Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 74 of 173
Found at i:22766376 original size:10 final size:10
Alignment explanation
Indices: 22766361--22766387 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
22766351 TTAAGTTTAG
22766361 TGTGTTTAAA
1 TGTGTTTAAA
22766371 TGTGTTTAAA
1 TGTGTTTAAA
22766381 TGTGTTT
1 TGTGTTT
22766388 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (10 bp):
TGTGTTTAAA
Found at i:22768662 original size:22 final size:21
Alignment explanation
Indices: 22768622--22768678 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
22768612 CATTAAGTCA
* *
22768622 CTTA-CCGTTCCATATCTTTTT
1 CTTACCCGTTACAT-TCCTTTT
22768643 CTTACCCGTTACATTCCTTTT
1 CTTACCCGTTACATTCCTTTT
* *
22768664 CTTACTCGTTTCATT
1 CTTACCCGTTACATT
22768679 TGCATAGTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 23 0.74
22 8 0.26
ACGTcount: A:0.14, C:0.30, G:0.05, T:0.51
Consensus pattern (21 bp):
CTTACCCGTTACATTCCTTTT
Found at i:22776471 original size:13 final size:14
Alignment explanation
Indices: 22776446--22776474 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
22776436 GTTCAATAGT
22776446 AATCCACAAAATAA
1 AATCCACAAAATAA
22776460 AATCCA-AAAATAA
1 AATCCACAAAATAA
22776473 AA
1 AA
22776475 GTTAAAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (14 bp):
AATCCACAAAATAA
Found at i:22779296 original size:28 final size:28
Alignment explanation
Indices: 22779242--22779385 Score: 229
Period size: 28 Copynumber: 5.2 Consensus size: 28
22779232 CCGCACATCC
22779242 AGTGCTATATAATC-AACTCGCACACTT
1 AGTGCTATATAATCAAACTCGCACACTT
22779269 AGTGCTATATAATCAAACTCGCACACTT
1 AGTGCTATATAATCAAACTCGCACACTT
22779297 AGTGCTATATAATCAAACTCGCACACTT
1 AGTGCTATATAATCAAACTCGCACACTT
22779325 AGTGCTATAT-ATCAAACTCGCACACTT
1 AGTGCTATATAATCAAACTCGCACACTT
* * * *
22779352 AGTGCTGTACAATTTAAACCCGCACACTT
1 AGTGCTATATAA-TCAAACTCGCACACTT
22779381 AGTGC
1 AGTGC
22779386 CAATCTCATG
Statistics
Matches: 110, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
27 39 0.35
28 52 0.47
29 19 0.17
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
AGTGCTATATAATCAAACTCGCACACTT
Found at i:22779303 original size:55 final size:54
Alignment explanation
Indices: 22779242--22779385 Score: 216
Period size: 55 Copynumber: 2.6 Consensus size: 54
22779232 CCGCACATCC
22779242 AGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTT
1 AGTGCTATATAATCAACTCGCACACTTAGTGCTATAT-ATCAAACTCGCACACTT
22779297 AGTGCTATATAATCAAACTCGCACACTTAGTGCTATATATCAAACTCGCACACTT
1 AGTGCTATATAATC-AACTCGCACACTTAGTGCTATATATCAAACTCGCACACTT
* * * *
22779352 AGTGCTGTACAATTTAAACCCGCACACTTAGTGC
1 AGTGCTATATAA--TCAACTCGCACACTTAGTGC
22779386 CAATCTCATG
Statistics
Matches: 82, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
55 41 0.50
56 40 0.49
57 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.28
Consensus pattern (54 bp):
AGTGCTATATAATCAACTCGCACACTTAGTGCTATATATCAAACTCGCACACTT
Found at i:22779848 original size:12 final size:12
Alignment explanation
Indices: 22779831--22779856 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22779821 TGGGCATACT
22779831 TATGTATATATA
1 TATGTATATATA
22779843 TATGTATATATA
1 TATGTATATATA
22779855 TA
1 TA
22779857 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:22787699 original size:27 final size:27
Alignment explanation
Indices: 22787682--22787757 Score: 143
Period size: 27 Copynumber: 2.8 Consensus size: 27
22787672 ATATTAAGTC
*
22787682 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
22787709 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
22787736 CGCACACTTAGTGCTATATAAT
1 CGCACACTTAGTGCTATATAAT
22787758 ACTAATACAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:22788277 original size:12 final size:12
Alignment explanation
Indices: 22788260--22788286 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22788250 TGGGCATACT
22788260 TATGTATATATA
1 TATGTATATATA
22788272 TATGTATATATA
1 TATGTATATATA
22788284 TAT
1 TAT
22788287 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:22796370 original size:40 final size:41
Alignment explanation
Indices: 22796285--22796400 Score: 153
Period size: 40 Copynumber: 2.9 Consensus size: 41
22796275 ATAATTAATT
*
22796285 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTCG
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCG
* * * * * *
22796326 ATACCCCTAAATTACACATATATGCCCC-GTTTGTACTTTG
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCG
*
22796366 ATACCCCTGAATTGCACATACATGCCCCTTTTTGT
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGT
22796401 GCATCGGTGA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 34 0.54
41 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (41 bp):
ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCG
Found at i:22796433 original size:81 final size:82
Alignment explanation
Indices: 22796285--22796439 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 82
22796275 ATAATTAATT
* * * *
22796285 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTAATTCGATACCCCTAAATTACACATATATG
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCGATACCACTAAACTACACATACATG
22796350 CCCC-GTTTGTACTTTG
66 CCCCTGTTTGTACTTTG
* * * * *
22796366 ATACCCCTGAATTGCACATACATGCCCCTTTTTGTGCA-TCGGTGA-CACTAAACTGCACATACG
1 ATACCCCTGAATTGCACATACATGCCCCTATTTGT-AATTCGAT-ACCACTAAACTACACATACA
22796429 TGCCCCTGTTT
64 TGCCCCTGTTT
22796440 ACACTCAGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
81 56 0.90
82 6 0.10
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.32
Consensus pattern (82 bp):
ATACCCCTGAATTGCACATACATGCCCCTATTTGTAATTCGATACCACTAAACTACACATACATG
CCCCTGTTTGTACTTTG
Found at i:22796869 original size:20 final size:21
Alignment explanation
Indices: 22796846--22796885 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22796836 GCCATATTCT
*
22796846 TTCAT-TTTTTTCTCATTTAC
1 TTCATCTTCTTTCTCATTTAC
*
22796866 TTCATCTTCTTTCTCTTTTA
1 TTCATCTTCTTTCTCATTTA
22796886 GTTGTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (21 bp):
TTCATCTTCTTTCTCATTTAC
Found at i:22804510 original size:34 final size:34
Alignment explanation
Indices: 22804413--22804511 Score: 99
Period size: 34 Copynumber: 2.9 Consensus size: 34
22804403 ACACTCACGG
* * **
22804413 AACGATAGACACGCCGTACGAAACGAGGAATCATGA
1 AACGATAG--ACGCCGCACGAAATGAGGAATCACAA
* ** *
22804449 AACGATAGACGCTGCATAAAATAAGGAATCACAA
1 AACGATAGACGCCGCACGAAATGAGGAATCACAA
*
22804483 AACGATAGATGCCGCACGAAATGAGGAAT
1 AACGATAGACGCCGCACGAAATGAGGAAT
22804512 TCAACGAATT
Statistics
Matches: 50, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
34 42 0.84
36 8 0.16
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.13
Consensus pattern (34 bp):
AACGATAGACGCCGCACGAAATGAGGAATCACAA
Found at i:22812079 original size:5 final size:5
Alignment explanation
Indices: 22812069--22812121 Score: 70
Period size: 5 Copynumber: 10.6 Consensus size: 5
22812059 TCATATATAT
* * * *
22812069 ATTCC ATTCC ATACC ATTAC ATTTC ATACC ATTCC ATTCC ATTCC ATTCC
1 ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC ATTCC
22812119 ATT
1 ATT
22812122 TTATCAAGCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTCC
Found at i:22812096 original size:15 final size:15
Alignment explanation
Indices: 22812069--22812121 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
22812059 TCATATATAT
22812069 ATTCCATTCCATACC
1 ATTCCATTCCATACC
* *
22812084 ATTACATTTCATACC
1 ATTCCATTCCATACC
*
22812099 ATTCCATTCCATTCC
1 ATTCCATTCCATACC
22812114 ATTCCATT
1 ATTCCATT
22812122 TTATCAAGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTCCATTCCATACC
Found at i:22813050 original size:23 final size:23
Alignment explanation
Indices: 22813024--22813072 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
22813014 TATCATTCGA
*
22813024 TACACGTAGTAGCCTTCATATAG
1 TACACGTAGTAGCCTTCACATAG
22813047 TACACGTAGTAGCCTTCACATAG
1 TACACGTAGTAGCCTTCACATAG
22813070 TAC
1 TAC
22813073 TACACACGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (23 bp):
TACACGTAGTAGCCTTCACATAG
Found at i:22813389 original size:51 final size:51
Alignment explanation
Indices: 22813049--22813390 Score: 329
Period size: 51 Copynumber: 6.7 Consensus size: 51
22813039 TCATATAGTA
*
22813049 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATT-TTTAT-GGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTATCGGTT
* * *
22813099 CACGTAATAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGA-CCATTATTTATCGGTT
* * * * * *
22813149 CACGTAGTAGCCTTCACACAGTACTACATACGTTACTA-AAGCTTT-TCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTA--TTTATCGGTT
* * * * * **
22813200 CACATAGTAGCATTCACTTAGTACTACACATGTGACCATCATTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTATCGGTT
* * * * *
22813251 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCA-AAGCTTCTCGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTA-TTTATCGGTT
** * * **
22813302 CATATTGTAGCCTTCACATAGTACTACACATGTGACCATTATTTATCAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTATCGGTT
*
22813353 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGACCA
22813391 ACACTTTCAC
Statistics
Matches: 235, Mismatches: 48, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
49 2 0.01
50 82 0.35
51 149 0.63
52 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (51 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTATTTATCGGTT
Found at i:22813389 original size:102 final size:102
Alignment explanation
Indices: 22813049--22813391 Score: 449
Period size: 102 Copynumber: 3.4 Consensus size: 102
22813039 TCATATAGTA
* * *** * * *
22813049 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAATTTTTAT-GGTTCACGTAATAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
* * * **
22813113 CACATAGTACTACACACGTGATCAAGT-TTTA-CGGTT
66 CACATAGTACTACACATGTGA-CCATTATTTATCAATT
* * * * *
22813149 CACGTAGTAGCCTTCACACAGTACTACATACGTTACTAAAGCTTTTCGGTACACATAGTAGCATT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
* *
22813214 CACTTAGTACTACACATGTGACCATCATTTATCAATT
66 CACATAGTACTACACATGTGACCATTATTTATCAATT
* * *
22813251 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGTAGCCTT
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
22813316 CACATAGTACTACACATGTGACCATTATTTATCAATT
66 CACATAGTACTACACATGTGACCATTATTTATCAATT
22813353 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
22813392 CACTTTCACT
Statistics
Matches: 211, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
100 39 0.18
101 37 0.18
102 135 0.64
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (102 bp):
CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTATCGGTACACATAGTAGCCTT
CACATAGTACTACACATGTGACCATTATTTATCAATT
Found at i:22818206 original size:40 final size:41
Alignment explanation
Indices: 22818148--22818312 Score: 167
Period size: 41 Copynumber: 4.1 Consensus size: 41
22818138 AAAATGCCGT
* * * *
22818148 AAAAGGTAAAGTATTAGCGGCATTTTT-GCATAAACGCCGC
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
* * *
22818188 AAAAAGTAACA-CAATAGCGGCATTTTTCTCGTAAACACCGT
1 AAAAGGTAA-AGCAATAGCGGCATTTTTCTCATAAACACCGC
* * *
22818229 AAAAGGTAAATCAATAGCGG-AGTTTTTCTCATAAACGCTGC
1 AAAAGGTAAAGCAATAGCGGCA-TTTTTCTCATAAACACCGC
* * *
22818270 TAAAGGCAAAGCAATAGCGGCATTTTT-ACATAAACACCGC
1 AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
22818310 AAA
1 AAA
22818313 TATTTTTTGC
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
40 36 0.36
41 64 0.63
42 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (41 bp):
AAAAGGTAAAGCAATAGCGGCATTTTTCTCATAAACACCGC
Found at i:22818296 original size:82 final size:81
Alignment explanation
Indices: 22818144--22818296 Score: 195
Period size: 82 Copynumber: 1.9 Consensus size: 81
22818134 ATTGAAAATG
* *
22818144 CCGTAAAAGGTAAAGTATTAGCGGCATTTTTGCATAAACGCCGCAAAAAGTAACACAATAGCGGC
1 CCGTAAAAGGTAAAGTAATAGCGGCATTTTTGCATAAACGCCGCAAAAAGCAACACAATAGCGGC
22818209 ATTTTTCTCGTAAACA
66 ATTTTTCTCGTAAACA
* * * *
22818225 CCGTAAAAGGTAAA-TCAATAGCGG-AGTTTTTCTCATAAACGCTGCTAAAGGCAA-AGCAATAG
1 CCGTAAAAGGTAAAGT-AATAGCGGCA-TTTTT-GCATAAACGCCGCAAAAAGCAACA-CAATAG
22818287 CGGCATTTTT
62 CGGCATTTTT
22818297 ACATAAACAC
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
80 2 0.03
81 27 0.44
82 33 0.53
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (81 bp):
CCGTAAAAGGTAAAGTAATAGCGGCATTTTTGCATAAACGCCGCAAAAAGCAACACAATAGCGGC
ATTTTTCTCGTAAACA
Found at i:22818304 original size:81 final size:81
Alignment explanation
Indices: 22818144--22818308 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 81
22818134 ATTGAAAATG
* *
22818144 CCGTAAAAGGTAAAGTATTAGCGGCATTTTTGCATAAACGCCGCAAAAAGTAACACAATAGCGGC
1 CCGTAAAAGGTAAAGTAATAGCGGCATTTTTGCATAAACGCCGCAAAAAGCAACACAATAGCGGC
* *
22818209 ATTTTTCTCGTAAACA
66 ATTTTTCACATAAACA
* * * *
22818225 CCGTAAAAGGTAAA-TCAATAGCGG-AGTTTTTCTCATAAACGCTGCTAAAGGCAA-AGCAATAG
1 CCGTAAAAGGTAAAGT-AATAGCGGCA-TTTTT-GCATAAACGCCGCAAAAAGCAACA-CAATAG
22818287 CGGCATTTTT-ACATAAACA
62 CGGCATTTTTCACATAAACA
22818306 CCG
1 CCG
22818309 CAAATATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
80 2 0.03
81 37 0.51
82 33 0.46
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (81 bp):
CCGTAAAAGGTAAAGTAATAGCGGCATTTTTGCATAAACGCCGCAAAAAGCAACACAATAGCGGC
ATTTTTCACATAAACA
Found at i:22821198 original size:29 final size:29
Alignment explanation
Indices: 22821161--22821219 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
22821151 GAATAGAAAC
* *
22821161 TATATTTTTTATTTTTAAAATACACCACA
1 TATAGTTTTTATTTTTAAAAAACACCACA
*
22821190 TATAGTTTTTATTTTTAAAAAACACTACA
1 TATAGTTTTTATTTTTAAAAAACACCACA
22821219 T
1 T
22821220 TTAAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAGTTTTTATTTTTAAAAAACACCACA
Found at i:22833955 original size:25 final size:25
Alignment explanation
Indices: 22833912--22833973 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
22833902 CCACCACTTG
*
22833912 TGAGAGCATACCAATTTATAGCTCA
1 TGAGAGCATACCAACTTATAGCTCA
** **
22833937 TGAGAGCATACTGACTTATAGCTTG
1 TGAGAGCATACCAACTTATAGCTCA
*
22833962 TGAGAGCGTACC
1 TGAGAGCATACC
22833974 GATCTACAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (25 bp):
TGAGAGCATACCAACTTATAGCTCA
Found at i:22836003 original size:23 final size:23
Alignment explanation
Indices: 22835961--22836004 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
22835951 TCTATCAAAA
*
22835961 ATTATCAAAATTAATCAAATTTT
1 ATTATCAAAATTAATAAAATTTT
22835984 ATTAT-AAAATTAATTAAAATT
1 ATTATCAAAATTAA-TAAAATT
22836005 CAACATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTATCAAAATTAATAAAATTTT
Found at i:22838501 original size:26 final size:26
Alignment explanation
Indices: 22838472--22838524 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
22838462 CAAGGAACAG
*
22838472 TATTCATCATTTTCGAAATCAGGTAA
1 TATTCATCATTTTAGAAATCAGGTAA
22838498 TATTCATCATTTTAGAAATCAGGTAA
1 TATTCATCATTTTAGAAATCAGGTAA
22838524 T
1 T
22838525 TCAATACCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (26 bp):
TATTCATCATTTTAGAAATCAGGTAA
Found at i:22847536 original size:24 final size:23
Alignment explanation
Indices: 22847503--22847548 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
22847493 AAACGAGTCT
* *
22847503 AAGAAAATAACAATAAACATAAG
1 AAGAAAATAAAAATAAAAATAAG
22847526 AAGAAACATAAAAATAAAAATAA
1 AAGAAA-ATAAAAATAAAAATAA
22847549 AACAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.13
Consensus pattern (23 bp):
AAGAAAATAAAAATAAAAATAAG
Found at i:22848625 original size:6 final size:5
Alignment explanation
Indices: 22848616--22848696 Score: 69
Period size: 5 Copynumber: 15.4 Consensus size: 5
22848606 TAATAATTAT
22848616 AATAA GAATAA ATATAA AATACAA AATAA CAATAA AA-AA TAATAA GAAT--
1 AATAA -AATAA A-ATAA AAT--AA AATAA -AATAA AATAA -AATAA -AATAA
*
22848665 AATAA AGTAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
22848697 AGAAAAAACT
Statistics
Matches: 64, Mismatches: 3, Indels: 17
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 2 0.03
5 34 0.53
6 20 0.31
7 5 0.08
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:22848658 original size:40 final size:39
Alignment explanation
Indices: 22848614--22848691 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
22848604 AATAATAATT
*
22848614 ATAATAAGAATAA-ATA-TAAAATACAAAATAACAATAAAAA
1 ATAATAAGAATAATAAAGTAAAAT--AAAATAA-AATAAAAA
22848654 ATAATAAGAATAATAAAGTAAAATAAAATAAAATAAAA
1 ATAATAAGAATAATAAAGTAAAATAAAATAAAATAAAA
22848692 TAAAAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
39 7 0.20
40 20 0.57
41 2 0.06
42 6 0.17
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.21
Consensus pattern (39 bp):
ATAATAAGAATAATAAAGTAAAATAAAATAAAATAAAAA
Found at i:22848842 original size:5 final size:5
Alignment explanation
Indices: 22848832--22848866 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
22848822 GGAAAAATAG
*
22848832 AGGGA AGGGA AGGGA AAGGA AGGGA AGGGA AGGGA
1 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA
22848867 GAGGCCGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (5 bp):
AGGGA
Found at i:22863861 original size:18 final size:18
Alignment explanation
Indices: 22863829--22863878 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
22863819 CTTTGTTCGA
* *
22863829 ACTCTCTCTTGTTCT-TC
1 ACTCTTTCTTTTTCTATC
22863846 ACTCGTTTCTTTTTCTATC
1 ACTC-TTTCTTTTTCTATC
*
22863865 TCTCTTTCTTTTTC
1 ACTCTTTCTTTTTC
22863879 CATTCTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 19 0.68
19 5 0.18
ACGTcount: A:0.06, C:0.30, G:0.04, T:0.60
Consensus pattern (18 bp):
ACTCTTTCTTTTTCTATC
Found at i:22863889 original size:19 final size:18
Alignment explanation
Indices: 22863851--22863892 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
22863841 TCTTCACTCG
*
22863851 TTTCTTTTTCTATCTCTC
1 TTTCTTTTTCCATCTCTC
22863869 TTTCTTTTTCCA--T-TC
1 TTTCTTTTTCCATCTCTC
22863884 TTTCTTTTT
1 TTTCTTTTT
22863893 TGACAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
18 11 0.48
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTCCATCTCTC
Found at i:22865055 original size:18 final size:18
Alignment explanation
Indices: 22865024--22865076 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
22865014 TTCAGAATTG
* *
22865024 TAATTGCAAATTTTTTTT
1 TAATTTCAATTTTTTTTT
22865042 TAATTTCAATTTTTTTCTT
1 TAATTTCAATTTTTTT-TT
**
22865061 TTTTTTC-ATTTTTTTT
1 TAATTTCAATTTTTTTT
22865077 ACAATCCCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 1 0.03
18 22 0.73
19 7 0.23
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.72
Consensus pattern (18 bp):
TAATTTCAATTTTTTTTT
Found at i:22866715 original size:8 final size:8
Alignment explanation
Indices: 22866702--22866728 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
22866692 TTATGAAACT
22866702 TAATTAAC
1 TAATTAAC
22866710 TAATTAAC
1 TAATTAAC
22866718 TAATTAAC
1 TAATTAAC
22866726 TAA
1 TAA
22866729 GTTGCTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (8 bp):
TAATTAAC
Found at i:22872052 original size:15 final size:15
Alignment explanation
Indices: 22872032--22872074 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
22872022 GACAGGAAAT
22872032 TATAATATGTTATCA
1 TATAATATGTTATCA
22872047 TATAATATGTTATCA
1 TATAATATGTTATCA
*
22872062 TAAAATA-GTTATC
1 TATAATATGTTATC
22872075 TCTTTTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 6 0.22
15 21 0.78
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (15 bp):
TATAATATGTTATCA
Found at i:22876723 original size:26 final size:26
Alignment explanation
Indices: 22876688--22876738 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
22876678 ATGTGAAAAG
*
22876688 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
*
22876714 GGGGTTGCTAAGTGTTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
22876739 GTTCATTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.22, G:0.35, T:0.31
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:22876826 original size:26 final size:26
Alignment explanation
Indices: 22876791--22876842 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
22876781 AATGTGAAAG
*
22876791 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
22876817 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
22876843 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:22876853 original size:103 final size:104
Alignment explanation
Indices: 22876609--22876874 Score: 437
Period size: 103 Copynumber: 2.6 Consensus size: 104
22876599 TTGTATATAA
** *
22876609 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
22876673 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
22876713 AGGGGTTGCTAAGTGTTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
22876778 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
** *
22876816 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
22876875 ATAACGGTTA
Statistics
Matches: 151, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
103 83 0.55
104 67 0.44
105 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:22884189 original size:26 final size:26
Alignment explanation
Indices: 22884146--22884196 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
22884136 TGTGAAAAGG
*
22884146 GGGTTGCTATGTGCTGATTCCCCCGA
1 GGGTTGCTAAGTGCTGATTCCCCCGA
*
22884172 GGGTTGCTAAGTGTTGATTCCCCCG
1 GGGTTGCTAAGTGCTGATTCCCCCG
22884197 GTTCATTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (26 bp):
GGGTTGCTAAGTGCTGATTCCCCCGA
Found at i:22884288 original size:27 final size:27
Alignment explanation
Indices: 22884246--22884297 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
22884236 TGAAATGTGA
*
22884246 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
22884273 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
22884298 GATTCAGCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:22884298 original size:102 final size:103
Alignment explanation
Indices: 22884067--22884332 Score: 389
Period size: 102 Copynumber: 2.6 Consensus size: 103
22884057 TGTATATAAA
** *
22884067 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCAATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCAATCTT
22884131 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
22884171 A-GGGTTGCTAAGTGTTGATTCCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATT-CCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA-ATCT
22884235 TTGAAATGTG-AA-GGGGTTGCTATGTGCTGATTCCCCCG
64 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
22884273 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGT-GTGCTAAGTGCGAGATCCACCAAT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCAAT
22884333 AACGGTTAAC
Statistics
Matches: 148, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
100 2 0.01
101 21 0.14
102 39 0.26
103 36 0.24
104 35 0.24
105 15 0.10
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCAATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:22886226 original size:50 final size:50
Alignment explanation
Indices: 22886110--22886252 Score: 205
Period size: 50 Copynumber: 2.8 Consensus size: 50
22886100 GATCATAACA
* * ** * *
22886110 TGCCAAAGCCATGTCCCAGACATGGTCTTGCATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCAG
* *
22886161 TGCCCATGCCATGTCCCAGGCATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
22886211 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22886253 TTACCCAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 48 0.59
51 34 0.41
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:22886639 original size:29 final size:31
Alignment explanation
Indices: 22886589--22886646 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
22886579 CCTCGACTCT
* *
22886589 AACTTTTTCAAAATTATGA-TTTTGCCCCTA
1 AACTTTTGCAAAATTATCATTTTTGCCCCTA
*
22886619 AACTTTTGCATAATTA-CATTTTTGCCCC
1 AACTTTTGCAAAATTATCATTTTTGCCCC
22886647 AAGGCTCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (31 bp):
AACTTTTGCAAAATTATCATTTTTGCCCCTA
Found at i:22889390 original size:79 final size:81
Alignment explanation
Indices: 22889254--22889438 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
22889244 TTGAATGATG
*
22889254 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
22889318 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* ** * **
22889333 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTTCTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
22889395 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
22889413 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22889439 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:22889445 original size:40 final size:39
Alignment explanation
Indices: 22889255--22889438 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
22889245 TGAATGATGT
* * * *
22889255 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
22889295 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
22889335 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTTCTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22889373 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22889414 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
22889439 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22889460 original size:79 final size:79
Alignment explanation
Indices: 22889307--22889471 Score: 208
Period size: 79 Copynumber: 2.1 Consensus size: 79
22889297 GGACTAAGAT
* ** **
22889307 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTTCTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTAA
*
22889372 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
22889386 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTAGCT
* *
22889450 ATATCC-GGTTAAATT
64 AAATCCGGGTTAAATC
22889465 CCGAAGG
1 CCGAAGG
22889472 TACGTGATTT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 2 0.03
79 46 0.62
80 26 0.35
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTAA
ATCCGGGTTAAATC
Found at i:22894142 original size:18 final size:18
Alignment explanation
Indices: 22894119--22894156 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22894109 ATGTTAATCG
*
22894119 AAGCTCCAATTTTGACTC
1 AAGCTCCAATTTTAACTC
*
22894137 AAGCTCCAGTTTTAACTC
1 AAGCTCCAATTTTAACTC
22894155 AA
1 AA
22894157 CTTGAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (18 bp):
AAGCTCCAATTTTAACTC
Found at i:22901964 original size:3 final size:3
Alignment explanation
Indices: 22901956--22901980 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22901946 GAGGTTACAG
22901956 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
22901981 ATACCTGGTG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22904241 original size:67 final size:67
Alignment explanation
Indices: 22904165--22904324 Score: 171
Period size: 67 Copynumber: 2.4 Consensus size: 67
22904155 GGGTTTAAAC
* *
22904165 TTATTTTTTA-TGAAAATATTGAATAAGTGAGCTATGAAAGTATTGTCTAGTT-AATGCGAGATC
1 TTATTTTTTAGTGAAAATAATGAA-AAGTGAGCTATGAAAGTATTCTCTA-TTCAATGCGAGATC
22904228 AAAA
64 AAAA
* * * *** * * *
22904232 TTATTTTTTATTAAAAATAGTGAAAAGTGAGCTATTCGAGTATTCTCTATTCAATGTGGGATTAA
1 TTATTTTTTAGTGAAAATAATGAAAAGTGAGCTATGAAAGTATTCTCTATTCAATGCGAGATCAA
22904297 AA
66 AA
22904299 TTAATTTTTTTAGTGAAAATAATGAA
1 TT-A-TTTTTTAGTGAAAATAATGAA
22904325 GAAATTGACA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
66 2 0.03
67 45 0.58
68 12 0.16
69 18 0.23
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (67 bp):
TTATTTTTTAGTGAAAATAATGAAAAGTGAGCTATGAAAGTATTCTCTATTCAATGCGAGATCAA
AA
Found at i:22904539 original size:70 final size:68
Alignment explanation
Indices: 22904409--22904543 Score: 157
Period size: 70 Copynumber: 2.0 Consensus size: 68
22904399 TTTTAAGGAG
* * * *
22904409 TTAAAATTAATTTTTAATGAAAACAGTGAAGAAGTGAGCTCTGAGAGTACTTTCTAGTCAATGTG
1 TTAAAATTAATTTTTAATAAAAACAGTGAAGAAGTGAACTATGAGAGTACTCTCTAGTCAATGTG
22904474 GGA
66 GGA
* * *
22904477 TTAAAATTAACTTTTATAATAAAAATAGTGAA-AAGATGAACTATTAGAGTA-TCCTCTCGTCAA
1 TTAAAATTAA-TTTT-TAATAAAAACAGTGAAGAAG-TGAACTATGAGAGTACT-CTCTAGTCAA
22904540 TGTG
62 TGTG
22904544 CTTATTTATA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
68 10 0.18
69 8 0.14
70 38 0.68
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (68 bp):
TTAAAATTAATTTTTAATAAAAACAGTGAAGAAGTGAACTATGAGAGTACTCTCTAGTCAATGTG
GGA
Found at i:22904847 original size:70 final size:70
Alignment explanation
Indices: 22904710--22904848 Score: 185
Period size: 70 Copynumber: 2.0 Consensus size: 70
22904700 ACTAAGTGAA
* ** *
22904710 CTATGAGAGTATTCTCTAGTTAATGTGTGATTAAAATTAACCTTTTTAATGAAAATAGTGAATAA
1 CTATGAGAGTATTCTCTAGTCAATGTGTGATTAAAATTAACCTTTTTAATGAAAATAACGAAAAA
22904775 TTGAG
66 TTGAG
*
22904780 CTATGAGAGTATTCTCTGGTCAATGTAG-GATTAAAATTAA-CTTTTTAAT-AAAACTAACGAAG
1 CTATGAGAGTATTCTCTAGTCAATGT-GTGATTAAAATTAACCTTTTTAATGAAAA-TAACGAA-
22904842 AAATTGA
63 AAATTGA
22904849 CACTTATTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
68 4 0.07
69 14 0.23
70 42 0.69
71 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.36
Consensus pattern (70 bp):
CTATGAGAGTATTCTCTAGTCAATGTGTGATTAAAATTAACCTTTTTAATGAAAATAACGAAAAA
TTGAG
Found at i:22905746 original size:12 final size:12
Alignment explanation
Indices: 22905729--22905769 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
22905719 TTATGACTTA
22905729 TCATAATTATAT
1 TCATAATTATAT
22905741 TCATAATTATAT
1 TCATAATTATAT
22905753 TC-TAA-TAT-T
1 TCATAATTATAT
22905762 T-ATAATTA
1 TCATAATTA
22905770 ACTTAATGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 5 0.19
10 5 0.19
11 3 0.11
12 14 0.52
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (12 bp):
TCATAATTATAT
Found at i:22907441 original size:31 final size:31
Alignment explanation
Indices: 22907406--22907471 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
22907396 TCATGCATGC
* * * *
22907406 ACCTTGCTAAATGGATCTCCACATTCGGCTA
1 ACCTTGCTAAATGAACCCCCACATTCGGCCA
22907437 ACCTTGCTAAATGAACCCCCACATTCGGCCA
1 ACCTTGCTAAATGAACCCCCACATTCGGCCA
22907468 ACCT
1 ACCT
22907472 ACATAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (31 bp):
ACCTTGCTAAATGAACCCCCACATTCGGCCA
Found at i:22912956 original size:26 final size:26
Alignment explanation
Indices: 22912921--22912993 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
22912911 ACACGCTAGA
* * *
22912921 AAATGAAAGCATTTGTGGCATATTTG
1 AAATGGAAGCCTTTGTGGCATATCTG
**
22912947 AAATGGAAGCCTTTGTGGTGTATCTG
1 AAATGGAAGCCTTTGTGGCATATCTG
22912973 AAATGGAAGCCTTTGTGGCAT
1 AAATGGAAGCCTTTGTGGCAT
22912994 TTTCTAAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (26 bp):
AAATGGAAGCCTTTGTGGCATATCTG
Found at i:22913425 original size:40 final size:40
Alignment explanation
Indices: 22913365--22913454 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
22913355 CCCTAAAAGC
* **
22913365 TAACAGTAAGACTAGTAAGTACGAGACGTGTGCATAGGTA
1 TAACAGTAAGACTAGGAAGTACGAGACGTGCCCATAGGTA
*
22913405 TAACACTAAGACTAGGAAGTACGAGACGTGCCCATAGGTA
1 TAACAGTAAGACTAGGAAGTACGAGACGTGCCCATAGGTA
22913445 TAACAGTAAG
1 TAACAGTAAG
22913455 GTATTTAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.20
Consensus pattern (40 bp):
TAACAGTAAGACTAGGAAGTACGAGACGTGCCCATAGGTA
Found at i:22914126 original size:23 final size:23
Alignment explanation
Indices: 22914091--22914141 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
22914081 ACAAGTATGT
22914091 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
22914114 TGTAATA-CTCCGAAAATTACTAC
1 TGTAATATC-CCGAAAATTACTAC
*
22914137 AGTAA
1 TGTAA
22914142 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:22920056 original size:35 final size:35
Alignment explanation
Indices: 22920017--22920105 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
22920007 TTGTAGGACT
* **
22920017 TATATACCGCTTACATGGTGTCACTTCGAAGGAA-C
1 TATATACCGTTTACATGGTGTCACCCCGAA-GAACC
* * *
22920052 TATATAACATTTACAAGGTGTCACCCCGAAGAACC
1 TATATACCGTTTACATGGTGTCACCCCGAAGAACC
*
22920087 TATATACTGTTTACATGGT
1 TATATACCGTTTACATGGT
22920106 TTTGCCTCGA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
34 3 0.07
35 40 0.93
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (35 bp):
TATATACCGTTTACATGGTGTCACCCCGAAGAACC
Found at i:22921822 original size:40 final size:40
Alignment explanation
Indices: 22921732--22921956 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
22921722 TTGAATGATG
* * * *
22921732 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
22921772 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
22921812 TCCAGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22921851 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22921891 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22921932 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22921957 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22921978 original size:119 final size:119
Alignment explanation
Indices: 22921732--22921979 Score: 272
Period size: 119 Copynumber: 2.1 Consensus size: 119
22921722 TTGAATGATG
* *
22921732 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
22921797 GTGCGAGATACTAATTCCAGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
22921851 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
22921914 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
22921971 TCC-GGTTAA
1 TCCGGGTTAA
22921980 ATTCCAAAGG
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 74 0.69
120 31 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:22924854 original size:38 final size:39
Alignment explanation
Indices: 22924806--22924895 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 39
22924796 GAATGACAAT
* * * *
22924806 TCATGTCTACTATTTCTGCCATTGATCTCATGTTT-TAA
1 TCATGCCTACTATTTCTGCCACTGATCGCATATTTGTAA
*
22924844 TCATGCCTACTATTTCTGCCACTGATCGCGTATTTGTAA
1 TCATGCCTACTATTTCTGCCACTGATCGCATATTTGTAA
*
22924883 TCATGCATACTAT
1 TCATGCCTACTAT
22924896 ATTGTTTCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
38 30 0.67
39 15 0.33
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.42
Consensus pattern (39 bp):
TCATGCCTACTATTTCTGCCACTGATCGCATATTTGTAA
Found at i:22925012 original size:40 final size:40
Alignment explanation
Indices: 22924963--22925082 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 40
22924953 AAAACAGAAG
* * **
22924963 TACTGGCAGTTTGTTTGCAATTCTGGTGGCTTGTCTGCAA
1 TACTAGCAGTTTGTCTGCAATTCTGGTGGCTTGTCCACAA
* * * *
22925003 TACTAGCAGTATATCTGCAATACTGGTGGCTTGTCCATAA
1 TACTAGCAGTTTGTCTGCAATTCTGGTGGCTTGTCCACAA
** *
22925043 TACTAGCAACTTGTCTACAATTCTGGTGGCTTGTCCACAA
1 TACTAGCAGTTTGTCTGCAATTCTGGTGGCTTGTCCACAA
22925083 ACTGGTGTGT
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (40 bp):
TACTAGCAGTTTGTCTGCAATTCTGGTGGCTTGTCCACAA
Found at i:22925044 original size:20 final size:20
Alignment explanation
Indices: 22925020--22925089 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
22925010 AGTATATCTG
22925020 CAATACTGGTGGCTTGTCCA
1 CAATACTGGTGGCTTGTCCA
* * *** *
22925040 TAATACTAGCAACTTGTCTA
1 CAATACTGGTGGCTTGTCCA
*
22925060 CAATTCTGGTGGCTTGTCCA
1 CAATACTGGTGGCTTGTCCA
22925080 CAA-ACTGGTG
1 CAATACTGGTG
22925090 TGTTATTGGC
Statistics
Matches: 36, Mismatches: 14, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
19 6 0.17
20 30 0.83
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (20 bp):
CAATACTGGTGGCTTGTCCA
Found at i:22936081 original size:20 final size:20
Alignment explanation
Indices: 22936033--22936083 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
22936023 AAAACCTTAG
**
22936033 TGGTATCGATATTTTTCCAC
1 TGGTATCGATATTTTTAAAC
*
22936053 -GAGTGTCGATATTTTTAAAC
1 TG-GTATCGATATTTTTAAAC
22936073 TGGTATCGATA
1 TGGTATCGATA
22936084 CCAAATTACC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (20 bp):
TGGTATCGATATTTTTAAAC
Found at i:22938821 original size:20 final size:20
Alignment explanation
Indices: 22938775--22938836 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 20
22938765 GAAAATCATT
* *
22938775 TTAAAATGATTTTAACTTTA
1 TTAAAATCATTTTAACTTGA
* * *
22938795 TTGAAATCATTTTGACTTGG
1 TTAAAATCATTTTAACTTGA
* **
22938815 TTAAAATTATTTGCACTTGA
1 TTAAAATCATTTTAACTTGA
22938835 TT
1 TT
22938837 TTAAAATGGT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.48
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:22944381 original size:15 final size:15
Alignment explanation
Indices: 22944323--22944385 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
22944313 TACATTCAAT
22944323 TTTTCACTCACTCTTTC
1 TTTTCACT--CTCTTTC
*
22944340 TTTTTCA-TCTTTTTC
1 -TTTTCACTCTCTTTC
*
22944355 TTTT--CTCGCTTTC
1 TTTTCACTCTCTTTC
22944368 TTTTCACTCTCTTT-
1 TTTTCACTCTCTTTC
22944382 TTTT
1 TTTT
22944386 GAGTTTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
13 10 0.26
14 8 0.21
15 13 0.34
17 1 0.03
18 6 0.16
ACGTcount: A:0.06, C:0.27, G:0.02, T:0.65
Consensus pattern (15 bp):
TTTTCACTCTCTTTC
Found at i:22944413 original size:19 final size:20
Alignment explanation
Indices: 22944377--22944421 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
22944367 CTTTTCACTC
*
22944377 TCTTTTTTTGAGTTTTC-TT
1 TCTTTTTTTCAGTTTTCTTT
22944396 TCTTTTTTTCA-TTGTTCTTT
1 TCTTTTTTTCAGTT-TTCTTT
22944416 TCTTTT
1 TCTTTT
22944422 GTATTTTCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 8 0.35
ACGTcount: A:0.04, C:0.13, G:0.07, T:0.76
Consensus pattern (20 bp):
TCTTTTTTTCAGTTTTCTTT
Found at i:22946547 original size:24 final size:22
Alignment explanation
Indices: 22946519--22946564 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
22946509 CCTTTTTTTT
22946519 AATTCACGAATTTTTTTTAATTTC
1 AATTCAC--ATTTTTTTTAATTTC
*
22946543 AATTCACTTTTTTTTTAATTTC
1 AATTCACATTTTTTTTAATTTC
22946565 GAATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
24 7 0.33
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.59
Consensus pattern (22 bp):
AATTCACATTTTTTTTAATTTC
Found at i:22947797 original size:31 final size:31
Alignment explanation
Indices: 22947762--22947827 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
22947752 TCATGCATGC
* * * *
22947762 ACCTTGCTAAATGGATCTCCACATTCGGCTA
1 ACCTTGCTAAATGAACCCCCACATTCGGCCA
22947793 ACCTTGCTAAATGAACCCCCACATTCGGCCA
1 ACCTTGCTAAATGAACCCCCACATTCGGCCA
22947824 ACCT
1 ACCT
22947828 ACATAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (31 bp):
ACCTTGCTAAATGAACCCCCACATTCGGCCA
Found at i:22949152 original size:26 final size:23
Alignment explanation
Indices: 22949123--22949191 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 23
22949113 TATCGGCAAA
22949123 TATGTGGTGGTTTGTCCACAATGTGT
1 TATGTGGTGGTTTGTCCACAA--T-T
* * *
22949149 TATGTGGTTGTTTATCGAC-ATT
1 TATGTGGTGGTTTGTCCACAATT
*
22949171 TATGTGGTGGTTTGTCTACAA
1 TATGTGGTGGTTTGTCCACAA
22949192 ATAGTGTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 17 0.47
23 2 0.06
25 1 0.03
26 16 0.44
ACGTcount: A:0.17, C:0.10, G:0.28, T:0.45
Consensus pattern (23 bp):
TATGTGGTGGTTTGTCCACAATT
Found at i:22949376 original size:22 final size:22
Alignment explanation
Indices: 22949348--22949392 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
22949338 ATTATGATGA
22949348 TTGATATG-ATGAGATTTATATT
1 TTGATATGTATGAGA-TTATATT
*
22949370 TTGATATGTATGTGATTATATT
1 TTGATATGTATGAGATTATATT
22949392 T
1 T
22949393 GTGTTGACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:22966030 original size:13 final size:13
Alignment explanation
Indices: 22966011--22966043 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
22966001 ATTAATTTAC
22966011 TAAATTAACCTTA
1 TAAATTAACCTTA
*
22966024 TACATTAACCTTA
1 TAAATTAACCTTA
22966037 TAAATTA
1 TAAATTA
22966044 TATTAACGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATTAACCTTA
Found at i:22970796 original size:22 final size:22
Alignment explanation
Indices: 22970768--22970810 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22970758 ATTATGATGA
22970768 TTGATATG-ATGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
*
22970790 TTGATATGTATGTGATTATAT
1 TTGATATGTATGAGATTATAT
22970811 ATGTGTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:22970819 original size:26 final size:25
Alignment explanation
Indices: 22970751--22970820 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 25
22970741 TAATAGAACT
22970751 TGTGATTAT-TATGATGATTGATATGA
1 TGTGATTATATATG-TG-TTGATATGA
* *
22970777 TGAGATT-GATAT-T-TTGATATGTA
1 TGTGATTATATATGTGTTGATATG-A
22970800 TGTGATTATATATGTGTTGAT
1 TGTGATTATATATGTGTTGAT
22970821 CTCACACTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
22 8 0.23
23 7 0.20
24 5 0.14
25 1 0.03
26 14 0.40
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (25 bp):
TGTGATTATATATGTGTTGATATGA
Found at i:22972939 original size:19 final size:19
Alignment explanation
Indices: 22972917--22972954 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22972907 TCAATCATTC
22972917 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
22972936 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
22972955 ACTCTTGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:22979273 original size:47 final size:47
Alignment explanation
Indices: 22979204--22979723 Score: 817
Period size: 47 Copynumber: 11.1 Consensus size: 47
22979194 GAAATGATAG
22979204 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
22979251 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22979298 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
22979345 TAAGGCCAAATGGTCAATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
22979392 TAAGGCCAAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22979439 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
22979486 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
22979533 TAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
22979580 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
22979627 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
22979673 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
22979720 TAAG
1 TAAG
22979724 TCTCGAAGGG
Statistics
Matches: 443, Mismatches: 29, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
46 40 0.09
47 403 0.91
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:22986492 original size:19 final size:19
Alignment explanation
Indices: 22986470--22986507 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22986460 TCAATCATCC
22986470 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
22986489 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
22986508 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:22991487 original size:20 final size:21
Alignment explanation
Indices: 22991450--22991489 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
22991440 GCATTTTAGT
*
22991450 TAAGTTTTAATTACATTTAAG
1 TAAGTTTTAATTAAATTTAAG
*
22991471 TAAG-TTTAGTTAAATTTAA
1 TAAGTTTTAATTAAATTTAA
22991490 TAAAGTGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (21 bp):
TAAGTTTTAATTAAATTTAAG
Found at i:22992582 original size:14 final size:14
Alignment explanation
Indices: 22992561--22992593 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22992551 TTTCTTTTGA
22992561 TTTA-TTTCTTTAT
1 TTTATTTTCTTTAT
*
22992574 TTTATTTTCTTTCT
1 TTTATTTTCTTTAT
22992588 TTTATT
1 TTTATT
22992594 GTTATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTCTTTAT
Found at i:22999136 original size:10 final size:11
Alignment explanation
Indices: 22999096--22999136 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
22999086 AACATAAGCA
22999096 TTTTAGTTAAG
1 TTTTAGTTAAG
* *
22999107 TTTTAATTATG
1 TTTTAGTTAAG
22999118 TTTTA-TTAAG
1 TTTTAGTTAAG
22999128 -TTTAGTTAA
1 TTTTAGTTAA
22999137 ATTTAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
9 4 0.15
10 8 0.31
11 14 0.54
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (11 bp):
TTTTAGTTAAG
Found at i:23003595 original size:21 final size:23
Alignment explanation
Indices: 23003550--23003596 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
23003540 TCACCTGCAA
* *
23003550 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
23003573 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
23003594 TAA
1 TAA
23003597 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:23011854 original size:40 final size:40
Alignment explanation
Indices: 23011678--23011900 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
23011668 TCCTCGTTCA
* * * * *
23011678 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
23011717 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
23011757 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
23011797 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
23011837 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
23011877 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23011901 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:23023263 original size:47 final size:46
Alignment explanation
Indices: 23023198--23023345 Score: 152
Period size: 47 Copynumber: 3.2 Consensus size: 46
23023188 AGCTATTGGC
* * * *
23023198 AGTTTATTTACGATTTTGGTGGCTTGTCCACGATATTGATTATCAGT
1 AGTTTATCTACAAGTTTGGTGGCTTGTCCACGATATTGATTAT-GGT
*** * * * *
23023245 AGTTTATCTGTGAGTTTGGTTGCATGTCCATGATATTGATTAATGGC
1 AGTTTATCTACAAGTTTGGTGGCTTGTCCACGATATTGATT-ATGGT
* *
23023292 AGTTTATCTACAATTTTGGTGGCTTATCCACGATATTGATTATTGGT
1 AGTTTATCTACAAGTTTGGTGGCTTGTCCACGATATTGATTA-TGGT
23023339 AGTTTAT
1 AGTTTAT
23023346 TTTTGTTACT
Statistics
Matches: 81, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
46 1 0.01
47 78 0.96
48 2 0.02
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.45
Consensus pattern (46 bp):
AGTTTATCTACAAGTTTGGTGGCTTGTCCACGATATTGATTATGGT
Found at i:23024763 original size:32 final size:34
Alignment explanation
Indices: 23024722--23024805 Score: 118
Period size: 32 Copynumber: 2.5 Consensus size: 34
23024712 TTGTCTAAGT
* *
23024722 TGTGTTAAGTAAGTTGGTGTACAATATAC-AC-A
1 TGTGTTAAGTAAGTTGGCGCACAATATACGACTA
* *
23024754 TGTGTTAAGTAAGTTGGCGCACAGTATACGCCTA
1 TGTGTTAAGTAAGTTGGCGCACAATATACGACTA
23024788 TGTGTTAAGTAAGTTGGC
1 TGTGTTAAGTAAGTTGGC
23024806 ATACTAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 26 0.57
33 1 0.02
34 19 0.41
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (34 bp):
TGTGTTAAGTAAGTTGGCGCACAATATACGACTA
Found at i:23032555 original size:16 final size:16
Alignment explanation
Indices: 23032534--23032569 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
23032524 TTTGGTTCGC
*
23032534 TGTATTGGATTAGTGG
1 TGTATTGGATTAGAGG
23032550 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
23032566 TGTA
1 TGTA
23032570 ATAGCTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:23032634 original size:44 final size:45
Alignment explanation
Indices: 23032550--23032640 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
23032540 GGATTAGTGG
* * *
23032550 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
23032595 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
23032639 TG
1 TG
23032641 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:23032821 original size:16 final size:16
Alignment explanation
Indices: 23032784--23032838 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
23032774 TTAATCATAT
*
23032784 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
23032800 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
23032815 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
23032833 -TAAAAT
1 TTAAAAT
23032839 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:23032831 original size:18 final size:18
Alignment explanation
Indices: 23032790--23032838 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
23032780 ATATTTAAAC
23032790 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
23032808 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
23032824 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
23032839 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:23032903 original size:156 final size:156
Alignment explanation
Indices: 23032691--23033161 Score: 807
Period size: 156 Copynumber: 3.0 Consensus size: 156
23032681 TATAATACCC
*
23032691 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
*
23032756 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
23032821 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
23032847 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
23032912 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
23032977 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
* *
23033003 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * * * ****
23033068 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGG
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
23033133 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTT-ATAA
23033160 TT
1 TT
23033162 CATATTCTTA
Statistics
Matches: 299, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
156 293 0.98
157 6 0.02
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:23032981 original size:18 final size:17
Alignment explanation
Indices: 23032960--23032994 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23032950 TTATTATTAA
*
23032960 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23032978 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23032995 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23036690 original size:183 final size:183
Alignment explanation
Indices: 23036382--23036756 Score: 723
Period size: 183 Copynumber: 2.0 Consensus size: 183
23036372 GATGCAACAA
23036382 AAACATGAGTAATTAACATTAAACGCATTTGAAAAAGGAACAAACTCTTTATGAATAATTATGTC
1 AAACATGAGTAATTAACATTAAACGCATTTGAAAAAGGAACAAACTCTTTATGAATAATTATGTC
23036447 AATTGAGTGTCATTTTATAATTTGATAATTTATTTAAAATAATATTATAATCAATTTGAATTAAA
66 AATTGAGTGTCATTTTATAATTTGATAATTTATTTAAAATAATATTATAATCAATTTGAATTAAA
23036512 TAAGGAATTTGAATATTATTAATTTAATAACAATTATATAAGCATCGAAATTG
131 TAAGGAATTTGAATATTATTAATTTAATAACAATTATATAAGCATCGAAATTG
23036565 AAACATGAGTAATTAACATTAAACGCATTTGAAAAAGGAACAAACTCTTTATGAATAATTATGTC
1 AAACATGAGTAATTAACATTAAACGCATTTGAAAAAGGAACAAACTCTTTATGAATAATTATGTC
*
23036630 AATTGAGTGTCATTTTTTAATTTGATAATTTATTTAAAATAATATTATAATCAATTTGAATTAAA
66 AATTGAGTGTCATTTTATAATTTGATAATTTATTTAAAATAATATTATAATCAATTTGAATTAAA
23036695 TAAGGAATTTGAATATTATTAATTTAATAACAATTATATAAGCATCGAAATTG
131 TAAGGAATTTGAATATTATTAATTTAATAACAATTATATAAGCATCGAAATTG
* *
23036748 GAACTTGAG
1 AAACATGAG
23036757 AGAATAACAT
Statistics
Matches: 189, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 189 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (183 bp):
AAACATGAGTAATTAACATTAAACGCATTTGAAAAAGGAACAAACTCTTTATGAATAATTATGTC
AATTGAGTGTCATTTTATAATTTGATAATTTATTTAAAATAATATTATAATCAATTTGAATTAAA
TAAGGAATTTGAATATTATTAATTTAATAACAATTATATAAGCATCGAAATTG
Found at i:23042448 original size:18 final size:20
Alignment explanation
Indices: 23042421--23042462 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
23042411 TTCACATGAA
23042421 TGATAGAATAAGAA-ATAT-
1 TGATAGAATAAGAATATATG
* *
23042439 TGATATAATATGAATATATG
1 TGATAGAATAAGAATATATG
23042459 TGAT
1 TGAT
23042463 TTGCATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
19 4 0.20
20 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.36
Consensus pattern (20 bp):
TGATAGAATAAGAATATATG
Found at i:23042559 original size:20 final size:18
Alignment explanation
Indices: 23042530--23042567 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 18
23042520 TTACATGCCA
23042530 AAGTAAAAAATTGATTTTT
1 AAGTAAAAAA-TGATTTTT
23042549 AAGTGAAAAAATGATTTTT
1 AAGT-AAAAAATGATTTTT
23042568 GTGGCCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (18 bp):
AAGTAAAAAATGATTTTT
Found at i:23045557 original size:47 final size:48
Alignment explanation
Indices: 23045477--23045589 Score: 142
Period size: 47 Copynumber: 2.4 Consensus size: 48
23045467 AAAGTAGAGG
* * *
23045477 ATGTGGCAGTTTATCTG-AAACTGAGGTGCCTTGTCCACT-ATATTTTT
1 ATGTGGCAGTTTATTTGCAAACAGAGGTGCCTTGTCCA-TAATATTATT
* *
23045524 ATGTGGCAGTTTATTTGCAAA-AGTGGTGGCTTGTCCATAATATTATT
1 ATGTGGCAGTTTATTTGCAAACAGAGGTGCCTTGTCCATAATATTATT
*
23045571 AAGTGGCAGTTTATTTGCA
1 ATGTGGCAGTTTATTTGCA
23045590 TTATTGGTGG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 54 0.93
48 3 0.05
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (48 bp):
ATGTGGCAGTTTATTTGCAAACAGAGGTGCCTTGTCCATAATATTATT
Found at i:23058347 original size:18 final size:18
Alignment explanation
Indices: 23058324--23058368 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
23058314 AAAATGGAAG
23058324 AATGTATATGTAT-TATAA
1 AATGTATATGTATATAT-A
*
23058342 AATGTAAATGTATATATA
1 AATGTATATGTATATATA
*
23058360 TATGTATAT
1 AATGTATAT
23058369 ATAAACTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (18 bp):
AATGTATATGTATATATA
Found at i:23058559 original size:3 final size:3
Alignment explanation
Indices: 23058551--23058605 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
23058541 AAAGTGTGTG
** * *
23058551 AAT AAT AAT AAT AAT AAT AAT GTT AAC AAT AAT AAC AAT AAAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
23058596 AAT AA- AAT AA
1 AAT AAT AAT AA
23058606 GGGTATAGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:23060229 original size:44 final size:45
Alignment explanation
Indices: 23060138--23060231 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 45
23060128 AAGACTTGTA
* ** *
23060138 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAATATCTACTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTT
* * *
23060183 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTT
23060227 TCTTC
1 TCTTC
23060232 AATCGATTCG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 26 0.62
45 16 0.38
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.32
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTACTT
Found at i:23060503 original size:132 final size:132
Alignment explanation
Indices: 23060261--23060631 Score: 564
Period size: 132 Copynumber: 2.8 Consensus size: 132
23060251 CGGGGGATAA
* * ** * *
23060261 AATTCCTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAGATCTGCCATCTTTGATCTAC
1 AATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGC
*
23060326 TCCACTACTGCTTAGGGAGATAAGATATGTAATCTTTAATCTATTCCGCTGCTGTCCAGGGAAGT
66 TCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCGCTGCTGTCCAGGGAAGT
23060391 AG
131 AG
*
23060393 AATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTG
1 AATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCT-GCCATCTTTGATCTG
* * * * *
23060457 CTCCACTACTGCTTGGGGAGACAAGATCTGAAATCTTGAATCTATTCTGCTGCTGTCCAGGGAAG
65 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCGCTGCTGTCCAGGGAAG
*
23060522 TGG
130 TAG
* * * *
23060525 AATTACTGGATTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCGTCTTTGACCTGC
1 AATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGC
23060590 TCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCT
66 TCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCT
23060632 GTTCAACTAC
Statistics
Matches: 214, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
131 1 0.00
132 212 0.99
133 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (132 bp):
AATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGC
TCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCGCTGCTGTCCAGGGAAGT
AG
Found at i:23060774 original size:100 final size:100
Alignment explanation
Indices: 23060649--23061536 Score: 1328
Period size: 100 Copynumber: 8.9 Consensus size: 100
23060639 TACAATGTCG
* * * * * *
23060649 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCACCGCACCG-TCAGGGAAGTAAGATCC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCT-AAGGAAGTAAGATCT
* *
23060713 GTCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
65 GCCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * * **
23060749 GGGAAACCAGATCCGCCGTCATAGCTTTAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCA
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
*
23060814 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* *
23060849 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAATAAGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
*
23060914 TCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * * * *
23060949 GGGAAACCAAATCCGCCGTCGTAGCTTCAATTTATTCTGCTGCACTGCTAAGGAAATAAGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
*
23061014 CCGTTGTGGCTTCAATCTTTTTAATCGTAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* **
23061049 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCA
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
* *
23061114 CCGTTGTGGCTTCAATATTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * * *
23061149 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCTGCTGCACTGCTAAGGAAATATGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
23061214 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* *
23061249 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAATAAGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
* *
23061314 TCGTTGTGGCTTCAATCTTTTTAATCACAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * * * *
23061349 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCCAAGGAAGTAAGATCTA
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
*
23061414 TCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
* * * * * *
23061449 GAGAAACCAGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTACCAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
23061514 CCGTTGTGGCTTCAATCTTTTTA
66 CCGTTGTGGCTTCAATCTTTTTA
23061537 CTTTTCAACC
Statistics
Matches: 723, Mismatches: 64, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
100 722 1.00
101 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (100 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCTG
CCGTTGTGGCTTCAATCTTTTTAATCGCAATATCA
Found at i:23061411 original size:50 final size:49
Alignment explanation
Indices: 23061357--23061531 Score: 131
Period size: 50 Copynumber: 3.5 Consensus size: 49
23061347 CAGGGAAACC
23061357 AGATCCACCGTCGTAGCTTCAATCTGCTCCGCTGTACTGCCAAGGAAGTA
1 AGATCCACCGTCGTAGCTTCAATCTGCTCCGCTGTACT-CCAAGGAAGTA
* * * * ** * ** ***
23061407 AGATCTATCGTTGTGGCTTCAATCTTTTTAATCGCAATA-T-C-AGAGAAACC
1 AGATCCACCGTCGTAGCTTCAATC-TGCT--CCGCTGTACTCCAAG-GAAGTA
*
23061457 AGATCCGCCGTCGTAGCTTCAATCTGCTCCGCTGTACTACCAAGGAAGTA
1 AGATCCACCGTCGTAGCTTCAATCTGCTCCGCTGTACT-CCAAGGAAGTA
* * *
23061507 AGATCCGCCGTTGTGGCTTCAATCT
1 AGATCCACCGTCGTAGCTTCAATCT
23061532 TTTTACTTTT
Statistics
Matches: 90, Mismatches: 27, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
47 5 0.06
48 1 0.01
49 4 0.04
50 70 0.78
51 4 0.04
52 1 0.01
53 5 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (49 bp):
AGATCCACCGTCGTAGCTTCAATCTGCTCCGCTGTACTCCAAGGAAGTA
Found at i:23062841 original size:6 final size:6
Alignment explanation
Indices: 23062830--23062865 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
23062820 GCCTCTCCAT
23062830 TTTTCA TTTTCA TTTTCA TTTTCA TCTTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA --TTTTCA TTTT
23062866 TTCACATCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 22 0.79
8 6 0.21
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:23068030 original size:3 final size:3
Alignment explanation
Indices: 23068022--23068076 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
23068012 AAAGTGTGTG
** * *
23068022 AAT AAT AAT AAT AAT AAT AAT GTT AAC AAT AAT AAC AAT AAAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
23068067 AAT AA- AAT AA
1 AAT AAT AAT AA
23068077 GGGTATAGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:23070862 original size:19 final size:17
Alignment explanation
Indices: 23070826--23070868 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
23070816 TATTTTATAT
*
23070826 AATTTTTAATTAAATTA
1 AATTTTTAAATAAATTA
23070843 AATTATTTAAATATAATTA
1 AATT-TTTAAATA-AATTA
23070862 AATTTTT
1 AATTTTT
23070869 TGAGGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 10 0.43
19 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTTTAAATAAATTA
Found at i:23071325 original size:15 final size:15
Alignment explanation
Indices: 23071305--23071335 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23071295 ATAAAATTTA
23071305 TATTTATTTAAAAAG
1 TATTTATTTAAAAAG
23071320 TATTTATTTAAAAAG
1 TATTTATTTAAAAAG
23071335 T
1 T
23071336 GAAGATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TATTTATTTAAAAAG
Found at i:23091273 original size:12 final size:12
Alignment explanation
Indices: 23091236--23091286 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
23091226 ATTAGAATCT
* *
23091236 TTACTCGCTTAT
1 TTACTTGCTTAC
* *
23091248 TTACTTACTCAC
1 TTACTTGCTTAC
*
23091260 TTACTTGTTTAC
1 TTACTTGCTTAC
23091272 TTACTTGCTTAC
1 TTACTTGCTTAC
23091284 TTA
1 TTA
23091287 AATAACTCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.06, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:23098709 original size:12 final size:12
Alignment explanation
Indices: 23098684--23098722 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
23098674 ACTCGCTTCT
* *
23098684 TTACTTACTCAC
1 TTACTTGCTTAC
*
23098696 TTACTTGTTTAC
1 TTACTTGCTTAC
23098708 TTACTTGCTTAC
1 TTACTTGCTTAC
23098720 TTA
1 TTA
23098723 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:23099045 original size:49 final size:51
Alignment explanation
Indices: 23098971--23099111 Score: 148
Period size: 49 Copynumber: 2.8 Consensus size: 51
23098961 TTTTTTGTAC
* * * **
23098971 TGCCAATGTCATATCCCAGA-TATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATATCCCAGACAATGGTCTTACATGGGACCTCTCATATCGG
* * * * *
23099021 TGCCCATGCCATGTCCCA-A-AATGGTCTTA-AGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATATCCCAGACAATGGTCTTACA-TGGGACCTCTCATATCGG
23099070 TGCCAACGCCATATCCCAGACAA-GGTCTTACATGGGACCTCT
1 TGCCAACGCCATATCCCAGACAATGGTCTTACATGGGACCTCT
23099112 GATGATCTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 39 0.52
50 32 0.43
51 3 0.04
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (51 bp):
TGCCAACGCCATATCCCAGACAATGGTCTTACATGGGACCTCTCATATCGG
Found at i:23103252 original size:12 final size:12
Alignment explanation
Indices: 23103235--23103260 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23103225 CAAAACAAGC
23103235 TTTTAGCGGCGT
1 TTTTAGCGGCGT
23103247 TTTTAGCGGCGT
1 TTTTAGCGGCGT
23103259 TT
1 TT
23103261 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:23103321 original size:40 final size:40
Alignment explanation
Indices: 23103249--23103381 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 40
23103239 AGCGGCGTTT
* *
23103249 TTAGCGGCGTTTGGATAAAAAACGCCGCTAAAGATCGATCA
1 TTAGCGGCGTTT-TATAAAAAACGCCGCTAAAGATCGAGCA
* * *
23103290 TTAGCGGCGTTTTTTGAAAAACACCGCTAAAGATCGAGCA
1 TTAGCGGCGTTTTATAAAAAACGCCGCTAAAGATCGAGCA
* * * * *
23103330 TTAGCAGCGATTTATAAAAAATGCCGCTAAAAAT-AAGCA
1 TTAGCGGCGTTTTATAAAAAACGCCGCTAAAGATCGAGCA
23103369 TTAGCGGCGTTTT
1 TTAGCGGCGTTTT
23103382 CCAGAAAGCG
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 15 0.19
40 50 0.65
41 12 0.16
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCGGCGTTTTATAAAAAACGCCGCTAAAGATCGAGCA
Found at i:23103541 original size:41 final size:41
Alignment explanation
Indices: 23103437--23103590 Score: 202
Period size: 41 Copynumber: 3.8 Consensus size: 41
23103427 GAGTTTTCGG
* *
23103437 GGGCTTTAGCGGCGTTTTTTAGAAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* *
23103478 GGGC-TTAGCGGTGTTTTTGAGAAAGCGACGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
** *
23103518 GGGCTTTAGCTACGTTTTCGAGAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * * *
23103559 GGGCTTTAGCAGCGCTTTTGATAAAGTGCCGC
1 GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC
23103591 GAATTCTCTA
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 36 0.37
41 61 0.63
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
Found at i:23103884 original size:7 final size:7
Alignment explanation
Indices: 23103866--23103919 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
23103856 GTGTTACTAT
*
23103866 TTTAAGG
1 TTTATGG
23103873 TTTATGG
1 TTTATGG
*
23103880 ATTATGGG
1 TTTAT-GG
23103888 TTTAGTGG
1 TTTA-TGG
23103896 -TTATGG
1 TTTATGG
23103902 TTTATGG
1 TTTATGG
*
23103909 CTTATGG
1 TTTATGG
23103916 TTTA
1 TTTA
23103920 AAGTCTGGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 3 0.08
7 28 0.72
8 7 0.18
9 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.50
Consensus pattern (7 bp):
TTTATGG
Found at i:23103905 original size:14 final size:14
Alignment explanation
Indices: 23103871--23103919 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
23103861 ACTATTTTAA
23103871 GGTTTATGGATTAT
1 GGTTTATGGATTAT
23103885 GGGTTTAGTGG-TTAT
1 -GGTTTA-TGGATTAT
*
23103900 GGTTTATGGCTTAT
1 GGTTTATGGATTAT
23103914 GGTTTA
1 GGTTTA
23103920 AAGTCTGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.09
14 16 0.50
15 10 0.31
16 3 0.09
ACGTcount: A:0.16, C:0.02, G:0.33, T:0.49
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:23104160 original size:21 final size:17
Alignment explanation
Indices: 23104134--23104184 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 17
23104124 TCCTATCTCG
23104134 GTTCAGTATTTTTAGTGCTCA
1 GTTCAGT-TTTTTA-T-C-CA
23104155 GTTCAGTTTTTTTATCCA
1 GTTCAG-TTTTTTATCCA
23104173 GTTCAGTTTTTT
1 GTTCAGTTTTTT
23104185 GCGTGTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 6 0.21
18 8 0.28
19 1 0.03
20 1 0.03
21 12 0.41
22 1 0.03
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.55
Consensus pattern (17 bp):
GTTCAGTTTTTTATCCA
Found at i:23104174 original size:18 final size:21
Alignment explanation
Indices: 23104134--23104184 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 21
23104124 TCCTATCTCG
*
23104134 GTTCAGTATTTTTAGTGCTCA
1 GTTCAGTTTTTTTAGTGCTCA
23104155 GTTCAGTTTTTTTA-T-C-CA
1 GTTCAGTTTTTTTAGTGCTCA
23104173 GTTCAGTTTTTT
1 GTTCAGTTTTTT
23104185 GCGTGTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 14 0.48
19 1 0.03
20 1 0.03
21 13 0.45
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.55
Consensus pattern (21 bp):
GTTCAGTTTTTTTAGTGCTCA
Found at i:23104244 original size:7 final size:7
Alignment explanation
Indices: 23104225--23104258 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
23104215 AATAATTATA
23104225 TATGGATT
1 TATGGA-T
23104233 TATGGAT
1 TATGGAT
23104240 TATGGAT
1 TATGGAT
*
23104247 TAGGGAT
1 TATGGAT
23104254 TATGG
1 TATGG
23104259 TTTAGGGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.41
Consensus pattern (7 bp):
TATGGAT
Found at i:23104255 original size:14 final size:14
Alignment explanation
Indices: 23104225--23104265 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
23104215 AATAATTATA
*
23104225 TATGGATTTATGGAT
1 TATGGA-TTAGGGAT
23104240 TATGGATTAGGGAT
1 TATGGATTAGGGAT
*
23104254 TATGGTTTAGGG
1 TATGGATTAGGG
23104266 GTTAGAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (14 bp):
TATGGATTAGGGAT
Found at i:23104270 original size:7 final size:7
Alignment explanation
Indices: 23104246--23104335 Score: 72
Period size: 7 Copynumber: 12.7 Consensus size: 7
23104236 GGATTATGGA
*
23104246 TTAGGGA
1 TTAGGGG
* *
23104253 TTATGGT
1 TTAGGGG
23104260 TTAGGGG
1 TTAGGGG
**
23104267 TTAGAAG
1 TTAGGGG
23104274 TTAGGGG
1 TTAGGGG
23104281 TTAGGGG
1 TTAGGGG
**
23104288 TTAGAAG
1 TTAGGGG
23104295 TTAGGGG
1 TTAGGGG
23104302 TTAGGGG
1 TTAGGGG
* *
23104309 TTAAGAG
1 TTAGGGG
*
23104316 TTAGGGAT
1 TTAGGG-G
*
23104324 TTAGGGT
1 TTAGGGG
23104331 TTAGG
1 TTAGG
23104336 ATTTAGGAAT
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
7 59 0.91
8 6 0.09
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:23104331 original size:21 final size:21
Alignment explanation
Indices: 23104260--23104321 Score: 108
Period size: 21 Copynumber: 3.0 Consensus size: 21
23104250 GGATTATGGT
23104260 TTAGGGGTTAGAAGTTAGGGG
1 TTAGGGGTTAGAAGTTAGGGG
23104281 TTAGGGGTTAGAAGTTAGGGG
1 TTAGGGGTTAGAAGTTAGGGG
23104302 TTAGGGGTTA-AGAGTTAGGG
1 TTAGGGGTTAGA-AGTTAGGG
23104322 ATTTAGGGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 1 0.03
21 39 0.98
ACGTcount: A:0.24, C:0.00, G:0.47, T:0.29
Consensus pattern (21 bp):
TTAGGGGTTAGAAGTTAGGGG
Found at i:23104981 original size:26 final size:26
Alignment explanation
Indices: 23104927--23104977 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
23104917 TTTACGGCAT
* *
23104927 TTTTATAAAAAGTGCCACAAAAGATA
1 TTTTATAAAAACTGCCACAAAAAATA
23104953 TTTTATAAAAACT-CCACAAAAAATA
1 TTTTATAAAAACTGCCACAAAAAATA
23104978 ATTTCACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (26 bp):
TTTTATAAAAACTGCCACAAAAAATA
Found at i:23107593 original size:24 final size:22
Alignment explanation
Indices: 23107566--23107621 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
23107556 AATTTAAAAA
23107566 ATAAAACATAATATAATATTTGTC
1 ATAAAA-ATAAT-TAATATTTGTC
*
23107590 ATAAAAATAATTATTATTTG--
1 ATAAAAATAATTAATATTTGTC
*
23107610 ATTAAAATAATT
1 ATAAAAATAATT
23107622 TTTTTTAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 11 0.37
22 8 0.27
23 5 0.17
24 6 0.20
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (22 bp):
ATAAAAATAATTAATATTTGTC
Found at i:23107757 original size:43 final size:43
Alignment explanation
Indices: 23107680--23107901 Score: 234
Period size: 43 Copynumber: 5.2 Consensus size: 43
23107670 AAAGGTTGTT
* * * *
23107680 CTATAGCGGAGTTTGTGGGA-AAGGCGCCGTTAAAGGTCTTAAG
1 CTATAGCAGCGTTTGTGGGAGAA-GCGCCGCTAAAGGTCTTGAG
** * *
23107723 CTATAGTGGCGGTTT-TTGGAGAAGCGCTGCTAAAGGTCTTGAG
1 CTATAGCAGC-GTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAG
23107766 CTATAGCAGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAG
1 CTATAGCAGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAG
* ** * * *
23107809 CTATAGCAGTGTTTGTGGGAGAAGCGCCGCTAAATATCCTAAT
1 CTATAGCAGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAG
* * * *
23107852 CTATAGCAACGTTTGTGGAAAAAGCGCCGCTAAAGGT-TATGAT
1 CTATAGCAGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCT-TGAG
23107895 CTATAGC
1 CTATAGC
23107902 GGCATTTATT
Statistics
Matches: 151, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 4 0.03
43 141 0.93
44 6 0.04
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (43 bp):
CTATAGCAGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGAG
Found at i:23107800 original size:86 final size:84
Alignment explanation
Indices: 23107642--23107888 Score: 255
Period size: 86 Copynumber: 2.9 Consensus size: 84
23107632 GTTATGTTTT
** * * *
23107642 TAGTGGCGTTTTTGCGAGAAGCGCCAATAAAGG--TTGTTCTATAGCGGAGTTTGTGGGAAAGGC
1 TAGTGGCGTTTTTG-GAGAAGCGCCGCTAAAGGTCTTGATCTATAGCAGCGTTTGTGGGAAA-GC
*
23107705 GCCGTTAAAGGTCTTAAGCTA
64 GCCGCTAAAGGTCTTAAGCTA
* *
23107726 TAGTGGCGGTTTTTGGAGAAGCGCTGCTAAAGGTCTTGAGCTATAGCAGCGTTTGTGGGAGAAGC
1 TAGTGGC-GTTTTTGGAGAAGCGCCGCTAAAGGTCTTGATCTATAGCAGCGTTTGTGGGA-AAGC
*
23107791 GCCGCTAAAGGTCTTGAGCTA
64 GCCGCTAAAGGTCTTAAGCTA
** * * ** * * * *
23107812 TAGCAGTGTTTGTGGGAGAAGCGCCGCTAAATATCCTAATCTATAGCAACGTTTGTGGAAAAAGC
1 TAGTGGCGTTT-TTGGAGAAGCGCCGCTAAAGGTCTTGATCTATAGCAGCGTTTGTGG-GAAAGC
23107877 GCCGCTAAAGGT
64 GCCGCTAAAGGT
23107889 TATGATCTAT
Statistics
Matches: 136, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
84 22 0.16
85 11 0.08
86 100 0.74
87 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (84 bp):
TAGTGGCGTTTTTGGAGAAGCGCCGCTAAAGGTCTTGATCTATAGCAGCGTTTGTGGGAAAGCGC
CGCTAAAGGTCTTAAGCTA
Found at i:23123739 original size:15 final size:16
Alignment explanation
Indices: 23123699--23123741 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
23123689 CAATAATAAT
23123699 TTTATATTGAATTTTGA
1 TTTA-ATTGAATTTTGA
*
23123716 TTTGA-TGAATTTT-A
1 TTTAATTGAATTTTGA
23123730 TTTAATTGAATT
1 TTTAATTGAATT
23123742 AATGGTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 5 0.22
15 14 0.61
16 1 0.04
17 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (16 bp):
TTTAATTGAATTTTGA
Done.