Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 67 of 344
Found at i:21761516 original size:311 final size:311
Alignment explanation
Indices: 21760966--21761597 Score: 937
Period size: 311 Copynumber: 2.0 Consensus size: 311
21760956 AAATAGTGAG
*
21760966 TCTTATCTCCATGTATCGGCTATGGAGCAGGTTTTAACCACCAGCCTTATCTCTCTAACGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAACGTAGCA
*
21761031 AGAGAGCAGGTTGAAGATACACGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTAAAAATTAC
66 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTAAAAATTAC
* * * * *
21761096 AAATCTTATCTCCATTTATCGGTTATGGGGCAGATCTGAAATGGCGAGTTTTATCTCCATGTATC
131 AAATCTTATCTCCATGTATCGGCTATAGAGCAGATCTGAAATGGCGAGTCTTATCTCCATGTATC
* * * * **
21761161 GGCTATGAAGCAAGTTTTAACCACTAGCTTTGTCTCTCTGAGGTAGCAAGAGAGCATGTTGAAGA
196 GGCTATGAAGCAAGTTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCAAAGA
*
21761226 TACAAGTCTTATCTTCCTGAAGTAGCAAGTAAGCAGACTGAAAATTACAGA
261 TACAAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAAATTACAGA
* * * * *
21761277 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAACGTAGCA
* * * *
21761342 AGAGTGCAGGTTGAAGATACAAGTCTTATCTT-TCTGAGGTAGCAATGAAGTAGACTGAAAATTA
66 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCT-TGAGGTAGCAAGGAAGCAGACTAAAAATTA
*
21761406 CAGATCTTATCTCCATGTATCGGCTATAGAGCAGATC-GAAAATGGCGAGTCTTATCTCCATGTA
130 CAAATCTTATCTCCATGTATCGGCTATAGAGCAGATCTG-AAATGGCGAGTCTTATCTCCATGTA
* * * *
21761470 TCGGCTATGGAGC-AGATTTTAGCCACCGGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTCAA
194 TCGGCTATGAAGCAAG-TTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCAA
* * *
21761534 AGATACAAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAAATTTCAGA
258 AGATACAAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAAATTACAGA
21761588 TCTTATCTCC
1 TCTTATCTCC
21761598 CTAAATAGTA
Statistics
Matches: 286, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
310 4 0.01
311 282 0.99
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (311 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAACCACCAGCCTTATCTCTCTAACGTAGCA
AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTAAAAATTAC
AAATCTTATCTCCATGTATCGGCTATAGAGCAGATCTGAAATGGCGAGTCTTATCTCCATGTATC
GGCTATGAAGCAAGTTTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTCAAAGA
TACAAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAAATTACAGA
Found at i:21761596 original size:178 final size:178
Alignment explanation
Indices: 21761277--21761597 Score: 552
Period size: 178 Copynumber: 1.8 Consensus size: 178
21761267 AAATTACAGA
*
21761277 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* ** * * *
21761342 AGAGTGCAGGTTGAAGATACAAGTCTTATCTTTCTGAGGTAGCAATGAAGTAGACTGAAAATTAC
66 AGAGAGCAGGTCAAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTAC
21761407 AGATCTTATCTCCATGTATCGGCTATAGAGCAGATCGAAAATGGCGAG
131 AGATCTTATCTCCATGTATCGGCTATAGAGCAGATCGAAAATGGCGAG
*
21761455 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTTTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* *
21761520 AGAGAGCAGGTCAAAGATACAAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAAATTTC
66 AGAGAGCAGGTCAAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTAC
21761585 AGATCTTATCTCC
131 AGATCTTATCTCC
21761598 CTAAATAGTA
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
178 133 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (178 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
AGAGAGCAGGTCAAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTAC
AGATCTTATCTCCATGTATCGGCTATAGAGCAGATCGAAAATGGCGAG
Found at i:21761652 original size:44 final size:44
Alignment explanation
Indices: 21761604--21761823 Score: 168
Period size: 44 Copynumber: 5.0 Consensus size: 44
21761594 CTCCCTAAAT
* *
21761604 AGTAGTGGAGTAGATCGAAGATGGTGAGCCTTAACCCCCTAAGC
1 AGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAGCCCCCTAAGC
* * * * * *
21761648 AGTAG-GGTAACA-AGCTGAAGAT--TACAGATCTTAGCTCCCTAAGT
1 AGTAGTGG-AGCAGATC-GAAGATGGT-GAG-CCTTAGCCCCCTAAGC
*
21761692 AGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAGCCCCCTAAGC
1 AGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAGCCCCCTAAGC
* * * * *
21761736 AGTAG-GGTAACAG-GCTGAAGAT--TACAGATCTTAGCTCCCTAAGC
1 AGTAGTGG-AGCAGATC-GAAGATGGT-GAG-CCTTAGCCCCCTAAGC
* *
21761780 AGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGC
1 AGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAGCCCCCTAAGC
21761824 TGAAGATTAT
Statistics
Matches: 132, Mismatches: 28, Indels: 32
0.69 0.15 0.17
Matches are distributed among these distances:
42 2 0.02
43 11 0.08
44 106 0.80
45 11 0.08
46 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (44 bp):
AGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAGCCCCCTAAGC
Found at i:21761695 original size:88 final size:88
Alignment explanation
Indices: 21761574--21761823 Score: 419
Period size: 88 Copynumber: 2.8 Consensus size: 88
21761564 AGGAAGCAGA
* * * * * *
21761574 CTGAAAATTTCAGATCTTATCTCCCTAAATAGTAGTGGAGTAGATCGAAGATGGTGAGCCTTAAC
1 CTGAAGATTACAGATCTTAGCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
21761639 CCCCTAAGCAGTAGGGTAACAAG
66 CCCCTAAGCAGTAGGGTAACAAG
*
21761662 CTGAAGATTACAGATCTTAGCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAGC
1 CTGAAGATTACAGATCTTAGCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
*
21761727 CCCCTAAGCAGTAGGGTAACAGG
66 CCCCTAAGCAGTAGGGTAACAAG
*
21761750 CTGAAGATTACAGATCTTAGCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
1 CTGAAGATTACAGATCTTAGCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
21761815 CCCCTAAGC
66 CCCCTAAGC
21761824 TGAAGATTAT
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 152 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (88 bp):
CTGAAGATTACAGATCTTAGCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
CCCCTAAGCAGTAGGGTAACAAG
Found at i:21761868 original size:73 final size:73
Alignment explanation
Indices: 21761749--21761896 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
21761739 AGGGTAACAG
*
21761749 GCTGAAGATTACAGATCTTAGCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTAGCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
21761814 CCCCCTAA
66 CCCCCTAA
*
21761822 GCTGAAGATTATAGATCTTAGCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTAGCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
21761887 CCCCCTAA
66 CCCCCTAA
21761895 GC
1 GC
21761897 AGTAGGGTAG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.20
Consensus pattern (73 bp):
GCTGAAGATTACAGATCTTAGCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
CCCCCTAA
Found at i:21762457 original size:44 final size:44
Alignment explanation
Indices: 21761882--21762471 Score: 271
Period size: 44 Copynumber: 13.4 Consensus size: 44
21761872 GACGGTGAGC
* * * *
21761882 CTTAACCCCCTAAGCAGTAGGGTAGCATGCTAAAGATTACAGAT
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGAT
* * * * * *
21761926 CTTAGCTCCCTAAACAGTA--GTAGAGCAGG-TCGAAGACGGT-GAG-C
1 CTTATCCCCCTAAGCAGTAGGGTA-A-CAGGCT-GAAGA--TTACAGAT
* * *
21761970 CTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGATTATAGAT
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGAT
* * * * * *
21762014 CTTATCTCCCTAAGCAGTAGTG-AAGCA-GATCAA-A-TACGGTGAGC
1 CTTATCCCCCTAAGCAGTAGGGTAA-CAGGCTGAAGATTAC--AGA-T
*
21762058 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTCACAGAT
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTGAAGATT-ACAGAT
* * * * * * *
21762101 CTTATCTCCCTGAGCAGTAGTGG-AGCA-GATCGAAGACGGT-GAG-C
1 CTTATCCCCCTAAGCAGTAG-GGTAACAGGCT-GAAGA--TTACAGAT
* *
21762145 CTTAACCCCTTAAGCAGTAGGGTAACAGGCTGAAGATTACAGAT
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGAT
* * * * *
21762189 CTTATCTCCCTAAGCAGTAGTGG-AACA-GATCGAAGACGGT-GAG-C
1 CTTATCCCCCTAAGCAGTAG-GGTAACAGGCT-GAAGA--TTACAGAT
* *
21762233 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGAT
* * * * * *
21762277 CTTATCTCCCTAAGCAGTAGTGG-AGCA-GATCGAAAACGGTA-AG-C
1 CTTATCCCCCTAAGCAGTAG-GGTAACAGGCT-GAAGA--TTACAGAT
* * * * *
21762321 CTTAACCCCCTATGCAGTAGAGTAACAGGCTGAAAATTACAAAT
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGAT
* * * * * *
21762365 CTTATCTCCCTAAGCAGTAGTGG-AAC-GGATCGGAGACGGT-GAG-C
1 CTTATCCCCCTAAGCAGTAG-GGTAACAGGCT-GAAGA--TTACAGAT
21762409 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGAT
1 CTTATCCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGAT
*
21762453 CTTATCTCCCTAAGCAGTA
1 CTTATCCCCCTAAGCAGTA
21762472 ACGGAGTAGA
Statistics
Matches: 399, Mismatches: 95, Indels: 104
0.67 0.16 0.17
Matches are distributed among these distances:
41 2 0.01
42 12 0.03
43 53 0.13
44 290 0.73
45 31 0.08
46 10 0.03
47 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.22
Consensus pattern (44 bp):
CTTATCCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTACAGAT
Found at i:21762498 original size:88 final size:88
Alignment explanation
Indices: 21761822--21762567 Score: 1023
Period size: 88 Copynumber: 8.5 Consensus size: 88
21761812 AACCCCCTAA
* * *
21761822 GCTGAAGATTATAGATCTTAGCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
* *
21761887 CCCCCTAAGCAGTAGGGTAGCAT
66 CCCCCTAAGCAGTAGGGTAACAG
* * * * *
21761910 GCTAAAGATTACAGATCTTAGCTCCCTAAACAGTAGTAGAGCAGGTCGAAGACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
*
21761975 CCCCCTAAGCAGTAGGGTAACAA
66 CCCCCTAAGCAGTAGGGTAACAG
* * * *
21761998 GCTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCAAATACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
21762063 CCCCCTAAGCAGTAGGGTAACAG
66 CCCCCTAAGCAGTAGGGTAACAG
*
21762086 GCTG-A-ATTCACAGATCTTATCTCCCTGAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTA
1 GCTGAAGATT-ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTA
*
21762149 ACCCCTTAAGCAGTAGGGTAACAG
65 ACCCCCTAAGCAGTAGGGTAACAG
*
21762173 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGTGAGCCTTAA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
21762238 CCCCCTAAGCAGTAGGGTAACAG
66 CCCCCTAAGCAGTAGGGTAACAG
* * *
21762261 GCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGTAAGCCTTAA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
* *
21762326 CCCCCTATGCAGTAGAGTAACAG
66 CCCCCTAAGCAGTAGGGTAACAG
* * * * * *
21762349 GCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAACGGATCGGAGACGGTGAGCCTTAT
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
21762414 CCCCCTAAGCAGTAGGGTAACAG
66 CCCCCTAAGCAGTAGGGTAACAG
** * * *
21762437 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAACGGAGTAGATCG-AGAACAGTAAGCCTTA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-ACGGTGAGCCTTA
*** * * * *
21762501 TGTCCTTGAGCAGCAGCGG-AGCAG
65 ACCCCCTAAGCAGTAG-GGTAACAG
* * * * *
21762525 GCTGAAGATTACAAATCATATCTCCCTAAACAATAGCGGAGCA
1 GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCA
21762568 AATTGAAACG
Statistics
Matches: 590, Mismatches: 63, Indels: 10
0.89 0.10 0.02
Matches are distributed among these distances:
86 3 0.01
87 79 0.13
88 503 0.85
89 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (88 bp):
GCTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAA
CCCCCTAAGCAGTAGGGTAACAG
Found at i:21762933 original size:5 final size:5
Alignment explanation
Indices: 21762925--21762949 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21762915 GATTTGATTT
21762925 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
21762950 AAATTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:21763098 original size:35 final size:34
Alignment explanation
Indices: 21763043--21763114 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
21763033 TACTTTGGGA
21763043 TTCCTACTTCAATTCGGAATTTG-ATTATTCTCTCTT
1 TTCCTACTTCAATTCGGAA-TTGAATTATT-T-TCTT
* *
21763079 TTCCTATTTCTATT-GGAATTGAATTATTTTCTT
1 TTCCTACTTCAATTCGGAATTGAATTATTTTCTT
21763112 TTC
1 TTC
21763115 TCTTTCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 7 0.21
34 4 0.12
35 10 0.30
36 12 0.36
ACGTcount: A:0.19, C:0.18, G:0.08, T:0.54
Consensus pattern (34 bp):
TTCCTACTTCAATTCGGAATTGAATTATTTTCTT
Found at i:21763406 original size:23 final size:24
Alignment explanation
Indices: 21763380--21763451 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 24
21763370 AAATGTCCAA
21763380 CCAAAACACATCAGTATAATA-CT
1 CCAAAACACATCAGTATAATACCT
*
21763403 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACATCAGTAT-A-AT-A-CCT
* *
21763431 CCCAAACACATCAGAATAATA
1 CCAAAACACATCAGTATAATA
21763452 TAATCCATCC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 16 0.40
24 1 0.03
25 3 0.08
26 3 0.08
27 1 0.03
28 16 0.40
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.19
Consensus pattern (24 bp):
CCAAAACACATCAGTATAATACCT
Found at i:21763477 original size:29 final size:28
Alignment explanation
Indices: 21763394--21763482 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 28
21763384 AACACATCAG
* * *
21763394 TATAATACTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
21763422 TATAATCCTCCCAAACACATCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
21763450 TATAATCCATCCAAAACACACCAGAATAG
1 TATAATCC-TCCAAAACACACCAGAATAA
21763479 TATA
1 TATA
21763483 GAGTGCCTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 31 0.60
29 21 0.40
ACGTcount: A:0.47, C:0.27, G:0.04, T:0.21
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:21763541 original size:13 final size:13
Alignment explanation
Indices: 21763518--21763561 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
21763508 GGATATAAAC
21763518 ATCAGCATCTCCAA
1 ATCA-CATCTCCAA
21763532 ATCACATCTCCAA
1 ATCACATCTCCAA
* * *
21763545 ATCCCTTCTCAAA
1 ATCACATCTCCAA
21763558 ATCA
1 ATCA
21763562 TATGACATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 22 0.85
14 4 0.15
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.25
Consensus pattern (13 bp):
ATCACATCTCCAA
Found at i:21763609 original size:23 final size:23
Alignment explanation
Indices: 21763583--21763629 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
21763573 AATTATATTT
21763583 GACATAGTCCAACTAGTTAATAG
1 GACATAGTCCAACTAGTTAATAG
*
21763606 GACATAGTCCGACTAGTTAATAG
1 GACATAGTCCAACTAGTTAATAG
21763629 G
1 G
21763630 GTATTCTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (23 bp):
GACATAGTCCAACTAGTTAATAG
Found at i:21763676 original size:17 final size:17
Alignment explanation
Indices: 21763654--21763692 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
21763644 CTTTTTTTTT
*
21763654 TCAATTTCATTTCCATA
1 TCAATTTCAATTCCATA
*
21763671 TCAATTTCAATTCCATT
1 TCAATTTCAATTCCATA
21763688 TCAAT
1 TCAAT
21763693 ATACAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (17 bp):
TCAATTTCAATTCCATA
Found at i:21763679 original size:23 final size:24
Alignment explanation
Indices: 21763652--21763699 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
21763642 TTCTTTTTTT
* *
21763652 TTTCAATTTCATTTCCATAT-CAA
1 TTTCAATTCCATTTCAATATACAA
21763675 TTTCAATTCCATTTCAATATACAA
1 TTTCAATTCCATTTCAATATACAA
21763699 T
1 T
21763700 CAATTCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTCAATTCCATTTCAATATACAA
Found at i:21763719 original size:16 final size:17
Alignment explanation
Indices: 21763680--21763725 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
21763670 ATCAATTTCA
*
21763680 ATTCCATTTCAATATAC
1 ATTCCAATTCAATATAC
*
21763697 AAT-CAATTCAATATAC
1 ATTCCAATTCAATATAC
21763713 -TTCCAATCTCAAT
1 ATTCCAAT-TCAAT
21763726 CCACATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.04
16 16 0.67
17 7 0.29
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTCCAATTCAATATAC
Found at i:21763746 original size:23 final size:22
Alignment explanation
Indices: 21763699--21763746 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
21763689 CAATATACAA
* *
21763699 TCAATTCAATATACTTCCAATC
1 TCAATCCAATATAATTCCAATC
21763721 TCAATCCACATATAATT-CAATAC
1 TCAATCCA-ATATAATTCCAAT-C
21763744 TCA
1 TCA
21763747 TACTTATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (22 bp):
TCAATCCAATATAATTCCAATC
Found at i:21764583 original size:21 final size:21
Alignment explanation
Indices: 21764544--21764583 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21764534 ATTTAAGTTA
**
21764544 ATTTAATAATTATAAAATTCT
1 ATTTAATAACAATAAAATTCT
*
21764565 ATTTAATAACAATATAATT
1 ATTTAATAACAATAAAATT
21764584 AATATATTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTAATAACAATAAAATTCT
Found at i:21764991 original size:17 final size:17
Alignment explanation
Indices: 21764971--21765004 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
21764961 ATTCACTAAT
21764971 ATAAT-ATCAATTAAATA
1 ATAATAATCAA-TAAATA
21764988 ATAATAATCAATAAATA
1 ATAATAATCAATAAATA
21765005 TCTTTTACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATAATCAATAAATA
Found at i:21766770 original size:21 final size:20
Alignment explanation
Indices: 21766718--21766772 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
21766708 ATACTTGATT
*
21766718 ACCAACTTTCAAGACTTGAC
1 ACCAAGTTTCAAGACTTGAC
* *
21766738 -CCAAAGTATCAAGACTTGTGC
1 ACC-AAGTTTCAAGACTTG-AC
21766759 ACCAAGTTTCAAGA
1 ACCAAGTTTCAAGA
21766773 GTGGACAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 2 0.07
20 13 0.46
21 11 0.39
22 2 0.07
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (20 bp):
ACCAAGTTTCAAGACTTGAC
Found at i:21775902 original size:17 final size:18
Alignment explanation
Indices: 21775880--21775919 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
21775870 TTGTCATGTA
21775880 TTTTTTGT-ATCATATAT
1 TTTTTTGTCATCATATAT
21775897 TTTTTTGTACCATCATATAT
1 TTTTTTGT--CATCATATAT
21775917 TTT
1 TTT
21775920 ATTAACTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
20 12 0.60
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTTTGTCATCATATAT
Found at i:21776772 original size:130 final size:131
Alignment explanation
Indices: 21776491--21776774 Score: 313
Period size: 131 Copynumber: 2.2 Consensus size: 131
21776481 CAATTTCGCG
* *
21776491 TTTGCTCAAAATAATCGAATATCCCTTCAGGATTTCACTCATGACTTTTAAAAATTCTTTAAAAC
1 TTTGCTCAAAATAATCGAATATCCCTTCAGGATTTCACTCATGACTATTAAAAATACTTTAAAAC
* * *
21776556 GAAGGCAATATTCGACGTTTGACAATTCAAGAATCATGCCCTATCATGCTGGGTTGTGATCTCTC
66 GAAGACAATATTCAACGTTTGACAATTCAAGAATCATGCCCTATCATGCTGGGTTGCGATCTCTC
*
21776621 G
131 A
* * * * * **
21776622 CTTGCTCAAAACAATCGAATATTCCTTTA-TATTCTCACTCATGTGTATTAAAAATACTTTAAAA
1 TTTGCTCAAAATAATCGAATATCCCTTCAGGATT-TCACTCATGACTATTAAAAATACTTTAAAA
* * * * * ** * * *
21776686 CGAAGACGATGTTCAATG-TTGGCGATTTGAGAATCGA-GCCCTATCATGCTGGGTTGCGCTTTT
65 CGAAGACAATATTCAACGTTTGACAATTCAAGAATC-ATGCCCTATCATGCTGGGTTGCGATCTC
21776749 TCA
129 TCA
*
21776752 TTTGTTCAAAATAATCGAATATC
1 TTTGCTCAAAATAATCGAATATC
21776775 TCTTTGGAAT
Statistics
Matches: 124, Mismatches: 27, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
130 59 0.48
131 65 0.52
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (131 bp):
TTTGCTCAAAATAATCGAATATCCCTTCAGGATTTCACTCATGACTATTAAAAATACTTTAAAAC
GAAGACAATATTCAACGTTTGACAATTCAAGAATCATGCCCTATCATGCTGGGTTGCGATCTCTC
A
Found at i:21791550 original size:27 final size:27
Alignment explanation
Indices: 21791518--21791572 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
21791508 CTATAATAGT
21791518 AGTTTTAGCCAGAGACTCAGAAGGGGA
1 AGTTTTAGCCAGAGACTCAGAAGGGGA
21791545 AGTTTTAGCCAGAGACTCAGAAGGGGA
1 AGTTTTAGCCAGAGACTCAGAAGGGGA
21791572 A
1 A
21791573 ATTGTAGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.33, T:0.18
Consensus pattern (27 bp):
AGTTTTAGCCAGAGACTCAGAAGGGGA
Found at i:21793523 original size:19 final size:20
Alignment explanation
Indices: 21793487--21793524 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
21793477 TATGGAATTA
*
21793487 ATATATAAAAAATTAATATT
1 ATATATAAAAAATAAATATT
*
21793507 ATAT-TAAAATATAAATAT
1 ATATATAAAAAATAAATAT
21793525 GAGTTAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATATAAAAAATAAATATT
Found at i:21793963 original size:17 final size:17
Alignment explanation
Indices: 21793941--21793973 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21793931 TTGTATAAAA
21793941 TTTATT-TTATTGTTAAT
1 TTTATTGTTATT-TTAAT
21793958 TTTATTGTTATTTTAA
1 TTTATTGTTATTTTAA
21793974 AGACATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTATTGTTATTTTAAT
Found at i:21793972 original size:11 final size:11
Alignment explanation
Indices: 21793942--21793972 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
21793932 TGTATAAAAT
21793942 TTATTTTATTG
1 TTATTTTATTG
21793953 TTAATTTTATTG
1 TT-ATTTTATTG
21793965 TTATTTTA
1 TTATTTTA
21793973 AAGACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (11 bp):
TTATTTTATTG
Found at i:21793985 original size:30 final size:31
Alignment explanation
Indices: 21793950--21794013 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
21793940 ATTTATTTTA
*
21793950 TTGTTAA-TTTTATTGTTATTTTA-AAGACAT
1 TTGTTAATTTTTATTATTATTTTAGAAG-CAT
*
21793980 TTGTTAATTTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
21794011 TTG
1 TTG
21794014 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 20 0.67
32 3 0.10
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:21794877 original size:12 final size:11
Alignment explanation
Indices: 21794858--21794897 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
21794848 GATGCTATGT
21794858 TTTTTTTAAAA
1 TTTTTTTAAAA
21794869 TTATTTTTAAACA
1 TT-TTTTTAAA-A
*
21794882 TTTTTTGAAAA
1 TTTTTTTAAAA
21794893 TTTTT
1 TTTTT
21794898 ATTCTAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 8 0.31
12 15 0.58
13 3 0.12
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (11 bp):
TTTTTTTAAAA
Found at i:21799268 original size:46 final size:45
Alignment explanation
Indices: 21799200--21799328 Score: 177
Period size: 46 Copynumber: 2.8 Consensus size: 45
21799190 TGTAACTCGA
* * * * *
21799200 CCATAAGCGAACTCGGAATCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCAT
21799246 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCAT
*
21799292 CCATAAGTGAACTCGAACTCGACTCAACGAGCTCGGA
1 CCATAAGTGAACTCG-ACTCAACTCAACGAGCTCGGA
21799329 TGCCCAAATA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
45 1 0.01
46 74 0.99
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (45 bp):
CCATAAGTGAACTCGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:21800394 original size:49 final size:48
Alignment explanation
Indices: 21800281--21800460 Score: 159
Period size: 49 Copynumber: 3.7 Consensus size: 48
21800271 GGATCAAATG
*
21800281 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCATATTAAAGT
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTGACTAGCATATTAAAGT
* * * * ** *
21800330 -CGATGTCGTGTCCCAGATAGGTTTTACACTGACTTTCATATATCAAGT
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGACTAGCATAT-TAAAGT
** **
21800378 CCGATGCCATGTCCCAGACAGGTCTTACACT-AGCTCTCAT-TTATTGGT
1 CCGATGCCATGTCCCAGACAGGTCTTACACTGA-CTAGCATATTA-AAGT
* * *
21800426 GTCAATGCCATGTCCTAGACAGGTCTTACACTGAC
1 -CCGATGCCATGTCCCAGACAGGTCTTACACTGAC
21800461 ACCAAACAAG
Statistics
Matches: 106, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
47 19 0.18
48 25 0.24
49 61 0.58
50 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTGACTAGCATATTAAAGT
Found at i:21800460 original size:98 final size:97
Alignment explanation
Indices: 21800281--21800460 Score: 227
Period size: 98 Copynumber: 1.8 Consensus size: 97
21800271 GGATCAAATG
* * * *
21800281 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCATATTAAAGTCGATGTCGTGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCATATTAAAGTCAATGCCATGTCCCAG
* *
21800346 ATAGGTTTTACACTGACTTTCATATATCAAGT
66 ACAGGTCTTACACTGACTTTCATATATCAAGT
** *** *
21800378 CCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATTTATTGGTGTCAATGCCATGTCCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCA--TATTAAAGTCAATGCCATGTCCC
21800442 AGACAGGTCTTACACTGAC
64 AGACAGGTCTTACACTGAC
21800461 ACCAAACAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
96 16 0.23
97 20 0.29
98 33 0.48
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.30
Consensus pattern (97 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAGCATATTAAAGTCAATGCCATGTCCCAG
ACAGGTCTTACACTGACTTTCATATATCAAGT
Found at i:21800550 original size:48 final size:46
Alignment explanation
Indices: 21800479--21800598 Score: 132
Period size: 46 Copynumber: 2.6 Consensus size: 46
21800469 AGGTGACGCT
* * * * * *
21800479 ATGTCCTAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATAC
1 ATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCAAGACCGATAC
* * * *
21800527 ATGTCCCAGACATGTCTTACACTAACTCTCGTCTCAATATCGATAC
1 ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGACCGATAC
21800573 ATGTCCCAGACATGTCTTACACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
21800599 CCACATACCA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 36 0.59
47 2 0.03
48 23 0.38
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (46 bp):
ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGACCGATAC
Found at i:21816294 original size:52 final size:53
Alignment explanation
Indices: 21816220--21816325 Score: 205
Period size: 52 Copynumber: 2.0 Consensus size: 53
21816210 AAGTATAATT
21816220 TATTCAATATAATATAACAGTTGATGGCATTAGATGTATGTCA-TTTTGTTTA
1 TATTCAATATAATATAACAGTTGATGGCATTAGATGTATGTCATTTTTGTTTA
21816272 TATTCAATATAATATAACAGTTGATGGCATTAGATGTATGTCATTTTTGTTTA
1 TATTCAATATAATATAACAGTTGATGGCATTAGATGTATGTCATTTTTGTTTA
21816325 T
1 T
21816326 GCAGTATTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 43 0.81
53 10 0.19
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (53 bp):
TATTCAATATAATATAACAGTTGATGGCATTAGATGTATGTCATTTTTGTTTA
Found at i:21822296 original size:21 final size:20
Alignment explanation
Indices: 21822248--21822290 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
21822238 GGTTTTAATT
21822248 AAAATTATATAAAGTATGAAA
1 AAAATTATATAAAGTAT-AAA
21822269 AAAATTATATAATAAGTATAAA
1 AAAATTATAT-A-AAGTATAAA
21822291 TAATTACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 4 0.20
23 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATTATATAAAGTATAAA
Found at i:21823649 original size:31 final size:29
Alignment explanation
Indices: 21823600--21823663 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
21823590 TTAGTAAAGG
*
21823600 TAAAATTATATTTTAATCTCTTAAAAATGA
1 TAAAATTATATTTAAATCT-TTAAAAATGA
* *
21823630 TAAATATTTTATTTAAATCTTTAAAAATTA
1 TAAA-ATTATATTTAAATCTTTAAAAATGA
21823660 TAAA
1 TAAA
21823664 GAGACTATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (29 bp):
TAAAATTATATTTAAATCTTTAAAAATGA
Found at i:21826083 original size:21 final size:20
Alignment explanation
Indices: 21826059--21826189 Score: 102
Period size: 21 Copynumber: 6.3 Consensus size: 20
21826049 ATATTTTACT
*
21826059 TTCTGTTCAGCTCTTTCGAAC
1 TTCTGTTCAGCTCTTT-GAGC
* * *
21826080 TTCTGTTAAACTCTTATGAGT
1 TTCTGTTCAGCTCTT-TGAGC
*
21826101 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTT-TGAGC
* * *
21826122 TTTTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTT-TGAGC
* *
21826143 TTCTGTTAAGCTCTTACGAGC
1 TTCTGTTCAGCTCTT-TGAGC
* *
21826164 TTCTATTCTGCT-TTTGAGC
1 TTCTGTTCAGCTCTTTGAGC
21826183 TTCTGTT
1 TTCTGTT
21826190 GGAGTATCTG
Statistics
Matches: 87, Mismatches: 22, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
19 10 0.11
20 2 0.02
21 74 0.85
22 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (20 bp):
TTCTGTTCAGCTCTTTGAGC
Found at i:21826134 original size:42 final size:42
Alignment explanation
Indices: 21826058--21826167 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
21826048 CATATTTTAC
* *
21826058 TTTCTGTTCAGCTCTTTCGAACTTCTGTTAAACTCTTATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAG
* *
21826100 TTTCTGTTCAGCTCTTACGAGCTTTTGTTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAG
*
21826142 TTTCTGTTAAGCTCTTACGAGCTTCT
1 TTTCTGTTCAGCTCTTACGAGCTTCT
21826168 ATTCTGCTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.45
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACGAGCTTCTGTTAAACTCTTATGAG
Found at i:21834418 original size:23 final size:23
Alignment explanation
Indices: 21834392--21834438 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
21834382 GAGTAAACCA
21834392 AAATGTCATCGATAAAAACTACG
1 AAATGTCATCGATAAAAACTACG
21834415 AAATGTCATCGATAAAAACTACG
1 AAATGTCATCGATAAAAACTACG
21834438 A
1 A
21834439 TGAACTGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (23 bp):
AAATGTCATCGATAAAAACTACG
Found at i:21842195 original size:53 final size:50
Alignment explanation
Indices: 21842049--21842207 Score: 201
Period size: 53 Copynumber: 3.1 Consensus size: 50
21842039 TGACGGAAAA
*
21842049 GATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGTATGGCATCGGTGC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGTATGGCATCGGTGT
* * *
21842100 AATGTGATACGTGTTCCCGTATAATACCATAGCTGGGCTATGGCATCGGTGT
1 GATGTGATATGTGTT-CCGTATAAGACCATAGCTGGG-TATGGCATCGGTGT
* * *
21842152 GATGTGATAATGTGATTTCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGG-TATGGCATCGGTGT
21842205 GAT
1 GAT
21842208 ATGTGATCCG
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
50 2 0.02
51 31 0.33
52 20 0.22
53 38 0.41
54 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGTATGGCATCGGTGT
Found at i:21847475 original size:17 final size:17
Alignment explanation
Indices: 21847453--21847500 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
21847443 ATTGTTATAT
21847453 ATATTTAAAAATTATAAA
1 ATATTTAAAAATTA-AAA
*
21847471 A-ATTTATTAAAAATAAAA
1 ATATTTA--AAAATTAAAA
21847489 ATATTTAAAAAT
1 ATATTTAAAAAT
21847501 AGAGAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
17 9 0.36
18 5 0.20
19 11 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATTTAAAAATTAAAA
Found at i:21847496 original size:16 final size:17
Alignment explanation
Indices: 21847466--21847501 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
21847456 TTTAAAAATT
*
21847466 ATAAAAATTTATTAAAA
1 ATAAAAATATATTAAAA
21847483 ATAAAAATAT-TTAAAA
1 ATAAAAATATATTAAAA
21847499 ATA
1 ATA
21847502 GAGAAAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAAATATATTAAAA
Found at i:21848584 original size:19 final size:20
Alignment explanation
Indices: 21848548--21848585 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21848538 TTCTTTGTCC
21848548 TTTTTCATTTTTTCATTTTG
1 TTTTTCATTTTTTCATTTTG
21848568 TTTTTC-TTTATTT-ATTTT
1 TTTTTCATTT-TTTCATTTT
21848586 TTCAGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTTCATTTTTTCATTTTG
Found at i:21848683 original size:31 final size:32
Alignment explanation
Indices: 21848647--21848731 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 32
21848637 TTAAATGTAT
21848647 ATTTTAAAT-TTTTTATAATATTATTTTTTAA
1 ATTTTAAATATTTTTATAATATTATTTTTTAA
21848678 ATTTTAAATATTTTTA-AATA-T-TTTTTTAA
1 ATTTTAAATATTTTTATAATATTATTTTTTAA
*
21848707 AATTTAAATATATTTT-TAATATTAT
1 ATTTTAAATAT-TTTTATAATATTAT
21848732 AAAACATTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
29 18 0.38
30 9 0.19
31 14 0.29
32 7 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (32 bp):
ATTTTAAATATTTTTATAATATTATTTTTTAA
Found at i:21848691 original size:17 final size:16
Alignment explanation
Indices: 21848647--21848696 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
21848637 TTAAATGTAT
21848647 ATTTTAAATTTTTTATA
1 ATTTTAAATTTTTTA-A
*
21848664 ATATT--ATTTTTTAA
1 ATTTTAAATTTTTTAA
21848678 ATTTTAAATATTTTTAA
1 ATTTTAAAT-TTTTTAA
21848695 AT
1 AT
21848697 ATTTTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 5 0.18
15 8 0.29
16 2 0.07
17 13 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTAAATTTTTTAA
Found at i:21848694 original size:10 final size:10
Alignment explanation
Indices: 21848648--21848702 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
21848638 TAAATGTATA
*
21848648 TTTTAAATTT
1 TTTTAAATAT
21848658 TTTATAATATTAT
1 TTT-TAA-A-TAT
*
21848671 TTTTTAA-A-
1 TTTTAAATAT
21848679 TTTTAAATAT
1 TTTTAAATAT
21848689 TTTTAAATAT
1 TTTTAAATAT
21848699 TTTT
1 TTTT
21848703 TTAAAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
8 6 0.16
9 2 0.05
10 17 0.46
11 4 0.11
12 3 0.08
13 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:21848710 original size:30 final size:31
Alignment explanation
Indices: 21848647--21848731 Score: 113
Period size: 30 Copynumber: 2.8 Consensus size: 31
21848637 TTAAATGTAT
*
21848647 ATTTTAAAT-TTTTTATAATATTATTTTTTAA
1 ATTTTAAATATTTTTA-AATATTATTTTTAAA
21848678 ATTTTAAATATTTTTAAATATT-TTTTTAAA
1 ATTTTAAATATTTTTAAATATTATTTTTAAA
*
21848708 A-TTTAAATATATTTTTAATATTAT
1 ATTTTAAATAT-TTTTAAATATTAT
21848732 AAAACATTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
29 9 0.18
30 18 0.37
31 16 0.33
32 6 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
ATTTTAAATATTTTTAAATATTATTTTTAAA
Found at i:21848740 original size:19 final size:19
Alignment explanation
Indices: 21848690--21848740 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
21848680 TTTAAATATT
**
21848690 TTTAAATATTTTTTTAAAA
1 TTTAAATACATTTTTAAAA
* *
21848709 TTTAAATATATTTTTAATA
1 TTTAAATACATTTTTAAAA
21848728 TTATAAA-ACATTT
1 TT-TAAATACATTT
21848741 AAAATATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAATACATTTTTAAAA
Found at i:21848822 original size:22 final size:23
Alignment explanation
Indices: 21848788--21848842 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
21848778 TATTATTTAG
*
21848788 TTTATAATATTTTAAAT-ATATAT
1 TTTAAAAT-TTTTAAATGATATAT
* *
21848811 TTTAAAATTTTTAAATGTTATTT
1 TTTAAAATTTTTAAATGATATAT
21848834 TTTAAAATT
1 TTTAAAATT
21848843 ATTTTTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAAATTTTTAAATGATATAT
Found at i:21851017 original size:40 final size:39
Alignment explanation
Indices: 21850973--21851087 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 39
21850963 TGAGTTACCA
* * *
21850973 TAGTGAATCAGGAACACATCCTATCCACTTTATATATT-TC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTA-AT-TTCTC
* * *
21851013 TAGTGAATCAGGAATAAATCATATTTACTTTAATTTCTT
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTC
21851052 TAGTGAATCAGGAATAAATCCTATTCACTTTTAATT
1 TAGTGAATCAGGAATAAATCCTATTCAC-TTTAATT
21851088 CTCGAGAAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
38 2 0.03
39 29 0.45
40 34 0.52
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (39 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTC
Found at i:21851970 original size:14 final size:15
Alignment explanation
Indices: 21851942--21851972 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
21851932 CCCCAATTTC
21851942 TCCCTTTTCTTTCTT
1 TCCCTTTTCTTTCTT
21851957 TCCCTTTT-TTTCTT
1 TCCCTTTTCTTTCTT
21851971 TC
1 TC
21851973 TTTCTTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TCCCTTTTCTTTCTT
Found at i:21852256 original size:21 final size:21
Alignment explanation
Indices: 21852232--21852271 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21852222 TATTTACTTA
21852232 AATTA-TAAGTAAATATATAAT
1 AATTACTAA-TAAATATATAAT
*
21852253 AATTACTAATATATATATA
1 AATTACTAATAAATATATA
21852272 TATGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
AATTACTAATAAATATATAAT
Found at i:21855014 original size:149 final size:149
Alignment explanation
Indices: 21854744--21855032 Score: 506
Period size: 149 Copynumber: 1.9 Consensus size: 149
21854734 TGTTAAGTAT
* *
21854744 AATTTTGTCTTTACCTATTTACAAGTGGCTACGAATATGGTTGGTACCTAGCAGCCGCTAGAAAC
1 AATTTTATCTTTACCTATTTACAAGTGGCTACGAATATGGTTGGTACCTAGCAGCCACTAGAAAC
*
21854809 GGTATCCTGTATAGAGCCTAGGACTACAACAGACCCAAACAACCAGCCATGTTACTAATCTTATG
66 GGTATCCTGTATAGAGCCTAGGACTACAACAGACCCAAACAACCAGCCATGTTACTAATCCTATG
21854874 TTTTGTTGCTAATTATGAG
131 TTTTGTTGCTAATTATGAG
*
21854893 AATTTTATTTTTACCTATTTACAAGTGGCTACGAATATGGTTGGTACCTAGCAGCCACTAGAAAC
1 AATTTTATCTTTACCTATTTACAAGTGGCTACGAATATGGTTGGTACCTAGCAGCCACTAGAAAC
* * * *
21854958 GGTATCTTGTATAGAGCCTAGGACTGCAGCAGACCCAAACAATCAGCCATGTTACTAATCCTATG
66 GGTATCCTGTATAGAGCCTAGGACTACAACAGACCCAAACAACCAGCCATGTTACTAATCCTATG
21855023 TTTTGTTGCT
131 TTTTGTTGCT
21855033 CGGCAAAGCT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 132 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (149 bp):
AATTTTATCTTTACCTATTTACAAGTGGCTACGAATATGGTTGGTACCTAGCAGCCACTAGAAAC
GGTATCCTGTATAGAGCCTAGGACTACAACAGACCCAAACAACCAGCCATGTTACTAATCCTATG
TTTTGTTGCTAATTATGAG
Found at i:21856800 original size:20 final size:21
Alignment explanation
Indices: 21856777--21856823 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
21856767 AAAATCATTG
*
21856777 GTTTTTTAAGAAATAAAT-CT
1 GTTTTTTAACAAATAAATCCT
21856797 G-TTTTTAACAAATAAATCCT
1 GTTTTTTAACAAATAAATCCT
21856817 -TTTTTTA
1 GTTTTTTA
21856824 CTTTTTTCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (21 bp):
GTTTTTTAACAAATAAATCCT
Found at i:21857248 original size:22 final size:23
Alignment explanation
Indices: 21857221--21857271 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
21857211 AAATAATAAA
21857221 TTTAAAAAATATATTTAAAA-AT
1 TTTAAAAAATATATTTAAAATAT
*
21857243 TTTAAAATATATATTTAAAATAT
1 TTTAAAAAATATATTTAAAATAT
*
21857266 TATAAA
1 TTTAAA
21857272 CCAAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAAAAAATATATTTAAAATAT
Found at i:21857269 original size:14 final size:13
Alignment explanation
Indices: 21857210--21857265 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
21857200 AATAATTTAA
*
21857210 AAAATAATAAATTT
1 AAAAT-ATATATTT
*
21857224 AAAAAATATATTT
1 AAAATATATATTT
21857237 -AAA-A-AT-TTT
1 AAAATATATATTT
21857246 AAAATATATATTT
1 AAAATATATATTT
21857259 AAAATAT
1 AAAATAT
21857266 TATAAACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 3 0.08
10 5 0.14
11 2 0.06
12 5 0.14
13 17 0.47
14 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATATATATTT
Found at i:21857358 original size:21 final size:21
Alignment explanation
Indices: 21857325--21857373 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
21857315 TATTAAATGT
21857325 TTTATAATATTAAAAAATAATA
1 TTTA-AATATTAAAAAATAATA
*
21857347 TTTAAATTTTAAAAAATAATA
1 TTTAAATATTAAAAAATAATA
21857368 TTTAAA
1 TTTAAA
21857374 ATATATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAATATTAAAAAATAATA
Found at i:21857387 original size:17 final size:15
Alignment explanation
Indices: 21857354--21857392 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
21857344 ATATTTAAAT
21857354 TTTAAAA-AATAATA
1 TTTAAAATAATAATA
21857368 TTTAAAATATATATATA
1 TTTAAAATA-ATA-ATA
21857385 TTTAAAAT
1 TTTAAAAT
21857393 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 1 0.05
16 3 0.14
17 11 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTAAAATAATAATA
Found at i:21857397 original size:39 final size:35
Alignment explanation
Indices: 21857328--21857414 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 35
21857318 TAAATGTTTT
21857328 ATAATA-TTAAAAAATAATATTTAAATTTTAAAAA
1 ATAATATTTAAAAAATAATATTTAAATTTTAAAAA
21857362 ATAATATTTAAAATATATATATATTTAAAATTTTAAAAA
1 ATAATATTTAAAA-A-ATA-ATATTT-AAATTTTAAAAA
*
21857401 ATTATATTATAAAA
1 ATAATATT-TAAAA
21857415 CGTTTAGAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
34 6 0.13
35 6 0.13
36 1 0.02
37 3 0.07
38 6 0.13
39 19 0.41
40 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (35 bp):
ATAATATTTAAAAAATAATATTTAAATTTTAAAAA
Found at i:21857530 original size:14 final size:16
Alignment explanation
Indices: 21857504--21857536 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
21857494 TTGAAAAAGT
21857504 AAATAAAGAAAAAC-A
1 AAATAAAGAAAAACGA
21857519 AAATAAAG-AAAACGA
1 AAATAAAGAAAAACGA
21857534 AAA
1 AAA
21857537 ATGACAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (16 bp):
AAATAAAGAAAAACGA
Found at i:21869559 original size:35 final size:35
Alignment explanation
Indices: 21869417--21869547 Score: 129
Period size: 35 Copynumber: 3.6 Consensus size: 35
21869407 CCTCATTGAA
* * * *
21869417 ATACCATACTTACATTTTACAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCAGTAT-GGATG
** **
21869452 ATGTCATACCTACATTTCTTAACTCAGTATGGATTTG
1 ATACCATACCTACATTTCACAACTCAGTATGGA--TG
21869489 ATAATACCATACCTACATTTCACAACTCAGTATGGATG
1 ---ATACCATACCTACATTTCACAACTCAGTATGGATG
21869527 ATACCATACCTACATTTCACA
1 ATACCATACCTACATTTCACA
21869548 CTTTTCCATG
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
34 3 0.04
35 44 0.56
38 2 0.03
40 29 0.37
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:21871294 original size:32 final size:32
Alignment explanation
Indices: 21871250--21871310 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
21871240 CATAATTTCA
* *
21871250 TAAATACTCAATTCAATATTAAAATACTATAC
1 TAAACACTCAATTCAATATCAAAATACTATAC
21871282 TAAACACTCAATTCAATATCAAAATACTA
1 TAAACACTCAATTCAATATCAAAATACTA
21871311 CACTTACCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (32 bp):
TAAACACTCAATTCAATATCAAAATACTATAC
Found at i:21871981 original size:25 final size:25
Alignment explanation
Indices: 21871952--21871999 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21871942 ACTTTTTCTC
* *
21871952 CTTTCTTTCTCTTTTTCGTTTCTTT
1 CTTTCATTCTCTGTTTCGTTTCTTT
21871977 CTTTCATTCTCTGTTTCGTTTCT
1 CTTTCATTCTCTGTTTCGTTTCT
21872000 GCTTTGGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.02, C:0.25, G:0.06, T:0.67
Consensus pattern (25 bp):
CTTTCATTCTCTGTTTCGTTTCTTT
Found at i:21872072 original size:5 final size:5
Alignment explanation
Indices: 21872062--21872096 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
21872052 GTTTTATTAT
21872062 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
21872097 TATTTATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:21874691 original size:5 final size:5
Alignment explanation
Indices: 21874681--21874705 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21874671 GTCATCAGGA
21874681 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
21874706 GAAATTGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:21874697 original size:54 final size:53
Alignment explanation
Indices: 21874633--21874752 Score: 163
Period size: 54 Copynumber: 2.3 Consensus size: 53
21874623 CATGTTTAGC
* * *
21874633 AAAGAAAAGAAGAGAAAAAGACATTAGGAAGAAGAAAGGTCATCAG-GAAAAAG
1 AAAGAAAAGAAAAGAAAAAGAAATTAGGAAGAAGAAAGGT-AACAGAGAAAAAG
* *
21874686 AAAAGAAAAGAAAAGAAAAGGAAATTGGGAAGAAGAAAGGTAACAGAGAAAAAG
1 -AAAGAAAAGAAAAGAAAAAGAAATTAGGAAGAAGAAAGGTAACAGAGAAAAAG
21874740 AAAGAAAA-AAAAG
1 AAAGAAAAGAAAAG
21874753 GAAATAGTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
52 5 0.08
53 12 0.20
54 43 0.72
ACGTcount: A:0.65, C:0.03, G:0.26, T:0.06
Consensus pattern (53 bp):
AAAGAAAAGAAAAGAAAAAGAAATTAGGAAGAAGAAAGGTAACAGAGAAAAAG
Found at i:21889192 original size:20 final size:21
Alignment explanation
Indices: 21889154--21889193 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
21889144 TTATAAAATT
*
21889154 ATTAAAATATTTTTCTTATAA
1 ATTAAAATATATTTCTTATAA
*
21889175 ATTAAATTATATTT-TTATA
1 ATTAAAATATATTTCTTATA
21889194 TAATAAATCA
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:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTAAAATATATTTCTTATAA
Found at i:21892346 original size:14 final size:14
Alignment explanation
Indices: 21892323--21892355 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21892313 AATAAATTGT
21892323 TTAA-TCTAATTAA
1 TTAATTCTAATTAA
21892336 TTAATTCTAATTAA
1 TTAATTCTAATTAA
*
21892350 ATAATT
1 TTAATT
21892356 AACGCAACTT
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:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATTCTAATTAA
Found at i:21896633 original size:43 final size:43
Alignment explanation
Indices: 21896552--21896635 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
21896542 AAGTTGTACA
* **
21896552 ATGCCAACGTCCCAGACATGGTCTTACATGTAGTCATATATCG
1 ATGCCAACGTCCCAGACAGGGTCTTACATGTAAACATATATCG
21896595 ATGCC-ACTGTCCCAGACAGGGTCTTAC-TCGTAAACATATAT
1 ATGCCAAC-GTCCCAGACAGGGTCTTACAT-GTAAACATATAT
21896636 TGGAATCACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACATGTAAACATATATCG
Found at i:21903361 original size:15 final size:15
Alignment explanation
Indices: 21903341--21903370 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21903331 TGTCATTCAT
21903341 AATGAACTAGATGTC
1 AATGAACTAGATGTC
21903356 AATGAACTAGATGTC
1 AATGAACTAGATGTC
21903371 CGAATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
AATGAACTAGATGTC
Found at i:21912377 original size:28 final size:27
Alignment explanation
Indices: 21912346--21912398 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21912336 CATTTCTTTT
* * *
21912346 TAAAATATAACTTATTTTAATTTTTTAA
1 TAAAATA-AAATTAATTTAATATTTTAA
21912374 TAAAATAAAATTAATTTAATATTTT
1 TAAAATAAAATTAATTTAATATTTT
21912399 CTAGGTTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
TAAAATAAAATTAATTTAATATTTTAA
Found at i:21918845 original size:23 final size:23
Alignment explanation
Indices: 21918795--21918838 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
21918785 GTATAGGGTT
21918795 GGGTGGGTGTTTTAAACCTCAAA
1 GGGTGGGTGTTTTAAACCTCAAA
21918818 GGGTGGGTGTTTTAAACCTCA
1 GGGTGGGTGTTTTAAACCTCA
21918839 CATGGTGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.32
Consensus pattern (23 bp):
GGGTGGGTGTTTTAAACCTCAAA
Found at i:21925141 original size:14 final size:16
Alignment explanation
Indices: 21925121--21925161 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
21925111 TGAGTTTAGA
*
21925121 AAAACCCTAAAATC-T
1 AAAACCCTAAAACCTT
21925136 -AAACCCTAAAACCTT
1 AAAACCCTAAAACCTT
21925151 AAAACCCTAAA
1 AAAACCCTAAA
21925162 CCCTAAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAACCCTAAAACCTT
Found at i:21925147 original size:8 final size:8
Alignment explanation
Indices: 21925121--21925169 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
21925111 TGAGTTTAGA
21925121 AAAACCCT
1 AAAACCCT
*
21925129 AAAA-TCT
1 AAAACCCT
21925136 -AAACCCT
1 AAAACCCT
*
21925143 AAAACCTT
1 AAAACCCT
21925151 AAAACCCT
1 AAAACCCT
21925159 -AAACCCT
1 AAAACCCT
21925166 AAAA
1 AAAA
21925170 GGTTCTAAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 3 0.09
7 11 0.32
8 20 0.59
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAACCCT
Found at i:21925160 original size:23 final size:22
Alignment explanation
Indices: 21925121--21925169 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
21925111 TGAGTTTAGA
*
21925121 AAAACCCTAAAATCTAAACCCT
1 AAAACCCTAAAACCTAAACCCT
*
21925143 AAAACCTTAAAACCCTAAACCCT
1 AAAACCCTAAAA-CCTAAACCCT
21925166 AAAA
1 AAAA
21925170 GGTTCTAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAACCCTAAAACCTAAACCCT
Found at i:21927958 original size:21 final size:21
Alignment explanation
Indices: 21927928--21927970 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
21927918 ATTTTACTAA
*
21927928 ACAACGATAATCGAGACCACC
1 ACAACAATAATCGAGACCACC
21927949 ACAACAATAATCGAGACCACC
1 ACAACAATAATCGAGACCACC
21927970 A
1 A
21927971 TTCTCTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.33, G:0.12, T:0.09
Consensus pattern (21 bp):
ACAACAATAATCGAGACCACC
Found at i:21934056 original size:9 final size:9
Alignment explanation
Indices: 21934044--21934075 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
21934034 TTCTAGACTT
21934044 TTGGGCTTG
1 TTGGGCTTG
21934053 TTGGGCTTG
1 TTGGGCTTG
21934062 TTGGGCTTG
1 TTGGGCTTG
*
21934071 CTGGG
1 TTGGG
21934076 TTTGGGCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.00, C:0.12, G:0.47, T:0.41
Consensus pattern (9 bp):
TTGGGCTTG
Found at i:21934734 original size:227 final size:227
Alignment explanation
Indices: 21934335--21934817 Score: 616
Period size: 227 Copynumber: 2.1 Consensus size: 227
21934325 TCGTTCTATC
* * *
21934335 CCACTGCATCTTCAGGGAGATAAGGTTTGCGACTTAAATCTGCTCCACTGCAATTTTAGAGAGAT
1 CCACTGCATCTTCAGGGAGATAAGGTTTGCGACTTAAATCTGCTCCACTACAACTTCAGAGAGAT
* * * * * *
21934400 AAGATTCGCCATGGTAACTTGATTCGGCCTACTATAACTTCAGAGGTATAGGATTTATAGCCTTA
66 AAGATTCGCCATGGTAACTTCATTCGACCCACTACAACTTCAGAGGCATAGGACTTATAGCCTTA
* *
21934465 ATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTACTATCTTTAGTCTATTCCACTGCAACTTC
131 ATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTACTATCTTCAGTCTATTCCACTACAACTTC
**
21934530 AGGGATTTAAGACTTGGTAATTTCAAAGTACT
196 AGGGAAATAAGACTTGGTAATTTCAAAGTACT
* * * *
21934562 CCACTGCATCTTCAGGGAGATAATGTTAATG-G-CTTTAATCTGCTCTACTACAACTTCAGATAG
1 CCACTGCATCTTCAGGGAGATAAGGTT--TGCGACTTAAATCTGCTCCACTACAACTTCAGAGAG
* * *
21934625 ATAAGATTTGCCATGGTAGATTTCA-TCTGACCCAC-GCAACTTCAGAGGCATAGGACTTATAGC
64 ATAAGATTCGCCATGGTA-ACTTCATTC-GACCCACTACAACTTCAGAGGCATAGGACTTATAGC
* *
21934688 CTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTATTCCACTACAA
127 CTTAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTACTATCTTCAGTCTATTCCACTACAA
* * ** *
21934753 CTTCAGGGAAATAAGACTT-GTATTTTTAACCTGCT
192 CTTCAGGGAAATAAGACTTGGTAATTTCAAAGTACT
* * * *
21934788 CCACCGCAACCTCAGGGAGATAAAGTTTGC
1 CCACTGCATCTTCAGGGAGATAAGGTTTGC
21934818 TATTCTTCGA
Statistics
Matches: 220, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
224 2 0.01
226 34 0.15
227 172 0.78
228 10 0.05
229 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (227 bp):
CCACTGCATCTTCAGGGAGATAAGGTTTGCGACTTAAATCTGCTCCACTACAACTTCAGAGAGAT
AAGATTCGCCATGGTAACTTCATTCGACCCACTACAACTTCAGAGGCATAGGACTTATAGCCTTA
ATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTACTATCTTCAGTCTATTCCACTACAACTTC
AGGGAAATAAGACTTGGTAATTTCAAAGTACT
Found at i:21943033 original size:19 final size:20
Alignment explanation
Indices: 21943009--21943051 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
21942999 GGTCTTTTCG
* *
21943009 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGAA
21943028 TGAAATGTAATGCAAATGAA
1 TGAAATGTAATGCAAATGAA
21943048 TGAA
1 TGAA
21943052 TGCAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.47, C:0.05, G:0.19, T:0.30
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGAA
Found at i:21945772 original size:13 final size:14
Alignment explanation
Indices: 21945754--21945782 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21945744 AAGGATATGC
21945754 AATGAAATGAT-GT
1 AATGAAATGATCGT
21945767 AATGAAATGATCGT
1 AATGAAATGATCGT
21945781 AA
1 AA
21945783 GTTTAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.28
Consensus pattern (14 bp):
AATGAAATGATCGT
Found at i:21948782 original size:14 final size:14
Alignment explanation
Indices: 21948765--21948805 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
21948755 TTTGTTTTTT
21948765 GGTTTATTGGTTTG
1 GGTTTATTGGTTTG
21948779 GGTTTATT--TTT-
1 GGTTTATTGGTTTG
*
21948790 GGTTTGTTGGTTTG
1 GGTTTATTGGTTTG
21948804 GG
1 GG
21948806 CCAAAATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 7 0.30
12 3 0.13
13 3 0.13
14 10 0.43
ACGTcount: A:0.05, C:0.00, G:0.37, T:0.59
Consensus pattern (14 bp):
GGTTTATTGGTTTG
Found at i:21956025 original size:24 final size:23
Alignment explanation
Indices: 21955981--21956025 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
21955971 TATTATTATT
21955981 ATATTATAAATAAAAAAATAAAA
1 ATATTATAAATAAAAAAATAAAA
* *
21956004 ATATTATTAAATTAAATAATAA
1 ATATTA-TAAATAAAAAAATAA
21956026 TTAATAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
ATATTATAAATAAAAAAATAAAA
Found at i:21972958 original size:53 final size:53
Alignment explanation
Indices: 21972875--21972993 Score: 161
Period size: 53 Copynumber: 2.2 Consensus size: 53
21972865 AAACTATTTC
* * *
21972875 CTTTTTTTTC-TTTCTTTTTCTCTGTTACCTTTCTTCTTCCCAATTTCCTTTT
1 CTTTCTTTTCTTTTCTTTTTCTCTGTGACCTTTCTTCTTCCCAATGTCCTTTT
* *
21972927 CTTTCTTTTCTTTTCTTTTTC-CTGATGACCTTTCTTCTTCCTAATGTCTTTTT
1 CTTTCTTTTCTTTTCTTTTTCTCTG-TGACCTTTCTTCTTCCCAATGTCCTTTT
21972980 CTCTTCTTTTCTTT
1 CT-TTCTTTTCTTT
21972994 GCTAAACATG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
52 12 0.20
53 36 0.61
54 11 0.19
ACGTcount: A:0.06, C:0.26, G:0.03, T:0.65
Consensus pattern (53 bp):
CTTTCTTTTCTTTTCTTTTTCTCTGTGACCTTTCTTCTTCCCAATGTCCTTTT
Found at i:21975536 original size:5 final size:5
Alignment explanation
Indices: 21975526--21975560 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
21975516 AGTATAAATA
21975526 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
21975561 ATAATAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:21975665 original size:21 final size:25
Alignment explanation
Indices: 21975623--21975670 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21975613 AAGCCAAAGC
21975623 AGAAACGAAACAGAGAATGAAAGAA
1 AGAAACGAAACAGAGAATGAAAGAA
* *
21975648 AGAAACGAAAAAGAGAAAGAAAG
1 AGAAACGAAACAGAGAATGAAAG
21975671 GAGAAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.67, C:0.06, G:0.25, T:0.02
Consensus pattern (25 bp):
AGAAACGAAACAGAGAATGAAAGAA
Found at i:21976349 original size:32 final size:32
Alignment explanation
Indices: 21976313--21976373 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
21976303 AAGGTAAGTG
* *
21976313 TAGTATTTTGATATTGAATTGAGTGTTTAGTA
1 TAGTATTTTAATATTGAATTGAGTATTTAGTA
21976345 TAGTATTTTAATATTGAATTGAGTATTTA
1 TAGTATTTTAATATTGAATTGAGTATTTA
21976374 TGAAATTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (32 bp):
TAGTATTTTAATATTGAATTGAGTATTTAGTA
Found at i:21978142 original size:40 final size:37
Alignment explanation
Indices: 21978076--21978210 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 37
21978066 CATGGAAAAG
21978076 TGTGAAATGTAGGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
21978111 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** ** *
21978151 TAAGAAATGTAGGTATGACATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
* *
21978186 TGTAAAATGTAAGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
21978211 ATGAGGAAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
35 48 0.58
38 2 0.02
39 2 0.02
40 31 0.37
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:21989777 original size:15 final size:15
Alignment explanation
Indices: 21989745--21989779 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
21989735 TCATTTTTCG
**
21989745 TTTTCTTTATTTTGT
1 TTTTCTTTATTTACT
21989760 TTTTCTTTATTTACT
1 TTTTCTTTATTTACT
21989775 TTTTC
1 TTTTC
21989780 AATTTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.11, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTCTTTATTTACT
Found at i:21989834 original size:9 final size:9
Alignment explanation
Indices: 21989796--21989820 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21989786 TTATTTGCCC
21989796 TTTATTTGT
1 TTTATTTGT
21989805 TTTATTTGT
1 TTTATTTGT
21989814 TTTATTT
1 TTTATTT
21989821 ATTATTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (9 bp):
TTTATTTGT
Found at i:21989905 original size:17 final size:15
Alignment explanation
Indices: 21989883--21989921 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
21989873 ATTTTTTAAA
21989883 ATTTTAAATATATATAT
1 ATTTTAAATAT-TAT-T
21989900 ATTTTAAATATTATT
1 ATTTTAAATATTATT
21989915 -TTTTAAA
1 ATTTTAAA
21989922 ATTTAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 1 0.05
16 3 0.14
17 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTAAATATTATT
Found at i:21989916 original size:39 final size:35
Alignment explanation
Indices: 21989861--21989947 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 35
21989851 ATTCTAAACG
*
21989861 TTTTATAATATAATTTTTTAAAATTTTAAATATATATAT
1 TTTTA-AATATTATTTTTTAAAA-TTTAAATAT-TAT-T
21989900 ATTTTAAATATTATTTTTTAAAATTTAAATATTATT
1 -TTTTAAATATTATTTTTTAAAATTTAAATATTATT
21989936 TTTT-AATATTAT
1 TTTTAAATATTAT
21989948 AAAACATTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
34 8 0.17
35 4 0.09
36 1 0.02
37 3 0.07
38 9 0.20
39 16 0.35
40 5 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TTTTAAATATTATTTTTTAAAATTTAAATATTATT
Found at i:21989926 original size:21 final size:21
Alignment explanation
Indices: 21989902--21989950 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
21989892 ATATATATAT
21989902 TTTAAATATTATTTTTTAAAA
1 TTTAAATATTATTTTTTAAAA
*
21989923 TTTAAATATTATTTTTTAATA
1 TTTAAATATTATTTTTTAAAA
21989944 TTATAAA
1 TT-TAAA
21989951 ACATTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAAATATTATTTTTTAAAA
Found at i:21990028 original size:13 final size:13
Alignment explanation
Indices: 21990010--21990065 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
21990000 TTGGTTTATA
21990010 ATATTTTAAATAT
1 ATATTTTAAATAT
21990023 ATATTTT-AA-A-
1 ATATTTTAAATAT
21990033 AT-TTTTAAATAT
1 ATATTTTAAATAT
* *
21990045 ATTTTTTAAATTT
1 ATATTTTAAATAT
21990058 ATTATTTT
1 A-TATTTT
21990066 TTAAATTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 4 0.11
10 4 0.11
11 2 0.06
12 4 0.11
13 17 0.47
14 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:21990038 original size:22 final size:23
Alignment explanation
Indices: 21990004--21990054 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
21989994 TATTATTTGG
*
21990004 TTTATAATATTTTAAATATATAT
1 TTTAAAATATTTTAAATATATAT
*
21990027 TTTAAAAT-TTTTAAATATATTT
1 TTTAAAATATTTTAAATATATAT
21990049 TTTAAA
1 TTTAAA
21990055 TTTATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAAATATTTTAAATATATAT
Found at i:21990074 original size:15 final size:15
Alignment explanation
Indices: 21990034--21990075 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
21990024 TATTTTAAAA
21990034 TTTTTAAA-TA-TAT
1 TTTTTAAATTATTAT
21990047 TTTTTAAATTTATTAT
1 TTTTTAAA-TTATTAT
21990063 TTTTTAAATTATT
1 TTTTTAAATTATT
21990076 TTTGAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.31
15 7 0.27
16 11 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTAAATTATTAT
Found at i:21990078 original size:13 final size:14
Alignment explanation
Indices: 21990034--21990078 Score: 58
Period size: 13 Copynumber: 3.2 Consensus size: 14
21990024 TATTTTAAAA
21990034 TTTTTAAA-TATAT
1 TTTTTAAATTATAT
21990047 TTTTTAAATTTATTAT
1 TTTTTAAA-TTA-TAT
21990063 TTTTTAAATTAT-T
1 TTTTTAAATTATAT
21990076 TTT
1 TTT
21990079 GAAGATATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.41
14 1 0.03
15 5 0.17
16 11 0.38
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTAAATTATAT
Found at i:21990468 original size:19 final size:18
Alignment explanation
Indices: 21990444--21990488 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
21990434 TGGAAAAAAG
*
21990444 TAAAAAAGGATTTATTTGT
1 TAAAAAA-GATTTATTTCT
21990463 TAAAAACAGATTTATTTCT
1 TAAAAA-AGATTTATTTCT
21990482 TAAAAAA
1 TAAAAAA
21990489 CCAATGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (18 bp):
TAAAAAAGATTTATTTCT
Found at i:21992495 original size:149 final size:149
Alignment explanation
Indices: 21992225--21992501 Score: 500
Period size: 149 Copynumber: 1.9 Consensus size: 149
21992215 TTGCCGAGCA
*
21992225 AACAAAACATAGGATTAGTAACATGGCTGATTGTTTGGGTCTGCTGCAGTCCTAGGCTCTATACA
1 AACAAAACATAAGATTAGTAACATGGCTGATTGTTTGGGTCTGCTGCAGTCCTAGGCTCTATACA
*
21992290 AGATACCGTTTCTAGTGGCTGCTAGGTACCAACCATATTCGTAGCCACTTGTAAATAGGTAAAAA
66 AGATACCGTTTCTAGCGGCTGCTAGGTACCAACCATATTCGTAGCCACTTGTAAATAGGTAAAAA
21992355 TAAAATTCTCATAATTAGC
131 TAAAATTCTCATAATTAGC
* * *
21992374 AACAAAACATAAGATTAGTAACATGGCTGGTTGTTTGGGTCTGTTGTAGTCCTAGGCTCTATACA
1 AACAAAACATAAGATTAGTAACATGGCTGATTGTTTGGGTCTGCTGCAGTCCTAGGCTCTATACA
*
21992439 GGATACCGTTTCTAGCGGCTGCTAGGTACCAACCATATTCGTAGCCACTTGTAAATAGGTAAA
66 AGATACCGTTTCTAGCGGCTGCTAGGTACCAACCATATTCGTAGCCACTTGTAAATAGGTAAA
21992502 GACAAATTAT
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 122 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (149 bp):
AACAAAACATAAGATTAGTAACATGGCTGATTGTTTGGGTCTGCTGCAGTCCTAGGCTCTATACA
AGATACCGTTTCTAGCGGCTGCTAGGTACCAACCATATTCGTAGCCACTTGTAAATAGGTAAAAA
TAAAATTCTCATAATTAGC
Found at i:22004640 original size:21 final size:21
Alignment explanation
Indices: 22004594--22004642 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
22004584 CTTCATATCT
* *
22004594 AAAAAAAATAAAAATAATTAC
1 AAAAAAAAAAAAAATAAATAC
* *
22004615 CAAAAAAAAAAAAATAAA-AT
1 AAAAAAAAAAAAAATAAATAC
22004635 AAAAAAAA
1 AAAAAAAA
22004643 TAATCAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.12
Consensus pattern (21 bp):
AAAAAAAAAAAAAATAAATAC
Found at i:22004653 original size:16 final size:14
Alignment explanation
Indices: 22004616--22004645 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22004606 AATAATTACC
*
22004616 AAAAAAAAAAAAAT
1 AAAATAAAAAAAAT
22004630 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
22004644 AA
1 AA
22004646 TCAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:22005165 original size:21 final size:21
Alignment explanation
Indices: 22005132--22005175 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22005122 AAAATTATGT
22005132 TAAAATATTTAAAAGTT-AAAA
1 TAAAATATTTAAAA-TTCAAAA
22005153 TAAAA-ATTCTAAAATTCAAAA
1 TAAAATATT-TAAAATTCAAAA
22005174 TA
1 TA
22005176 TATATGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAAATATTTAAAATTCAAAA
Found at i:22007041 original size:19 final size:19
Alignment explanation
Indices: 22007005--22007067 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
22006995 ATTCAATAAT
22007005 ATAAT-AAATTATTA-TTTA
1 ATAATAAAATT-TTACTTTA
*
22007023 ATATTAAAATTTTACTTTA
1 ATAATAAAATTTTACTTTA
* * *
22007042 ACAATAAAATTTAACATTA
1 ATAATAAAATTTTACTTTA
22007061 ATAATAA
1 ATAATAA
22007068 TTTAAATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 7 0.19
19 30 0.81
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATAAAATTTTACTTTA
Found at i:22009340 original size:17 final size:16
Alignment explanation
Indices: 22009312--22009367 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 16
22009302 ATCTGTAACT
22009312 TTTTTTGAAATTTTATTA
1 TTTTTTG-AATTTTA-TA
22009330 TTTTTTGAATTTGTATA
1 TTTTTTGAATTT-TATA
*
22009347 CTTTTTAGAATATTTATA
1 -TTTTTTGAAT-TTTATA
22009365 TTT
1 TTT
22009368 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 10 0.29
18 22 0.65
19 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (16 bp):
TTTTTTGAATTTTATA
Found at i:22011837 original size:93 final size:93
Alignment explanation
Indices: 22011724--22011895 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
22011714 GCCCATAAGT
* *
22011724 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22011789 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
22011817 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAATTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
22011882 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
22011896 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:22011891 original size:46 final size:46
Alignment explanation
Indices: 22011716--22011891 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
22011706 TGTAACCCGC
* * *
22011716 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
22011762 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
22011808 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
22011855 CCATAAGTGAATTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
22011892 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:22014781 original size:21 final size:21
Alignment explanation
Indices: 22014738--22014782 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22014728 TGCAAAGCAC
*** *
22014738 ACATGCCTGTGTGGTTAATGG
1 ACATGCCTGTGTGACCAAAGG
22014759 ACATGCCTGTGTGACCAAAGG
1 ACATGCCTGTGTGACCAAAGG
22014780 ACA
1 ACA
22014783 CGCCCGTGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (21 bp):
ACATGCCTGTGTGACCAAAGG
Found at i:22015306 original size:4 final size:4
Alignment explanation
Indices: 22015292--22015321 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
22015282 TTAATCCTTA
22015292 ACAT AACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT A
22015322 TAATCAACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:22016889 original size:5 final size:5
Alignment explanation
Indices: 22016879--22016934 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
22016869 CTTTATATTT
22016879 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
22016929 TAATA T
1 TAATA T
22016935 TTACTTAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:22022704 original size:15 final size:16
Alignment explanation
Indices: 22022681--22022715 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
22022671 ATAAAAAATG
*
22022681 AAATTATAT-ATTTAA
1 AAATAATATAATTTAA
22022696 AAATAATATAATTTAA
1 AAATAATATAATTTAA
22022712 AAAT
1 AAAT
22022716 TATGATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATAATATAATTTAA
Found at i:22022725 original size:14 final size:15
Alignment explanation
Indices: 22022685--22022725 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
22022675 AAAATGAAAT
22022685 TATAT-ATTTAAAAA
1 TATATAATTTAAAAA
22022699 TAATATAATTTAAAAA
1 T-ATATAATTTAAAAA
*
22022715 T-TATGATTTAA
1 TATATAATTTAA
22022726 TAAAGTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.42
15 4 0.17
16 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
TATATAATTTAAAAA
Found at i:22024208 original size:21 final size:22
Alignment explanation
Indices: 22024170--22024211 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22024160 TTTTATTATT
*
22024170 TTTTAATTTATTAAAATATATG
1 TTTTAATTTATAAAAATATATG
22024192 TTTTAATTTA-AAAAATATAT
1 TTTTAATTTATAAAAATATAT
22024212 TTGAGCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTAATTTATAAAAATATATG
Found at i:22025411 original size:21 final size:21
Alignment explanation
Indices: 22025387--22025468 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
22025377 ATTAATCATA
*
22025387 ATTTTAAAATAAATTATAATT
1 ATTTTAATATAAATTATAATT
* * *
22025408 ATTTTAATATATATTATCATA
1 ATTTTAATATAAATTATAATT
22025429 ATTTT-AT-T-AATTATAATT
1 ATTTTAATATAAATTATAATT
*
22025447 CTTTTAATATATAATTATAATT
1 ATTTTAATATA-AATTATAATT
22025469 CTAAATTAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
18 11 0.22
19 3 0.06
20 3 0.06
21 22 0.45
22 10 0.20
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTAATATAAATTATAATT
Found at i:22025444 original size:15 final size:16
Alignment explanation
Indices: 22025426--22025462 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
22025416 ATATATTATC
22025426 ATAATT-TTATTAAT-T
1 ATAATTCTT-TTAATAT
22025441 ATAATTCTTTTAATAT
1 ATAATTCTTTTAATAT
22025457 ATAATT
1 ATAATT
22025463 ATAATTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
ATAATTCTTTTAATAT
Found at i:22025477 original size:24 final size:22
Alignment explanation
Indices: 22025436--22025488 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 22
22025426 ATAATTTTAT
*
22025436 TAATTATAATTCTTTTAATATA
1 TAATTATAATTCTATTAATATA
*
22025458 TAATTATAATTCTAAATTAATATT
1 TAATTATAATTCT--ATTAATATA
22025482 TAATTAT
1 TAATTAT
22025489 TTTCAAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 13 0.48
24 14 0.52
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
TAATTATAATTCTATTAATATA
Found at i:22025477 original size:39 final size:38
Alignment explanation
Indices: 22025379--22025491 Score: 120
Period size: 39 Copynumber: 2.8 Consensus size: 38
22025369 TTAAACTTAT
*
22025379 TAATCATAATTTTAAAATAAATTATAATTATTTTAATATA
1 TAATCATAA-TTT-AAATTAATTATAATTATTTTAATATA
* *
22025419 TATTATCATAATTT-TATTAATTATAATTCTTTTAATATA
1 TA--ATCATAATTTAAATTAATTATAATTATTTTAATATA
* *
22025458 TAATTATAATTCTAAATTAATATTTAATTATTTT
1 TAATCATAATT-TAAATTAAT-TATAATTATTTT
22025492 CAAATGTCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
37 8 0.13
38 1 0.02
39 30 0.49
40 12 0.20
41 3 0.05
42 7 0.11
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (38 bp):
TAATCATAATTTAAATTAATTATAATTATTTTAATATA
Found at i:22031095 original size:5 final size:5
Alignment explanation
Indices: 22031079--22031119 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
22031069 ATTTAAGTAA
22031079 TATAT T-TAT TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
22031120 AAAATAAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:22031187 original size:18 final size:19
Alignment explanation
Indices: 22031143--22031188 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
22031133 TAAAAGAAAT
22031143 GAAATA-AAAGAAACAAAA
1 GAAATAGAAAGAAACAAAA
*
22031161 GAAAAAGAAAG-AACAAACA
1 GAAATAGAAAGAAACAAA-A
22031180 G-AATAGAAA
1 GAAATAGAAA
22031189 ACGAAATAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.74, C:0.07, G:0.15, T:0.04
Consensus pattern (19 bp):
GAAATAGAAAGAAACAAAA
Found at i:22032647 original size:4 final size:4
Alignment explanation
Indices: 22032638--22032667 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
22032628 TGGTTGATTA
22032638 TATG TATG TATG TATG TATG TATG TTATG T
1 TATG TATG TATG TATG TATG TATG -TATG T
22032668 TAAGGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:22036144 original size:93 final size:92
Alignment explanation
Indices: 22036024--22036194 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 92
22036014 AGGATATTTG
* *
22036024 GGCATCCGAACTCGTGAGTTGAGTCCGAATTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22036089 TGAGTCCGAGTTCGAGAGATGTAACTA
66 TGAGTCCGAGTTCGAGAGATGTAACTA
* * *
22036116 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCG-TGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
22036181 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
22036195 ACTTATGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 13 0.18
93 59 0.82
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (92 bp):
GGCATCCGAACTCGTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:22036193 original size:46 final size:46
Alignment explanation
Indices: 22036029--22036202 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
22036019 ATTTGGGCAT
* * *
22036029 CCGAACTCG-TGAGTTGAGTCCGAATTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*** * * * *
22036074 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
*
22036119 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
22036167 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22036203 CGGGTTACAT
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
45 11 0.10
46 58 0.55
47 33 0.31
48 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:22040860 original size:19 final size:19
Alignment explanation
Indices: 22040832--22040894 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
22040822 TTATTTAAAA
* *
22040832 TTATTATTAATGTTAAATT
1 TTATTATTAAAGTAAAATT
*
22040851 TTATTGTTAAAGTAAAATT
1 TTATTATTAAAGTAAAATT
*
22040870 TTAATATTAAA-TAATAA-T
1 TTATTATTAAAGTAA-AATT
22040888 TTATTAT
1 TTATTAT
22040895 ATTATTGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 10 0.27
19 27 0.73
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
TTATTATTAAAGTAAAATT
Done.