Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 292 of 425
Found at i:90630200 original size:35 final size:35
Alignment explanation
Indices: 90630161--90630229 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
90630151 GGGTGTGTGA
90630161 TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGAG
*
90630196 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
90630230 AGAGGCAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.20, C:0.13, G:0.51, T:0.16
Consensus pattern (35 bp):
TGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGAG
Found at i:90640721 original size:40 final size:40
Alignment explanation
Indices: 90640658--90640865 Score: 296
Period size: 40 Copynumber: 5.2 Consensus size: 40
90640648 ATTCGGATTG
*
90640658 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
90640697 ATATCCGGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
90640737 ATAACCGGGCC-AAGTCCCAAAGGCAATTGTGCGAGTTACT
1 ATAACC-GGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
90640777 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
90640817 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGCCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
*
90640857 ATATCCGGC
1 ATAACCGGC
90640866 TAAACCCTTA
Statistics
Matches: 154, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 17 0.11
40 133 0.86
41 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:90640790 original size:80 final size:80
Alignment explanation
Indices: 90640658--90640868 Score: 329
Period size: 80 Copynumber: 2.7 Consensus size: 80
90640648 ATTCGGATTG
*
90640658 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGCCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
90640722 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * * *
90640737 ATAACCGGGCCAAGTCCCAAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
90640802 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
*
90640817 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAA
90640869 ACCCTTAAAG
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 21 0.18
80 98 0.82
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:90642952 original size:55 final size:55
Alignment explanation
Indices: 90642856--90642995 Score: 165
Period size: 55 Copynumber: 2.5 Consensus size: 55
90642846 TTAAAATTTT
* ** * *
90642856 AAGTCATTGTTGTACACGGGCAGGCCACACTGGCGTGTGCCATGGCCATGTATTG
1 AAGTCAGTGTTGTACACGGGCAGGGTACACTGGCGTATGCCATGGCCATGTATTA
* * *
90642911 AAGTCAGTATTGTACACGGGCAGGGTACAC-GGACGTATGCCATGGCCGTGTTTTA
1 AAGTCAGTGTTGTACACGGGCAGGGTACACTGG-CGTATGCCATGGCCATGTATTA
*
90642966 AAGTCAGTGTTGCACACGGGCTAAGGGTAC
1 AAGTCAGTGTTGTACACGGGC--AGGGTAC
90642996 GGGCGTGTCC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
54 2 0.03
55 63 0.88
57 7 0.10
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (55 bp):
AAGTCAGTGTTGTACACGGGCAGGGTACACTGGCGTATGCCATGGCCATGTATTA
Found at i:90653156 original size:24 final size:24
Alignment explanation
Indices: 90653128--90653183 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
90653118 AATTAATAGC
90653128 TTACATTTCATATTCCAATTTACT
1 TTACATTTCATATTCCAATTTACT
*
90653152 TTACATTTCATATTCCAATTTATT
1 TTACATTTCATATTCCAATTTACT
90653176 TTACATTT
1 TTACATTT
90653184 TATACCCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.54
Consensus pattern (24 bp):
TTACATTTCATATTCCAATTTACT
Found at i:90653197 original size:22 final size:23
Alignment explanation
Indices: 90653128--90653199 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 23
90653118 AATTAATAGC
* *
90653128 TTACATTTCATATTCCAATTTACT
1 TTACATTT-ATATACCAATTTATT
*
90653152 TTACATTTCATATTCCAATTTATT
1 TTACATTT-ATATACCAATTTATT
*
90653176 TTACATTT-TATACCCATTTATT
1 TTACATTTATATACCAATTTATT
90653198 TT
1 TT
90653200 TTAAAATTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 14 0.31
24 31 0.69
ACGTcount: A:0.28, C:0.18, G:0.00, T:0.54
Consensus pattern (23 bp):
TTACATTTATATACCAATTTATT
Found at i:90658779 original size:39 final size:39
Alignment explanation
Indices: 90658728--90658957 Score: 227
Period size: 39 Copynumber: 5.9 Consensus size: 39
90658718 AGTGATGAAG
*
90658728 TATATCCGGACTTAAGGTCCGCAAGCTATGTGCTGTG-AT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTG-GAAT
* *
90658767 TATTTCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
90658806 TATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
90658845 TATAACCGGACTTAAGGTCTGCAGGCTACGTGCTAGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
90658884 TATGTCCGGGC-TAAAGTCCCGCAGGCT-TCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTAT-GTGCTGGAAT
** **
90658923 TATA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGG
1 TATATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG
90658958 TAATCAGTTT
Statistics
Matches: 161, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
38 17 0.11
39 144 0.89
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:90662936 original size:47 final size:47
Alignment explanation
Indices: 90662882--90663260 Score: 641
Period size: 47 Copynumber: 8.1 Consensus size: 47
90662872 GATTTTATGA
** * * * *
90662882 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
90662929 GATGAATGTGAACATGCATATGTGTGATAAGGCTGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
90662976 GATGAATGTGAACATGCATATCTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
90663023 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
90663070 GATGAATGTGAACATGCATATGTGTGATATGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
90663117 GATGAATGTGAACATGCATAAGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
90663164 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
** *
90663211 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
90663258 GAT
1 GAT
90663261 AAACGTGGAA
Statistics
Matches: 315, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 315 1.00
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
Found at i:90663293 original size:141 final size:141
Alignment explanation
Indices: 90662882--90663306 Score: 617
Period size: 141 Copynumber: 3.0 Consensus size: 141
90662872 GATTTTATGA
** * * * *
90662882 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
*
90662947 TATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGCATATCTGT-GATAAGGCCG
66 TATGTGTGATAAGG-TGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGGATAAGGCCG
90663011 AATGGCCAATGT
130 AATGGCCAATGT
90663023 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
90663088 TATGTGTGATATGGCCGAATGGCCAATGTGATGAATGTGAACATGCATA-A-GTGTGATAAGGCC
66 TATGTGTGATAAGG-TGAATGGCCAATGTGATGAATGTGAACATGCATATATGTG-GATAAGGCC
90663151 GAATGGCCAATGT
129 GAATGGCCAATGT
90663164 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* * * * * **
90663229 TATGTGTGATAAGGTAGAATGGCTAATGTGATAAACGTGGAA-GTGTATATATGTGGCGAA-GCC
66 TATGTGTGATAAGGT-GAATGGCCAATGTGATGAATGT-GAACATGCATATATGTGGATAAGGCC
*
90663292 GAATGGCTAATGT
129 GAATGGCCAATGT
90663305 GA
1 GA
90663307 GATATGTATG
Statistics
Matches: 259, Mismatches: 19, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
139 2 0.01
141 247 0.95
142 7 0.03
143 3 0.01
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (141 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
TATGTGTGATAAGGTGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGGATAAGGCCGA
ATGGCCAATGT
Found at i:90665256 original size:40 final size:40
Alignment explanation
Indices: 90665197--90665338 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
90665187 AAATTGAATG
* * *
90665197 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
90665237 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
90665277 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
90665317 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
90665339 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:90665339 original size:40 final size:39
Alignment explanation
Indices: 90665236--90665364 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
90665226 TGCTGGAAAT
* * *
90665236 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
90665276 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
90665316 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
90665356 TATATCCGG
1 TATATCCGG
90665365 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:90672496 original size:40 final size:40
Alignment explanation
Indices: 90672430--90672596 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
90672420 AAATTGAATG
* * *
90672430 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
90672469 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
90672509 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
90672549 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
90672589 ATATCCGG
1 ATATCCGG
90672597 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:90678011 original size:25 final size:25
Alignment explanation
Indices: 90677976--90678026 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
90677966 GATTGTCAGA
*
90677976 TTACACAGGGTACCTGTTTTTATTG
1 TTACACAGGGTACCTGTTTCTATTG
*
90678001 TTACACGGGGTACCTGTTTCTATTG
1 TTACACAGGGTACCTGTTTCTATTG
90678026 T
1 T
90678027 GTCAGATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.43
Consensus pattern (25 bp):
TTACACAGGGTACCTGTTTCTATTG
Found at i:90680709 original size:20 final size:20
Alignment explanation
Indices: 90680684--90680726 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
90680674 ATCTATGTTT
90680684 ATGTTTATGTGTATTCGGCC
1 ATGTTTATGTGTATTCGGCC
90680704 ATGTTTATGTGTATTCGGCC
1 ATGTTTATGTGTATTCGGCC
90680724 ATG
1 ATG
90680727 AAGCAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.14, G:0.26, T:0.44
Consensus pattern (20 bp):
ATGTTTATGTGTATTCGGCC
Found at i:90682604 original size:16 final size:16
Alignment explanation
Indices: 90682583--90682621 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
90682573 ATAAGTAAAC
90682583 ATTATT-TTATTATTAA
1 ATTATTATTA-TATTAA
*
90682599 ATTATTATTATATTAC
1 ATTATTATTATATTAA
90682615 ATTATTA
1 ATTATTA
90682622 AAATAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTATTATATTAA
Found at i:90682642 original size:17 final size:17
Alignment explanation
Indices: 90682620--90682653 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
90682610 ATTACATTAT
90682620 TAAAATAAAACATAAAA
1 TAAAATAAAACATAAAA
90682637 TAAAATAAAACATAAAA
1 TAAAATAAAACATAAAA
90682654 AAAGAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAATAAAACATAAAA
Found at i:90683792 original size:25 final size:25
Alignment explanation
Indices: 90683764--90683836 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
90683754 GCGTTATCTA
*
90683764 ATTATTAACATGTTAGTGCTCTCTG
1 ATTATTAGCATGTTAGTGCTCTCTG
* *
90683789 ATTATTAGCACGTTAATGCTCTCTG
1 ATTATTAGCATGTTAGTGCTCTCTG
*
90683814 ATTATTAGCATATTAGTGCTCTC
1 ATTATTAGCATGTTAGTGCTCTC
90683837 CATTTAGCAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (25 bp):
ATTATTAGCATGTTAGTGCTCTCTG
Found at i:90683879 original size:22 final size:23
Alignment explanation
Indices: 90683776--90683883 Score: 80
Period size: 25 Copynumber: 4.6 Consensus size: 23
90683766 TATTAACATG
*
90683776 TTAGTGCTCTCTGATTATTAGCACG
1 TTAGTGCTCTCTG--TATTAGCACT
*
90683801 TTAATGCTCTCTGATTATTAGCA-T
1 TTAGTGCTCTCTG--TATTAGCACT
**
90683825 ATTAGTGCTCTCCAT-TTAGCACAT
1 -TTAGTGCTCTCTGTATTAGCAC-T
* *
90683849 TCA-TACTCTCTGTA-TAGCACT
1 TTAGTGCTCTCTGTATTAGCACT
90683870 TTAGTGCTCTCTGT
1 TTAGTGCTCTCTGT
90683884 TCATTAGTGC
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
21 3 0.04
22 28 0.42
23 3 0.04
24 1 0.01
25 32 0.48
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (23 bp):
TTAGTGCTCTCTGTATTAGCACT
Found at i:90684444 original size:23 final size:23
Alignment explanation
Indices: 90684417--90684462 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
90684407 TGTTTGCAAA
90684417 TATGGTTGGTAAGTTAAAATACT
1 TATGGTTGGTAAGTTAAAATACT
90684440 TATGGTTGGTAAGTTAAAATACT
1 TATGGTTGGTAAGTTAAAATACT
90684463 ATGTACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
TATGGTTGGTAAGTTAAAATACT
Found at i:90687211 original size:93 final size:93
Alignment explanation
Indices: 90687099--90687270 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
90687089 GCCCATAAGT
* *
90687099 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90687164 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
90687192 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
90687257 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
90687271 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:90687266 original size:46 final size:46
Alignment explanation
Indices: 90687091--90687266 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
90687081 TGTAACCCGC
* *
90687091 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
90687137 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
90687183 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
90687230 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
90687267 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:90692624 original size:93 final size:93
Alignment explanation
Indices: 90692512--90692683 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
90692502 GCCCATAAGT
* *
90692512 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90692577 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
90692605 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
90692670 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
90692684 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:90692679 original size:46 final size:46
Alignment explanation
Indices: 90692504--90692679 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
90692494 TGTAACCCGC
* *
90692504 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
90692550 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
90692596 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
90692643 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
90692680 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:90696996 original size:7 final size:7
Alignment explanation
Indices: 90696984--90697051 Score: 73
Period size: 7 Copynumber: 9.4 Consensus size: 7
90696974 GTTCGTACTT
90696984 TAAACCC
1 TAAACCC
90696991 TAAACCC
1 TAAACCC
*
90696998 TAAACTTC
1 TAAAC-CC
*
90697006 TAAAACCA
1 T-AAACCC
*
90697014 TAAACCT
1 TAAACCC
90697021 TAAACCC
1 TAAACCC
**
90697028 TAAACTA
1 TAAACCC
90697035 TAAACCC
1 TAAACCC
90697042 TAAACCC
1 TAAACCC
90697049 TAA
1 TAA
90697052 TTAACTTACC
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
7 43 0.86
8 3 0.06
9 4 0.08
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:90697037 original size:21 final size:21
Alignment explanation
Indices: 90696984--90697051 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
90696974 GTTCGTACTT
* *
90696984 TAAACCCTAAACCCTAAACTTC
1 TAAACCATAAACCCTAAAC-CC
*
90697006 TAAAACCATAAACCTTAAACCC
1 T-AAACCATAAACCCTAAACCC
*
90697028 TAAACTATAAACCCTAAACCC
1 TAAACCATAAACCCTAAACCC
90697049 TAA
1 TAA
90697052 TTAACTTACC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
21 21 0.52
22 3 0.08
23 16 0.40
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCATAAACCCTAAACCC
Found at i:90697724 original size:23 final size:25
Alignment explanation
Indices: 90697670--90697726 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
90697660 AGCTATACAA
*
90697670 CAGGAAGCTCACAAAGAGCCATTAAT
1 CAGGAAGCCCACAAAGAGCCA-TAAT
90697696 CAGGAAGCCCACAAAGAGCC-T-AT
1 CAGGAAGCCCACAAAGAGCCATAAT
90697719 CAGGAAGC
1 CAGGAAGC
90697727 TTATTCGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 10 0.33
24 1 0.03
26 19 0.63
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.11
Consensus pattern (25 bp):
CAGGAAGCCCACAAAGAGCCATAAT
Found at i:90702062 original size:7 final size:7
Alignment explanation
Indices: 90702050--90702075 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
90702040 TGAGCACCAA
90702050 TCTCTTC
1 TCTCTTC
90702057 TCTCTTC
1 TCTCTTC
90702064 TCTCTTC
1 TCTCTTC
90702071 TCTCT
1 TCTCT
90702076 ATATTCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
TCTCTTC
Found at i:90710876 original size:11 final size:11
Alignment explanation
Indices: 90710844--90710868 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
90710834 GCATATCTAG
90710844 TTTTCATCTTT
1 TTTTCATCTTT
90710855 TTTTCATCTTT
1 TTTTCATCTTT
90710866 TTT
1 TTT
90710869 GTATCTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCATCTTT
Found at i:90711686 original size:20 final size:21
Alignment explanation
Indices: 90711656--90711696 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
90711646 TTTAATCATG
*
90711656 TAAATATATATAATTTAATTA
1 TAAATATATATAATTAAATTA
*
90711677 TAAA-ATATATTATTAAATTA
1 TAAATATATATAATTAAATTA
90711697 ATTAATTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATATATATAATTAAATTA
Found at i:90711724 original size:25 final size:27
Alignment explanation
Indices: 90711670--90711726 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
90711660 TATATATAAT
*
90711670 TTAATTATAAAATATATTATTAAATTAA
1 TTAATTATAAAATATATTATT-AATGAA
90711698 TTAATTAT-AAATATCA-TATT-ATGAA
1 TTAATTATAAAATAT-ATTATTAATGAA
90711723 TTAA
1 TTAA
90711727 ATTAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.30
27 10 0.37
28 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TTAATTATAAAATATATTATTAATGAA
Found at i:90711901 original size:3 final size:3
Alignment explanation
Indices: 90711887--90711923 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
90711877 ATATTACTAA
*
90711887 ATT ATG ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
90711924 AAAATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:90712756 original size:23 final size:22
Alignment explanation
Indices: 90712729--90712795 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 22
90712719 GGCTTTGCCG
90712729 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCAC-TTATGTGTCGTAT
* *
90712752 ATCAGGCACCT-CGTGT-GTCAT
1 ATCAGGCACTTATGTGTCGT-AT
*
90712773 TTCAGGCACTTATGTGTCGTAT
1 ATCAGGCACTTATGTGTCGTAT
90712795 A
1 A
90712796 CTAATCAGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
20 2 0.06
21 15 0.43
22 7 0.20
23 11 0.31
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (22 bp):
ATCAGGCACTTATGTGTCGTAT
Found at i:90716466 original size:30 final size:30
Alignment explanation
Indices: 90716432--90716494 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
90716422 ACTTATTTTA
*
90716432 TTGTTAATTTTTTTATTACTTTAAG-GACAT
1 TTGTTAATTTTGTTATTA-TTTAAGAGACAT
*
90716462 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTAAGAGACAT
90716492 TTG
1 TTG
90716495 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.25, C:0.05, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTAAGAGACAT
Found at i:90716639 original size:12 final size:12
Alignment explanation
Indices: 90716618--90716651 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
90716608 TATATATTTT
*
90716618 AAAATTATATAA
1 AAAATAATATAA
90716630 AAAATAATATAA
1 AAAATAATATAA
*
90716642 AAATTAATAT
1 AAAATAATAT
90716652 GGGCGGACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:90723043 original size:13 final size:13
Alignment explanation
Indices: 90723025--90723050 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90723015 TCATCTTCTC
90723025 AATAAAACTCCAT
1 AATAAAACTCCAT
90723038 AATAAAACTCCAT
1 AATAAAACTCCAT
90723051 TTTACGCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAAACTCCAT
Found at i:90723576 original size:15 final size:15
Alignment explanation
Indices: 90723556--90723587 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
90723546 CCTCTTACAC
90723556 ATTGTTGCACTTTTG
1 ATTGTTGCACTTTTG
90723571 ATTGTTGCACTTTTG
1 ATTGTTGCACTTTTG
90723586 AT
1 AT
90723588 AACACGTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.12, G:0.19, T:0.53
Consensus pattern (15 bp):
ATTGTTGCACTTTTG
Found at i:90724320 original size:69 final size:68
Alignment explanation
Indices: 90724237--90724371 Score: 207
Period size: 68 Copynumber: 2.0 Consensus size: 68
90724227 TGATTAAACT
* * *
90724237 TAATCACTTTAATATTAAATTAATATAATATTTATTAAGATAAATATTAAATTAAATTTAATATT
1 TAATCACTTCAATATTAAATTAATAAAATA-TTATTAAGATAAATATTAAATTAAATATAATATT
90724302 AAGA
65 AAGA
* * *
90724306 TAATCACTTCAATATTAAATTAATAAAATATTATTAATATAAATATTTAATTTAATATAATATTA
1 TAATCACTTCAATATTAAATTAATAAAATATTATTAAGATAAATATTAAATTAAATATAATATTA
90724371 A
66 A
90724372 ACTACTAAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 32 0.53
69 28 0.47
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (68 bp):
TAATCACTTCAATATTAAATTAATAAAATATTATTAAGATAAATATTAAATTAAATATAATATTA
AGA
Found at i:90724329 original size:20 final size:18
Alignment explanation
Indices: 90724247--90724330 Score: 63
Period size: 17 Copynumber: 4.8 Consensus size: 18
90724237 TAATCACTTT
90724247 AATATTAAATTAATA-T-
1 AATATTAAATTAATATTC
* * *
90724263 AATATT-TATTAAGA-TA
1 AATATTAAATTAATATTC
*
90724279 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTC
90724296 AATATTAAGA-TAATCACTTC
1 AATATTAA-ATTAAT-A-TTC
90724316 AATATTAAATTAATA
1 AATATTAAATTAATA
90724331 AAATATTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
15 7 0.13
16 13 0.24
17 17 0.31
18 1 0.02
19 3 0.05
20 14 0.25
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (18 bp):
AATATTAAATTAATATTC
Found at i:90724343 original size:14 final size:15
Alignment explanation
Indices: 90724324--90724370 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
90724314 TCAATATTAA
90724324 ATTAATA-AAATATT
1 ATTAATATAAATATT
90724338 ATTAATATAAATATTT
1 ATTAATATAAATA-TT
90724354 AATTTAATAT-AATATT
1 -A-TTAATATAAATATT
90724370 A
1 A
90724371 AACTACTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.24
15 6 0.21
16 4 0.14
17 5 0.17
18 7 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAATATAAATATT
Found at i:90724370 original size:32 final size:31
Alignment explanation
Indices: 90724247--90724370 Score: 122
Period size: 32 Copynumber: 3.7 Consensus size: 31
90724237 TAATCACTTT
*
90724247 AATATTAAATTAATATAATATTTATTAAGATA
1 AATATTAAATTAATATAATA-TTATTAATATA
* * *
90724279 AATATTAAATTAAATTTAATATTAAGATAATCACTTC
1 AATATTAAATT-AATATAATATT-A-TTAAT-A--TA
*
90724316 AATATTAAATTAATAAAATATTATTAATATA
1 AATATTAAATTAATATAATATTATTAATATA
*
90724347 AATATTTAATTTAATATAATATTA
1 AATA-TTAAATTAATATAATATTA
90724371 AACTACTAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
31 5 0.07
32 30 0.40
33 10 0.13
34 7 0.09
35 2 0.03
36 9 0.12
37 12 0.16
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (31 bp):
AATATTAAATTAATATAATATTATTAATATA
Found at i:90725963 original size:15 final size:15
Alignment explanation
Indices: 90725939--90725970 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
90725929 TATATATCCA
*
90725939 AAATATAAAAGATAT
1 AAATACAAAAGATAT
90725954 AAATACAAAAGATAT
1 AAATACAAAAGATAT
90725969 AA
1 AA
90725971 TAGTGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (15 bp):
AAATACAAAAGATAT
Found at i:90728599 original size:71 final size:71
Alignment explanation
Indices: 90728516--90728661 Score: 283
Period size: 71 Copynumber: 2.1 Consensus size: 71
90728506 TATATCCACA
*
90728516 ATGTATGTGAAAAATAATGATATTTGAAATAATTATTTTTATAATATTAAAATTTACTATACTTA
1 ATGTATGTGAAAAATAATGATATTTGAAATAATTATTTTTATAATATTAAAATTTACCATACTTA
90728581 CAATCT
66 CAATCT
90728587 ATGTATGTGAAAAATAATGATATTTGAAATAATTATTTTTATAATATTAAAATTTACCATACTTA
1 ATGTATGTGAAAAATAATGATATTTGAAATAATTATTTTTATAATATTAAAATTTACCATACTTA
90728652 CAATCT
66 CAATCT
90728658 ATGT
1 ATGT
90728662 GAAAGAAATA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (71 bp):
ATGTATGTGAAAAATAATGATATTTGAAATAATTATTTTTATAATATTAAAATTTACCATACTTA
CAATCT
Found at i:90731468 original size:34 final size:34
Alignment explanation
Indices: 90731430--90731498 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
90731420 ATTTTCTCTT
*
90731430 TCAAAGTTGATTCTCTGGTTCTCATTCCCTTTTA
1 TCAAAGTTGAGTCTCTGGTTCTCATTCCCTTTTA
*
90731464 TCAAAGTTGAGTCTCTGGTTCTCCTTCCCTTTTA
1 TCAAAGTTGAGTCTCTGGTTCTCATTCCCTTTTA
90731498 T
1 T
90731499 TTTCTTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.16, C:0.25, G:0.13, T:0.46
Consensus pattern (34 bp):
TCAAAGTTGAGTCTCTGGTTCTCATTCCCTTTTA
Found at i:90736307 original size:44 final size:44
Alignment explanation
Indices: 90736257--90736345 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
90736247 AAACTACTTT
90736257 TATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAACTTGTG
1 TATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAACTTGTG
90736301 TATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAACTTGTG
1 TATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAACTTGTG
90736345 T
1 T
90736346 TCTACTTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.20, C:0.04, G:0.22, T:0.53
Consensus pattern (44 bp):
TATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAACTTGTG
Found at i:90741656 original size:68 final size:68
Alignment explanation
Indices: 90741545--90741693 Score: 244
Period size: 68 Copynumber: 2.2 Consensus size: 68
90741535 TCGGAATCAA
**
90741545 AAGTCCGCCAAGACAATAAACATGAGATCATATTGTGTAAGACCATAGCTCAGCTATGGTAACAT
1 AAGTCCGCCAAGACAATAAACATGAGATCATATTGTGTAAGACCATAGCTCAGCTATGACAACAT
90741610 ATG
66 ATG
* * *
90741613 AAGTCCGCCAGGACAATAAACATGGGATCATATTGTGTGAGACCATAGCTCAGCTATGACAACAT
1 AAGTCCGCCAAGACAATAAACATGAGATCATATTGTGTAAGACCATAGCTCAGCTATGACAACAT
90741678 ATG
66 ATG
*
90741681 AAGTCTGCCAAGA
1 AAGTCCGCCAAGA
90741694 TTGTAACACC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (68 bp):
AAGTCCGCCAAGACAATAAACATGAGATCATATTGTGTAAGACCATAGCTCAGCTATGACAACAT
ATG
Found at i:90743472 original size:43 final size:43
Alignment explanation
Indices: 90743399--90743485 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
90743389 GTTACATGAA
* *
90743399 TCGCATCCATCATGAACTCGGACCATTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCATTCAACGAGCTCGGATGC
* *
90743442 TCGCATTCATAATGAACTTAGACC-TCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCAT-TCAACGAGCTCGGATGC
90743485 T
1 T
90743486 ACATACCTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.03
43 38 0.97
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCATTCAACGAGCTCGGATGC
Found at i:90748226 original size:33 final size:33
Alignment explanation
Indices: 90748182--90748249 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
90748172 TAAACACTTG
90748182 ATCTTGAAGTAAGTAATTTGATGATCGAGTTTA
1 ATCTTGAAGTAAGTAATTTGATGATCGAGTTTA
*
90748215 ATCTTGGAGTAAGTAATTTGATGATCGAGTTTA
1 ATCTTGAAGTAAGTAATTTGATGATCGAGTTTA
90748248 AT
1 AT
90748250 AGTATCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (33 bp):
ATCTTGAAGTAAGTAATTTGATGATCGAGTTTA
Found at i:90748766 original size:29 final size:29
Alignment explanation
Indices: 90748724--90748781 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
90748714 AACACCCTTA
90748724 ACCCATATCCGTCACTGAAACTGGAATAC
1 ACCCATATCCGTCACTGAAACTGGAATAC
*
90748753 ACCCGTATCCGTCACTGAAACTGGAATAC
1 ACCCATATCCGTCACTGAAACTGGAATAC
90748782 GTAGTATTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.21
Consensus pattern (29 bp):
ACCCATATCCGTCACTGAAACTGGAATAC
Found at i:90751867 original size:22 final size:22
Alignment explanation
Indices: 90751825--90751866 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
90751815 ATTTTTTTAA
90751825 AATTATAAAAAATCATAAAAAT
1 AATTATAAAAAATCATAAAAAT
*
90751847 AATTATAAAATA-CATAAAAA
1 AATTATAAAAAATCATAAAAA
90751867 AAGCCCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
AATTATAAAAAATCATAAAAAT
Found at i:90752231 original size:10 final size:9
Alignment explanation
Indices: 90752094--90752233 Score: 63
Period size: 9 Copynumber: 15.0 Consensus size: 9
90752084 CACTTTATAA
90752094 AATTTTT-T
1 AATTTTTAT
*
90752102 ATTTTTTAT
1 AATTTTTAT
*
90752111 -ATTTCTAT
1 AATTTTTAT
90752119 -ATATTTTAT
1 AAT-TTTTAT
90752128 AATTAATTTTAT
1 AA-T--TTTTAT
90752140 AATTTTTAT
1 AATTTTTAT
** *
90752149 AAAAATTTAC
1 -AATTTTTAT
90752159 AATTTTTAT
1 AATTTTTAT
*
90752168 -ATTTTTTT
1 AATTTTTAT
*
90752176 CGATTTTTAT
1 -AATTTTTAT
*
90752186 ACTTTTTAT
1 AATTTTTAT
90752195 ATATTTTTATT
1 A-ATTTTTA-T
* * *
90752206 AAAATATAAT
1 -AATTTTTAT
90752216 AATTTTTAT
1 AATTTTTAT
*
90752225 AAATTTTAT
1 AATTTTTAT
90752234 TGATTTTATT
Statistics
Matches: 99, Mismatches: 22, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
8 21 0.21
9 40 0.40
10 21 0.21
11 7 0.07
12 10 0.10
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:90752239 original size:19 final size:19
Alignment explanation
Indices: 90752160--90752240 Score: 51
Period size: 19 Copynumber: 4.3 Consensus size: 19
90752150 AAAATTTACA
*
90752160 ATTTTTAT--ATTTTTTTCG
1 ATTTTTATAAATTTTATT-G
**
90752178 ATTTTTATACTTTTTATAT-
1 ATTTTTATAAATTTTAT-TG
* * * *
90752197 ATTTTTATTAAAATATAATA
1 ATTTTTA-TAAATTTTATTG
90752217 ATTTTTATAAATTTTATTG
1 ATTTTTATAAATTTTATTG
90752236 ATTTT
1 ATTTT
90752241 ATTTTTTATT
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
18 8 0.17
19 21 0.45
20 17 0.36
21 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTATAAATTTTATTG
Found at i:90759735 original size:11 final size:11
Alignment explanation
Indices: 90759719--90759749 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
90759709 AGAGCTGTAA
90759719 TGTAATAGAGT
1 TGTAATAGAGT
90759730 TGTAATAGAGT
1 TGTAATAGAGT
90759741 TGTAATAGA
1 TGTAATAGA
90759750 ATGAAGCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.35
Consensus pattern (11 bp):
TGTAATAGAGT
Found at i:90764605 original size:2 final size:2
Alignment explanation
Indices: 90764598--90764633 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
90764588 GGAAAGGTAA
90764598 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90764634 TTACTTAAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90772706 original size:39 final size:39
Alignment explanation
Indices: 90772598--90772714 Score: 173
Period size: 39 Copynumber: 3.0 Consensus size: 39
90772588 TAACAACTAT
* * *
90772598 CAAAATCTCTCAACTATTACT-GATTTCCCTATTGGAAAC
1 CAAAATCTCTCAACTATCACTAAATTT-TCTATTGGAAAC
*
90772637 CAAAATCTCTCAAATTATCACTAAATTTTCTATTGGAAAC
1 CAAAATCTCTC-AACTATCACTAAATTTTCTATTGGAAAC
90772677 CAAAATCTCTCAACTATCACTAAATTTTCTATTGGAAA
1 CAAAATCTCTCAACTATCACTAAATTTTCTATTGGAAA
90772715 ATCAATTTTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
39 37 0.52
40 30 0.42
41 4 0.06
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (39 bp):
CAAAATCTCTCAACTATCACTAAATTTTCTATTGGAAAC
Found at i:90772769 original size:78 final size:79
Alignment explanation
Indices: 90772656--90772834 Score: 220
Period size: 78 Copynumber: 2.3 Consensus size: 79
90772646 TCAAATTATC
* * *
90772656 ACTAAATTTTCTATTGGAAACCAAAATCTCTCAACTA-TCACT-AAATTTTCTATTGGAAAATCA
1 ACTAAAATTTCTATTGGAAACCAAAATCTCTCAACTATTC-CTAAAATTCT-TATTGAAAAATCA
*
90772719 -ATTTTGTAACAAAAT
64 TATTTTATAACAAAAT
* * *
90772734 ACTAAAATTTCTATTGAAAACCAAAATCTTTCAACTATTCCTAAAATTCTTATTGAAAAATGATT
1 ACTAAAATTTCTATTGGAAACCAAAATCTCTCAACTATTCCTAAAATTCTTATTGAAAAATCA-T
* *
90772799 TTTTTATAACCAAAT
65 ATTTTATAACAAAAT
*
90772814 ACTAAAATTCCTATTGGAAAC
1 ACTAAAATTTCTATTGGAAAC
90772835 ACACGTTTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 47 0.55
79 8 0.09
80 31 0.36
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (79 bp):
ACTAAAATTTCTATTGGAAACCAAAATCTCTCAACTATTCCTAAAATTCTTATTGAAAAATCATA
TTTTATAACAAAAT
Found at i:90772778 original size:39 final size:40
Alignment explanation
Indices: 90772598--90772792 Score: 149
Period size: 39 Copynumber: 5.0 Consensus size: 40
90772588 TAACAACTAT
* *
90772598 CAAAATCTCTCAACTATT-ACT--GATTTCCCTATTGGAAAC
1 CAAAATCTCTCAACTATTCACTAAAATTT--CTATTGAAAAC
* * *
90772637 CAAAATCTCTCAAAT-TATCACTAAATTTTCTATTGGAAAC
1 CAAAATCTCTCAACTAT-TCACTAAAATTTCTATTGAAAAC
* *
90772677 CAAAATCTCTCAACTA-TCACTAAATTTTCTATTGGAAAAT
1 CAAAATCTCTCAACTATTCACTAAAATTTCTATT-GAAAAC
* * * * *
90772717 C-AATTTTGT-AACAAAAT-ACTAAAATTTCTATTGAAAAC
1 CAAAATCTCTCAAC-TATTCACTAAAATTTCTATTGAAAAC
*
90772755 CAAAATCTTTCAACTATTC-CTAAAA-TTCTTATTGAAAA
1 CAAAATCTCTCAACTATTCACTAAAATTTC-TATTGAAAA
90772793 ATGATTTTTT
Statistics
Matches: 127, Mismatches: 17, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
38 13 0.10
39 74 0.58
40 37 0.29
42 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (40 bp):
CAAAATCTCTCAACTATTCACTAAAATTTCTATTGAAAAC
Found at i:90772988 original size:22 final size:22
Alignment explanation
Indices: 90772929--90772982 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
90772919 CAAAATTTAA
90772929 TTTTATAATTTGT-A-AAATTGT
1 TTTTATAATTT-TCATAAATTGT
90772950 TTTTATAATTTTCATAAATT-T
1 TTTTATAATTTTCATAAATTGT
*
90772971 TTTTATGATTTT
1 TTTTATAATTTT
90772983 ATATAATACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 24 0.80
22 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (22 bp):
TTTTATAATTTTCATAAATTGT
Found at i:90773962 original size:16 final size:16
Alignment explanation
Indices: 90773941--90773974 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
90773931 AGTGCTTAGA
90773941 GTTTAT-GGGTTTAGGG
1 GTTTATGGGGTTT-GGG
90773957 GTTTATGGGGTTTGGG
1 GTTTATGGGGTTTGGG
90773973 GT
1 GT
90773975 CAAGGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.09, C:0.00, G:0.47, T:0.44
Consensus pattern (16 bp):
GTTTATGGGGTTTGGG
Found at i:90774077 original size:32 final size:35
Alignment explanation
Indices: 90774029--90774100 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 35
90774019 GGTTTAGGCT
* *
90774029 TTTTTTTAAAAGTAAATTAAATTAGGGTTTA-AGG
1 TTTTTTTAAAAGTAAATTAAATTAGGATTTAGAGA
90774063 TTTTTTT-AAA-TAAATTAAATTAGGATTTAGAGA
1 TTTTTTTAAAAGTAAATTAAATTAGGATTTAGAGA
90774096 TTTTT
1 TTTTT
90774101 AAAAATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
32 18 0.51
33 10 0.29
34 7 0.20
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (35 bp):
TTTTTTTAAAAGTAAATTAAATTAGGATTTAGAGA
Found at i:90774107 original size:33 final size:32
Alignment explanation
Indices: 90774031--90774108 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
90774021 TTTAGGCTTT
* * *
90774031 TTTTTAAAAGTAAATTAAATTAGGGTTTAAGG
1 TTTTTAAAAATAAATTAAATTAGGATTTAAGA
**
90774063 TTTTTTTAAATAAATTAAATTAGGATTTAGAGA
1 TTTTTAAAAATAAATTAAATTAGGATTTA-AGA
90774096 TTTTTAAAAATAA
1 TTTTTAAAAATAA
90774109 TTTTGTGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 25 0.66
33 13 0.34
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (32 bp):
TTTTTAAAAATAAATTAAATTAGGATTTAAGA
Found at i:90774557 original size:128 final size:126
Alignment explanation
Indices: 90774210--90774717 Score: 579
Period size: 128 Copynumber: 4.1 Consensus size: 126
90774200 TTTTGCATTT
* * * * * *
90774210 AGTAGTTTTTAAAAAAATAATTTTGATAAGGCGGTTCTG-AAAAATAGTGTCAAAAATGTTTCAA
1 AGTAGTTTTTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAAAAGTGTCAAAAACGTTTCAA
* * *
90774274 GCAGGATGTACTGTCAGCAAAAGTACTAAAAAAAGCTCCCACGTG-ACGCTC-TTTTCTAC
66 GCAGGATGCACTGTCAACAAAAGTACTAAAAAAAGCTCCCACGTGAATGCTCTTTTTCTAC
* * *** * * * *
90774333 AGTAGTTTCTG-AAAAATAATTTTAAGTAGATATTTTTGAAAAAATAGTGTAAAAAACGCTTCAA
1 AGTAGTTTTTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAAAAGTGTCAAAAACGTTTCAA
* * * * *
90774397 GCAGGATGCACTATCAACAAAAGT-CTTGAAAAAAGCTCTCACGTGGATGCTATTTTTCTAC
66 GCAGGATGCACTGTCAACAAAAGTAC-TAAAAAAAGCTCCCACGTGAATGCTCTTTTTCTAC
* *
90774458 AGTAGTTTTTGAAAAAGTAATTTTGAGAAGACGGTTCTGAAAAAAAAAGTGT-AAAAACCTGCTT
1 AGTAGTTTTTGAAAAAATAATTTTAAGAAGACGGTTCTG-AAAAAAAAGTGTCAAAAA-C-G-TT
* *
90774522 T-AAGCAGGATGCACTGTCAACAAAAGTACTAAAAAAAGCTCCCACATGAATGCTCTTTTTCTAT
62 TCAAGCAGGATGCACTGTCAACAAAAGTACTAAAAAAAGCTCCCACGTGAATGCTCTTTTTCTAC
* *
90774586 ATTAGTTTTTGAAAAAATAATTTTAAGAAAACGGTTCTGAAAAAATAA-TGTCAAAAACGTTTCA
1 AGTAGTTTTTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAA-AAGTGTCAAAAACGTTTCA
* *
90774650 CGCAGGATGCACTGAT-AGCAAAAGTACTGAAAAAAA--TCCCACGTGAATGCTCTTTTTCTAC
65 AGCAGGATGCACTG-TCAACAAAAGTACT-AAAAAAAGCTCCCACGTGAATGCTCTTTTTCTAC
*
90774711 AATAGTT
1 AGTAGTT
90774718 ACAGCTTGGC
Statistics
Matches: 324, Mismatches: 46, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
122 20 0.06
123 69 0.21
124 4 0.01
125 50 0.15
126 51 0.16
127 30 0.09
128 97 0.30
129 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (126 bp):
AGTAGTTTTTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAAAAGTGTCAAAAACGTTTCAA
GCAGGATGCACTGTCAACAAAAGTACTAAAAAAAGCTCCCACGTGAATGCTCTTTTTCTAC
Found at i:90776062 original size:31 final size:31
Alignment explanation
Indices: 90776027--90776089 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
90776017 TCAACCAATC
90776027 CAAAGCACATTCAAATACATTTAAAATATGT
1 CAAAGCACATTCAAATACATTTAAAATATGT
* *
90776058 CAAAGCACGTTTAAATACATTTAAAATATGT
1 CAAAGCACATTCAAATACATTTAAAATATGT
90776089 C
1 C
90776090 TAATTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (31 bp):
CAAAGCACATTCAAATACATTTAAAATATGT
Found at i:90778456 original size:40 final size:39
Alignment explanation
Indices: 90778401--90778486 Score: 127
Period size: 40 Copynumber: 2.2 Consensus size: 39
90778391 TTTATTTATA
**
90778401 TAGCCGAAGCTATTTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATTTCAAACCGCACACCAAGTGCCA-TTT
* *
90778441 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATTTCAAACCGCACACCAAGTGCCATTT
90778480 TAGCCGA
1 TAGCCGA
90778487 TAAGTCGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.24
40 32 0.76
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (39 bp):
TAGCCGAAGCTATTTCAAACCGCACACCAAGTGCCATTT
Found at i:90780269 original size:13 final size:14
Alignment explanation
Indices: 90780245--90780273 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
90780235 GTTAATAGGG
90780245 TTTTCAATTTCAAT
1 TTTTCAATTTCAAT
90780259 TTTTCAA-TTCAAT
1 TTTTCAATTTCAAT
90780272 TT
1 TT
90780274 CAATCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTCAATTTCAAT
Found at i:90781119 original size:8 final size:8
Alignment explanation
Indices: 90781106--90781139 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
90781096 TTCTTTTATT
90781106 TAATATAA
1 TAATATAA
90781114 TAATATAA
1 TAATATAA
* *
90781122 TAATCTTA
1 TAATATAA
90781130 TAATATAA
1 TAATATAA
90781138 TA
1 TA
90781140 TTATTTTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (8 bp):
TAATATAA
Found at i:90788075 original size:46 final size:45
Alignment explanation
Indices: 90788016--90788189 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
90788006 GTAATTCGCC
* *
90788016 CCTAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
90788061 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGAACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * ** *
90788111 -CTCA-CGAACTCGAACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
90788154 CCGTAAGTGAACTCGGACTCAACTCAACTAGTTCGG
1 CC-TAAGTGAACTCGAACTCAACTCAACGAGTTCGG
90788190 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 56 0.53
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCTAAGTGAACTCGAACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:90788132 original size:93 final size:93
Alignment explanation
Indices: 90788023--90788193 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
90788013 GCCCCTAAGT
* ** *
90788023 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
90788088 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
90788116 GAACTCGAACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
90788181 CTAGTTCGGATGC
66 CGAGTTCGGATGC
90788194 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:90791515 original size:8 final size:8
Alignment explanation
Indices: 90791502--90791535 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
90791492 TTTATTTATT
90791502 TAATATAA
1 TAATATAA
*
90791510 TTATATAA
1 TAATATAA
*
90791518 TAATATTA
1 TAATATAA
90791526 TAATATAA
1 TAATATAA
90791534 TA
1 TA
90791536 TTATTTTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
TAATATAA
Found at i:90801419 original size:42 final size:43
Alignment explanation
Indices: 90801355--90801457 Score: 129
Period size: 42 Copynumber: 2.4 Consensus size: 43
90801345 ATCGACTTGA
90801355 GATTTACGTGTAAGACCATGTCTGGGACA-TCAGCATCG-TATAT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGT-AGCATCGATATAT
* * *
90801398 GATTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACAGTAGCATCGATATAT
* *
90801441 GATTACATGTAAGACCA
1 GATTTCGTGTAAGACCA
90801458 CGTTTGGAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 28 0.54
43 24 0.46
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGTAGCATCGATATAT
Found at i:90801474 original size:43 final size:43
Alignment explanation
Indices: 90801317--90801475 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
90801307 GGTGTGATAT
**
90801317 CATGTAAGACCACGTCTGGGATGTTGGCATCGACT-TGA-GATTTA
1 CATGTAAGACCACGTCTGGGACATTGGCATCGA-TAT-ATGA-TTA
* * ** *
90801361 CGTGTAAGACCATGTCTGGGACATCAGCATCG-TATATGATTT
1 CATGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTA
* ** * *
90801403 CGTGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTA
1 CATGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTA
* *
90801446 CATGTAAGACCACGTTTGGAACATTGGCAT
1 CATGTAAGACCACGTCTGGGACATTGGCAT
90801476 TGTACAAGCT
Statistics
Matches: 93, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 32 0.34
43 35 0.38
44 26 0.28
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACATTGGCATCGATATATGATTA
Found at i:90802541 original size:41 final size:40
Alignment explanation
Indices: 90802486--90802571 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
90802476 ATATAATCAC
* *
90802486 TTTTATTATATTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAGTATATTTTTAATTTGTGTATTATTTTAAGAATTG
* * * * *
90802526 TTTTAGTATCATTTTTTATTTGTTTCTTATTTTAATATTTG
1 TTTTAGTAT-ATTTTTAATTTGTGTATTATTTTAAGAATTG
90802567 TTTTA
1 TTTTA
90802572 AATGTATTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.66
Consensus pattern (40 bp):
TTTTAGTATATTTTTAATTTGTGTATTATTTTAAGAATTG
Found at i:90805261 original size:28 final size:28
Alignment explanation
Indices: 90805206--90805262 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
90805196 ATTATAAAAT
* *
90805206 AAAAATTAATTAAAATTACATAAATGAA
1 AAAAATTAAATAAAATTACAAAAATGAA
*
90805234 AAAAATTAAATAATATT-CAAAAATTGAA
1 AAAAATTAAATAAAATTACAAAAA-TGAA
90805262 A
1 A
90805263 TTAACCCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAAATTAAATAAAATTACAAAAATGAA
Found at i:90813796 original size:35 final size:35
Alignment explanation
Indices: 90813750--90813821 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
90813740 GTTCATTATG
*
90813750 TTTTATTATTGAATTTAATTATCAAGGCTGTTCAT
1 TTTTATCATTGAATTTAATTATCAAGGCTGTTCAT
*
90813785 TTTTATCATTGAATTTAATTGTCAAGGCTGTTCAT
1 TTTTATCATTGAATTTAATTATCAAGGCTGTTCAT
90813820 TT
1 TT
90813822 ATATTGGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.51
Consensus pattern (35 bp):
TTTTATCATTGAATTTAATTATCAAGGCTGTTCAT
Found at i:90814500 original size:58 final size:61
Alignment explanation
Indices: 90814438--90814577 Score: 171
Period size: 61 Copynumber: 2.3 Consensus size: 61
90814428 TTAATTCATA
* * * *
90814438 TAATAATAATTATATTAAGAATGTTATTAAA-T-TGTA-TATTA-TTTTATTAAATTGTATT
1 TAATAATAATTATATTAA-AATATGATTAAATTATGTATTATTATTTTTATTAAAATATATT
* *
90814496 TAATAATAATTATATTAAAATATGATTAAATTATTTATTTTTATTTTTATTAAAATATATT
1 TAATAATAATTATATTAAAATATGATTAAATTATGTATTATTATTTTTATTAAAATATATT
* *
90814557 TAACAATAATTTTATTAAAAT
1 TAATAATAATTATATTAAAAT
90814578 TTAATAACAA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 10 0.14
58 19 0.27
59 3 0.04
60 4 0.06
61 34 0.49
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (61 bp):
TAATAATAATTATATTAAAATATGATTAAATTATGTATTATTATTTTTATTAAAATATATT
Found at i:90814569 original size:26 final size:25
Alignment explanation
Indices: 90814540--90814590 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
90814530 TTATTTTTAT
*
90814540 TTTTATTAAAATATATTTAACAATAA
1 TTTTATTAAAATATA-ATAACAATAA
*
90814566 TTTTATTAAAATTTAATAACAATAA
1 TTTTATTAAAATATAATAACAATAA
90814591 CAATAATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTATTAAAATATAATAACAATAA
Found at i:90814715 original size:44 final size:44
Alignment explanation
Indices: 90814665--90814792 Score: 213
Period size: 44 Copynumber: 2.9 Consensus size: 44
90814655 TACTATTACA
90814665 AACCAAACACAAGAATACTATTACAGCTCTATTCCATTCCATTC
1 AACCAAACACAAGAATACTATTACAGCTCTATTCCATTCCATTC
90814709 AACCAAACACAAGAATACTATTACAGCTCTATTCCATTCCATTC
1 AACCAAACACAAGAATACTATTACAGCTCTATTCCATTCCATTC
*
90814753 AACCAAACA-ATGGAATTACTGATTACAGCTCTATTCCATT
1 AACCAAACACA-AGAA-TACT-ATTACAGCTCTATTCCATT
90814793 ACAACTTTAT
Statistics
Matches: 80, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
43 1 0.01
44 56 0.70
45 4 0.05
46 19 0.24
ACGTcount: A:0.38, C:0.27, G:0.06, T:0.28
Consensus pattern (44 bp):
AACCAAACACAAGAATACTATTACAGCTCTATTCCATTCCATTC
Found at i:90814795 original size:16 final size:16
Alignment explanation
Indices: 90814774--90814825 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
90814764 GGAATTACTG
90814774 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* * *
90814790 ATTACAACTTTATTCA
1 ATTACAGCTCTATTCC
90814806 ATTACAGC-CATATTCC
1 ATTACAGCTC-TATTCC
90814822 ATTA
1 ATTA
90814826 TAATGAACCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:90815010 original size:2 final size:2
Alignment explanation
Indices: 90815003--90815029 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
90814993 TACCTAAAAT
90815003 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
90815030 TTAATCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90816013 original size:46 final size:46
Alignment explanation
Indices: 90815956--90816047 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
90815946 TAAAGAAAAA
90815956 TTAAGAAACTATGATTTGACCAAGGAATAATAACAGCAGATTCATT
1 TTAAGAAACTATGATTTGACCAAGGAATAATAACAGCAGATTCATT
90816002 TTAAGAAACTATGATTTGACCAAGGAATAATAACAGCAGATTCATT
1 TTAAGAAACTATGATTTGACCAAGGAATAATAACAGCAGATTCATT
90816048 AACTTAGCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (46 bp):
TTAAGAAACTATGATTTGACCAAGGAATAATAACAGCAGATTCATT
Found at i:90816943 original size:15 final size:15
Alignment explanation
Indices: 90816923--90816952 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90816913 TCTCTTTTCT
*
90816923 TTATACAAATAAGCA
1 TTATACAAAGAAGCA
90816938 TTATACAAAGAAGCA
1 TTATACAAAGAAGCA
90816953 AGTACATTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.13, G:0.10, T:0.23
Consensus pattern (15 bp):
TTATACAAAGAAGCA
Found at i:90821444 original size:5 final size:5
Alignment explanation
Indices: 90821434--90821465 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
90821424 TTGTGTGTTC
90821434 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
90821466 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:90821448 original size:9 final size:9
Alignment explanation
Indices: 90821434--90821464 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
90821424 TTGTGTGTTC
90821434 TTTATTTTA
1 TTTATTTTA
90821443 TTTATTTTA
1 TTTATTTTA
90821452 TTTTATTTTA
1 -TTTATTTTA
90821462 TTT
1 TTT
90821465 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:90825870 original size:5 final size:5
Alignment explanation
Indices: 90825860--90825891 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
90825850 TTGTGTGTTC
90825860 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
90825892 TCAATAGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:90825874 original size:9 final size:9
Alignment explanation
Indices: 90825860--90825890 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
90825850 TTGTGTGTTC
90825860 TTTATTTTA
1 TTTATTTTA
90825869 TTTATTTTA
1 TTTATTTTA
90825878 TTTTATTTTA
1 -TTTATTTTA
90825888 TTT
1 TTT
90825891 TTCAATAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:90826518 original size:18 final size:19
Alignment explanation
Indices: 90826479--90826521 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
90826469 ACAGACTTCA
*
90826479 TAAAAATACAAAATATTAT
1 TAAAAATACAAAACATTAT
*
90826498 TAAAAATTCAAAACATT-T
1 TAAAAATACAAAACATTAT
90826516 TAAAAA
1 TAAAAA
90826522 GTTGATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAAATACAAAACATTAT
Found at i:90827372 original size:33 final size:33
Alignment explanation
Indices: 90827333--90827398 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
90827323 TGGAGTTCAC
90827333 CCAAACTATAAATGAAAAATGAAAGAATAAATT
1 CCAAACTATAAATGAAAAATGAAAGAATAAATT
90827366 CCAAACTATAAATGAAAAATGAAAGAATAAATT
1 CCAAACTATAAATGAAAAATGAAAGAATAAATT
90827399 ATACTCTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (33 bp):
CCAAACTATAAATGAAAAATGAAAGAATAAATT
Found at i:90833030 original size:46 final size:46
Alignment explanation
Indices: 90832977--90833150 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 46
90832967 TTTGGGCATC
*
90832977 CGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
* * *
90833023 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TT
* * ****
90833070 CAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACACC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
* * *
90833116 CGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90833151 GCGGCTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 56 0.55
47 28 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
Found at i:90837945 original size:41 final size:40
Alignment explanation
Indices: 90837869--90837954 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
90837859 CAAATACATT
* *
90837869 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAACAAACAAATAAAAAAT-ATAA
* * * **
90837910 TAAAACAATTCTTAAAACAACACACAAATTGAAAATATAA
1 TAAAACAAATATTAAAACAACAAACAAATAAAAAATATAA
90837950 TAAAA
1 TAAAA
90837955 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAACAAACAAATAAAAAATATAA
Found at i:90838171 original size:17 final size:17
Alignment explanation
Indices: 90838149--90838191 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
90838139 CCCATTTTTT
90838149 GGGCGGGCCTTCAGGCC
1 GGGCGGGCCTTCAGGCC
90838166 GGGCGGGCCTTCAGGCC
1 GGGCGGGCCTTCAGGCC
*
90838183 GGGCCGGCC
1 GGGCGGGCC
90838192 ATGCACACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.05, C:0.37, G:0.49, T:0.09
Consensus pattern (17 bp):
GGGCGGGCCTTCAGGCC
Found at i:90838613 original size:18 final size:18
Alignment explanation
Indices: 90838571--90838606 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
90838561 ATATAATAAA
*
90838571 TATATATATATTTTTAAT
1 TATATTTATATTTTTAAT
90838589 TATATTTATA-TTTTAAT
1 TATATTTATATTTTTAAT
90838606 T
1 T
90838607 TTAATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTTATATTTTTAAT
Found at i:90838645 original size:20 final size:20
Alignment explanation
Indices: 90838575--90838648 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
90838565 AATAAATATA
* *
90838575 TATATATTTTTAA-TTATAT
1 TATATATTTTCAATTTTTAT
*
90838594 T-TATATTTT-AATTTTAAT
1 TATATATTTTCAATTTTTAT
* **
90838612 TTTAATATAATCAATTTTTAT
1 TAT-ATATTTTCAATTTTTAT
90838633 TATATATTTTCAATTT
1 TATATATTTTCAATTT
90838649 GTGTATTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
17 2 0.05
18 13 0.30
19 2 0.05
20 16 0.37
21 10 0.23
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATATTTTCAATTTTTAT
Found at i:90838678 original size:40 final size:40
Alignment explanation
Indices: 90838634--90838714 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
90838624 AATTTTTATT
90838634 ATATATTTTCAATTTGTGTATTATTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTATTTTAAGAATTGTTTTA
** * * * * *
90838674 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTATTTTAAGAATTGTTTTA
90838714 A
1 A
90838715 ATGTATTTGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTATTTTAAGAATTGTTTTA
Found at i:90838859 original size:36 final size:36
Alignment explanation
Indices: 90838819--90838905 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
90838809 TTAACAATTT
* *
90838819 TATTTCAGGCCGGGTTTGAGCAAATTTTTAGGCCCA
1 TATTTCGGGCCGGGCTTGAGCAAATTTTTAGGCCCA
* * *
90838855 TATTTCGGGCCAGGCTTGGGTAAATTTTTAGGCCCA
1 TATTTCGGGCCGGGCTTGAGCAAATTTTTAGGCCCA
*
90838891 TATTTTGGGCCGGGC
1 TATTTCGGGCCGGGC
90838906 CGGGCCAGGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (36 bp):
TATTTCGGGCCGGGCTTGAGCAAATTTTTAGGCCCA
Found at i:90840105 original size:18 final size:17
Alignment explanation
Indices: 90840083--90840115 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
90840073 TCAAAGAATT
*
90840083 TTTTTTAAAACAATTTC
1 TTTTTTAAAAAAATTTC
90840100 TTTTTTAAAAAAATTT
1 TTTTTTAAAAAAATTT
90840116 TATCTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTTTAAAAAAATTTC
Found at i:90840350 original size:61 final size:56
Alignment explanation
Indices: 90840220--90840385 Score: 163
Period size: 61 Copynumber: 2.9 Consensus size: 56
90840210 AAACTTAATC
* * * **
90840220 AATTTAATATTAAATTAAGATAATACTTATTAAGATAAATATTAGATTAAATTTAA
1 AATTTAATATTAAATTAATAAAATACTTATTAAGATAAATATTAAATTAAAGATAA
* * *
90840276 AATTAAATTTATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAAGATAA
1 AATTTAA--TATTAAATTAATAAAATACTTAT-T--AAGATAAATATTAAATTAAAGATAA
* * *
90840337 CCATTTTAATATTAAATTAATAAAATAC-TATTAATATAAGTATTAAATT
1 --AATTTAATATTAAATTAATAAAATACTTATTAAGATAAATATTAAATT
90840386 TAATTTAATA
Statistics
Matches: 90, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
56 6 0.07
57 15 0.17
58 20 0.22
59 2 0.02
60 3 0.03
61 39 0.43
63 5 0.06
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (56 bp):
AATTTAATATTAAATTAATAAAATACTTATTAAGATAAATATTAAATTAAAGATAA
Found at i:90842738 original size:27 final size:26
Alignment explanation
Indices: 90842699--90842887 Score: 218
Period size: 27 Copynumber: 7.0 Consensus size: 26
90842689 GTTGTTTAAG
90842699 ACCCCGATTTGTAAAATTATCGAAAT
1 ACCCCGATTTGTAAAATTATCGAAAT
* * *
90842725 ATCCCCGGTTTGTAAAATTACCTAAAT
1 A-CCCCGATTTGTAAAATTATCGAAAT
* *
90842752 ACCCCCAATTTGTAAAATTACCGAAAT
1 A-CCCCGATTTGTAAAATTATCGAAAT
*
90842779 ACTCCCGATTTGTAAAATTATCAAAAT
1 AC-CCCGATTTGTAAAATTATCGAAAT
*
90842806 ACCCCCAGTTTGTAAAATTATC-AAAGT
1 ACCCCGA-TTTGTAAAATTATCGAAA-T
* **
90842833 ACCCCTAGTTTGTAAAATTATTAAAAT
1 ACCCCGA-TTTGTAAAATTATCGAAAT
90842860 ACCCCTGATTTGTAAAATTATCGAAAT
1 ACCCC-GATTTGTAAAATTATCGAAAT
90842887 A
1 A
90842888 TTCTTGTAGT
Statistics
Matches: 141, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
26 9 0.06
27 128 0.91
28 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (26 bp):
ACCCCGATTTGTAAAATTATCGAAAT
Found at i:90842836 original size:81 final size:80
Alignment explanation
Indices: 90842699--90842887 Score: 263
Period size: 81 Copynumber: 2.3 Consensus size: 80
90842689 GTTGTTTAAG
* *
90842699 ACCCCGATTTGTAAAATTATCGAAATATCCCCGGTTTGTAAAATTACCTAAATACCCCCAATTTG
1 ACCCCGATTTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTACCTAAATACCCCCAATTTG
*
90842764 TAAAATTACCGAAAT
66 TAAAATTACCAAAAT
* * * *
90842779 ACTCCCGATTTGTAAAATTATCAAAATACCCCCAGTTTGTAAAATTATC-AAAGTACCCCTAGTT
1 AC-CCCGATTTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTACCTAAA-TACCCCCAATT
**
90842843 TGTAAAATTATTAAAAT
64 TGTAAAATTACCAAAAT
90842860 ACCCCTGATTTGTAAAATTATCGAAATA
1 ACCCC-GATTTGTAAAATTATCGAAATA
90842888 TTCTTGTAGT
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
80 8 0.08
81 88 0.92
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (80 bp):
ACCCCGATTTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTACCTAAATACCCCCAATTTG
TAAAATTACCAAAAT
Found at i:90842900 original size:27 final size:27
Alignment explanation
Indices: 90842789--90842931 Score: 98
Period size: 27 Copynumber: 5.3 Consensus size: 27
90842779 ACTCCCGATT
* * * *
90842789 TGTAAAATTATCAAAATACCCCCAGT-T
1 TGTAAAATTATCGAAATA-CCTCTGTAG
* *
90842816 TGTAAAATTATC-AAAGTACCCCTAGT-T
1 TGTAAAATTATCGAAA-TACCTCT-GTAG
** * *
90842843 TGTAAAATTATTAAAATACCCCTG-ATT
1 TGTAAAATTATCGAAATACCTCTGTA-G
*
90842870 TGTAAAATTATCGAAATA-TTCTTGTAG
1 TGTAAAATTATCGAAATACCTC-TGTAG
90842897 TGTAAAATTATCGAAATACCTCTGTAG
1 TGTAAAATTATCGAAATACCTCTGTAG
*
90842924 GGTAAAAT
1 TGTAAAAT
90842932 GATTGTTTTG
Statistics
Matches: 99, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
26 9 0.09
27 84 0.85
28 6 0.06
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCTCTGTAG
Found at i:90842901 original size:81 final size:79
Alignment explanation
Indices: 90842699--90842916 Score: 249
Period size: 81 Copynumber: 2.7 Consensus size: 79
90842689 GTTGTTTAAG
* * *
90842699 ACCCCGATTTGTAAAATTATCGAAATATCCCCGGTTTGTAAAATTACCTAAATACCCCCAATTTG
1 ACCCCGATTTGTAAAATTATCGAAATAT-CCCAGTTTGTAAAATTATCGAAATACCCCCAATTTG
*
90842764 TAAAATTACCGAAAT
65 TAAAATTACCAAAAT
* * * *
90842779 ACTCCCGATTTGTAAAATTATCAAAATACCCCCAGTTTGTAAAATTATC-AAAGTACCCCTAGTT
1 AC-CCCGATTTGTAAAATTATCGAAATA-TCCCAGTTTGTAAAATTATCGAAA-TACCCCCAATT
**
90842843 TGTAAAATTATTAAAAT
63 TGTAAAATTACCAAAAT
* ** *
90842860 ACCCCTGATTTGTAAAATTATCGAAATATTCTTGTAGTGTAAAATTATCGAAATACC
1 ACCCC-GATTTGTAAAATTATCGAAATATCCCAGT-TTGTAAAATTATCGAAATACC
90842917 TCTGTAGGGT
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
80 11 0.09
81 103 0.88
82 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (79 bp):
ACCCCGATTTGTAAAATTATCGAAATATCCCAGTTTGTAAAATTATCGAAATACCCCCAATTTGT
AAAATTACCAAAAT
Found at i:90844156 original size:121 final size:121
Alignment explanation
Indices: 90843942--90844185 Score: 443
Period size: 121 Copynumber: 2.0 Consensus size: 121
90843932 TAGATTGGTG
*
90843942 CTGGGAGGACTCGGAGGTGGCTACGCTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
1 CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
* *
90844007 TTAAGTTACTTTCTTTTTGGGTTTTTTTGATGTAATAAGGTATTTTCTCTAATTTT
66 TTAAGTTACTTTCTTTTGGGGTTTTTTTGATGTAATAAGGCATTTTCTCTAATTTT
*
90844063 CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCGTATTACTTTTACATTAC
1 CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
*
90844128 TTAAGTTACTTTCTTTTGGGGTTTTTTTGATGTAATAAGGCCTTTTCTCTAATTTT
66 TTAAGTTACTTTCTTTTGGGGTTTTTTTGATGTAATAAGGCATTTTCTCTAATTTT
90844184 CT
1 CT
90844186 AGCTTTTAAT
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 118 1.00
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (121 bp):
CTGGGAGGACTCGGAGGTGGCTACACTACGAACAACTTTAAATTTTCATATTACTTTTACATTAC
TTAAGTTACTTTCTTTTGGGGTTTTTTTGATGTAATAAGGCATTTTCTCTAATTTT
Found at i:90845802 original size:63 final size:63
Alignment explanation
Indices: 90845655--90845803 Score: 165
Period size: 63 Copynumber: 2.4 Consensus size: 63
90845645 TATCTCTAGA
* * * *** *
90845655 AAAGGTGTTGATATGAGGAATGATTGCACATGCTGTGGTGCTTGTGTAAAATAAATTGGTGTT
1 AAAGGTGTTGATGTAAGGAATGATTGCACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
* ** *
90845718 AAATGTGTTGATG-CGGAGAATGATTGTACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
1 AAAGGTGTTGATGTAAG-GAATGATTGCACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
* *
90845781 GAAGGTGTTTATGTAAGGAATGA
1 AAAGGTGTTGATGTAAGGAATGA
90845804 GTGTGTGTAC
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
62 1 0.01
63 67 0.97
64 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.30, T:0.33
Consensus pattern (63 bp):
AAAGGTGTTGATGTAAGGAATGATTGCACATGATGTGGTGCTTGTGTAAAATAAACCAGAGTT
Found at i:90847624 original size:107 final size:107
Alignment explanation
Indices: 90847485--90847682 Score: 263
Period size: 107 Copynumber: 1.9 Consensus size: 107
90847475 AAATGTACGA
* * * ** *
90847485 CCATAGCTGGGCTATGGCATTTTAGTGAAAAGACCATAATTGGGTTATGGCACTGTGAACATAAG
1 CCATAGCTGGGCCATGGCATATGAGTGAAAAGACCATAACAGGGTTATGGCACTATGAACATAAG
** *
90847550 ACCATGGTTGGACCATGGCAGTATATATATGTGTGTGTAAGG
66 ACCATGGCAGGACCATGGCAATATATATATGTGTGTGTAAGG
***
90847592 CCATAGCTGGGCCATGGCATCATGA-TGAAAAGACCATAACAGGGTTATGGCACTATGAGTGTAA
1 CCATAGCTGGGCCATGGCAT-ATGAGTGAAAAGACCATAACAGGGTTATGGCACTATGAACATAA
*
90847656 GACCATGGCAGGGCCATGGCAATATAT
65 GACCATGGCAGGACCATGGCAATATAT
90847683 GTGTAAGACC
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 75 0.97
108 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (107 bp):
CCATAGCTGGGCCATGGCATATGAGTGAAAAGACCATAACAGGGTTATGGCACTATGAACATAAG
ACCATGGCAGGACCATGGCAATATATATATGTGTGTGTAAGG
Found at i:90847658 original size:33 final size:33
Alignment explanation
Indices: 90847621--90847695 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
90847611 TCATGATGAA
** *
90847621 AAGACCATAACAGGGTTATGGCACTATGA-GTGT
1 AAGACCATAACAGGGCCATGGCAATAT-ATGTGT
**
90847654 AAGACCATGGCAGGGCCATGGCAATATATGTGT
1 AAGACCATAACAGGGCCATGGCAATATATGTGT
90847687 AAGACCATA
1 AAGACCATA
90847696 GTTGGACTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 1 0.03
33 34 0.97
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (33 bp):
AAGACCATAACAGGGCCATGGCAATATATGTGT
Found at i:90854100 original size:21 final size:21
Alignment explanation
Indices: 90854074--90854134 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 21
90854064 AGATTTAATG
90854074 AATACTCCTGTTGGTTTGACC
1 AATACTCCTGTTGGTTTGACC
90854095 AATACTCCTGTTGCTTTTGGTTTGACC
1 AATACTCC---TG---TTGGTTTGACC
90854122 AATACTCCTGTTG
1 AATACTCCTGTTG
90854135 CTTTTATGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
21 11 0.32
24 4 0.12
27 19 0.56
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (21 bp):
AATACTCCTGTTGGTTTGACC
Found at i:90854122 original size:27 final size:27
Alignment explanation
Indices: 90854084--90854139 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
90854074 AATACTCCTG
90854084 TTGGTTTGACCAATACTCCTGTTGCTT
1 TTGGTTTGACCAATACTCCTGTTGCTT
90854111 TTGGTTTGACCAATACTCCTGTTGCTT
1 TTGGTTTGACCAATACTCCTGTTGCTT
90854138 TT
1 TT
90854140 ATGGATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (27 bp):
TTGGTTTGACCAATACTCCTGTTGCTT
Found at i:90862958 original size:13 final size:13
Alignment explanation
Indices: 90862940--90862964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90862930 AAAGGGAAAC
90862940 ACGGTCGTGCGAT
1 ACGGTCGTGCGAT
90862953 ACGGTCGTGCGA
1 ACGGTCGTGCGA
90862965 AAATAGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACGGTCGTGCGAT
Found at i:90864010 original size:17 final size:17
Alignment explanation
Indices: 90863988--90864040 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
90863978 GTTCGAGGAA
90863988 TTCATCATACAGGAAGT
1 TTCATCATACAGGAAGT
*
90864005 TTCATCATATAGGAA--
1 TTCATCATACAGGAAGT
*
90864020 TTCATCATACAAGAAGT
1 TTCATCATACAGGAAGT
90864037 TTCA
1 TTCA
90864041 CTTCTCTCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 13 0.42
17 18 0.58
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (17 bp):
TTCATCATACAGGAAGT
Found at i:90864025 original size:15 final size:15
Alignment explanation
Indices: 90863983--90864030 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
90863973 CTGGAGTTCG
90863983 AGGAATTCATCATAC
1 AGGAATTCATCATAC
*
90863998 AGGAAGTTTCATCATAT
1 AGGAA--TTCATCATAC
90864015 AGGAATTCATCATAC
1 AGGAATTCATCATAC
90864030 A
1 A
90864031 AGAAGTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 15 0.52
17 14 0.48
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.29
Consensus pattern (15 bp):
AGGAATTCATCATAC
Found at i:90865729 original size:13 final size:13
Alignment explanation
Indices: 90865711--90865740 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
90865701 CTGGCAATCA
*
90865711 TGTCACACGGTCG
1 TGTCACACGGGCG
90865724 TGTCACACGGGCG
1 TGTCACACGGGCG
90865737 TGTC
1 TGTC
90865741 CCTGCTAAGC
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:0.13, C:0.30, G:0.33, T:0.23
Consensus pattern (13 bp):
TGTCACACGGGCG
Found at i:90868383 original size:17 final size:17
Alignment explanation
Indices: 90868361--90868396 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
90868351 AGAATCCGAA
90868361 GACAAACATGAAAAGGG
1 GACAAACATGAAAAGGG
90868378 GACAAACATGAAAAGGG
1 GACAAACATGAAAAGGG
90868395 GA
1 GA
90868397 AATTAACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.31, T:0.06
Consensus pattern (17 bp):
GACAAACATGAAAAGGG
Found at i:90868706 original size:27 final size:27
Alignment explanation
Indices: 90868668--90868721 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
90868658 TTAAATGTAA
90868668 GACCATAGCTCGGCTATGCCATTTTAG
1 GACCATAGCTCGGCTATGCCATTTTAG
90868695 GACCATAGCTCGGCTATGCCATTTTAG
1 GACCATAGCTCGGCTATGCCATTTTAG
90868722 TGAAAATACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (27 bp):
GACCATAGCTCGGCTATGCCATTTTAG
Found at i:90874536 original size:3 final size:3
Alignment explanation
Indices: 90874528--90874556 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
90874518 TGTTCTTAAA
90874528 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
90874557 TACTTACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:90878715 original size:11 final size:11
Alignment explanation
Indices: 90878701--90878745 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
90878691 AAATAAATAT
90878701 TATTTTATTAA
1 TATTTTATTAA
*
90878712 TATTTTAATAATA
1 TATTTT-ATTA-A
*
90878725 TATTTTATTAT
1 TATTTTATTAA
90878736 TATTTTATTA
1 TATTTTATTA
90878746 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:90878728 original size:24 final size:24
Alignment explanation
Indices: 90878696--90878751 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
90878686 TAATTAAATA
90878696 AATATTATTTTATTAATATTTTAAT
1 AATA-TATTTTATTAATATTTTAAT
* *
90878721 AATATATTTTATTATTATTTTATT
1 AATATATTTTATTAATATTTTAAT
*
90878745 AGTATAT
1 AATATAT
90878752 AAAGAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AATATATTTTATTAATATTTTAAT
Found at i:90880926 original size:46 final size:46
Alignment explanation
Indices: 90880874--90881193 Score: 489
Period size: 46 Copynumber: 7.0 Consensus size: 46
90880864 AGTGTGCTCT
90880874 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
90880920 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
90880966 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
90881012 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
** *
90881058 CTGATATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
90881104 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
90881150 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
90881194 TCATGTCAAA
Statistics
Matches: 258, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 257 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:90886229 original size:24 final size:24
Alignment explanation
Indices: 90886202--90886283 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 24
90886192 GCTCTCTTTT
*
90886202 GAGCTTCCCGTTTATTGCTCTTCG
1 GAGCTTCCCGTTAATTGCTCTTCG
* * **
90886226 GAGCTTCCCGATAAATGACTCTTAT
1 GAGCTTCCCGTTAATTG-CTCTTCG
* *
90886251 GAGCTTCCCGTTAATGGCTCTCCG
1 GAGCTTCCCGTTAATTGCTCTTCG
*
90886275 AAGCTTCCC
1 GAGCTTCCC
90886284 AATATTGCCA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
24 26 0.58
25 19 0.42
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCGTTAATTGCTCTTCG
Found at i:90886254 original size:25 final size:24
Alignment explanation
Indices: 90886195--90886260 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
90886185 ATTAATGGCT
* * * *
90886195 CTCTTTTGAGCTTCCCGTTTATTG
1 CTCTTATGAGCTTCCCGATAAATG
**
90886219 CTCTTCGGAGCTTCCCGATAAATG
1 CTCTTATGAGCTTCCCGATAAATG
90886243 ACTCTTATGAGCTTCCCG
1 -CTCTTATGAGCTTCCCG
90886261 TTAATGGCTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 19 0.56
25 15 0.44
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (24 bp):
CTCTTATGAGCTTCCCGATAAATG
Found at i:90892714 original size:25 final size:26
Alignment explanation
Indices: 90892653--90892714 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 26
90892643 AATGTCAATT
90892653 TTCAAAAATAACAAA-AAAAATATTTA
1 TTCAAAAAT-ACAAACAAAAATATTTA
*
90892679 AT--AAAA-A-AAACAAAAAT-TTTA
1 TTCAAAAATACAAACAAAAATATTTA
90892700 TTCAAAAATACAAAC
1 TTCAAAAATACAAAC
90892715 TAAGCAAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 11
0.69 0.05 0.26
Matches are distributed among these distances:
21 8 0.28
22 7 0.24
23 4 0.14
24 5 0.17
25 4 0.14
26 1 0.03
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (26 bp):
TTCAAAAATACAAACAAAAATATTTA
Found at i:90893983 original size:7 final size:7
Alignment explanation
Indices: 90893967--90894020 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
90893957 ATTCCAAAAT
*
90893967 TAAACAC
1 TAAACCC
90893974 TAAACCC
1 TAAACCC
90893981 TAAACTCC
1 TAAAC-CC
90893989 -AAACCC
1 TAAACCC
*
90893995 CAAACCC
1 TAAACCC
*
90894002 CAAACCC
1 TAAACCC
*
90894009 TAAACCT
1 TAAACCC
90894016 TAAAC
1 TAAAC
90894021 TACATACCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
6 2 0.05
7 38 0.90
8 2 0.05
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.13
Consensus pattern (7 bp):
TAAACCC
Found at i:90893992 original size:14 final size:14
Alignment explanation
Indices: 90893975--90894014 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
90893965 ATTAAACACT
*
90893975 AAACCCTAAACTCC
1 AAACCCTAAACCCC
*
90893989 AAACCCCAAACCCC
1 AAACCCTAAACCCC
90894003 AAACCCTAAACC
1 AAACCCTAAACC
90894015 TTAAACTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.47, G:0.00, T:0.07
Consensus pattern (14 bp):
AAACCCTAAACCCC
Done.