Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 295 of 328
Found at i:88005935 original size:31 final size:29
Alignment explanation
Indices: 88005878--88005935 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
88005868 GTAAATTTAT
* * *
88005878 AATTTAGTCTCTATATTTTTGTTTTCATG
1 AATTTAGTCTCTACATTTTAGATTTCATG
88005907 AATTTAGTCCCTCTACATTTTAGATTTCA
1 AATTTAGT--CTCTACATTTTAGATTTCA
88005936 AAATTCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 8 0.33
31 16 0.67
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.52
Consensus pattern (29 bp):
AATTTAGTCTCTACATTTTAGATTTCATG
Found at i:88006452 original size:33 final size:32
Alignment explanation
Indices: 88006411--88006474 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
88006401 TTAAACATAC
*
88006411 ATTTTTAA-TTATTTATATTTAAT-AATATAATA
1 ATTTTTAATTTA-TTA-ATATAATCAATATAATA
88006443 ATTTATTAATTTATTAATATAATCAATATAAT
1 ATTT-TTAATTTATTAATATAATCAATATAAT
88006475 TTAGTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 10 0.36
33 15 0.54
34 3 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (32 bp):
ATTTTTAATTTATTAATATAATCAATATAATA
Found at i:88006574 original size:23 final size:23
Alignment explanation
Indices: 88006548--88006597 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
88006538 GCAATAATAA
* *
88006548 ATTTTTATAGTATAAATATGAAT
1 ATTTTAATAATATAAATATGAAT
*
88006571 ATTTTAATAATATAAATATGAGT
1 ATTTTAATAATATAAATATGAAT
88006594 ATTT
1 ATTT
88006598 ATTTGTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (23 bp):
ATTTTAATAATATAAATATGAAT
Found at i:88007480 original size:21 final size:22
Alignment explanation
Indices: 88007454--88007496 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
88007444 AATTGTTTTG
*
88007454 AATTAATTGAA-TTAAATTAAA
1 AATTAATTGAACTAAAATTAAA
*
88007475 AATTAATTTAACTAAAATTAAA
1 AATTAATTGAACTAAAATTAAA
88007497 TTAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTAATTGAACTAAAATTAAA
Found at i:88008535 original size:27 final size:27
Alignment explanation
Indices: 88008505--88008584 Score: 151
Period size: 27 Copynumber: 3.0 Consensus size: 27
88008495 TGGAGGTTAT
88008505 GGAGGATACGGAGGGCGCGGTGGGTAC
1 GGAGGATACGGAGGGCGCGGTGGGTAC
*
88008532 GGAGGATACGGAGGGCGTGGTGGGTAC
1 GGAGGATACGGAGGGCGCGGTGGGTAC
88008559 GGAGGATACGGAGGGCGCGGTGGGTA
1 GGAGGATACGGAGGGCGCGGTGGGTA
88008585 TGGTGGTGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.19, C:0.12, G:0.56, T:0.12
Consensus pattern (27 bp):
GGAGGATACGGAGGGCGCGGTGGGTAC
Found at i:88008875 original size:5 final size:5
Alignment explanation
Indices: 88008867--88008893 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
88008857 TAAGATAAAC
88008867 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
88008894 CAGAAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:88009525 original size:20 final size:22
Alignment explanation
Indices: 88009483--88009526 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
88009473 TATTTAGTCA
*
88009483 TTTAATAAATATAATTTATTAT
1 TTTAATAAATATAATTTAATAT
88009505 TTTAATAAAT-T-ATTTAATAT
1 TTTAATAAATATAATTTAATAT
88009525 TT
1 TT
88009527 CAATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAATAAATATAATTTAATAT
Found at i:88009550 original size:13 final size:14
Alignment explanation
Indices: 88009534--88009575 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
88009524 TTTCAATTTT
88009534 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
88009547 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
88009562 ATTTTAAATAATAT
1 ATTTT-AATAATAT
88009576 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:88009560 original size:16 final size:16
Alignment explanation
Indices: 88009538--88009574 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
88009528 AATTTTATTT
88009538 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
88009555 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
88009570 TAATA
1 TAATA
88009575 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:88009627 original size:15 final size:15
Alignment explanation
Indices: 88009607--88009663 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
88009597 ATTCAATAGT
88009607 AATATTTTAATAATA
1 AATATTTTAATAATA
*
88009622 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
88009641 AATATTTTAATAATA
1 AATATTTTAATAATA
*
88009656 AATGTTTT
1 AATATTTT
88009664 GTAGTATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
15 17 0.49
16 2 0.06
17 4 0.11
18 2 0.06
19 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:88013299 original size:26 final size:26
Alignment explanation
Indices: 88013263--88013371 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
88013253 CATGAAATTC
88013263 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
88013289 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88013315 TTATCATGGAATATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
*
88013340 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
88013366 TTATCA
1 TTATCA
88013372 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 24 0.30
26 55 0.70
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:88013357 original size:51 final size:52
Alignment explanation
Indices: 88013263--88013371 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
88013253 CATGAAATTC
88013263 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
* * *
88013315 TTATCATGGAATATTTACCTAA-CCATTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
88013366 TTATCA
1 TTATCA
88013372 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 34 0.63
52 20 0.37
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.33
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
Found at i:88018969 original size:26 final size:26
Alignment explanation
Indices: 88018929--88019038 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
88018919 CATGTAATTC
*
88018929 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
88018955 TTATCAT-GAAGCATTTACCTAACCCA
1 TTATCATGGAA-CATTTACCTAACCCA
* *
88018981 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGGAACATTTACCTAACCCA
*
88019007 TTGTCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
88019033 TTATCA
1 TTATCA
88019039 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 2 0.03
26 70 0.93
27 3 0.04
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:88019385 original size:20 final size:21
Alignment explanation
Indices: 88019352--88019395 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
88019342 CCCCTCTCCC
88019352 TCCTCTCTCTTTTTCTC-TCT
1 TCCTCTCTCTTTTTCTCTTCT
*
88019372 TCCTCTC-CTTTTTTTTCTTCT
1 TCCTCTCTC-TTTTTCTCTTCT
88019393 TCC
1 TCC
88019396 CCTTACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 14 0.67
21 6 0.29
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
TCCTCTCTCTTTTTCTCTTCT
Found at i:88019849 original size:23 final size:23
Alignment explanation
Indices: 88019803--88019871 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
88019793 CTTTATTTTC
*
88019803 TTTTTATATATTATTACT-GT-TA
1 TTTTTATAT-TTATTACTAATATA
88019825 TTTTTATATTTATTACTAATATA
1 TTTTTATATTTATTACTAATATA
* * *
88019848 TTATTAT-TATAGTTACTACTATA
1 TTTTTATATTTA-TTACTAATATA
88019871 T
1 T
88019872 ATATATGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 8 0.20
22 13 0.32
23 19 0.47
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTTTATATTTATTACTAATATA
Found at i:88019857 original size:26 final size:27
Alignment explanation
Indices: 88019822--88019875 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
88019812 ATTATTACTG
* * *
88019822 TTATTTTTATATTTATTACTA-ATATA
1 TTATTATTATAGTTACTACTATATATA
88019848 TTATTATTATAGTTACTACTATATATA
1 TTATTATTATAGTTACTACTATATATA
88019875 T
1 T
88019876 ATGTTACGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (27 bp):
TTATTATTATAGTTACTACTATATATA
Found at i:88020055 original size:28 final size:30
Alignment explanation
Indices: 88020001--88020069 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
88019991 TACACATGCA
*
88020001 TTTTTCATATTA-ATATATATATATATATG
1 TTTTTAATATTATATATATATATATATATG
*
88020030 TTTTTAATATTATAT-TAT-TATGTATATG
1 TTTTTAATATTATATATATATATATATATG
88020058 -TTTTAATATTAT
1 TTTTTAATATTAT
88020070 TAGCTATCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 12 0.32
28 9 0.24
29 14 0.38
30 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (30 bp):
TTTTTAATATTATATATATATATATATATG
Found at i:88020224 original size:21 final size:21
Alignment explanation
Indices: 88020182--88020224 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
88020172 AATATATATA
* *
88020182 TATATATATATCATATAGGTT
1 TATATACATATCATACAGGTT
* *
88020203 TATATACATGTCATACATGTT
1 TATATACATATCATACAGGTT
88020224 T
1 T
88020225 CTTTATTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (21 bp):
TATATACATATCATACAGGTT
Found at i:88020545 original size:2 final size:2
Alignment explanation
Indices: 88020538--88020568 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
88020528 CATATCACCT
88020538 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88020569 TCCTAGATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88025813 original size:46 final size:46
Alignment explanation
Indices: 88025763--88026216 Score: 491
Period size: 46 Copynumber: 9.7 Consensus size: 46
88025753 TGCCATAATG
* * * *
88025763 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
** *
88025809 TCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* *
88025855 TCTTTCAACCATGGTCTTACATATTTCATATCAGATTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
88025901 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
88025947 TCTTTCAACCATAGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
88025993 TCTTTCAACCATGGTCTTACACATTTCATATCA----ACCATGGTCTTAA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG---T-A
* * * * *
88026039 ACATTTCATATCA-GGTTGCCATGGTA-TC-TTTCA-ACCATGGTCTTACACAT--T-
1 TC-TTTCA-ACCATGG-T--C-T--TACACATTTCATATCA-GG--TTGC-CATGGTA
* *
88026090 TCATATCAACCATGGTCTTAAACATTTCATATCAGGTTGCCATGGTA
1 TC-TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
88026137 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCTATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
88026183 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
88026217 AGAGCACACT
Statistics
Matches: 353, Mismatches: 27, Indels: 56
0.81 0.06 0.13
Matches are distributed among these distances:
42 6 0.02
44 3 0.01
45 10 0.03
46 278 0.79
47 17 0.05
48 8 0.02
50 8 0.02
51 14 0.04
52 1 0.00
53 3 0.01
57 2 0.01
58 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:88026033 original size:26 final size:26
Alignment explanation
Indices: 88025997--88026051 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
88025987 ATGGTATCTT
*
88025997 TCAACCATGGTCTTACACATTTCATA
1 TCAACCATGGTCTTAAACATTTCATA
88026023 TCAACCATGGTCTTAAACATTTCATA
1 TCAACCATGGTCTTAAACATTTCATA
88026049 TCA
1 TCA
88026052 GGTTGCCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (26 bp):
TCAACCATGGTCTTAAACATTTCATA
Found at i:88026036 original size:72 final size:72
Alignment explanation
Indices: 88025951--88026169 Score: 420
Period size: 72 Copynumber: 3.0 Consensus size: 72
88025941 ATGGTATCTT
* *
88025951 TCAACCATAGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TCAACCATGGTCTTAAACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
88026016 TTTCATA
66 TTTCATA
88026023 TCAACCATGGTCTTAAACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TCAACCATGGTCTTAAACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
88026088 TTTCATA
66 TTTCATA
88026095 TCAACCATGGTCTTAAACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TCAACCATGGTCTTAAACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
88026160 TTTCATA
66 TTTCATA
88026167 TCA
1 TCA
88026170 GGTTGCTATG
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 145 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (72 bp):
TCAACCATGGTCTTAAACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
TTTCATA
Found at i:88026047 original size:118 final size:116
Alignment explanation
Indices: 88025877--88026217 Score: 417
Period size: 118 Copynumber: 2.9 Consensus size: 116
88025867 GGTCTTACAT
* * * *
88025877 ATTTCATATCAGATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
1 ATTTCATACCAGGTTACCAT-GTATCTATCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
* * *
88025942 TGGTATCTTTCAACCATAGTCTTACACATTTCATATCAGGTTGCCATGG-T-ATC
65 TGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-G--ACCATGGTTAAAC
*
88025995 -TTTCA-ACCATGGTCTTACACAT-T-TCATATCAACCATGGTCTTAAACATTTCATATCAGGTT
1 ATTTCATACCA-GG--TTAC-CATGTATC-TATCAACCATGGTCTTACACATTTCATATCAGGTT
88026056 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA-ACCATGGTCTTAAAC
61 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGACCATGG--TTAAAC
* * * *
88026113 ATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCTA
1 ATTTCATACCAGGTTACCAT-GTATCTATCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
88026178 TGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGA
65 TGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGA
88026218 GAGCACACTC
Statistics
Matches: 195, Mismatches: 13, Indels: 29
0.82 0.05 0.12
Matches are distributed among these distances:
114 6 0.03
116 6 0.03
117 12 0.06
118 152 0.78
119 13 0.07
120 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (116 bp):
ATTTCATACCAGGTTACCATGTATCTATCAACCATGGTCTTACACATTTCATATCAGGTTGCCAT
GGTATCTTTCAACCATGGTCTTACACATTTCATATCAGACCATGGTTAAAC
Found at i:88026105 original size:26 final size:26
Alignment explanation
Indices: 88026069--88026123 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
88026059 ATGGTATCTT
*
88026069 TCAACCATGGTCTTACACATTTCATA
1 TCAACCATGGTCTTAAACATTTCATA
88026095 TCAACCATGGTCTTAAACATTTCATA
1 TCAACCATGGTCTTAAACATTTCATA
88026121 TCA
1 TCA
88026124 GGTTGCCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (26 bp):
TCAACCATGGTCTTAAACATTTCATA
Found at i:88028334 original size:2 final size:2
Alignment explanation
Indices: 88028327--88028362 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
88028317 CTTTCCTTAC
88028327 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88028363 TAAATAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88028723 original size:30 final size:30
Alignment explanation
Indices: 88028656--88028723 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
88028646 CACCCTTAAA
* * * *
88028656 ATATTTGCACTATTAGTCCTTCAACTTTTT
1 ATATTTACACTATTAATCCTTCAAATTTTG
88028686 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTG
88028715 AGTATTTAC
1 A-TATTTAC
88028724 TTTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTG
Found at i:88037197 original size:89 final size:88
Alignment explanation
Indices: 88036997--88037753 Score: 579
Period size: 89 Copynumber: 8.5 Consensus size: 88
88036987 CAGTTTATAT
* * * * *
88036997 TTTTCAAAAAATCAATTCATATTGCGAAAAGTGAGTTGAGCCTCAGGACACAT--TGAGGTATTT
1 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTT
* * * *
88037060 TCAATTTCTGTTTTTCAGTTTATAT
65 TCAATTTCT-ATTTTCAATTTCTAC
*
88037085 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTT
*
88037150 CAAATTCTATTTT-AATTTCTAC
66 CAATTTCTATTTTCAATTTCTAC
* * * * * *
88037172 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGATACT
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATT
** * * *
88037237 TTCAATTTCCGTTTTTAATGTCT-G
64 TTCAATTTCTATTTTCAATTTCTAC
* **
88037261 TTTT--TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAAT-AC--GCTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGTCACATGCTGAGGTATTT
* * *
88037321 TCAATTTCTATTTTTTTCAATCTATAT
65 TCAATTTCTA---TTTTCAATTTCTAC
* * * * * *
88037348 TTTTCAAAAATCAACTTATATTGCGAGAGATAAGTTGAGCCTCGGGGCAC--GCTGAGGTAATTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTT
* *
88037411 CAATTTCTGCTTTTCAATTTCTGC
66 CAATTTCT-ATTTTCAATTTCTAC
* * * *
88037435 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACATGCCGACGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTT
* * * *
88037500 CAAATTCTGTCTTTCAAACTCTGTTTTTAA
66 CAATTTCTAT-TTTC-AA-----TTTCTAC
* **** * * * * *
88037530 TTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGCATGCCGA
1 TTTTCAAAAATC---AACT-----CATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGA
* * **
88037595 GGTATTTTCAATTTCTGTTTTTAATTTCTGT
58 GGTATTTTCAATTTCTATTTTCAATTTCTAC
* * ** * * *
88037626 TTTTAAAAAATCAACTCATATTACGAGAAATGAGTTAAGCCTCGGCTCACATGCTGAGGTATTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTT
* * *
88037691 CAATTTATGTTTT-AA-TTC-ATG
66 CAATTTCTATTTTCAATTTCTA-C
88037712 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
88037754 TTTAATTTCT
Statistics
Matches: 535, Mismatches: 102, Indels: 66
0.76 0.15 0.09
Matches are distributed among these distances:
83 17 0.03
85 37 0.07
86 51 0.10
87 113 0.21
88 65 0.12
89 158 0.30
90 8 0.01
93 4 0.01
95 11 0.02
96 11 0.02
98 4 0.01
101 2 0.00
102 3 0.01
103 51 0.10
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTT
CAATTTCTATTTTCAATTTCTAC
Found at i:88037430 original size:14 final size:14
Alignment explanation
Indices: 88037411--88037441 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
88037401 GAGGTAATTC
88037411 CAATTTCTGCTTTT
1 CAATTTCTGCTTTT
88037425 CAATTTCTGCTTTT
1 CAATTTCTGCTTTT
88037439 CAA
1 CAA
88037442 AAATCAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (14 bp):
CAATTTCTGCTTTT
Found at i:88037469 original size:261 final size:259
Alignment explanation
Indices: 88037005--88037754 Score: 693
Period size: 261 Copynumber: 2.8 Consensus size: 259
88036995 ATTTTTCAAA
* * *
88037005 AAATCAATTCATATTGCGAAAAGTGAGTTGAGCCTCAGGACACATTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGAACACACTGAGGTATTTTCAATTTCTG
* * * * *
88037070 TTTTTCAGTTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
66 TTTTTCAATCTATATTTTTCAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCGGGGCAC
* *
88037135 ATGCCGAGGTATTTTCAAATTCTATTTTAATTTCTACTTTTCAAAAAAATCAACTCATATTGCGA
131 A-GCCGAGGTAATTCCAAATTCTATTTTAATTTCTACTTTTC-AAAAAATCAACTCATATTGCGA
*
88037200 GAGGTGAGTTGAGCCTTGGCTCACGTGTTGAGATACTTTCAATTTCCGTTTTTAATGTCTGTTTT
194 GAGGTGAGTTAAGCCTTGGCTCACGTGTTGAGATACTTTCAATTTCCGTTTTTAATGTCTGTTTT
88037265 T
259 T
* * * *
88037266 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAATACGCTGAGGTATTTTCAATTTCTA
1 AAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGAACACACTGAGGTATTTTCAATTTC--
* *
88037331 TTTTTTTCAATCTATATTTTTCAAAAATCAACTTATATTGCGAGAGATAAGTTGAGCCTCGGGGC
64 TGTTTTTCAATCTATATTTTTCAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCGGGGC
* * * *
88037396 AC-GCTGAGGTAATTCCAATTTCTGCTTTTCAATTTCTGCTTTTC-AAAAATCAACTCATATTGC
129 ACAGCCGAGGTAATTCCAAATTCT-ATTTT-AATTTCTACTTTTCAAAAAATCAACTCATATTGC
* * * * * ** *
88037459 GAGAGGTGAGTTAAGCCTCAGGTCACATGCCGACGTATTTTCAAATTCTGTCTTTCAAACTCTGT
192 GAGAGGTGAGTTAAGCCT-TGG---C-T--C-ACG--TGTTGAGA---T-ACTTTCAATTTCCGT
* * * *
88037524 TTTTAATTTTTACTTTTCAA
243 TTTTAATGTCT-GTTTT--T
* ** ** * *
88037544 AAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCGCATGCCGAGGTATTTTCAATTT
1 AAA-TCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGAACACA--CTGAGGTATTTTCAATTT
* * * * * * * * **
88037609 CTGTTTTT-AATTTCTGTTTTTAAAAAATCAACTCATATTACGAGAAATGAGTTAAGCCTCGGCT
63 CTGTTTTTCAATCTATATTTTTCAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCGGGG
* * * * * *
88037673 CACATGCTGAGGTATTTCCAATTTATGTTTTAA-TTC-ATGTTTTC-AAAAATCAACTCATATTG
128 CACA-GCCGAGGTAATTCCAAATTCTATTTTAATTTCTA-CTTTTCAAAAAATCAACTCATATTG
*
88037735 CGAGAGGTGAGTTGAGCCTT
191 CGAGAGGTGAGTTAAGCCTT
88037755 TTAATTTCTG
Statistics
Matches: 401, Mismatches: 61, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
261 109 0.27
262 6 0.01
263 73 0.18
265 1 0.00
266 1 0.00
268 1 0.00
269 3 0.01
271 5 0.01
274 1 0.00
275 20 0.05
276 4 0.01
277 44 0.11
278 53 0.13
279 43 0.11
280 19 0.05
281 18 0.04
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (259 bp):
AAATCAACTCATATTGCGAAAAGTGAGTTGAGCCTCAGAACACACTGAGGTATTTTCAATTTCTG
TTTTTCAATCTATATTTTTCAAAAATCAACTCATATTGCGAGAGATAAGTTGAGCCTCGGGGCAC
AGCCGAGGTAATTCCAAATTCTATTTTAATTTCTACTTTTCAAAAAATCAACTCATATTGCGAGA
GGTGAGTTAAGCCTTGGCTCACGTGTTGAGATACTTTCAATTTCCGTTTTTAATGTCTGTTTTT
Found at i:88037620 original size:13 final size:13
Alignment explanation
Indices: 88037599--88037631 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
88037589 TGCCGAGGTA
*
88037599 TTTTCAATTTCTG
1 TTTTTAATTTCTG
88037612 TTTTTAATTTCTG
1 TTTTTAATTTCTG
88037625 TTTTTAA
1 TTTTTAA
88037632 AAAATCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:88037661 original size:88 final size:88
Alignment explanation
Indices: 88037519--88037754 Score: 307
Period size: 88 Copynumber: 2.7 Consensus size: 88
88037509 TCTTTCAAAC
* * * *
88037519 TCTGTTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC
1 TCTGTTTTTAATTTCT-GTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC
* *
88037584 TCGCATGCCGAGGTATTTTCAATT
65 TCACATGCCGAGGTATTTCCAATT
* * * *
88037608 TCTGTTTTTAATTTCTGTTTTTAAAAAATCAACTCATATTACGAGAAATGAGTTAAGCCTCGGCT
1 TCTGTTTTTAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCT
*
88037673 CACATGCTGAGGTATTTCCAATT
66 CACATGCCGAGGTATTTCCAATT
* * *
88037696 TATG-TTTTAA-TTCATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
1 TCTGTTTTTAATTTC-TGTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
88037755 TTAATTTCTG
Statistics
Matches: 128, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
86 40 0.31
87 8 0.06
88 65 0.51
89 15 0.12
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (88 bp):
TCTGTTTTTAATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCT
CACATGCCGAGGTATTTCCAATT
Found at i:88037822 original size:82 final size:82
Alignment explanation
Indices: 88037725--88037905 Score: 362
Period size: 82 Copynumber: 2.2 Consensus size: 82
88037715 TCAAAAATCA
88037725 ACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAATCTACTTTTCAAATT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAATCTACTTTTCAAATT
88037790 AAGTTTCAAAAAGACCG
66 AAGTTTCAAAAAGACCG
88037807 ACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAATCTACTTTTCAAATT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAATCTACTTTTCAAATT
88037872 AAGTTTCAAAAAGACCG
66 AAGTTTCAAAAAGACCG
88037889 ACTCATATTGCGAGAGG
1 ACTCATATTGCGAGAGG
88037906 ATCATGCTGA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 99 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (82 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAATCTACTTTTCAAATT
AAGTTTCAAAAAGACCG
Found at i:88039659 original size:23 final size:22
Alignment explanation
Indices: 88039613--88039712 Score: 78
Period size: 23 Copynumber: 4.4 Consensus size: 22
88039603 CTTTATTTTC
*
88039613 TTTTTATATATTATTACTGT-TA
1 TTTTTATATA-TATTACTATATA
*
88039635 TTTTTATATTTATTACTAATATA
1 TTTTTATATATATTACT-ATATA
*
88039658 TTATTAT-TATAGTTACTACTATA
1 TTTTTATATATA-TTACTA-TATA
* * *
88039681 TATATATATATGTTACGTATATA
1 TTTTTATATATATTAC-TATATA
88039704 TTATTTATA
1 TT-TTTATA
88039713 ATGTATCTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
21 7 0.11
22 14 0.23
23 30 0.49
24 10 0.16
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (22 bp):
TTTTTATATATATTACTATATA
Found at i:88039667 original size:26 final size:27
Alignment explanation
Indices: 88039632--88039685 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
88039622 ATTATTACTG
* * *
88039632 TTATTTTTATATTTATTACTA-ATATA
1 TTATTATTATAGTTACTACTATATATA
88039658 TTATTATTATAGTTACTACTATATATA
1 TTATTATTATAGTTACTACTATATATA
88039685 T
1 T
88039686 ATATATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (27 bp):
TTATTATTATAGTTACTACTATATATA
Found at i:88039940 original size:2 final size:2
Alignment explanation
Indices: 88039935--88039977 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
88039925 ATCATTTCTA
* * *
88039935 AT AT AT AT AT AT AT AT AT AT AT CAT AT AG AT TT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
88039978 CATACATGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:88039961 original size:21 final size:21
Alignment explanation
Indices: 88039937--88039981 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
88039927 CATTTCTAAT
* *
88039937 ATATATATATATATATATATC
1 ATATAGATATATATACATATC
*
88039958 ATATAGATTTATATACATATC
1 ATATAGATATATATACATATC
88039979 ATA
1 ATA
88039982 CATGTTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATAGATATATATACATATC
Found at i:88040025 original size:30 final size:29
Alignment explanation
Indices: 88039991--88040064 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 29
88039981 ACATGTTTCT
88039991 TTATTTTTATTTTTATTAGTTATATATATA
1 TTATTTTTATTTTTATTAG-TATATATATA
**
88040021 TTATTACTA-TTTTA-T-GTATATATATA
1 TTATTTTTATTTTTATTAGTATATATATA
*
88040047 -TATTTTTTATCTTTATTA
1 TTA-TTTTTATTTTTATTA
88040065 CTATTGTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
25 2 0.06
26 14 0.40
27 5 0.14
28 2 0.06
29 5 0.14
30 7 0.20
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (29 bp):
TTATTTTTATTTTTATTAGTATATATATA
Found at i:88040069 original size:19 final size:21
Alignment explanation
Indices: 88040010--88040069 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 21
88040000 TTTTTATTAG
*
88040010 TTATATATATATTATTACTATT
1 TTATGTATAT-TTATTACTATT
*
88040032 TTATGTATATATA-TA-TATT
1 TTATGTATATTTATTACTATT
*
88040051 TT-T-TATCTTTATTACTATT
1 TTATGTATATTTATTACTATT
88040070 GTTGTTAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 6 0.19
18 3 0.09
19 10 0.31
20 2 0.06
21 2 0.06
22 9 0.28
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATGTATATTTATTACTATT
Found at i:88040261 original size:47 final size:43
Alignment explanation
Indices: 88040182--88040278 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 43
88040172 TTCCAATATG
*
88040182 TATATATTATGTAAATATTTTGATGTAATATTATATATGCATTTT
1 TATATATTATGTAAATATTATGATGTAATATTAT-TA-GCATTTT
* **
88040227 TATATATTATGTATATATATATAT-ATTTAATATTATTAGTTTTTT
1 TATATATTATGTA-A-ATAT-TATGATGTAATATTATTAGCATTTT
88040272 TATATAT
1 TATATAT
88040279 ACTATTCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
45 25 0.56
46 3 0.07
47 15 0.33
48 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (43 bp):
TATATATTATGTAAATATTATGATGTAATATTATTAGCATTTT
Found at i:88040317 original size:2 final size:2
Alignment explanation
Indices: 88040310--88040340 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
88040300 CATATCACCT
88040310 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88040341 TCCTAGATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88040807 original size:20 final size:22
Alignment explanation
Indices: 88040765--88040810 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
88040755 AAGTAGTATA
* *
88040765 TATATATTTCGACTATTTCATG
1 TATATATTTCAAATATTTCATG
88040787 TATATATTTCAAATA-TT-ATG
1 TATATATTTCAAATATTTCATG
88040807 TATA
1 TATA
88040811 GTATATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 2 0.09
22 13 0.59
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.50
Consensus pattern (22 bp):
TATATATTTCAAATATTTCATG
Found at i:88040846 original size:2 final size:2
Alignment explanation
Indices: 88040839--88040864 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
88040829 TACTATTCAC
88040839 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
88040865 TGGCGTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88046588 original size:38 final size:39
Alignment explanation
Indices: 88046532--88046616 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
88046522 GACTTAATGT
* *
88046532 CTAGCAAGCCTTGTGCCGGTGGTAAATTCAGGTT-TATAC
1 CTAGCAGGCCTTGTGCCGGTGATAAATTCAGGTTAT-TAC
*
88046571 CTAGCAGGCC-TGTGCCGGTGATAAGTTCAGGTTATTAC
1 CTAGCAGGCCTTGTGCCGGTGATAAATTCAGGTTATTAC
88046609 CTAGCAGG
1 CTAGCAGG
88046617 TTAATTGCCG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 32 0.76
39 10 0.24
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTTGTGCCGGTGATAAATTCAGGTTATTAC
Found at i:88049769 original size:28 final size:27
Alignment explanation
Indices: 88049726--88049832 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
88049716 GAAATCAGTG
88049726 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
88049753 TTAATCTGGGCCATAGCCC-TATTACAATA
1 TTAATCTGGGCC-TAGCCCATA-T-CAATA
* *
88049782 TCAGAGCATACTGGGCCTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAATA
* *
88049814 TCAGTCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
88049833 TATTACAAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
27 13 0.20
28 21 0.32
29 6 0.09
30 1 0.02
31 1 0.02
32 5 0.08
33 9 0.14
34 9 0.14
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:88049774 original size:62 final size:60
Alignment explanation
Indices: 88049696--88049840 Score: 168
Period size: 61 Copynumber: 2.4 Consensus size: 60
88049686 TCAAGCTTTA
* * *
88049696 CTGGGCCTAAGCCCTATT-CAGAAATCAGTG-TTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCT-AGCCCTATTACA-AAATCAGAGCAT-ACTGGGCC-TAGCCCATATCAATATCAAT
* * *
88049758 CTGGGCCATAGCCCTATTACAATATCAGAGCATACTGGGCCTAGCCCATATCAGTATCAGT
1 CTGGGCC-TAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAATATCAAT
88049819 CTGGGCCGTAGCCCTATTACAA
1 CTGGGCC-TAGCCCTATTACAA
88049841 GTCGAGATAT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
61 38 0.52
62 31 0.42
63 4 0.05
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (60 bp):
CTGGGCCTAGCCCTATTACAAAATCAGAGCATACTGGGCCTAGCCCATATCAATATCAAT
Found at i:88049905 original size:19 final size:20
Alignment explanation
Indices: 88049861--88049916 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
88049851 ATTGGGTCTT
88049861 GCCCATATTAACACAGTTGA
1 GCCCATATTAACACAGTTGA
* *
88049881 GCCCATTTTAATACAGTTG-
1 GCCCATATTAACACAGTTGA
* *
88049900 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
88049917 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGA
Found at i:88051232 original size:17 final size:19
Alignment explanation
Indices: 88051210--88051248 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
88051200 TGAGAGAAGG
*
88051210 ATAGAA-AA-GAATAAAAA
1 ATAGAAGAAGGAAAAAAAA
88051227 ATAGAAGAAGGAAAAAAAA
1 ATAGAAGAAGGAAAAAAAA
88051246 ATA
1 ATA
88051249 AATCCTAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (19 bp):
ATAGAAGAAGGAAAAAAAA
Found at i:88053475 original size:26 final size:25
Alignment explanation
Indices: 88053444--88053505 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 25
88053434 CATTTTATTG
*
88053444 TTTTATCTATTTTGTTTTC-TATTTT
1 TTTTAT-TATTTTCTTTTCGTATTTT
*
88053469 TTGTTATTTTTTTCTTTTCTGTATTTT
1 TT-TTATTATTTTCTTTTC-GTATTTT
88053496 TTTTA-TATTT
1 TTTTATTATTT
88053506 GGGTTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 16 0.52
26 7 0.23
27 8 0.26
ACGTcount: A:0.11, C:0.06, G:0.05, T:0.77
Consensus pattern (25 bp):
TTTTATTATTTTCTTTTCGTATTTT
Found at i:88054949 original size:26 final size:26
Alignment explanation
Indices: 88054920--88055001 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
88054910 TGATACAAAT
88054920 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
88054946 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88054972 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88054998 TGAT
1 TGAT
88055002 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88062165 original size:20 final size:20
Alignment explanation
Indices: 88062140--88062178 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
88062130 TATTCTCTGG
*
88062140 AAAGTTTTAATTATGTAATC
1 AAAGTTTCAATTATGTAATC
88062160 AAAGTTTCAATTATGTAAT
1 AAAGTTTCAATTATGTAAT
88062179 GATGTAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
AAAGTTTCAATTATGTAATC
Found at i:88065740 original size:18 final size:19
Alignment explanation
Indices: 88065703--88065748 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
88065693 TATATATTAT
88065703 TAATAT-TAAAATACATACG
1 TAATATATAAAATA-ATACG
88065722 TAATATATAAAAT-ATACG
1 TAATATATAAAATAATACG
88065740 TAATATATA
1 TAATATATA
88065749 TTAGAAACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.54
19 6 0.23
20 6 0.23
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (19 bp):
TAATATATAAAATAATACG
Found at i:88066120 original size:17 final size:17
Alignment explanation
Indices: 88066098--88066131 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
88066088 TAAACCATAG
88066098 TAATAAAAATAATATAA
1 TAATAAAAATAATATAA
*
88066115 TAATAATAATAATATAA
1 TAATAAAAATAATATAA
88066132 GAAGTGGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAATAAAAATAATATAA
Found at i:88066664 original size:25 final size:23
Alignment explanation
Indices: 88066636--88066691 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
88066626 TTTGTATCAG
88066636 GGGGAGAGAAAAAAAAAGGAGAGAA
1 GGGGAGAGAAAAAAAAA-GAGAG-A
** *
88066661 GGGGAGAGGGAAGAAAAGAGAGA
1 GGGGAGAGAAAAAAAAAGAGAGA
88066684 GGGGAGAG
1 GGGGAGAG
88066692 GAGGGAGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 9 0.32
24 5 0.18
25 14 0.50
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (23 bp):
GGGGAGAGAAAAAAAAAGAGAGA
Found at i:88068129 original size:127 final size:127
Alignment explanation
Indices: 88067891--88068140 Score: 448
Period size: 127 Copynumber: 2.0 Consensus size: 127
88067881 TGAATTGACT
*
88067891 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATT
1 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTGAAAAAGTAGAAATT
* *
88067956 AAAAGGTTCAACCCACCTCTCGCAATATGAGTTGTTTTTTTGACAACAGAAATTGAAATTAC
66 AAAAGGTTCAACCCACCTCTCGCAATATGAGTTGTGTTCTTGACAACAGAAATTGAAATTAC
88068018 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTGAAAAAGTAGAAATT
1 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTGAAAAAGTAGAAATT
*
88068083 AAAAGGTTCAACCCACCTCTCGCAATATGAGTTG-GTTCTTGAACAACATAAATTGAAA
66 AAAAGGTTCAACCCACCTCTCGCAATATGAGTTGTGTTCTTG-ACAACAGAAATTGAAA
88068141 ATAGAAATTG
Statistics
Matches: 118, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
126 5 0.04
127 113 0.96
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (127 bp):
CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTGAAAAAGTAGAAATT
AAAAGGTTCAACCCACCTCTCGCAATATGAGTTGTGTTCTTGACAACAGAAATTGAAATTAC
Found at i:88068136 original size:54 final size:55
Alignment explanation
Indices: 88068036--88068141 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
88068026 GTCCTGAGGC
* *
88068036 TCAACTCACCTCTCGCAACATGAGTTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAACATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * *
88068090 TCAACCCACCTCTCGCAATATGAGTTGGTTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAACATGAGTTGATT-TTGAAAAAGCAGAAATTGAAAA
88068142 TAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAACATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:88068150 original size:13 final size:13
Alignment explanation
Indices: 88068132--88068156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88068122 TGAACAACAT
88068132 AAATTGAAAATAG
1 AAATTGAAAATAG
88068145 AAATTGAAAATA
1 AAATTGAAAATA
88068157 CCTCAGCGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
AAATTGAAAATAG
Found at i:88068228 original size:14 final size:14
Alignment explanation
Indices: 88068209--88068244 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
88068199 GCTGATTTTT
* *
88068209 TTGAAAAGTAGGAA
1 TTGAAAAGCAGAAA
88068223 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
88068237 TTGAAAAG
1 TTGAAAAG
88068245 ACCTCAACGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.03, G:0.25, T:0.19
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:88068356 original size:69 final size:71
Alignment explanation
Indices: 88068240--88068611 Score: 358
Period size: 74 Copynumber: 5.2 Consensus size: 71
88068230 GCAGAAATTG
* * * **
88068240 AAAAGACCTCAACGTGCCCTGAGGCTTGACTCACCTCTCGCAATATGAG-T-ATTTTCT-AAACA
1 AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT-TGAAACA
88068302 TAAACTA
65 TAAACTA
* * * *
88068309 AAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGGAACAT
1 AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACAT
** *
88068373 AAGTTG
66 AAACTA
* * * *
88068379 AAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACAA
1 AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAC-A
* *
88068444 CAGGAATTA
65 TA--AACTA
* ** *
88068453 AAAACACCTCAGCGTGACCTGAGGCTTGACTCACCTCTCGCAATATGAGTCAAT-TTTTTTGAAA
1 AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG-C--TGATTTTTGAAA
88068517 CATAAACTA
63 CATAAACTA
** **
88068526 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTTTTGAAAA
1 AAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG-AAA
* *
88068591 CATGAATTA
63 CATAAACTA
*
88068600 AAGATACCTCAG
1 AAAATACCTCAG
88068612 AGTACCCAAA
Statistics
Matches: 249, Mismatches: 40, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
69 45 0.18
70 59 0.24
71 9 0.04
72 3 0.01
73 22 0.09
74 66 0.27
75 34 0.14
76 10 0.04
77 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (71 bp):
AAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACAT
AAACTA
Found at i:88068502 original size:144 final size:143
Alignment explanation
Indices: 88068240--88068611 Score: 398
Period size: 144 Copynumber: 2.6 Consensus size: 143
88068230 GCAGAAATTG
* * **
88068240 AAAAGACCTCAACGTGCCCTGAGGCTTGACTCACCTCTCGCAATATGAGT-ATTTTCT-AAAC-A
1 AAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTGATTTT-TGAAACAA
* * *
88068302 TA-AACTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT-TGATTT
65 CAGAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTATGATTT
* ** *
88068365 TGGAACATAAGTTG
130 TGAAACATAAACTA
* *
88068379 AAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAACAA
1 AAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG-TGATTTTTGAAACAA
* * ** **
88068444 CAGGAATTAAAAACACCTCAGCGTGACCTGAGGCTTGACTCACCTCTCGCAATATGAGTCAATTT
65 CA-GAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT--ATGA
88068509 TTTTGAAACATAAACTA
127 TTTTGAAACATAAACTA
* ** *
88068526 AAAATACCTCAGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTTTTG-AA-
1 AAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATG-AGTGATTTTTGAAAC
*
88068589 AACATGAATTAAAGATACCTCAG
63 AACA-GAATTAAAAATACCTCAG
88068612 AGTACCCAAA
Statistics
Matches: 193, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
139 43 0.22
140 2 0.01
141 9 0.05
142 2 0.01
144 49 0.25
147 49 0.25
148 2 0.01
149 36 0.19
150 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (143 bp):
AAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTGATTTTTGAAACAAC
AGAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTATGATTTT
GAAACATAAACTA
Found at i:88081171 original size:18 final size:19
Alignment explanation
Indices: 88081134--88081179 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
88081124 TATATATTAT
88081134 TAATAT-TAAAATACATACG
1 TAATATATAAAATA-ATACG
88081153 TAATATATAAAAT-ATACG
1 TAATATATAAAATAATACG
88081171 TAATATATA
1 TAATATATA
88081180 TTAGAGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.54
19 6 0.23
20 6 0.23
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (19 bp):
TAATATATAAAATAATACG
Found at i:88081463 original size:20 final size:20
Alignment explanation
Indices: 88081397--88081468 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
88081387 CTATATGTAC
88081397 ATAAAAATATATATGTATATATA
1 ATAAAAATA-ATAT-TATA-ATA
* ** *
88081420 AGTAAAGATAA-ACCATAGTA
1 A-TAAAAATAATATTATAATA
88081440 ATAAAAATAATATTATAATA
1 ATAAAAATAATATTATAATA
*
88081460 ATAATAATA
1 ATAAAAATA
88081469 TAAGAAGTGG
Statistics
Matches: 38, Mismatches: 9, Indels: 7
0.70 0.17 0.13
Matches are distributed among these distances:
19 8 0.21
20 17 0.45
21 3 0.08
22 1 0.03
23 2 0.05
24 7 0.18
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.32
Consensus pattern (20 bp):
ATAAAAATAATATTATAATA
Found at i:88081999 original size:24 final size:22
Alignment explanation
Indices: 88081972--88082027 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
88081962 CATTTGTATC
88081972 AGGGGGAGAGAAAAAAATGAGAG
1 AGGGGGAGAGAAAAAAA-GAGAG
* *
88081995 AAGGGGAGAGGGAAGAAAAGAGAG
1 -AGGGG-GAGAGAAAAAAAGAGAG
88082019 A-GGGGAGAG
1 AGGGGGAGAG
88082028 GAGGGAGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 4 0.14
22 3 0.11
23 1 0.04
24 10 0.36
25 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.50, T:0.02
Consensus pattern (22 bp):
AGGGGGAGAGAAAAAAAGAGAG
Found at i:88082028 original size:23 final size:25
Alignment explanation
Indices: 88081972--88082028 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
88081962 CATTTGTATC
*
88081972 AGGGG-GAGAGAAAAAAATGAGAGA
1 AGGGGAGAGGGAAAAAAATGAGAGA
*
88081996 AGGGGAGAGGGAAGAAAA-GAGAG-
1 AGGGGAGAGGGAAAAAAATGAGAGA
88082019 AGGGGAGAGG
1 AGGGGAGAGG
88082029 AGGGAGCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 10 0.33
24 10 0.33
25 10 0.33
ACGTcount: A:0.47, C:0.00, G:0.51, T:0.02
Consensus pattern (25 bp):
AGGGGAGAGGGAAAAAAATGAGAGA
Found at i:88082133 original size:9 final size:9
Alignment explanation
Indices: 88082119--88082162 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
88082109 TAAAAATTTG
*
88082119 ATTTTTTTT
1 ATTTTTTAT
88082128 ATTTTTTATT
1 ATTTTTTA-T
88082138 ATATTTTTAT
1 AT-TTTTTAT
*
88082148 ATGTTTTAT
1 ATTTTTTAT
88082157 ATTTTT
1 ATTTTT
88082163 GCACTATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 18 0.60
10 6 0.20
11 6 0.20
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:88087319 original size:24 final size:24
Alignment explanation
Indices: 88087291--88087342 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
88087281 TTAGCAAGTC
* *
88087291 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
88087315 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
88087339 AAAT
1 AAAT
88087343 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:88092595 original size:26 final size:26
Alignment explanation
Indices: 88092545--88092600 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
88092535 ATAGAAAGTG
* *
88092545 ACTTTACTTGTTCCGTAATTGACCAA
1 ACTTTACTTGTTCCGTAAGTAACCAA
* *
88092571 ACTTTACTTGTTCTGTAAGTAACCAT
1 ACTTTACTTGTTCCGTAAGTAACCAA
88092597 ACTT
1 ACTT
88092601 AATTCACAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (26 bp):
ACTTTACTTGTTCCGTAAGTAACCAA
Found at i:88094900 original size:192 final size:192
Alignment explanation
Indices: 88094573--88094963 Score: 764
Period size: 192 Copynumber: 2.0 Consensus size: 192
88094563 TAATTTATGT
88094573 TTTTTAGACAAATGGGCTAATTGCCCATTAGCTCCCAAAACTCTCCAAAATCCTTTCCAAATTCT
1 TTTTTAGACAAATGGGCTAATTGCCCATTAGCTCCCAAAACTCTCCAAAATCCTTTCCAAATTCT
88094638 ACTAAAATTCCCTATATGTTATTTTATCAAATTAAAACCCTAACTCTCTTCCTATTTATACCTTA
66 ACTAAAATTCCCTATATGTTATTTTATCAAATTAAAACCCTAACTCTCTTCCTATTTATACCTTA
88094703 GATTTCTCTCAAAATTCTCTATTTCAAAACTCTTTTAAACCCTTAAGTTTTGCTAAAAGATA
131 GATTTCTCTCAAAATTCTCTATTTCAAAACTCTTTTAAACCCTTAAGTTTTGCTAAAAGATA
88094765 TTTTTAGACAAATGGGCTAATTGCCCATTAGCTCCCAAAACTCTCCAAAATCCTTTCCAAATTCT
1 TTTTTAGACAAATGGGCTAATTGCCCATTAGCTCCCAAAACTCTCCAAAATCCTTTCCAAATTCT
*
88094830 ACTAAAATTCCCTATTTGTTATTTTATCAAATTAAAACCCTAACTCTCTTCCTATTTATACCTTA
66 ACTAAAATTCCCTATATGTTATTTTATCAAATTAAAACCCTAACTCTCTTCCTATTTATACCTTA
88094895 GATTTCTCTCAAAATTCTCTATTTCAAAACTCTTTTAAACCCTTAAGTTTTGCTAAAAGATA
131 GATTTCTCTCAAAATTCTCTATTTCAAAACTCTTTTAAACCCTTAAGTTTTGCTAAAAGATA
88094957 TTCTTTA
1 TT-TTTA
88094964 AAGTCTTTGA
Statistics
Matches: 197, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
192 193 0.98
193 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (192 bp):
TTTTTAGACAAATGGGCTAATTGCCCATTAGCTCCCAAAACTCTCCAAAATCCTTTCCAAATTCT
ACTAAAATTCCCTATATGTTATTTTATCAAATTAAAACCCTAACTCTCTTCCTATTTATACCTTA
GATTTCTCTCAAAATTCTCTATTTCAAAACTCTTTTAAACCCTTAAGTTTTGCTAAAAGATA
Found at i:88096878 original size:63 final size:63
Alignment explanation
Indices: 88096800--88096926 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
88096790 ACGATTCACT
*
88096800 GTCTAAATTAAGTAAGAAATTATCAATAGGCTCAATGGTTAAGTGTTAGTGCTTATTCCTAGA
1 GTCTAAATTAAGTAAGAAATTATCAATAGGCTCAATGGTTAAGTGTTAGTGCTCATTCCTAGA
* *
88096863 GTCTAAATTAAGTAAGAAATTATCAATAGGCTCACTGGTTAAGTGTTAGTGCTCCTTCCTAGA
1 GTCTAAATTAAGTAAGAAATTATCAATAGGCTCAATGGTTAAGTGTTAGTGCTCATTCCTAGA
88096926 G
1 G
88096927 ATCCTAGGTT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (63 bp):
GTCTAAATTAAGTAAGAAATTATCAATAGGCTCAATGGTTAAGTGTTAGTGCTCATTCCTAGA
Found at i:88097197 original size:12 final size:11
Alignment explanation
Indices: 88097169--88097211 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
88097159 TTTCTCTCCA
88097169 TCTTCTTTTTC
1 TCTTCTTTTTC
*
88097180 TTTTCTTTTTGC
1 TCTTCTTTTT-C
88097192 TCTTCTTTTCTC
1 TCTTCTTTT-TC
88097204 TCATTCTT
1 TC-TTCTT
88097212 GCACCTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 9 0.33
12 12 0.44
13 6 0.22
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (11 bp):
TCTTCTTTTTC
Found at i:88098130 original size:38 final size:35
Alignment explanation
Indices: 88098044--88098137 Score: 116
Period size: 38 Copynumber: 2.6 Consensus size: 35
88098034 TTATCGCTCT
*
88098044 ACTAAGTACATGTTAAACATGTCTACTACTGTTGA
1 ACTAAGTACATGTTAAGCATGTCTACTACTGTTGA
* * *
88098079 ACTGAGTATATGTTTAGCATGTCTACTATTACTGTTGA
1 ACTAAGTACATGTTAAGCATGTCTAC---TACTGTTGA
*
88098117 ACTAAATACATGTTAAGCATG
1 ACTAAGTACATGTTAAGCATG
88098138 AATATTGTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
35 22 0.46
38 26 0.54
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (35 bp):
ACTAAGTACATGTTAAGCATGTCTACTACTGTTGA
Found at i:88098499 original size:28 final size:28
Alignment explanation
Indices: 88098467--88098522 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
88098457 TTGTCATTCA
*
88098467 TAAGTATGTACATGCAAAACTATGAATT
1 TAAGTATGTACACGCAAAACTATGAATT
*
88098495 TAAGTATGTACACGTAAAACTATGAATT
1 TAAGTATGTACACGCAAAACTATGAATT
88098523 CTAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (28 bp):
TAAGTATGTACACGCAAAACTATGAATT
Found at i:88101204 original size:34 final size:34
Alignment explanation
Indices: 88101161--88101230 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
88101151 AATTATTAAT
88101161 TTATTGGGTTTGCTTCTTTAGGCAAGGAAGAACC
1 TTATTGGGTTTGCTTCTTTAGGCAAGGAAGAACC
88101195 TTATTGGGTTTGCTTCTTTAGGCAAGGAAGAACC
1 TTATTGGGTTTGCTTCTTTAGGCAAGGAAGAACC
88101229 TT
1 TT
88101231 TCTATGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (34 bp):
TTATTGGGTTTGCTTCTTTAGGCAAGGAAGAACC
Found at i:88103269 original size:92 final size:89
Alignment explanation
Indices: 88103145--88103317 Score: 285
Period size: 92 Copynumber: 1.9 Consensus size: 89
88103135 TTTTCTTAGC
* *
88103145 CTTTATTTACTTCTGTTAGGATTGAGCTCTGATTAGAGATTTTGTTTTGGGTTTAATTGTTGATT
1 CTTTATTTACTTCTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAA---TT-ATT
88103210 CATCTTTTTTCTATTATTTCTTCTTCTT
62 CATCTTTTTTCTATTATTTCTTCTTCTT
88103238 CTTTATTTACTT-TATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAATTATTCATC
1 CTTTATTTACTTCTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAATTATTCATC
88103302 TTTTTTCTATTATTTC
66 TTTTTTCTATTATTTC
88103318 CTGGCAGCTC
Statistics
Matches: 78, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
88 23 0.29
89 2 0.03
92 41 0.53
93 12 0.15
ACGTcount: A:0.18, C:0.11, G:0.14, T:0.57
Consensus pattern (89 bp):
CTTTATTTACTTCTATTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAATTATTCATC
TTTTTTCTATTATTTCTTCTTCTT
Found at i:88103790 original size:25 final size:25
Alignment explanation
Indices: 88103756--88103805 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
88103746 AAGGTTAATG
88103756 CTATTTGTCAATTCCCATTCAACAT
1 CTATTTGTCAATTCCCATTCAACAT
88103781 CTATTTGTCAATTCCCATTCAACAT
1 CTATTTGTCAATTCCCATTCAACAT
88103806 TCTCACTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (25 bp):
CTATTTGTCAATTCCCATTCAACAT
Found at i:88107207 original size:19 final size:19
Alignment explanation
Indices: 88107160--88107207 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
88107150 CCACGCCAAC
*
88107160 AATTAATTAAATTTTTTAAA
1 AATT-ATTAAATTTTTAAAA
*
88107180 ATTTA-TAAATTTTTAAAA
1 AATTATTAAATTTTTAAAA
88107198 AATTATTAAA
1 AATTATTAAA
88107208 ATTATGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.67
19 5 0.21
20 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AATTATTAAATTTTTAAAA
Found at i:88108399 original size:41 final size:41
Alignment explanation
Indices: 88108342--88108423 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
88108332 ATTGTTATTA
88108342 AATTTATTAAGTTAAAGTTTATTATTTCTAAAATCTTATGT
1 AATTTATTAAGTTAAAGTTTATTATTTCTAAAATCTTATGT
88108383 AATTTATTAAGTTAAAGTTTATTATTTCTAAAATCTTATGT
1 AATTTATTAAGTTAAAGTTTATTATTTCTAAAATCTTATGT
88108424 GATAAATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (41 bp):
AATTTATTAAGTTAAAGTTTATTATTTCTAAAATCTTATGT
Found at i:88124903 original size:9 final size:9
Alignment explanation
Indices: 88124883--88124917 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
88124873 ATTTTGGCAC
88124883 TTAAATAATT
1 TTAAA-AATT
88124893 TTAAAAATT
1 TTAAAAATT
88124902 TTAAAAA-T
1 TTAAAAATT
88124910 TTAAAAAT
1 TTAAAAAT
88124918 ATATATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 11 0.46
10 5 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TTAAAAATT
Found at i:88124926 original size:22 final size:22
Alignment explanation
Indices: 88124883--88124944 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
88124873 ATTTTGGCAC
*
88124883 TTAAATAATTTTAAAA--AT-T
1 TTAAATAATTTAAAAATTATAT
88124902 TTAAA-AATTTAAAAATATATAT
1 TTAAATAATTTAAAAAT-TATAT
*
88124924 TTAAATTATTTAAAAATTATA
1 TTAAATAATTTAAAAATTATA
88124945 AAAAATGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 9 0.25
19 5 0.14
21 2 0.06
22 10 0.28
23 10 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAATAATTTAAAAATTATAT
Found at i:88124927 original size:31 final size:30
Alignment explanation
Indices: 88124885--88124948 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
88124875 TTTGGCACTT
88124885 AAATAATTTTAAAA-ATTTTAAAAATT-TAA
1 AAATAATTTTAAAATA-TTTAAAAATTATAA
*
88124914 AAATATATATTTAAATTATTTAAAAATTATAA
1 AAATA-AT-TTTAAAATATTTAAAAATTATAA
88124946 AAA
1 AAA
88124949 ATGTTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 5 0.17
30 2 0.07
31 16 0.53
32 7 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
AAATAATTTTAAAATATTTAAAAATTATAA
Found at i:88124967 original size:31 final size:31
Alignment explanation
Indices: 88124900--88124967 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
88124890 ATTTTAAAAA
88124900 TTTTAAAAATTTAAAAATATATATTTAAATT
1 TTTTAAAAATTTAAAAATATATATTTAAATT
* * * *
88124931 ATTTAAAAATTATAAAAA-ATGTTTTTAATTT
1 TTTTAAAAATT-TAAAAATATATATTTAAATT
88124962 TTTTAA
1 TTTTAA
88124968 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 25 0.81
32 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (31 bp):
TTTTAAAAATTTAAAAATATATATTTAAATT
Found at i:88125857 original size:12 final size:13
Alignment explanation
Indices: 88125835--88125863 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
88125825 ATTTATTTTA
88125835 TGTTGTTTTAAAT
1 TGTTGTTTTAAAT
88125848 TGTT-TTTTAAAT
1 TGTTGTTTTAAAT
88125860 TGTT
1 TGTT
88125864 AAATCGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.66
Consensus pattern (13 bp):
TGTTGTTTTAAAT
Found at i:88126871 original size:36 final size:34
Alignment explanation
Indices: 88126831--88126907 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 34
88126821 TATTAATTTT
*
88126831 AATATTATAATATCAAAAATTAATTTAATT-AACTAA
1 AATATTATAA-AT-AAAAA-TAATTTAATTAAAATAA
*
88126867 AATATTA-AAATAAAAATAATTTATTTAAAATAA
1 AATATTATAAATAAAAATAATTTAATTAAAATAA
88126900 AAT-TTATA
1 AATATTATA
88126908 TTTAACATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
32 12 0.32
33 14 0.38
34 2 0.05
35 2 0.05
36 7 0.19
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (34 bp):
AATATTATAAATAAAAATAATTTAATTAAAATAA
Found at i:88126919 original size:20 final size:18
Alignment explanation
Indices: 88126871--88126926 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
88126861 AACTAAAATA
*
88126871 TTAAAATAAAAATAATTTAT
1 TTAAAATAAAAAT--TATAT
*
88126891 TTAAAATAAAATTTATAT
1 TTAAAATAAAAATTATAT
88126909 TTAACATATAAAAATTAT
1 TTAA-A-ATAAAAATTAT
88126927 GAAAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 8 0.26
19 1 0.03
20 22 0.71
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAAAATAAAAATTATAT
Found at i:88127306 original size:24 final size:24
Alignment explanation
Indices: 88127279--88127324 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
88127269 TGAACTTGAC
88127279 TTTTT-TTCTTAATTTGGTACTTAA
1 TTTTTCTT-TTAATTTGGTACTTAA
**
88127303 TTTTTCTTTTGTTTTGGTACTT
1 TTTTTCTTTTAATTTGGTACTT
88127325 GTCAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.13, C:0.09, G:0.11, T:0.67
Consensus pattern (24 bp):
TTTTTCTTTTAATTTGGTACTTAA
Found at i:88127480 original size:24 final size:24
Alignment explanation
Indices: 88127434--88127481 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
88127424 GATATATTTT
* *
88127434 TTTTTTATTTTATATGTTCAATTA
1 TTTTTAATTTTATATATTCAATTA
* *
88127458 TTTTTAATTTTATTTATTTAATTA
1 TTTTTAATTTTATATATTCAATTA
88127482 ATTGTTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTTAATTTTATATATTCAATTA
Found at i:88130906 original size:14 final size:15
Alignment explanation
Indices: 88130882--88130918 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
88130872 ATATTATTGA
88130882 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
88130895 TAATATTTTAATAAT
1 AAATATTTTAATAAT
88130910 AAATATTTT
1 AAATATTTT
88130919 GTAGTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 4 0.20
14 6 0.30
15 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:88135924 original size:18 final size:19
Alignment explanation
Indices: 88135901--88135936 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
88135891 TTACATGCCA
88135901 AAGTG-AAAAGTGATTTTT
1 AAGTGAAAAAGTGATTTTT
88135919 AAGTGAAAAAGTGATTTT
1 AAGTGAAAAAGTGATTTT
88135937 GTGACTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
AAGTGAAAAAGTGATTTTT
Found at i:88136093 original size:47 final size:47
Alignment explanation
Indices: 88135983--88136096 Score: 122
Period size: 48 Copynumber: 2.4 Consensus size: 47
88135973 AGGCGGAAGA
* * *
88135983 ATGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAAGCTTTATT
1 ATGTGGCAGTTTATTTGCAAAAGTGGCGGCTTGTCCACAA-CTTTATT
* * * * *
88136031 ATGTGGTAGTATATTTGCAAAATTGGCGGCTTTTCTACAA-TTTGATT
1 ATGTGGCAGTTTATTTGCAAAAGTGGCGGCTTGTCCACAACTTT-ATT
*
88136078 ATGTGGCAATTTATTTGCA
1 ATGTGGCAGTTTATTTGCA
88136097 TTATCGTGAC
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
46 3 0.06
47 19 0.35
48 32 0.59
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (47 bp):
ATGTGGCAGTTTATTTGCAAAAGTGGCGGCTTGTCCACAACTTTATT
Found at i:88138785 original size:14 final size:14
Alignment explanation
Indices: 88138749--88138787 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
88138739 TTGTTTCACT
*
88138749 GAAAATGACTTCTA
1 GAAAATGATTTCTA
*
88138763 GAAAATGATTTCTG
1 GAAAATGATTTCTA
88138777 GAAAATGATTT
1 GAAAATGATTT
88138788 GCTTTTCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:88139355 original size:16 final size:17
Alignment explanation
Indices: 88139329--88139366 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
88139319 ATGTGAATAG
88139329 TATTATTTAAAAATTAT
1 TATTATTTAAAAATTAT
*
88139346 TATT-TTTAAAATTTAT
1 TATTATTTAAAAATTAT
88139362 TATTA
1 TATTA
88139367 AAATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATTTAAAAATTAT
Found at i:88139418 original size:22 final size:22
Alignment explanation
Indices: 88139378--88139433 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
88139368 AATAAAATTG
*
88139378 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
88139398 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
88139420 TATTAATAATTTAT
1 AAATAATAAATTAT
88139434 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:88143775 original size:15 final size:14
Alignment explanation
Indices: 88143738--88143780 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
88143728 ATAAAAAATC
*
88143738 TTTAAATGAA-TTT
1 TTTAAATTAATTTT
*
88143751 TTTGAATTAATTTT
1 TTTAAATTAATTTT
88143765 TTTAAATTTAATTTT
1 TTTAAA-TTAATTTT
88143780 T
1 T
88143781 AGATAATGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 8 0.32
14 8 0.32
15 9 0.36
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (14 bp):
TTTAAATTAATTTT
Found at i:88152473 original size:49 final size:50
Alignment explanation
Indices: 88152404--88152636 Score: 272
Period size: 49 Copynumber: 4.7 Consensus size: 50
88152394 ATCTATTGTG
* *
88152404 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
88152454 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
88152504 CGATCACGTGTGTAGTACTGAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
88152554 AGGTCACATGTGTTGTAATAAGTGCATGATACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
88152604 -GGTAACATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
88152637 TGCGCACCAG
Statistics
Matches: 148, Mismatches: 33, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
49 69 0.47
50 42 0.28
51 37 0.25
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:88158971 original size:136 final size:136
Alignment explanation
Indices: 88158727--88159011 Score: 536
Period size: 136 Copynumber: 2.1 Consensus size: 136
88158717 TATTGGGCCT
**
88158727 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
88158792 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
88158857 ATATGC
131 ATATGC
88158863 AAGCCCATTTGGGTAACA-TGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAG-CCTTTTCAGATTACAATAAACTGGGCCTT
88158927 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
88158992 CATATGC
130 CATATGC
88158999 AAGCCCATTTGGG
1 AAGCCCATTTGGG
88159012 GAGACTACTC
Statistics
Matches: 146, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
135 16 0.11
136 130 0.89
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCTTTTCAGATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAAC
ATATGC
Found at i:88160824 original size:26 final size:26
Alignment explanation
Indices: 88160788--88160922 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
88160778 CATGATATTC
88160788 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
88160814 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88160840 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
88160866 TTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88160891 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
88160917 TTATCA
1 TTATCA
88160923 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.23
26 79 0.77
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:88164693 original size:64 final size:64
Alignment explanation
Indices: 88164620--88164830 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
88164610 CTGGGCCAGA
*
88164620 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
88164684 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
88164746 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
88164757 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
88164821 GCCCATTTCA
1 GCCCATTTCA
88164831 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:88164832 original size:137 final size:137
Alignment explanation
Indices: 88164586--88164872 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
88164576 TATTGGGCCT
**
88164586 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
88164651 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
88164716 CATATGC
131 CATATGC
88164723 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
88164788 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
88164853 CATATGC
131 CATATGC
88164860 AAGCCCATTTGGG
1 AAGCCCATTTGGG
88164873 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:88166686 original size:26 final size:26
Alignment explanation
Indices: 88166650--88166733 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
88166640 CATGATATTC
88166650 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
88166676 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88166702 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
88166728 TTATCA
1 TTATCA
88166734 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:88168597 original size:2 final size:2
Alignment explanation
Indices: 88168590--88168614 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88168580 CTTTGAGAGT
88168590 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
88168615 GAGTGTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88169681 original size:17 final size:17
Alignment explanation
Indices: 88169645--88169696 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
88169635 AACTGTGTTA
* *
88169645 TAATGTGCGAGCTCTGTT
1 TAAT-TGCGAGCCCTATT
*
88169663 TATTTGCGAGCCCTATT
1 TAATTGCGAGCCCTATT
* *
88169680 TAATTGCAAGCCTTATT
1 TAATTGCGAGCCCTATT
88169697 ATACTGAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 25 0.89
18 3 0.11
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (17 bp):
TAATTGCGAGCCCTATT
Found at i:88170136 original size:17 final size:17
Alignment explanation
Indices: 88170116--88170156 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
88170106 ATTATTTTGC
88170116 ATGAACTATTATGTGAT
1 ATGAACTATTATGTGAT
* *
88170133 ATGAACCATTATGTGTT
1 ATGAACTATTATGTGAT
88170150 ATGAACT
1 ATGAACT
88170157 GCTAATTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (17 bp):
ATGAACTATTATGTGAT
Found at i:88175604 original size:26 final size:26
Alignment explanation
Indices: 88175573--88175678 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
88175563 TGAAATGCCC
88175573 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
88175599 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
88175625 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
88175651 ATCATGGAACATTTACCT-AA-CATT
1 ATCATGGAACATTTACCTAAACCATT
88175675 ATCA
1 ATCA
88175679 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
24 8 0.11
25 1 0.01
26 66 0.88
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:88181678 original size:34 final size:34
Alignment explanation
Indices: 88181635--88181702 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
88181625 TTATGTAAAT
88181635 GCCAACTAGCCTTAATATTGAAAAAGAGAAGTGA
1 GCCAACTAGCCTTAATATTGAAAAAGAGAAGTGA
*
88181669 GCCAACTAGCTTTAATATTGAAAAAGAGAAGTGA
1 GCCAACTAGCCTTAATATTGAAAAAGAGAAGTGA
88181703 TAGGGGAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (34 bp):
GCCAACTAGCCTTAATATTGAAAAAGAGAAGTGA
Found at i:88183100 original size:16 final size:16
Alignment explanation
Indices: 88183079--88183117 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
88183069 TTCCCACCCC
* *
88183079 CTCTCTCCCTCGCTTT
1 CTCTCTCCCTCCCTCT
88183095 CTCTCTCCCTCCCTCT
1 CTCTCTCCCTCCCTCT
88183111 CTCTCTC
1 CTCTCTC
88183118 TACAAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.56, G:0.03, T:0.41
Consensus pattern (16 bp):
CTCTCTCCCTCCCTCT
Found at i:88189035 original size:29 final size:28
Alignment explanation
Indices: 88189003--88189132 Score: 152
Period size: 29 Copynumber: 4.5 Consensus size: 28
88188993 ATAGTGAATC
*
88189003 CGCACACTTAGTGCTATATATTTTCACTT
1 CGCACACTTAGTGCTATATATTTTAAC-T
*
88189032 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTT-AACT
* * **
88189061 CGCACACTTAGTGCTATAGAATCAAACT
1 CGCACACTTAGTGCTATATATTTTAACT
* *
88189089 CGCACACTTAGTGCTATACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTT-AACT
88189119 CGCACACTTAGTGC
1 CGCACACTTAGTGC
88189133 CAATCTTGTC
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
28 21 0.24
29 47 0.55
30 18 0.21
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATATTTTAACT
Found at i:88193904 original size:30 final size:29
Alignment explanation
Indices: 88193810--88193911 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 29
88193800 TATAGTGAAT
* * *
88193810 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
88193839 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
*
88193867 TCGCACACTTAGTGCTATACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
88193897 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
88193912 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
28 24 0.39
29 18 0.29
30 20 0.32
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:88196364 original size:15 final size:16
Alignment explanation
Indices: 88196333--88196365 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
88196323 TTGGATTGAG
88196333 AAAATTATTTAATTAA
1 AAAATTATTTAATTAA
88196349 AAAATTATTTAA-TAA
1 AAAATTATTTAATTAA
88196364 AA
1 AA
88196366 TAAATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATTATTTAATTAA
Found at i:88208406 original size:17 final size:17
Alignment explanation
Indices: 88208368--88208407 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
88208358 TCTTTTATTA
88208368 GTTTTTAAGATTCATTC
1 GTTTTTAAGATTCATTC
* *
88208385 ATTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTC
88208402 GTTTTT
1 GTTTTT
88208408 CTTTTCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (17 bp):
GTTTTTAAGATTCATTC
Found at i:88209304 original size:42 final size:43
Alignment explanation
Indices: 88209253--88209339 Score: 140
Period size: 42 Copynumber: 2.0 Consensus size: 43
88209243 TCTTAATAAC
88209253 TAGTCTATGTTATGTAACTTG-TTCTTAAAAAAAAAAACTATG
1 TAGTCTATGTTATGTAACTTGTTTCTTAAAAAAAAAAACTATG
* **
88209295 TAGTCTATGTTATGTAACTTGTTTTTTTTAAAAAAAAACTATG
1 TAGTCTATGTTATGTAACTTGTTTCTTAAAAAAAAAAACTATG
88209338 TA
1 TA
88209340 TGCATATCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 21 0.51
43 20 0.49
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (43 bp):
TAGTCTATGTTATGTAACTTGTTTCTTAAAAAAAAAAACTATG
Found at i:88212525 original size:22 final size:22
Alignment explanation
Indices: 88212471--88212537 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
88212461 TGTTGTTTGC
* *
88212471 TTAGCACTTCGGTACTCTTTGT
1 TTAGCACTTTGGTACTCTCTGT
*
88212493 TTAGCATTTTGGTACTCTCTGT
1 TTAGCACTTTGGTACTCTCTGT
* *
88212515 TTAGCACTTTGGTGCTTTCTGT
1 TTAGCACTTTGGTACTCTCTGT
88212537 T
1 T
88212538 CAAAACTCCG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.49
Consensus pattern (22 bp):
TTAGCACTTTGGTACTCTCTGT
Found at i:88219899 original size:40 final size:40
Alignment explanation
Indices: 88219819--88219999 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
88219809 ACCCAAGTTT
* * * *
88219819 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
88219858 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
88219898 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
88219938 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
88219978 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
88220000 CATTCAAATG
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 118 0.91
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:88227925 original size:40 final size:40
Alignment explanation
Indices: 88227845--88228065 Score: 347
Period size: 40 Copynumber: 5.5 Consensus size: 40
88227835 ACCCAAGTTT
* * * *
88227845 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
88227884 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
88227924 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
88227964 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
88228004 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
88228044 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
88228066 CATTCAAATG
Statistics
Matches: 169, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.06
40 158 0.93
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:88239604 original size:40 final size:40
Alignment explanation
Indices: 88239541--88239761 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
88239531 TATTCGAATG
* * *
88239541 ATATCCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
88239581 ATATCCTGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
*
88239621 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
88239661 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
88239701 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
88239741 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
88239762 ATACTTGGGT
Statistics
Matches: 156, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 137 0.88
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:88247944 original size:27 final size:27
Alignment explanation
Indices: 88247914--88248164 Score: 199
Period size: 27 Copynumber: 9.3 Consensus size: 27
88247904 CAAAATAGTC
88247914 ATTTTAC-CTTACAAGGGTATTTTTGTA
1 ATTTTACAC-TACAAGGGTATTTTTGTA
**
88247941 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTTTGTA
88247968 ATTTTACACTACAAGGGTA-TTTTGATA
1 ATTTTACACTACAAGGGTATTTTTG-TA
* * * *
88247995 ATTCTACACTATAAAGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATTTTTGTA
* *
88248022 ATTTTACATTACAAGGGTA-TTTCGATA
1 ATTTTACACTACAAGGGTATTTTTG-TA
* ***
88248049 ATTTTACACTACAAGAGTATTTCAATA
1 ATTTTACACTACAAGGGTATTTTTGTA
* * * *
88248076 ATTTTACA-AATTAGGGGTATTTTGGTA
1 ATTTTACACTA-CAAGGGTATTTTTGTA
* ** *
88248103 ATTTTACA-AATTGAGGGTA-TTTCGATA
1 ATTTTACACTA-CAAGGGTATTTTTG-TA
* **
88248130 ATTTTACATTACAAGGGTATTTCAGTA
1 ATTTTACACTACAAGGGTATTTTTGTA
88248157 ATTTTACA
1 ATTTTACA
88248165 AATCGGGGTA
Statistics
Matches: 182, Mismatches: 33, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
26 12 0.07
27 159 0.87
28 11 0.06
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTTTGTA
Found at i:88248024 original size:81 final size:80
Alignment explanation
Indices: 88247929--88248167 Score: 293
Period size: 81 Copynumber: 3.0 Consensus size: 80
88247919 ACCTTACAAG
* **
88247929 GGTATTTTTGTAATTTTACACTACAAGGGTATTTC-AGTAATTTTACACTACAAGGGTATTTTGA
1 GGTATTTTGGTAATTTTACA-TACAAGGGTATTTCGA-TAATTTTACACTACAAGGGTATTTCAA
*
88247993 TAATTCTAC-ACTATAAA
64 TAATTCTACAAAT-TAAA
*
88248010 GGTATTTTGGTAATTTTACATTACAAGGGTATTTCGATAATTTTACACTACAAGAGTATTTCAAT
1 GGTATTTTGGTAATTTTACA-TACAAGGGTATTTCGATAATTTTACACTACAAGGGTATTTCAAT
* **
88248075 AATTTTACAAATTAGG
65 AATTCTACAAATTAAA
* ** * *
88248091 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTTACATTACAAGGGTATTTCAGT
1 GGTATTTTGGTAATTTTACATA-CAAGGGTATTTCGATAATTTTACACTACAAGGGTATTTCAAT
*
88248156 AATTTTACAAAT
65 AATTCTACAAAT
88248168 CGGGGTATTT
Statistics
Matches: 140, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
80 1 0.01
81 136 0.97
82 3 0.02
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (80 bp):
GGTATTTTGGTAATTTTACATACAAGGGTATTTCGATAATTTTACACTACAAGGGTATTTCAATA
ATTCTACAAATTAAA
Found at i:88248165 original size:54 final size:54
Alignment explanation
Indices: 88247914--88248190 Score: 255
Period size: 54 Copynumber: 5.1 Consensus size: 54
88247904 CAAAATAGTC
* * *
88247914 ATTTTACCTTACAAGGGTATTTTTGTAATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACATTACAAGGGTATTTCTGTAATTTTACACTACAAGGGTATTTCAATA
* * * * ***
88247968 ATTTTACACTACAAGGGTATTT-TGATAATTCTACACTATAAAGGTATTTTGGTA
1 ATTTTACATTACAAGGGTATTTCTG-TAATTTTACACTACAAGGGTATTTCAATA
*
88248022 ATTTTACATTACAAGGGTATTTC-GATAATTTTACACTACAAGAGTATTTCAATA
1 ATTTTACATTACAAGGGTATTTCTG-TAATTTTACACTACAAGGGTATTTCAATA
* * ** *
88248076 ATTTTACAAATT--AGGGGTATTT-TGGTAATTTTACA-AATTGAGGGTATTTCGATA
1 ATTTTAC--ATTACAAGGGTATTTCT-GTAATTTTACACTA-CAAGGGTATTTCAATA
* * * *
88248130 ATTTTACATTACAAGGGTATTTCAGTAATTTTACA-AATC-GGGGTATTTTAATA
1 ATTTTACATTACAAGGGTATTTCTGTAATTTTACACTA-CAAGGGTATTTCAATA
88248183 ATTTTACA
1 ATTTTACA
88248191 AACTGGGGGT
Statistics
Matches: 186, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
52 3 0.02
53 22 0.12
54 157 0.84
55 1 0.01
56 3 0.02
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (54 bp):
ATTTTACATTACAAGGGTATTTCTGTAATTTTACACTACAAGGGTATTTCAATA
Found at i:88248211 original size:27 final size:27
Alignment explanation
Indices: 88248010--88248211 Score: 146
Period size: 27 Copynumber: 7.5 Consensus size: 27
88248000 ACACTATAAA
* * * *
88248010 GGTATTTTGGTAATTTTACATTAC-AAG
1 GGTATTTCGATAATTTTACA-AACTAGG
* *
88248037 GGTATTTCGATAATTTTACACTAC-AAG
1 GGTATTTCGATAATTTTACA-AACTAGG
* * *
88248064 AGTATTTCAATAATTTTACAAATTAGG
1 GGTATTTCGATAATTTTACAAACTAGG
* * *
88248091 GGTATTTTGGTAATTTTACAAA-TTGAG
1 GGTATTTCGATAATTTTACAAACTAG-G
* *
88248118 GGTATTTCGATAATTTTACATTAC-AAG
1 GGTATTTCGATAATTTTACA-AACTAGG
*
88248145 GGTATTTC-AGTAATTTTACAAA-TCGG
1 GGTATTTCGA-TAATTTTACAAACTAGG
** *
88248171 GGTATTTTAATAATTTTACAAACTGGG
1 GGTATTTCGATAATTTTACAAACTAGG
*
88248198 GGTATTTCGTTAAT
1 GGTATTTCGATAAT
88248212 CTAAATAGTT
Statistics
Matches: 141, Mismatches: 26, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
26 25 0.18
27 115 0.82
28 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAACTAGG
Found at i:88252758 original size:15 final size:15
Alignment explanation
Indices: 88252738--88252779 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
88252728 GCTGTAAATG
88252738 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
88252753 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
88252768 GGATTTCCTTAT
1 GGATTTCCTTAT
88252780 TCTGGGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:88260976 original size:46 final size:47
Alignment explanation
Indices: 88260830--88261046 Score: 225
Period size: 46 Copynumber: 4.7 Consensus size: 47
88260820 TTTGTGTGCT
* *
88260830 AGTGTAAGACATGTCCGGGACATGCATCGG-CTAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGA-GATGAGAGCC
* * * * *
88260876 AGTGTAAGACCATGTCTGGGACATGGCATCGACAT-TGACATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGATGAGAGCC
88260924 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATG-AGAGCC
* * *
88260970 AGTGTAAGACATGTCTGAGACATGCATCGG-CTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGAGAGCC
*
88261014 AGTGTAAGACCATGTCTGAGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
88261047 ACATATAGAG
Statistics
Matches: 147, Mismatches: 14, Indels: 19
0.82 0.08 0.11
Matches are distributed among these distances:
44 11 0.07
45 16 0.11
46 67 0.46
47 28 0.19
48 23 0.16
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGAGAGCC
Found at i:88262328 original size:21 final size:20
Alignment explanation
Indices: 88262302--88262342 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
88262292 TAGAATTTAA
*
88262302 TCCACACGGGCGTGTTGCCCT
1 TCCACACAGGCGTG-TGCCCT
88262323 TCCACACAGGCGTGTGCCCT
1 TCCACACAGGCGTGTGCCCT
88262343 GTTTTAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.12, C:0.39, G:0.27, T:0.22
Consensus pattern (20 bp):
TCCACACAGGCGTGTGCCCT
Done.