATAAACAAGCCTGAAAGCATGATAGGGTCTCTACATGAATAAGTCTC
1 TAAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTC
*
55135645 TAAGTGTGTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTC
1 TAAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTC
55135707 T
1 T
55135708 GCATGAGGAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (62 bp):
TAAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTC
Found at i:55136134 original size:61 final size:61
Alignment explanation
Indices: 55136047--55136200 Score: 222
Period size: 61 Copynumber: 2.5 Consensus size: 61
55136037 TAAAAGTGAT
* * * *
55136047 GCCTTTGTAGTT-TTTTTTGTTACATGTAAGCCCTAGTGGCAAAACCTTTTGTATGTGGAA
1 GCCTTTGTGGTTGTTCTTTGTTACATGTAAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
* *
55136107 GCCTTTGTGGTTGTTCTTTATTACATGTGAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
1 GCCTTTGTGGTTGTTCTTTGTTACATGTAAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
*
55136168 GCCTTT-TAGGTTGTTCTTTGTTACATGTCAGCC
1 GCCTTTGT-GGTTGTTCTTTGTTACATGTAAGCC
55136201 TTTATGGCTA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
60 12 0.14
61 72 0.86
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (61 bp):
GCCTTTGTGGTTGTTCTTTGTTACATGTAAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
Found at i:55136376 original size:30 final size:30
Alignment explanation
Indices: 55136320--55136397 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
55136310 TCATCTGGTG
*
55136320 GCCCTTGTGGCTATCTAATATTGTATGGAT
1 GCCCTTGTGGCTATCTAATATCGTATGGAT
*
55136350 GCCCTTGTGGCTATCTAAT-TACGTATGGGT
1 GCCCTTGTGGCTATCTAATAT-CGTATGGAT
*
55136380 G-CTTCTGTGGCTATCTAA
1 GCCCT-TGTGGCTATCTAA
55136398 GTCAAGTGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 3 0.07
30 40 0.93
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (30 bp):
GCCCTTGTGGCTATCTAATATCGTATGGAT
Found at i:55141517 original size:42 final size:42
Alignment explanation
Indices: 55141385--55141750 Score: 235
Period size: 41 Copynumber: 8.7 Consensus size: 42
55141375 ATCTGTTTAA
* * *
55141385 TGCAACTTCAGAGAGATAAGATCTATAATTTTTAATCCACTCCAC
1 TGCAACTTCAGGGAGATAAGATC--TGA-TTTTAATCCGCTCCAC
* * *** * **
55141430 TGCAACCTCAGGGAGATAGGA-CTAGA-TGCGATCTGCTCTTC
1 TGCAACTTCAGGGAGATAAGATCT-GATTTTAATCCGCTCCAC
* * *
55141471 TGCAACTTTAGAGAGATAAGATCTGATTTTAATCCGCTTCAC
1 TGCAACTTCAGGGAGATAAGATCTGATTTTAATCCGCTCCAC
* * ** * **
55141513 TGCAACTTCAGGGAGACAA-AACTGGA-TGCAATCTGCTCTTC
1 TGCAACTTCAGGGAGATAAGATCT-GATTTTAATCCGCTCCAC
* *
55141554 TGCAACTTCAGAGAGATAAGATCTTATTTTAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGATTTTAATCCGCTCCAC
* * ** *
55141596 TGTAACTTCAGGGAGATAGGAT-TGATTTCTTCTGTCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGA-TT-TT-AATCCGCTCCAC
* *** * * *
55141640 TACAACTTCAGGGAGATAAGA-CTGGA-TGCGATCTGCACTAC
1 TGCAACTTCAGGGAGATAAGATCT-GATTTTAATCCGCTCCAC
* * *
55141681 TACAACTTCAGAGAGATAAGATCTAATTTTAATCCGCTCCAC
1 TGCAACTTCAGGGAGATAAGATCTGATTTTAATCCGCTCCAC
* *
55141723 TGAAACTTCAGGGAGATAGGAT-TGATTT
1 TGCAACTTCAGGGAGATAAGATCTGATTT
55141751 CTTCTGTCTT
Statistics
Matches: 238, Mismatches: 70, Indels: 30
0.70 0.21 0.09
Matches are distributed among these distances:
41 93 0.39
42 92 0.39
43 4 0.02
44 29 0.12
45 20 0.08
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (42 bp):
TGCAACTTCAGGGAGATAAGATCTGATTTTAATCCGCTCCAC
Found at i:55141524 original size:83 final size:83
Alignment explanation
Indices: 55141339--55141613 Score: 365
Period size: 83 Copynumber: 3.3 Consensus size: 83
55141329 CTCTAGTCTA
* * *
55141339 CTCCACTACAACTTCAGAGAGATAAGACTGGATGCGATCTG-T-TTAATGCAACTTCAGAGAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTT-CTGCAACTTCAGAGAGAT
*
55141402 AAGATCTATAATTTTTAATCCA
65 AAGATC--TAA-TTTTAATCCG
* * * *
55141424 CTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTGCTCTTCTGCAACTTTAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGATA
*
55141489 AGATCTGATTTTAATCCG
66 AGATCTAATTTTAATCCG
* * * *
55141507 CTTCACTGCAACTTCAGGGAGACAAAACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGATA
*
55141572 AGATCTTATTTTAATCCG
66 AGATCTAATTTTAATCCG
*
55141590 CTCCACTGTAACTTCAGGGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
55141614 GGATTGATTT
Statistics
Matches: 167, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
83 104 0.62
84 2 0.01
85 36 0.22
86 23 0.14
87 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (83 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTTCTGCAACTTCAGAGAGATA
AGATCTAATTTTAATCCG
Found at i:55141636 original size:169 final size:168
Alignment explanation
Indices: 55141342--55141660 Score: 389
Period size: 169 Copynumber: 1.9 Consensus size: 168
55141332 TAGTCTACTC
* * *
55141342 CACTACAACTTCAGAGAGATAAGACTGGATGCGATCTGTTTAATGCAACTTCAGAGAGATAAGAT
1 CACTACAACTTCAGAGAGACAAAACTGGATGCAATCTGTTTAATGCAACTTCAGAGAGATAAGAT
**
55141407 CTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTGCTCTTCT
66 CTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTGCTCCACT
* *
55141472 GCAACTTTAGAGAGATAAGATCTGATTTTAATCCGCTT
131 ACAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
* * *
55141510 CACTGCAACTTCAGGGAGACAAAACTGGATGCAATCTGCTCTT-CTGCAACTTCAGAGAGATAAG
1 CACTACAACTTCAGAGAGACAAAACTGGATGCAATCTG-T-TTAATGCAACTTCAGAGAGATAAG
* * * * *
55141574 ATCT-T-A-TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TTGATTTCTTCTG-TCTG
64 ATCTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGA----TGC-GATCTG
*
55141634 CTCCACTACAACTTCAGGGAGATAAGA
124 CTCCACTACAACTTCAGAGAGATAAGA
55141661 CTGGATGCGA
Statistics
Matches: 128, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
165 3 0.02
166 34 0.27
167 1 0.01
168 34 0.27
169 53 0.41
170 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (168 bp):
CACTACAACTTCAGAGAGACAAAACTGGATGCAATCTGTTTAATGCAACTTCAGAGAGATAAGAT
CTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTGCTCCACT
ACAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
Found at i:55141648 original size:44 final size:43
Alignment explanation
Indices: 55141589--55141787 Score: 160
Period size: 44 Copynumber: 4.7 Consensus size: 43
55141579 ATTTTAATCC
** *
55141589 GCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGATTGATTT-TTCTGTCT
* *
55141633 GCTCCACTACAACTTCAGGGAGATAAGACTGGA---TGC-GATCT
1 GCTCCACTACAACTTCAGGGAGATAAGA-TTGATTTTTCTG-TCT
* * * * ** *
55141674 GCACTACTACAACTTCAGAGAGATAAGATCT-AATTTT-AATCC
1 GCTCCACTACAACTTCAGGGAGATAAGAT-TGATTTTTCTGTCT
*
55141716 GCTCCACTGA-AACTTCAGGGAGATAGGATTGATTTCTTCTGTCT
1 GCTCCACT-ACAACTTCAGGGAGATAAGATTGATTT-TTCTGTCT
* *
55141760 TCTCCACTACAACTTCAGGGAAATAAGA
1 GCTCCACTACAACTTCAGGGAGATAAGA
55141788 CTAGATGCAA
Statistics
Matches: 120, Mismatches: 23, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
40 3 0.03
41 31 0.26
42 28 0.23
43 5 0.04
44 50 0.42
45 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
GCTCCACTACAACTTCAGGGAGATAAGATTGATTTTTCTGTCT
Found at i:55141667 original size:127 final size:127
Alignment explanation
Indices: 55141510--55141798 Score: 470
Period size: 127 Copynumber: 2.3 Consensus size: 127
55141500 TAATCCGCTT
* * * * * *
55141510 CACTGCAACTTCAGGGAGACAAAACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATAAGA
1 CACTACAACTTCAGGGAGATAAGACTGGATGCAATCTGCACTACTACAACTTCAGAGAGATAAGA
* *
55141575 TCTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
66 TCTAATTTTAATCCGCTCCACTGAAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
*
55141637 CACTACAACTTCAGGGAGATAAGACTGGATGCGATCTGCACTACTACAACTTCAGAGAGATAAGA
1 CACTACAACTTCAGGGAGATAAGACTGGATGCAATCTGCACTACTACAACTTCAGAGAGATAAGA
*
55141702 TCTAATTTTAATCCGCTCCACTGAAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTTCTC
66 TCTAATTTTAATCCGCTCCACTGAAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
* *
55141764 CACTACAACTTCAGGGAAATAAGACTAGATGCAAT
1 CACTACAACTTCAGGGAGATAAGACTGGATGCAAT
55141799 TATTGAATTT
Statistics
Matches: 149, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 149 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (127 bp):
CACTACAACTTCAGGGAGATAAGACTGGATGCAATCTGCACTACTACAACTTCAGAGAGATAAGA
TCTAATTTTAATCCGCTCCACTGAAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
Found at i:55142182 original size:83 final size:84
Alignment explanation
Indices: 55141996--55142191 Score: 272
Period size: 85 Copynumber: 2.3 Consensus size: 84
55141986 TCTCTAGTCT
* * * *
55141996 ACTCCACTACAACTTCAGAGAGATAAGACTGGATGCGATCTGTTTAATGCAACTTCAGAGAGATA
1 ACTCCACTGCAACTTCAGGGAGATAGGACTAGATGCGATCTGTTTAATGCAACTTCAGAGAGATA
55142061 AGATCTATAATTTTTAATCC
66 AGATC-ATAATTTTTAATCC
* * *
55142081 ACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCGATCTGCTCTT-CTGCAACTTTAGAGAGA
1 ACTCCACTGCAACTTCAGGGAGATAGGACTAGATGCGATCTG-T-TTAATGCAACTTCAGAGAGA
*
55142145 TAAGATC-TGA-TTTTAATCC
64 TAAGATCATAATTTTTAATCC
55142164 ACTCCACTGCAACTTCAGGGAGATAGGA
1 ACTCCACTGCAACTTCAGGGAGATAGGA
55142192 TTTATTTCTT
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
83 36 0.36
84 2 0.02
85 37 0.37
86 23 0.23
87 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (84 bp):
ACTCCACTGCAACTTCAGGGAGATAGGACTAGATGCGATCTGTTTAATGCAACTTCAGAGAGATA
AGATCATAATTTTTAATCC
Found at i:55142253 original size:127 final size:127
Alignment explanation
Indices: 55142090--55142325 Score: 400
Period size: 127 Copynumber: 1.9 Consensus size: 127
55142080 CACTCCACTG
** * *
55142090 CAACCTCAGGGAGATAGGACTAGATGCGATCTGCTCTTCTGCAACTTTAGAGAGATAAGATCTGA
1 CAACCTCAGGGAGATAAAACTAGATACGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGA
*
55142155 TTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTTATTTCTTTTGTCTGCTCTACTA
66 TTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTTTGTCTGCTCTACTA
* *
55142217 CAACTTCAGGGAGATAAAACTGGATACGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGA
1 CAACCTCAGGGAGATAAAACTAGATACGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGA
*
55142282 TTTTAATCCACTCCACTGCAACTTCAGGGGGATAGGATTGATTT
66 TTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTT
55142326 AACCGGTTTG
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 101 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (127 bp):
CAACCTCAGGGAGATAAAACTAGATACGATCTGCTCTTCTGCAACTTCAGAGAGATAAGATCTGA
TTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTTTGTCTGCTCTACTA
Found at i:55143242 original size:15 final size:16
Alignment explanation
Indices: 55143211--55143243 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55143201 TATCTTAAAA
*
55143211 AAGAATGAAGTATTCC
1 AAGAATGAAGTAATCC
55143227 AAGAAT-AAGTAATCC
1 AAGAATGAAGTAATCC
55143242 AA
1 AA
55143244 TATAAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (16 bp):
AAGAATGAAGTAATCC
Found at i:55143380 original size:40 final size:40
Alignment explanation
Indices: 55143325--55143404 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
55143315 CATTCTGAGT
*
55143325 TTGACATATGCTTAGGAGATCTACAATACTTTGTCGATGC
1 TTGACATATGCTTAGGAGATCTACAATACTCTGTCGATGC
* * *
55143365 TTGACATGTGTTTAGGAGATCTACATTACTCTGTCGATGC
1 TTGACATATGCTTAGGAGATCTACAATACTCTGTCGATGC
55143405 CTCAAGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (40 bp):
TTGACATATGCTTAGGAGATCTACAATACTCTGTCGATGC
Found at i:55147089 original size:16 final size:16
Alignment explanation
Indices: 55147064--55147098 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
55147054 TTCTATAATG
55147064 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
*
55147080 AAATGTCATGCAGTCA
1 AAATGCCATGCAGTCA
55147096 AAA
1 AAA
55147099 CAAAACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:55148907 original size:22 final size:23
Alignment explanation
Indices: 55148882--55148926 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
55148872 TGAATAGTGT
*
55148882 AAGAATATATATACATAT-TATA
1 AAGAATATATAAACATATATATA
*
55148904 AAGAATGTATAAACATATATATA
1 AAGAATATATAAACATATATATA
55148927 GATTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
AAGAATATATAAACATATATATA
Found at i:55148981 original size:61 final size:61
Alignment explanation
Indices: 55148901--55149061 Score: 161
Period size: 61 Copynumber: 2.6 Consensus size: 61
55148891 TATACATATT
* * *
55148901 ATAAAGAATGTATAAACATATATATAGAT-TAT-AAAA-TATGAAAAATGTATAGATATTATAA-
1 ATAAA-AATGTATATACATATATATA-ATATATAAAAACTATG-AAAAT-AATA-ATATAATAAT
55148962 A
61 A
*
55148963 ATATAAATGTATATACATATATA-AATATATAAAAACTATGAAAATAATAATATAATAATA
1 ATAAAAATGTATATACATATATATAATATATAAAAACTATGAAAATAATAATATAATAATA
**
55149023 ATAAAAGATGTATATGTATATATATACATATTATAAAAA
1 ATAAAA-ATGTATATACATATATATA-ATA-TATAAAAA
55149062 ATATATAAAC
Statistics
Matches: 84, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
59 10 0.12
60 13 0.15
61 41 0.49
62 9 0.11
63 3 0.04
64 8 0.10
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (61 bp):
ATAAAAATGTATATACATATATATAATATATAAAAACTATGAAAATAATAATATAATAATA
Found at i:55149071 original size:154 final size:156
Alignment explanation
Indices: 55148886--55149197 Score: 488
Period size: 154 Copynumber: 2.0 Consensus size: 156
55148876 TAGTGTAAGA
* *
55148886 ATATATATACATATTATAAAGAATGTATAAACATATATATAGATTATAAAATATGAAAAATGTAT
1 ATATATATACATATTATAAAAAATATATAAACATATATATAGATTATAAAATATGAAAAATGTAT
* * *
55148951 AGATATTATAAAATATAAATGTATATACATATATA-A-ATA-TATAAAAACTATGAA-AATAATA
66 AAATATTATAAAATATAAATGTATATACATATATATATAAACTATAAAAA-TA-AAATAATAATA
55149012 ATATAATAATAATAAAAGATGTATATGT
129 ATATAATAATAATAAAAGATGTATATGT
* *
55149040 ATATATATACATATTATAAAAAATATATAAACATATATATAGATTATATAATATGGAAAATGTAT
1 ATATATATACATATTATAAAAAATATATAAACATATATATAGATTATAAAATATGAAAAATGTAT
*
55149105 AAATATTATAAAATATAAATGTATATACATATATATATAAACTATGAAAATAAAATAATAATAAT
66 AAATATTATAAAATATAAATGTATATACATATATATATAAACTATAAAAATAAAATAATAATAAT
* *
55149170 ATGATAATAATAAAATATGTATATGT
131 ATAATAATAATAAAAGATGTATATGT
55149196 AT
1 AT
55149198 TTAAAAAACA
Statistics
Matches: 144, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
154 95 0.66
155 3 0.02
156 39 0.27
157 7 0.05
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (156 bp):
ATATATATACATATTATAAAAAATATATAAACATATATATAGATTATAAAATATGAAAAATGTAT
AAATATTATAAAATATAAATGTATATACATATATATATAAACTATAAAAATAAAATAATAATAAT
ATAATAATAATAAAAGATGTATATGT
Found at i:55149260 original size:3 final size:3
Alignment explanation
Indices: 55149252--55149286 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
55149242 ATGCGTAAGT
55149252 ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
55149287 AAGTGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:55149273 original size:16 final size:16
Alignment explanation
Indices: 55149252--55149283 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55149242 ATGCGTAAGT
55149252 ATAATAATAATAATAA
1 ATAATAATAATAATAA
55149268 ATAATAATAATAATAA
1 ATAATAATAATAATAA
55149284 TAAAAGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATAATAATAATAA
Found at i:55149893 original size:16 final size:17
Alignment explanation
Indices: 55149874--55149905 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55149864 AAACAGGAAG
55149874 AAAAATAAAA-AAAATT
1 AAAAATAAAACAAAATT
55149890 AAAAATAAAACAAAAT
1 AAAAATAAAACAAAAT
55149906 AATCACCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAATAAAACAAAATT
Found at i:55154138 original size:10 final size:10
Alignment explanation
Indices: 55154123--55154165 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
55154113 TTAAAATATT
55154123 AAAAATTATA
1 AAAAATTATA
55154133 AAAAA-TATA
1 AAAAATTATA
*
55154142 TAAAAATTGTA
1 -AAAAATTATA
55154153 AAAAATTATA
1 AAAAATTATA
55154163 AAA
1 AAA
55154166 GTTTATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 4 0.14
10 22 0.76
11 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:55154174 original size:20 final size:20
Alignment explanation
Indices: 55154115--55154165 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
55154105 ATAAAAAATT
55154115 AAAATAT-TAAAAATTATAA
1 AAAATATATAAAAATTATAA
*
55154134 AAAATATATAAAAATTGTAA
1 AAAATATATAAAAATTATAA
55154154 AAAAT-TATAAAA
1 AAAATATATAAAA
55154166 GTTTATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATATATAAAAATTATAA
Found at i:55154527 original size:7 final size:7
Alignment explanation
Indices: 55154491--55154515 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
55154481 TTCTAAAAAA
55154491 TTTTATT
1 TTTTATT
55154498 TTTTATT
1 TTTTATT
55154505 TTTTATT
1 TTTTATT
55154512 TTTT
1 TTTT
55154516 CTAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:55154721 original size:89 final size:89
Alignment explanation
Indices: 55154531--55154731 Score: 235
Period size: 89 Copynumber: 2.3 Consensus size: 89
55154521 TTTTAATAAG
* * * *
55154531 AGCAGGGGCTTAATTGC-TTTTTTGAAAAATTTTGAGGGACTTTTTGATGTATTTTGAAAGTTCA
1 AGCAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAAGGACTTTTTGATGCATTTTGAAAGTTCA
* *
55154595 AGTACCCAATTGAGTGACAAAAAA
66 AGTACCCAATTGAGTCAAAAAAAA
* * * * ** *
55154619 GGCAAGGGTTTAATTGCTTTTTTTGAATAAGTTTGAAGTCCTTTTTTATGCATTTTGAAAGTTCA
1 AGCAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAAGGACTTTTTGATGCATTTTGAAAGTTCA
**
55154684 AGTATTCAATTGAGTCCAAAAAAAA
66 AGTACCCAATTGAGT-CAAAAAAAA
*
55154709 AG-AGGGGATTAATTGTTTTTTTT
1 AGCAGGGGATTAATTGCTTTTTTT
55154732 TAATTAAATG
Statistics
Matches: 93, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
88 14 0.15
89 71 0.76
90 8 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (89 bp):
AGCAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAAGGACTTTTTGATGCATTTTGAAAGTTCA
AGTACCCAATTGAGTCAAAAAAAA
Found at i:55157431 original size:34 final size:34
Alignment explanation
Indices: 55157393--55157499 Score: 78
Period size: 34 Copynumber: 3.1 Consensus size: 34
55157383 TCCACTCAAG
*
55157393 ATTAATGTATGTCACACTATGAACATCACAAGTA
1 ATTAATGTATGACACACTATGAACATCACAAGTA
** * * * *
55157427 ATTAAATCCAT-ACATAGTCTATCATCCA-CTCAAG--
1 ATT-AATGTATGACACA--CTATGA-ACATCACAAGTA
*
55157461 ATTAATGTATGCCACACTATGAACATCACAAGTA
1 ATTAATGTATGACACACTATGAACATCACAAGTA
55157495 ATTAA
1 ATTAA
55157500 ATCCATAAAC
Statistics
Matches: 51, Mismatches: 14, Indels: 16
0.63 0.17 0.20
Matches are distributed among these distances:
31 2 0.04
32 10 0.20
33 5 0.10
34 17 0.33
35 5 0.10
36 10 0.20
37 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (34 bp):
ATTAATGTATGACACACTATGAACATCACAAGTA
Found at i:55157477 original size:68 final size:68
Alignment explanation
Indices: 55157368--55157506 Score: 260
Period size: 68 Copynumber: 2.0 Consensus size: 68
55157358 CGAGTGACGA
*
55157368 ATACATAGTCCATCATCCACTCAAGATTAATGTATGTCACACTATGAACATCACAAGTAATTAAA
1 ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
55157433 TCC
66 TCC
*
55157436 ATACATAGTCTATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
1 ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
55157501 TCC
66 TCC
55157504 ATA
1 ATA
55157507 AACCAATCTA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (68 bp):
ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
TCC
Found at i:55158364 original size:5 final size:5
Alignment explanation
Indices: 55158354--55158389 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
55158344 AATTAGAATC
55158354 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A
55158390 TTTAAAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:55164302 original size:24 final size:26
Alignment explanation
Indices: 55164256--55164303 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
55164246 AACTGGGTAC
*
55164256 AGTTTCATTTGAATTTTTTACTTTAT
1 AGTTACATTTGAATTTTTTACTTTAT
55164282 AGTTACATTTG-A-TTTTTACTTT
1 AGTTACATTTGAATTTTTTACTTT
55164304 TGGCTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 1 0.05
26 10 0.48
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (26 bp):
AGTTACATTTGAATTTTTTACTTTAT
Found at i:55165883 original size:19 final size:19
Alignment explanation
Indices: 55165859--55165904 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
55165849 CTCTCTTAGG
55165859 GTTAGGGTTT-TTAAAGTTT
1 GTTAGGGTTTATT-AAGTTT
*
55165878 GTTA-GGTTTATTAATTTT
1 GTTAGGGTTTATTAAGTTT
55165896 GTTAGGGTT
1 GTTAGGGTT
55165905 AGGGTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (19 bp):
GTTAGGGTTTATTAAGTTT
Found at i:55168466 original size:9 final size:9
Alignment explanation
Indices: 55168428--55168485 Score: 55
Period size: 9 Copynumber: 6.4 Consensus size: 9
55168418 TTTGGTTAAA
*
55168428 AATTAATCG
1 AATTAACCG
*
55168437 AATTAACCA
1 AATTAACCG
* **
55168446 AACTGCCCG
1 AATTAACCG
55168455 AATTAACCG
1 AATTAACCG
55168464 AATT-ACCTG
1 AATTAACC-G
55168473 AATTAACCG
1 AATTAACCG
55168482 AATT
1 AATT
55168486 GAATCCCTAC
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
8 3 0.08
9 32 0.84
10 3 0.08
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:55174080 original size:117 final size:117
Alignment explanation
Indices: 55173868--55174328 Score: 868
Period size: 117 Copynumber: 3.9 Consensus size: 117
55173858 AATTATGTGT
* * * *
55173868 TTGAATCGAAATGAACGAAACGGATAGAATTAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
1 TTGAA-CGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
55173933 TTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAA
65 TTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAA
55173986 TTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
1 TTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
55174051 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAA
66 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAA
55174103 TTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
1 TTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
55174168 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAA
66 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAA
55174220 TTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
1 TTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
*
55174285 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATATAGG
66 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGG
55174329 AATGATAATG
Statistics
Matches: 338, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
117 333 0.99
118 5 0.01
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (117 bp):
TTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAA
Found at i:55174283 original size:234 final size:241
Alignment explanation
Indices: 55173868--55174574 Score: 1047
Period size: 234 Copynumber: 2.9 Consensus size: 241
55173858 AATTATGTGT
* * * *
55173868 TTGAATCGAAATGAACGAAACGGATAGAATTAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
1 TTGAA-CGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
55173933 TTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAATTGAACGAAATG
65 TTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAATTGAACGAAATG
55173998 AATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTTTTCTCTGAAATG
130 AATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTTTTCTCTGAAATG
55174063 GAGAAATTGAATCATTTGGAA-AT-GAATG-T-A-GGTT-TCTC-AA
195 GAGAAATTGAATCATTTGGAATATAGAATGATAATGGTTCTCTCGAA
55174103 TTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
1 TTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
55174168 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAATTGAACGAAATGA
66 TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAATTGAACGAAATGA
55174233 ATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTTTTCTCTGAAATGG
131 ATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTTTTCTCTGAAATGG
55174298 AGAAATTGAATCATTTGGAAATGAATATAGGAATGATAATGGTTCTCTCTGAA
196 AGAAATTGAATCATTT-G----GAATATA-GAATGATAATGGTTCTCTC-GAA
* * ** * * *
55174351 AT-AGA-GAAATTGAATCATTTGGAAATA-AATGTAGGTTTTCTCTGAAATGGAGAAACATTCAG
1 TTGA-ACGAAA-TGAATGAAAT-G-AATAGAA-ATA-G-------AGAAGT-GAGAAACATTCAG
55174413 GAATGATTATGGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCA
52 GAATGATTATGGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCA
55174478 ATTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
117 ATTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGT
55174543 TTTCTCTGAAATGGAGAAATTGAATCATTTGG
182 TTTCTCTGAAATGGAGAAATTGAATCATTTGG
55174575 GGAAGAATAC
Statistics
Matches: 433, Mismatches: 11, Indels: 37
0.90 0.02 0.08
Matches are distributed among these distances:
234 202 0.47
235 6 0.01
239 3 0.01
240 2 0.00
242 5 0.01
243 1 0.00
244 1 0.00
245 4 0.01
246 4 0.01
247 5 0.01
248 11 0.03
249 3 0.01
250 6 0.01
251 1 0.00
254 1 0.00
258 5 0.01
259 173 0.40
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (241 bp):
TTGAACGAAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTT
TTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAATTGAACGAAATGA
ATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTTTTCTCTGAAATGG
AGAAATTGAATCATTTGGAATATAGAATGATAATGGTTCTCTCGAA
Found at i:55174332 original size:57 final size:57
Alignment explanation
Indices: 55174269--55174385 Score: 189
Period size: 57 Copynumber: 2.1 Consensus size: 57
55174259 AGAAACATTC
* * * *
55174269 AGGAATGATTATGGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATAT
1 AGGAATGATAATGGTTCTCTCTGAAATAGAGAAATTGAATCATTTGGAAATAAATAT
*
55174326 AGGAATGATAATGGTTCTCTCTGAAATAGAGAAATTGAATCATTTGGAAATAAATGT
1 AGGAATGATAATGGTTCTCTCTGAAATAGAGAAATTGAATCATTTGGAAATAAATAT
55174383 AGG
1 AGG
55174386 TTTTCTCTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.32
Consensus pattern (57 bp):
AGGAATGATAATGGTTCTCTCTGAAATAGAGAAATTGAATCATTTGGAAATAAATAT
Found at i:55174393 original size:46 final size:46
Alignment explanation
Indices: 55174338--55174473 Score: 160
Period size: 46 Copynumber: 3.1 Consensus size: 46
55174328 GAATGATAAT
* * *
55174338 GGTTCTCTCTGAAATAGAGAAATTGAATCATTTGGAAATAAATGTA
1 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTA
* * * *
55174384 GGTTTTCTCTGAAATGGAGAAA--CATTCA---GG-AATGATTAT-
1 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTA
55174423 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTA
1 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTA
55174469 GGTTT
1 GGTTT
55174474 CTCAATTGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
39 22 0.31
40 6 0.08
41 6 0.08
44 6 0.08
45 7 0.10
46 25 0.35
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.35
Consensus pattern (46 bp):
GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTA
Found at i:55180578 original size:23 final size:23
Alignment explanation
Indices: 55180547--55180598 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
55180537 AAATGTTTAG
55180547 AAGG-ATCGTCTGTTAGTTAGAT
1 AAGGAATCGTCTGTTAGTTAGAT
55180569 AAGGAATCGTCTGTTAGTTAGAT
1 AAGGAATCGTCTGTTAGTTAGAT
55180592 AAGGAAT
1 AAGGAAT
55180599 ATATGAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (23 bp):
AAGGAATCGTCTGTTAGTTAGAT
Found at i:55198205 original size:33 final size:33
Alignment explanation
Indices: 55198176--55198242 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
55198166 GATTATGCAT
55198176 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
1 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
* *
55198209 TGAAATGGTGAGTTATGTTCATGTTTTACGAAC
1 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
55198242 T
1 T
55198243 TACTAAGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (33 bp):
TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
Found at i:55199551 original size:3 final size:3
Alignment explanation
Indices: 55199543--55199572 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
55199533 TCTGGCTACC
55199543 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
55199573 AAAGGCGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:55200652 original size:82 final size:81
Alignment explanation
Indices: 55200503--55200654 Score: 189
Period size: 82 Copynumber: 1.9 Consensus size: 81
55200493 TGGTCAAATG
* ** * *
55200503 TCGATATTTTATGAATTATTGATACCCTTCTTAAAAAAGATACCAAAATGGCATTTTATTTTTTC
1 TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCA-TTCATTTTTTC
55200568 ACAAACCCTATTAAGTA
65 ACAAACCCTATTAAGTA
* * * *
55200585 TCGATATTTTTTGAAATATCAATACCTTTTCTTAAAAATGATACTAAAATAGCA-TCATTTTTCT
1 TCGATATTTTATGAAATATCAATACC-CTTCTTAAAAAAGATACCAAAATAGCATTCATTTTT-T
55200649 CACAAA
64 CACAAA
55200655 ACTTACAAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
81 7 0.12
82 29 0.49
83 23 0.39
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (81 bp):
TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCATTCATTTTTTCA
CAAACCCTATTAAGTA
Found at i:55200666 original size:82 final size:81
Alignment explanation
Indices: 55200503--55200672 Score: 180
Period size: 82 Copynumber: 2.1 Consensus size: 81
55200493 TGGTCAAATG
* ** * *
55200503 TCGATATTTTATGAATTATTGATACCCTTCTTAAAAAAGATACCAAAATGGCATTTTATTTTTTC
1 TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCA-TTCATTTTTTC
* **
55200568 ACAAACCCTATTAAGTA
65 ACAAAACCTACAAAGTA
* * * *
55200585 TCGATATTTTTTGAAATATCAATACCTTTTCTTAAAAATGATACTAAAATAGCA-TCATTTTTCT
1 TCGATATTTTATGAAATATCAATACC-CTTCTTAAAAAAGATACCAAAATAGCATTCATTTTT-T
*
55200649 CACAAAACTTACAAAGTA
64 CACAAAACCTACAAAGTA
*
55200667 TTGATA
1 TCGATA
55200673 AAATTATTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
81 7 0.10
82 42 0.58
83 23 0.32
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (81 bp):
TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCATTCATTTTTTCA
CAAAACCTACAAAGTA
Found at i:55201625 original size:43 final size:43
Alignment explanation
Indices: 55201550--55201631 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
55201540 ATAGTATGGA
** *
55201550 CACATGGTCGTGTCTCAGCCTGTGTGGGTATTCGAAATAGGGT
1 CACATGGTCGTGTCTCAGCCTGTGTGCATATTCAAAATAGGGT
**
55201593 CACATGGTCGTGT-TGCAGGTTGTGTGCATATTCAAAATA
1 CACATGGTCGTGTCT-CAGCCTGTGTGCATATTCAAAATA
55201632 TAGCCACACA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
CACATGGTCGTGTCTCAGCCTGTGTGCATATTCAAAATAGGGT
Found at i:55203167 original size:26 final size:26
Alignment explanation
Indices: 55203131--55203182 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
55203121 AGGTATGAAT
55203131 GATAATTTGAATGGTTAAGGCACTAA
1 GATAATTTGAATGGTTAAGGCACTAA
55203157 GATAATTTGAATGGTTAAGGCACTAA
1 GATAATTTGAATGGTTAAGGCACTAA
55203183 CCCTCATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (26 bp):
GATAATTTGAATGGTTAAGGCACTAA
Found at i:55204280 original size:34 final size:34
Alignment explanation
Indices: 55204242--55204306 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
55204232 CAGTTCAGTT
* *
55204242 GGCCTTAGCCTATTACAGTGACAGTATCAGTGTA
1 GGCCTTAGCCCATTACAGTGACAGTAACAGTGTA
55204276 GGCCTTAGCCCATTACAGTGACAGTAACAGT
1 GGCCTTAGCCCATTACAGTGACAGTAACAGT
55204307 TCAAACATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (34 bp):
GGCCTTAGCCCATTACAGTGACAGTAACAGTGTA
Found at i:55204614 original size:27 final size:27
Alignment explanation
Indices: 55204577--55204911 Score: 404
Period size: 27 Copynumber: 11.8 Consensus size: 27
55204567 ATAACATTAA
55204577 GCAT-ACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
55204603 GCCTAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
55204630 GCATAACCGTCATTTTATAACATAAGAGCTTGG
1 GCATAACAGTCATTTTATAACAT---AG---GG
55204663 GCATAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
55204690 GCATAACCGTCATTTTATAACATAAGAGCTTGG
1 GCATAACAGTCATTTTATAACAT---AG---GG
55204723 GCATAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
55204750 GCATAACCGTCATTTTATAACATAAGAGCTTGG
1 GCATAACAGTCATTTTATAACAT---AG---GG
55204783 GCATAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
55204810 GCATAACCGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
* * *
55204837 GCATAACTGTTATTTTATAATATA-GG
1 GCATAACAGTCATTTTATAACATAGGG
*
55204863 GCATAATAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
55204890 GCATAACAATCATTTTATAACA
1 GCATAACAGTCATTTTATAACA
55204912 GCTTGGGGGT
Statistics
Matches: 271, Mismatches: 18, Indels: 39
0.83 0.05 0.12
Matches are distributed among these distances:
26 25 0.09
27 162 0.60
30 12 0.04
33 72 0.27
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (27 bp):
GCATAACAGTCATTTTATAACATAGGG
Found at i:55204678 original size:60 final size:60
Alignment explanation
Indices: 55204601--55204886 Score: 469
Period size: 60 Copynumber: 4.9 Consensus size: 60
55204591 TATAACATAG
*
55204601 GGGCCTAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAAGAGCTT
1 GGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAAGAGCTT
55204661 GGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAAGAGCTT
1 GGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAAGAGCTT
55204721 GGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAAGAGCTT
1 GGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAAGAGCTT
55204781 GGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACAT---AG---
1 GGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAAGAGCTT
* * * **
55204835 GGGCATAACTGTTATTTTATAATATA-GGGCATAATAGTCATTTTATAACATA
1 GGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATA
55204887 GGGGCATAAC
Statistics
Matches: 219, Mismatches: 6, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
53 23 0.11
54 23 0.11
57 2 0.01
60 171 0.78
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (60 bp):
GGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAAGAGCTT
Found at i:55205950 original size:33 final size:33
Alignment explanation
Indices: 55205900--55205974 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
55205890 GAGAAAGGGT
55205900 TTCGGCAAA-TGCAATGAATAGAGAGAAGTAACA
1 TTCGGCAAACT-CAATGAATAGAGAGAAGTAACA
* * * *
55205933 TTCGTCAAACTCAATGAATGGGGAGAAGTAATA
1 TTCGGCAAACTCAATGAATAGAGAGAAGTAACA
55205966 TTCGGCAAA
1 TTCGGCAAA
55205975 GGGAACTACT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 35 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (33 bp):
TTCGGCAAACTCAATGAATAGAGAGAAGTAACA
Found at i:55207459 original size:16 final size:17
Alignment explanation
Indices: 55207422--55207461 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
55207412 GAGTTATCTG
*
55207422 AAAAATATAATGAACCT
1 AAAAAGATAATGAACCT
55207439 AAAAAGATAATGAACCT
1 AAAAAGATAATGAACCT
55207456 AAAAAG
1 AAAAAG
55207462 GGTAAGTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (17 bp):
AAAAAGATAATGAACCT
Found at i:55226475 original size:11 final size:11
Alignment explanation
Indices: 55226459--55226491 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
55226449 AAACCTTTTC
55226459 TCTCTCAAAAT
1 TCTCTCAAAAT
55226470 TCTCTCTAAAA-
1 TCTCTC-AAAAT
55226481 TCTCTCAAAAT
1 TCTCTCAAAAT
55226492 AATTTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.20
11 12 0.60
12 4 0.20
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (11 bp):
TCTCTCAAAAT
Found at i:55227890 original size:18 final size:20
Alignment explanation
Indices: 55227844--55227885 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
55227834 GCCATGGATG
*
55227844 TATTATGCCAATATAATTGA
1 TATTGTGCCAATATAATTGA
55227864 TTGATTGTGCCAATATAATTGA
1 -T-ATTGTGCCAATATAATTGA
55227886 ATGTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (20 bp):
TATTGTGCCAATATAATTGA
Found at i:55232981 original size:26 final size:27
Alignment explanation
Indices: 55232952--55233004 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
55232942 CACCAATGAT
55232952 TCGGG-GAATCAGCACTTAGCAACCCC
1 TCGGGAGAATCAGCACTTAGCAACCCC
55232978 TCGGGAGAATCAGCACTTAGCAACCCC
1 TCGGGAGAATCAGCACTTAGCAACCCC
55233005 CTTCACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (27 bp):
TCGGGAGAATCAGCACTTAGCAACCCC
Found at i:55233004 original size:102 final size:102
Alignment explanation
Indices: 55232879--55233313 Score: 755
Period size: 102 Copynumber: 4.3 Consensus size: 102
55232869 CCAATGAGTC
* **
55232879 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
55232944 CCAATGA-TTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGAGTT-GGGGAATCAGCACTTAGCAACCCCTCG
* *
55232981 GGAGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTCGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
55233046 CCAATGAGTTGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAGTTGGGGAATCAGCACTTAGCAACCCCTCG
*
55233083 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTCGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
55233148 CCAATGAGTTGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAGTTGGGGAATCAGCACTTAGCAACCCCTCG
*
55233185 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* *
55233250 CCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGAGTTGGGGAATCAGCACTTAGCAACCCCTCG
55233287 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
55233314 TTTATTCAAT
Statistics
Matches: 320, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
102 318 0.99
103 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTTGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:55240697 original size:102 final size:102
Alignment explanation
Indices: 55240574--55241007 Score: 665
Period size: 102 Copynumber: 4.3 Consensus size: 102
55240564 CAATGAGTCG
* ** *
55240574 GGGAATCAGCATTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCATCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
*
55240639 CAATAATTCAGGGAATCAACACTTAGCAACCCCTCGA
66 CAATAAGTCAGGGAATCAACACTTAGCAACCCCTCGA
*
55240676 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
* *
55240741 CAATGAGTCGGGGAATCAACACTTAGCAACCCCTCGA
66 CAATAAGTCAGGGAATCAACACTTAGCAACCCCTCGA
*
55240778 GGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
* * * *
55240843 CAATGAGTCGGGGAATCAACACTTAGCAACCCCTTGG
66 CAATAAGTCAGGGAATCAACACTTAGCAACCCCTCGA
* *
55240880 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGATGGAATCAACACTTAGCAACCAC
1 GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
* *
55240945 CAATGAA-T-AGGGGAATCAGCACTTAGCAACCCCTCGG
66 CAAT-AAGTCA-GGGAATCAACACTTAGCAACCCCTCGA
* *
55240982 GGGAATTAGCACTTAGCAAGCCCTTT
1 GGGAATCAGCACTTAGCAACCCCTTT
55241008 TTATTCAATG
Statistics
Matches: 311, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
102 310 1.00
103 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (102 bp):
GGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCAC
CAATAAGTCAGGGAATCAACACTTAGCAACCCCTCGA
Found at i:55240764 original size:33 final size:33
Alignment explanation
Indices: 55240719--55240975 Score: 153
Period size: 33 Copynumber: 7.6 Consensus size: 33
55240709 AAGATACGGT
55240719 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
*
55240752 GGAATCAACACTTAGCAACC-CC------TCGAG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCG-G
* *
55240779 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGG
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGAG-T-CGG
55240820 TGGAATCAGCACTTAGCAACCACCAATGAGTCGG
1 -GGAATCAGCACTTAGCAACCACCAATGAGTCGG
* *
55240854 GGAATCAACACTTAGCAACC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
* * *
55240881 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGAT
1 GGAATCAGCACTTAGCAACCAC---CA-A--TGAG-T-CG-G
* * *
55240923 GGAATCAACACTTAGCAACCACCAATGAATAGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
55240956 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
55240976 CCTCGGGGGA
Statistics
Matches: 176, Mismatches: 16, Indels: 64
0.69 0.06 0.25
Matches are distributed among these distances:
26 3 0.02
27 40 0.23
28 3 0.02
29 1 0.01
30 1 0.01
31 2 0.01
32 4 0.02
33 57 0.32
34 4 0.02
35 2 0.01
36 6 0.03
38 2 0.01
39 4 0.02
40 1 0.01
41 6 0.03
42 40 0.23
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAGTCGG
Found at i:55240892 original size:27 final size:27
Alignment explanation
Indices: 55240852--55240904 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
55240842 CCAATGAGTC
55240852 GGGGAATCAACACTTAGCAACCCCTTG
1 GGGGAATCAACACTTAGCAACCCCTTG
*
55240879 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAACACTTAGCAACCCCTT
55240905 TCACATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (27 bp):
GGGGAATCAACACTTAGCAACCCCTTG
Found at i:55240992 original size:27 final size:27
Alignment explanation
Indices: 55240954--55241005 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
55240944 CCAATGAATA
55240954 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACTTAGCAACCCCTCG
* *
55240981 GGGGAATTAGCACTTAGCAAGCCCT
1 GGGGAATCAGCACTTAGCAACCCCT
55241006 TTTTATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTCG
Found at i:55246432 original size:22 final size:23
Alignment explanation
Indices: 55246407--55246460 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
55246397 ACTAATGAAT
55246407 AGAGAGCACTA-AAGTGCTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
*
55246429 AGAGAGCAC-AGATGTGCTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
*
55246451 GGAGAGCACT
1 AGAGAGCACT
55246461 GTCGTGCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.13
Consensus pattern (23 bp):
AGAGAGCACTAGAAGTGCTAAAC
Found at i:55247412 original size:16 final size:17
Alignment explanation
Indices: 55247385--55247416 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55247375 CATTTTAAGC
55247385 TTTCTGTTTCTTTCTTA
1 TTTCTGTTTCTTTCTTA
55247402 TTTCT-TTTCTTTCTT
1 TTTCTGTTTCTTTCTT
55247417 TTGTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTCTGTTTCTTTCTTA
Found at i:55263746 original size:2 final size:2
Alignment explanation
Indices: 55263734--55263772 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
55263724 TCCAACTTTA
*
55263734 TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
55263773 TTGGATCTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.03, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:55266724 original size:23 final size:23
Alignment explanation
Indices: 55266681--55266724 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
55266671 TAAAAATAGA
* *
55266681 ATTTTATATATAGATATGATTTT
1 ATTTTAAATATAGATAAGATTTT
55266704 ATTTTAAATAT-GATAAAGATT
1 ATTTTAAATATAGAT-AAGATT
55266725 AAATCAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
ATTTTAAATATAGATAAGATTTT
Found at i:55274076 original size:22 final size:22
Alignment explanation
Indices: 55274045--55274093 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
55274035 TACGTACATT
*
55274045 CCCGTGTGCAACCCCTCACACC
1 CCCGTATGCAACCCCTCACACC
*
55274067 CCCGTATGCAACCCCTCACACG
1 CCCGTATGCAACCCCTCACACC
55274089 CCCGT
1 CCCGT
55274094 GTGAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.53, G:0.14, T:0.14
Consensus pattern (22 bp):
CCCGTATGCAACCCCTCACACC
Found at i:55282141 original size:50 final size:50
Alignment explanation
Indices: 55282082--55282210 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 50
55282072 GTCATTAGGG
* * * *
55282082 TTACCGATTCTTAGCTCATATGAGCCTAAC-GATTTACAGCTCTTGAGAGC
1 TTACTGATTCTTAGCTCATATGAGCAT-ACTAATTTACAGCTCGTGAGAGC
* * *
55282132 TTACTGATTCTTGGATCGTATGAGCATACTAATTTACAGCTCGTGAGAGC
1 TTACTGATTCTTAGCTCATATGAGCATACTAATTTACAGCTCGTGAGAGC
* *
55282182 ATA-TCGATTCATAGCTCGA-ATGAGCATAC
1 TTACT-GATTCTTAGCTC-ATATGAGCATAC
55282211 GTGCATAGGA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
49 3 0.05
50 61 0.95
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (50 bp):
TTACTGATTCTTAGCTCATATGAGCATACTAATTTACAGCTCGTGAGAGC
Found at i:55282175 original size:25 final size:26
Alignment explanation
Indices: 55282147--55282210 Score: 62
Period size: 25 Copynumber: 2.5 Consensus size: 26
55282137 GATTCTTGGA
*
55282147 TCGTATGAGCATACT-AATTTACAGC
1 TCGTATGAGCATACTCAATTCACAGC
* *
55282172 TCGTGA-GAGCATA-TCGATTCATAGC
1 TCGT-ATGAGCATACTCAATTCACAGC
*
55282197 TCGAATGAGCATAC
1 TCGTATGAGCATAC
55282211 GTGCATAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
24 2 0.06
25 28 0.90
26 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (26 bp):
TCGTATGAGCATACTCAATTCACAGC
Found at i:55283766 original size:27 final size:27
Alignment explanation
Indices: 55283732--55283784 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
55283722 GTATGTATGA
55283732 TTTTGATTGGTTTTGATATGAATATTT
1 TTTTGATTGGTTTTGATATGAATATTT
55283759 TTTTGATTGGTTTTGATATGAATATT
1 TTTTGATTGGTTTTGATATGAATATT
55283785 GAAATGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (27 bp):
TTTTGATTGGTTTTGATATGAATATTT
Found at i:55283792 original size:27 final size:27
Alignment explanation
Indices: 55283735--55283792 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
55283725 TGTATGATTT
****
55283735 TGATTGGTTTTGATATGAATATTTTTT
1 TGATTGGTTTTGATATGAATATTGAAA
55283762 TGATTGGTTTTGATATGAATATTGAAA
1 TGATTGGTTTTGATATGAATATTGAAA
55283789 TGAT
1 TGAT
55283793 ATGAAATGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (27 bp):
TGATTGGTTTTGATATGAATATTGAAA
Found at i:55303784 original size:4 final size:4
Alignment explanation
Indices: 55303765--55303812 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
55303755 TTATATGCCA
55303765 TAAT TAAAT T-AT TAAT TAAT TAA- -AAT TAATT TAAT TAAT T-AT TAAT
1 TAAT T-AAT TAAT TAAT TAAT TAAT TAAT TAA-T TAAT TAAT TAAT TAAT
55303811 TA
1 TA
55303813 TTAGAATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
2 2 0.05
3 6 0.16
4 22 0.58
5 8 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:55303786 original size:16 final size:16
Alignment explanation
Indices: 55303765--55303821 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
55303755 TTATATGCCA
55303765 TAATTAAATTATTAAT
1 TAATTAAATTATTAAT
55303781 TAATTAAA--ATTAATT
1 TAATTAAATTATTAA-T
55303796 TAATT-AATTATTAAT
1 TAATTAAATTATTAAT
55303811 T-ATTAGAATTA
1 TAATTA-AATTA
55303822 ACCTTAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 10 0.28
15 8 0.22
16 18 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TAATTAAATTATTAAT
Found at i:55303800 original size:19 final size:17
Alignment explanation
Indices: 55303765--55303815 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
55303755 TTATATGCCA
55303765 TAATT-AAATTATTAAT
1 TAATTAAAATTATTAAT
55303781 TAATTAAAATTAATTTAAT
1 TAATTAAAATT-A-TTAAT
*
55303800 TAATTATTAATTATTA
1 TAATTA-AAATTATTA
55303816 GAATTAACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.17
17 5 0.17
18 4 0.13
19 12 0.40
20 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTAAAATTATTAAT
Found at i:55303807 original size:30 final size:30
Alignment explanation
Indices: 55303765--55303832 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
55303755 TTATATGCCA
*
55303765 TAATTAAATTATTAATTAATTAAAATTAA-TT
1 TAATT-AATTATTAATT-ATTAAAATTAACCT
*
55303796 TAATTAATTATTAATTATTAGAATTAACCT
1 TAATTAATTATTAATTATTAAAATTAACCT
55303826 TAATTAA
1 TAATTAA
55303833 ATAAAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 10 0.29
30 19 0.56
31 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (30 bp):
TAATTAATTATTAATTATTAAAATTAACCT
Found at i:55303808 original size:22 final size:22
Alignment explanation
Indices: 55303766--55303809 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
55303756 TATATGCCAT
55303766 AATTAAATTATTAATTAATTAA
1 AATTAAATTATTAATTAATTAA
*
55303788 AATTAATTTAATTAATT-ATTAA
1 AATTAAATT-ATTAATTAATTAA
55303810 TTATTAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTAAATTATTAATTAATTAA
Found at i:55308714 original size:9 final size:9
Alignment explanation
Indices: 55308688--55308726 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
55308678 GGAAGAATTT
55308688 TAGAGAGAG
1 TAGAGAGAG
55308697 TAGA-A-AG
1 TAGAGAGAG
55308704 TAGAGAGAG
1 TAGAGAGAG
*
55308713 TAAAGAGAG
1 TAGAGAGAG
55308722 TAGAG
1 TAGAG
55308727 GGAATTCGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 2 0.08
9 18 0.69
ACGTcount: A:0.49, C:0.00, G:0.38, T:0.13
Consensus pattern (9 bp):
TAGAGAGAG
Found at i:55312172 original size:51 final size:51
Alignment explanation
Indices: 55312052--55312188 Score: 160
Period size: 50 Copynumber: 2.8 Consensus size: 51
55312042 ATTATCATTT
* * * *
55312052 GATACACGTAGTAGCTTTCACATAGTACTACACATGTG-ATTAAACTTTCC
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGAATTAAACTATCC
* *
55312102 GGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATT-AA-TATCC
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGA--ATTAAACTATCC
55312153 GATACACGTAGTAGCCTGCACA-A--ACTACACACGTGA
1 GATACACGTAGTAGCCTGCACATAGTACTACACACGTGA
55312189 TTGAAGCTAT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
48 13 0.17
50 34 0.45
51 24 0.32
52 2 0.03
53 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
GATACACGTAGTAGCCTGCACATAGTACTACACACGTGAATTAAACTATCC
Found at i:55313704 original size:50 final size:50
Alignment explanation
Indices: 55313520--55313705 Score: 282
Period size: 50 Copynumber: 3.7 Consensus size: 50
55313510 ACATGCCATA
** * *
55313520 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
** * *
55313571 GCCATGTCCCAGACATGGTCTTACGGGGGACCTTTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
55313621 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
*
55313671 GCCATGTCCCAGACATGGTCTTACATAGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
55313706 TTACTCAAAT
Statistics
Matches: 122, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
50 94 0.77
51 28 0.23
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:55313821 original size:13 final size:13
Alignment explanation
Indices: 55313800--55313829 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
55313790 GCTTGGATCA
55313800 TCATCAAATAAAT
1 TCATCAAATAAAT
*
55313813 TCATGAAATAAAT
1 TCATCAAATAAAT
55313826 TCAT
1 TCAT
55313830 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:55316558 original size:67 final size:67
Alignment explanation
Indices: 55316469--55316700 Score: 284
Period size: 67 Copynumber: 3.5 Consensus size: 67
55316459 CTCTATATGT
* * * *
55316469 TGCCATAGTCGAGCTATGGTCTTACAGAGTATAGCCCATGTTTAACGTCCTGGTGGACTCCCTTT
1 TGCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTTAACATCCTGGTGGACTCCCTTT
55316534 GC
66 GC
* * * * *
55316536 TGCCATAGCCGAGCCATAGTCTTACATAATATACCCCAAGTTTAACATCCTGATGGACTCCCTTT
1 TGCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTTAACATCCTGGTGGACTCCCTTT
55316601 GC
66 GC
* * * * **
55316603 TTCCATAGCCGGGCTATGGTCTTACATAGTATATCCCATGTTTAACATCCTAGCAGACTCCCTTT
1 TGCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTTAACATCCTGGTGGACTCCCTTT
55316668 GC
66 GC
*** * *
55316670 AATCATAGCCTAGCTATGGTCTTACACAGTA
1 TGCCATAGCCGAGCTATGGTCTTACATAGTA
55316701 AACATCTTTT
Statistics
Matches: 139, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
67 139 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (67 bp):
TGCCATAGCCGAGCTATGGTCTTACATAGTATACCCCATGTTTAACATCCTGGTGGACTCCCTTT
GC
Done.