Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 194 of 310
Found at i:63377343 original size:47 final size:47
Alignment explanation
Indices: 63377274--63377494 Score: 219
Period size: 46 Copynumber: 4.7 Consensus size: 47
63377264 GGATGGTTGA
* * *
63377274 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGGAACT
*
63377319 AGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGGAAC-
1 --GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGA-GGAT-GGAACT
* *
63377369 GC--CCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA-T
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATG-GAACT
* * *
63377415 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGGAACT
63377458 AGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 --GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
63377495 TATGGGTGGG
Statistics
Matches: 149, Mismatches: 12, Indels: 25
0.80 0.06 0.13
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 4 0.03
46 67 0.45
47 59 0.40
48 5 0.03
50 3 0.02
51 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (47 bp):
GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGGAACT
Found at i:63380629 original size:36 final size:36
Alignment explanation
Indices: 63380582--63380654 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
63380572 CCTCAACGTG
63380582 ATTAGCCTCTCTACCTCCAAAGGGAAGCCTTGATGC
1 ATTAGCCTCTCTACCTCCAAAGGGAAGCCTTGATGC
63380618 ATTAGCCTCTCTACCTCCAAAGGGAAGCCTTGATGC
1 ATTAGCCTCTCTACCTCCAAAGGGAAGCCTTGATGC
63380654 A
1 A
63380655 CTTGTTCGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (36 bp):
ATTAGCCTCTCTACCTCCAAAGGGAAGCCTTGATGC
Found at i:63387558 original size:35 final size:35
Alignment explanation
Indices: 63387446--63387583 Score: 122
Period size: 35 Copynumber: 3.9 Consensus size: 35
63387436 CATAGGTAAG
* *
63387446 TACATGT-AAGCTTATATTGAACTTGTATATTCGGC
1 TACATGTGAA-CTTATATTGAAATTGTATATTCGGA
** *
63387481 TACATGTGAGGTTATATTG-AATTTTAGTATTC-GA
1 TACATGTGAACTTATATTGAAATTGTA-TATTCGGA
*
63387515 TTACATGTGAACTTATATTGAAATTGTATACTCGGA
1 -TACATGTGAACTTATATTGAAATTGTATATTCGGA
* * * *
63387551 TATATGTGAAGTTATCTT-AAATATGCATATTCG
1 TACATGTGAACTTATATTGAAAT-TGTATATTCG
63387584 TCCATATGTG
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
34 10 0.12
35 64 0.77
36 9 0.11
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (35 bp):
TACATGTGAACTTATATTGAAATTGTATATTCGGA
Found at i:63387582 original size:70 final size:70
Alignment explanation
Indices: 63387446--63387583 Score: 163
Period size: 70 Copynumber: 2.0 Consensus size: 70
63387436 CATAGGTAAG
* * * * * **
63387446 TACATGTAAGCTTATATTGAACTTGTATATTCGGCTACATGTGAGGTTATATTGAATTTTAGTAT
1 TACATGTAAGCTTATATTGAAATTGTATACTCGGATACATGTGAAGTTATATTAAATTGCAGTAT
63387511 TCGAT
66 TCGAT
* *
63387516 TACATGTGAA-CTTATATTGAAATTGTATACTCGGATATATGTGAAGTTATCTTAAATATGCA-T
1 TACATGT-AAGCTTATATTGAAATTGTATACTCGGATACATGTGAAGTTATATTAAAT-TGCAGT
63387579 ATTCG
64 ATTCG
63387584 TCCATATGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
70 53 0.93
71 4 0.07
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (70 bp):
TACATGTAAGCTTATATTGAAATTGTATACTCGGATACATGTGAAGTTATATTAAATTGCAGTAT
TCGAT
Found at i:63389051 original size:46 final size:46
Alignment explanation
Indices: 63388991--63389218 Score: 359
Period size: 46 Copynumber: 5.0 Consensus size: 46
63388981 TTTGACATGA
* * * * * *
63388991 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** *
63389037 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
63389083 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
63389129 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
63389175 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
63389219 AGAGCACACT
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 168 0.98
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:63391367 original size:11 final size:11
Alignment explanation
Indices: 63391351--63391398 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
63391341 CTTTATATAC
63391351 TAATAAAATAA
1 TAATAAAATAA
63391362 TAATAAAATATA
1 TAATAAAATA-A
* *
63391374 TTATTAAAATAT
1 -TAATAAAATAA
63391386 TAATAAAATAA
1 TAATAAAATAA
63391397 TA
1 TA
63391399 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 21 0.68
12 1 0.03
13 9 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:63391381 original size:24 final size:24
Alignment explanation
Indices: 63391345--63391400 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
63391335 TTCTTTCTTT
*
63391345 ATATACTAATAAAATAATAATAAA
1 ATATATTAATAAAATAATAATAAA
* *
63391369 ATATATTATTAAAATATTAATAAA
1 ATATATTAATAAAATAATAATAAA
63391393 ATAATATT
1 AT-ATATT
63391401 TATCTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATATTAATAAAATAATAATAAA
Found at i:63397677 original size:35 final size:34
Alignment explanation
Indices: 63397627--63397746 Score: 127
Period size: 35 Copynumber: 3.4 Consensus size: 34
63397617 CATAGGTAAG
*
63397627 TACATGT-AAGCTTATATTGAACTTGTATATTCGGC
1 TACATGTGAAG-TTATATTGAA-TTGTATATTCGGA
* *
63397662 TACATGTGAAGTTATATTGAATTTTAGTATT-TGA
1 TACATGTGAAGTTATATTGAATTGTA-TATTCGGA
* *
63397696 TTACATGTGAACTTATATTGAAATTGTATACTCGGA
1 -TACATGTGAAGTTATATTG-AATTGTATATTCGGA
*
63397732 TATATGTGAAGTTAT
1 TACATGTGAAGTTAT
63397747 CTTAAATATT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
34 5 0.07
35 55 0.77
36 11 0.15
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (34 bp):
TACATGTGAAGTTATATTGAATTGTATATTCGGA
Found at i:63397774 original size:70 final size:70
Alignment explanation
Indices: 63397628--63397774 Score: 154
Period size: 70 Copynumber: 2.1 Consensus size: 70
63397618 ATAGGTAAGT
* * * * *
63397628 ACATGT-AAGCTTATATTGAACTTGTATATTCGGCTACATGTGAAGTTATATTGAATTTTAGTAT
1 ACATGTGAA-CTTATATTGAAATTGTATACTCGGATACATGTGAAGTTATATTAAATTTCAGTAT
* **
63397692 TTGATT
65 TCGACC
* *
63397698 ACATGTGAACTTATATTGAAATTGTATACTCGGATATATGTGAAGTTATCTTAAATATTCA-TAT
1 ACATGTGAACTTATATTGAAATTGTATACTCGGATACATGTGAAGTTATATTAAAT-TTCAGTAT
*
63397762 TCGGCC
65 TCGACC
*
63397768 ATATGTG
1 ACATGTG
63397775 GTGTTCTTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
70 58 0.92
71 5 0.08
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (70 bp):
ACATGTGAACTTATATTGAAATTGTATACTCGGATACATGTGAAGTTATATTAAATTTCAGTATT
CGACC
Found at i:63413254 original size:22 final size:20
Alignment explanation
Indices: 63413229--63413271 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
63413219 AGCAAAGACT
*
63413229 AGCATAATAGGGATATAGAAAA
1 AGCATAA-AGGAATA-AGAAAA
*
63413251 AGCATTAAGGAATAAGAAAA
1 AGCATAAAGGAATAAGAAAA
63413271 A
1 A
63413272 AAAAAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 6 0.32
22 6 0.32
ACGTcount: A:0.58, C:0.05, G:0.21, T:0.16
Consensus pattern (20 bp):
AGCATAAAGGAATAAGAAAA
Found at i:63417223 original size:6 final size:6
Alignment explanation
Indices: 63417214--63417240 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
63417204 ATTAAATTGC
63417214 AATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AAT
63417241 GGCTAAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:63420347 original size:48 final size:48
Alignment explanation
Indices: 63420281--63420376 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
63420271 AACATTTATC
63420281 TCTGTCGTAATCTTAGCCAATTAGATAATTAGTCTTAGTTTAAAACAT
1 TCTGTCGTAATCTTAGCCAATTAGATAATTAGTCTTAGTTTAAAACAT
63420329 TCTGTCGTAATCTTAGCCAATTAGATAATTAGTCTTAGTTTAAAACAT
1 TCTGTCGTAATCTTAGCCAATTAGATAATTAGTCTTAGTTTAAAACAT
63420377 CCTTTAATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (48 bp):
TCTGTCGTAATCTTAGCCAATTAGATAATTAGTCTTAGTTTAAAACAT
Found at i:63420398 original size:43 final size:45
Alignment explanation
Indices: 63420282--63420400 Score: 136
Period size: 48 Copynumber: 2.6 Consensus size: 45
63420272 ACATTTATCT
*
63420282 CTGTCGTAATCTTAGCCAATTAGATAATTAGTCTTAGTTTAAAACATT
1 CTGTC-TAATCTTAGCC-A-TAGATAATTAGTCTTAGTTTAAAACATC
63420330 CTGTCGTAATCTTAGCCAATTAGATAATTAGTCTTAGTTTAAAACATC
1 CTGTC-TAATCTTAGCC-A-TAGATAATTAGTCTTAGTTTAAAACATC
*
63420378 CT-T-TAATTCTTAGGC-TAGATAAT
1 CTGTCTAA-TCTTAGCCATAGATAAT
63420401 AAAAAAGATA
Statistics
Matches: 68, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
43 8 0.12
45 3 0.04
46 7 0.10
47 1 0.01
48 49 0.72
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (45 bp):
CTGTCTAATCTTAGCCATAGATAATTAGTCTTAGTTTAAAACATC
Found at i:63425192 original size:31 final size:31
Alignment explanation
Indices: 63425149--63425208 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
63425139 ACTTAACAAC
* *
63425149 TCAATGACTTAAATAAAATTTTTTAAATAGT
1 TCAATGACTTAAATAAAAATTTTCAAATAGT
*
63425180 TCAATGATTTAAATAAAAATTTTCAAATA
1 TCAATGACTTAAATAAAAATTTTCAAATA
63425209 ATTGAGTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (31 bp):
TCAATGACTTAAATAAAAATTTTCAAATAGT
Found at i:63440988 original size:27 final size:25
Alignment explanation
Indices: 63440927--63440989 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
63440917 TACGATGACT
63440927 ATATAAAAATTTTAATAAATAAAAA
1 ATATAAAAATTTTAATAAATAAAAA
* *
63440952 ATGTATAAAATTATTAA-ATATTAAAATA
1 ATATA-AAAATT-TTAATA-AATAAAA-A
63440980 ATATAAAAAT
1 ATATAAAAAT
63440990 AAATATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 4 0.13
26 7 0.23
27 15 0.48
28 5 0.16
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (25 bp):
ATATAAAAATTTTAATAAATAAAAA
Found at i:63450664 original size:30 final size:30
Alignment explanation
Indices: 63450629--63450717 Score: 151
Period size: 30 Copynumber: 3.0 Consensus size: 30
63450619 TTAAACTTTT
63450629 CTCCACTAGCCACACCTTTTCCACCACCAA
1 CTCCACTAGCCACACCTTTTCCACCACCAA
* *
63450659 CTCCACTAGCCACTCTTTTTCCACCACCAA
1 CTCCACTAGCCACACCTTTTCCACCACCAA
*
63450689 CTCCACTAGCCACACCTTCTCCACCACCA
1 CTCCACTAGCCACACCTTTTCCACCACCA
63450718 CTTGTACCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.25, C:0.51, G:0.03, T:0.21
Consensus pattern (30 bp):
CTCCACTAGCCACACCTTTTCCACCACCAA
Found at i:63451306 original size:25 final size:25
Alignment explanation
Indices: 63451278--63451339 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
63451268 ATATTACGTA
*
63451278 TATATATATTTTATACTATTTTATT
1 TATATATATTTTATACTATATTATT
* * *
63451303 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATT
63451328 TATATATATTTT
1 TATATATATTTT
63451340 TTTTTTACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATT
Found at i:63451306 original size:27 final size:26
Alignment explanation
Indices: 63451267--63451339 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
63451257 TTTTAAATTT
*
63451267 TATATTACGTATATATATATTTTATAC
1 TATATTA-TTATATATATATTTTATAC
* * * *
63451294 TATTTTATT-TATATATCTTTAATAT
1 TATATTATTATATATATATTTTATAC
63451319 TATATTATT-TATATATATTTT
1 TATATTATTATATATATATTTT
63451340 TTTTTTACAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
25 31 0.82
26 1 0.03
27 6 0.16
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (26 bp):
TATATTATTATATATATATTTTATAC
Found at i:63451384 original size:22 final size:24
Alignment explanation
Indices: 63451356--63451414 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
63451346 ACATGTTATC
63451356 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
63451378 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
63451403 TTATGTACATAT
1 TTATGTATATAT
63451415 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:63451404 original size:25 final size:25
Alignment explanation
Indices: 63451372--63451420 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
63451362 ATATATCTTA
**
63451372 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
63451397 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
63451421 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:63451425 original size:20 final size:20
Alignment explanation
Indices: 63451400--63451455 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
63451390 TTTTAACACT
63451400 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* * *
63451420 ATATTAT-CACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
63451439 TTATATATGTACATATT
1 ATAT-TATGTACATATT
63451456 GATGTAGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:63451596 original size:16 final size:15
Alignment explanation
Indices: 63451572--63451619 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
63451562 TAATTATTAT
*
63451572 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
63451588 TATTTTAATATTTTA
1 TATTTTAATATTTTA
63451603 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
63451619 T
1 T
63451620 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:63451607 original size:7 final size:8
Alignment explanation
Indices: 63451572--63451623 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
63451562 TAATTATTAT
*
63451572 TATTCTAA
1 TATTTTAA
*
63451580 TATTTTGA
1 TATTTTAA
63451588 TATTTTAA
1 TATTTTAA
63451596 TATTTT-A
1 TATTTTAA
63451603 TATTTTATA
1 TATTTTA-A
*
63451612 TATTTTAT
1 TATTTTAA
63451620 TATT
1 TATT
63451624 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:63453216 original size:12 final size:12
Alignment explanation
Indices: 63453196--63453231 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
63453186 ATTCATTTGA
*
63453196 CATTTATGCATT
1 CATTCATGCATT
63453208 CATTCATGCATT
1 CATTCATGCATT
*
63453220 CATTCATACATT
1 CATTCATGCATT
63453232 GCATATCCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:63461636 original size:70 final size:70
Alignment explanation
Indices: 63461515--63461689 Score: 212
Period size: 70 Copynumber: 2.5 Consensus size: 70
63461505 CTTTCCAAGG
* **
63461515 AAAATCAACTCATATTGCGA-TAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
63461578 TGTTTTT
65 TG-TTTT
** * *
63461585 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
63461650 GTTTT
66 GTTTT
** * *
63461655 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
63461690 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
69 31 0.34
70 57 0.62
71 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:63462081 original size:14 final size:14
Alignment explanation
Indices: 63462062--63462089 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63462052 CTGAGGTCTT
63462062 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
63462076 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
63462090 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:63462197 original size:72 final size:72
Alignment explanation
Indices: 63462096--63462360 Score: 278
Period size: 72 Copynumber: 3.5 Consensus size: 72
63462086 GTTCGTAAAA
* *
63462096 AAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTC
63462161 TGTTTTC
66 TGTTTTC
* ** * * *
63462168 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTACTTTCAATTTC
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTC
63462233 TGTTTTC
66 TGTTTTC
* * * *
63462240 AAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTT
1 ------AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC--ATGACACGCTGAGGTAATT
*
63462305 TCAATTTCTGTTTTTAAAAAA
58 TCAATTTCTG-TTTT-----C
*
63462326 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGC
63462361 TTCAGATTAC
Statistics
Matches: 160, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
72 64 0.40
78 35 0.22
80 57 0.36
81 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (72 bp):
AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCATGACACGCTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:63462336 original size:80 final size:78
Alignment explanation
Indices: 63462076--63462360 Score: 345
Period size: 80 Copynumber: 3.7 Consensus size: 78
63462066 ATTTCTGTTC
** * * *
63462076 TTCAATTTCTG--TTCGTAAAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCATGAC
1 TTCAATTTCTGTTTTCAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
*
63462139 ACGCTGAGGTAAT
66 ACGCTGAGGTACT
* **
63462152 TTCAATTTCTGTTTTC------AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 TTCAATTTCTGTTTTCAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
*
63462211 ACGTTGAGGTACT
66 ACGCTGAGGTACT
*
63462224 TTCAATTTCTGTTTTCAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTT
1 TTCAATTTCTGTTTTCAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAG--
* *
63462288 CACATGCTGAGGTATT
64 -ACACGCTGAGGTACT
* *
63462304 TTCAATTTCTGTTTTTAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTCAATTTCTGTTTTCAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGC
63462361 TTCAGATTAC
Statistics
Matches: 181, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
72 64 0.35
76 11 0.06
77 1 0.01
78 38 0.21
80 67 0.37
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (78 bp):
TTCAATTTCTGTTTTCAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
ACGCTGAGGTACT
Found at i:63462382 original size:80 final size:80
Alignment explanation
Indices: 63462168--63462385 Score: 282
Period size: 80 Copynumber: 2.8 Consensus size: 80
63462158 TTCTGTTTTC
* ** * ** *
63462168 AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTACTTTCAATT
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGATTACACACTGAGGTATTTTCAATT
63462231 TCTGTTTTCAAAAAA
66 TCTGTTTTCAAAAAA
*
63462246 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTT-CACATGCTGAGGTATTTTCAA
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGATTACACA--CTGAGGTATTTTCAA
*
63462309 TTTCTGTTTTTAAAAAA
64 TTTCTGTTTTCAAAAAA
* * *
63462326 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACTGTGGTATTTT
1 AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGATTACACACTGAGGTATTTT
63462386 TTCAATTCAT
Statistics
Matches: 121, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 38 0.31
80 76 0.63
81 3 0.02
82 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (80 bp):
AAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGATTACACACTGAGGTATTTTCAATT
TCTGTTTTCAAAAAA
Found at i:63462641 original size:72 final size:72
Alignment explanation
Indices: 63462518--63462730 Score: 374
Period size: 72 Copynumber: 3.0 Consensus size: 72
63462508 TCAAAATCAG
* *
63462518 CTCATATTGCAAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGTGTTTTA
63462582 ATTTCAA
66 ATTTCAA
63462589 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGTGTTTTA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGTGTTTTA
63462654 ATTTCAA
66 ATTTCAA
* *
63462661 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTTTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTG-TGTTTT
63462726 AATTT
65 AATTT
63462731 ATGTTTCAAA
Statistics
Matches: 136, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
71 28 0.21
72 98 0.72
73 10 0.07
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (72 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGTGTTTTA
ATTTCAA
Found at i:63462901 original size:73 final size:73
Alignment explanation
Indices: 63462741--63463151 Score: 416
Period size: 73 Copynumber: 5.5 Consensus size: 73
63462731 ATGTTTCAAA
* *
63462741 AAAAATCT-ACTCATATTGCGAGAAGTGAGTTGAGCCTCA--AGACGCTGAGGTAATTTCAATTT
1 AAAAAT-TAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* **
63462803 TTGTTTGTC
65 CTGTTCATC
* ** * *
63462812 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTA
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
63462877 TGTTCATA
66 TGTTCATC
* * * * *
63462885 AAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACACTGAGGTATTTTCAAT
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAAT
*
63462949 TTCTGGTTTTTAATTTC
63 TTCT-G---TTCA--TC
* * *
63462966 TATTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGTTAATTTC
1 -A-----AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
**
63463031 AATTTCTGTTTGTC
60 AATTTCTGTTCATC
* *
63463045 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGTTAATTTCAATTTC
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
**
63463110 TGTTTGTC
66 TGTTCATC
63463118 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
63463152 TCTCGGCTCA
Statistics
Matches: 290, Mismatches: 31, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
71 36 0.12
72 2 0.01
73 163 0.56
75 20 0.07
76 1 0.00
78 1 0.00
79 5 0.02
81 3 0.01
82 1 0.00
84 1 0.00
85 22 0.08
87 33 0.11
88 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (73 bp):
AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTCATC
Found at i:63462979 original size:160 final size:158
Alignment explanation
Indices: 63462813--63463111 Score: 436
Period size: 160 Copynumber: 1.9 Consensus size: 158
63462803 TTGTTTGTCA
** *
63462813 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTAT
* * *
63462878 GTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACACTGAGGTATT
66 GTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG--CACACACTGAGGTAAT
63462943 TTCAATTTCTGGTTTTTAATTTCTATTTTT
129 TTCAATTTCTGGTTTTTAATTTCTATTTTT
* * *
63462973 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGTTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTAT
** * * * * *
63463038 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGTTAATTT
66 GTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCACACACTGAGGTAATTT
63463103 CAATTTCTG
131 CAATTTCTG
63463112 TTTGTCAAAA
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
158 23 0.19
160 100 0.81
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (158 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTAT
GTTCATAAAAAATTAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCACACACTGAGGTAATTT
CAATTTCTGGTTTTTAATTTCTATTTTT
Found at i:63463043 original size:233 final size:229
Alignment explanation
Indices: 63462491--63463205 Score: 836
Period size: 233 Copynumber: 3.1 Consensus size: 229
63462481 GGGTTGAACC
* *
63462491 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGG-CACGC
1 TTTTAATTTCTA-TTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
* * **
63462555 TGAGGTATTTTCAATTTTTGTGTT-T-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 TGAGGTAATTTCAATTTTTGT-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* ** *
63462618 AGGACACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTT
128 AGGACACGCTGAGGTATTTT-AATTTATGT-TTAAAAATT-AACTCATATTGCGAGAGGTGAGTT
*
63462683 GAGCCTCAGG---ACACGCTGAGGTATTTTCAATTT-TCGTTT
190 GAGCCT-AGGCTCACACGCTGAGGTATTTTCAATTTCT-G-CT
* * ** * * * *
63462722 TTTTAATTTATGTTTCAAAAAAAATCTACTCATATTGCGAGAAGTGAGTTGAGCCTC--AAGACG
1 TTTTAATTTCTATTT---TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
63462785 CTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
63 CTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
63462850 AGGACACGCTGAGGTGGTTTTAATTTATGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGT
128 AGGACACGCTGAGGT-ATTTTAATTTATGTT--T-AAAAATTAACTCATATTGCGAGAGGTGAGT
* * *
63462915 TGAGCCTTGGCTCACACACTGAGGTATTTTCAATTTCTGGT
189 TGAGCCTAGGCTCACACGCTGAGGTATTTTCAATTTCTGCT
63462956 TTTTAATTTCTATTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
1 TTTTAATTTCTATTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
* * * *
63463021 AGTTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
66 AGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * *
63463086 ACACGCTGAGTTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
131 ACACGCTGAGGT-ATTTTAATTTATG-TT-T-AAAAATTAACTCATATTGCGAGAGGTGAGTTGA
* * * * *
63463151 GTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCT
192 GCCTAGGCTCACACGCTGAGGTATTTTCAATTTCTGCT
* *
63463189 TTTCAATTTCTGTTTTT
1 TTTTAATTTCTATTTTT
63463206 TCAATTTATA
Statistics
Matches: 413, Mismatches: 54, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
230 5 0.01
231 71 0.17
232 93 0.23
233 200 0.48
234 20 0.05
235 23 0.06
236 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (229 bp):
TTTTAATTTCTATTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
AGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
ACACGCTGAGGTATTTTAATTTATGTTTAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
AGGCTCACACGCTGAGGTATTTTCAATTTCTGCT
Found at i:63463196 original size:14 final size:15
Alignment explanation
Indices: 63463171--63463212 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
63463161 ACATGCTGAG
*
63463171 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
63463186 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
63463200 GTTTTTTCAATTT
1 GTCTTTTCAATTT
63463213 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:63463208 original size:15 final size:14
Alignment explanation
Indices: 63463174--63463223 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
63463164 TGCTGAGGTC
63463174 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
63463187 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
63463201 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
63463216 TTTTTCAA
1 TTTTTCAA
63463224 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:63465535 original size:16 final size:16
Alignment explanation
Indices: 63465504--63465533 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
63465494 TTTTATTTTA
63465504 ACTTTATCTTTTAAAT
1 ACTTTATCTTTTAAAT
63465520 ACTTTAT-TTTTAAA
1 ACTTTATCTTTTAAA
63465534 ATTATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (16 bp):
ACTTTATCTTTTAAAT
Found at i:63466323 original size:17 final size:17
Alignment explanation
Indices: 63466301--63466334 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
63466291 TCTAGTAAGC
63466301 TAATAAAAATAATTAAA
1 TAATAAAAATAATTAAA
* *
63466318 TAATAAATATGATTAAA
1 TAATAAAAATAATTAAA
63466335 GAGATTCAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TAATAAAAATAATTAAA
Found at i:63466788 original size:30 final size:30
Alignment explanation
Indices: 63466752--63466814 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
63466742 ACTTATTTTA
63466752 TTGTTAATTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
*
63466782 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
63466812 TTG
1 TTG
63466815 CTTGTTGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:63472256 original size:116 final size:116
Alignment explanation
Indices: 63472052--63472270 Score: 429
Period size: 116 Copynumber: 1.9 Consensus size: 116
63472042 TCGAAAGGGG
63472052 GCTTTAAGGCTCTTTGAGCAAATGACATGCCGAATGAAATTTTAGGGCAAATTTTGGGTTTATAT
1 GCTTTAAGGCTCTTTGAGCAAATGACATGCCGAATGAAATTTTAGGGCAAATTTTGGGTTTATAT
63472117 ATATGCGTAAAACGGCGTCGTTTTAAGCCGTGAGTATTGGTGTTGGAATTT
66 ATATGCGTAAAACGGCGTCGTTTTAAGCCGTGAGTATTGGTGTTGGAATTT
*
63472168 GCTTTAAGGCTCTTTGAGCAAATGACATGCTGAATGAAATTTTAGGGCAAATTTTGGGTTTATAT
1 GCTTTAAGGCTCTTTGAGCAAATGACATGCCGAATGAAATTTTAGGGCAAATTTTGGGTTTATAT
63472233 ATATGCGTAAAACGGCGTCGTTTTAAGCCGTGAGTATT
66 ATATGCGTAAAACGGCGTCGTTTTAAGCCGTGAGTATT
63472271 AAGCCGTGAG
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 102 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (116 bp):
GCTTTAAGGCTCTTTGAGCAAATGACATGCCGAATGAAATTTTAGGGCAAATTTTGGGTTTATAT
ATATGCGTAAAACGGCGTCGTTTTAAGCCGTGAGTATTGGTGTTGGAATTT
Found at i:63472274 original size:14 final size:14
Alignment explanation
Indices: 63472255--63472284 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
63472245 CGGCGTCGTT
63472255 TTAAGCCGTGAGTA
1 TTAAGCCGTGAGTA
63472269 TTAAGCCGTGAGTA
1 TTAAGCCGTGAGTA
63472283 TT
1 TT
63472285 GGTGTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (14 bp):
TTAAGCCGTGAGTA
Found at i:63472757 original size:19 final size:19
Alignment explanation
Indices: 63472733--63472783 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
63472723 ATTAAAGGGT
*
63472733 TTTATCATATATTATTTAA
1 TTTATCATATATTATATAA
*
63472752 TTTATCATACATTATATAA
1 TTTATCATATATTATATAA
*
63472771 TGTATACATATAT
1 TTTAT-CATATAT
63472784 CTACTTAGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTATCATATATTATATAA
Found at i:63473871 original size:131 final size:130
Alignment explanation
Indices: 63473652--63473897 Score: 395
Period size: 131 Copynumber: 1.9 Consensus size: 130
63473642 AAAATTCACT
* * *
63473652 AAAACGAAGGCAATACTCGATGTTTGGCAATTCGGGAATCGTGCTCTATCGTGCTGGATTGTGAT
1 AAAACGAAGGCAATACTCGATGTTTGGCAATTCGGGAACCGTGCCCTATCGTGCTGGATTGCGAT
*
63473717 TTCCCGTTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGTCTTTAAAAACTCCTC
66 TTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTCTTTAAAAACTCCTC
* *
63473782 AAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAACCGTGCCCTATCTTGCTAGG-TTGCG
1 AAAACGAAGGCAATACTCGATGTTTGGCAATTC-GGGAACCGTGCCCTATCGTGCT-GGATTGCG
* *
63473846 ATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
64 ATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGT
63473898 TCTCTAAATT
Statistics
Matches: 106, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
130 32 0.30
131 72 0.68
132 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (130 bp):
AAAACGAAGGCAATACTCGATGTTTGGCAATTCGGGAACCGTGCCCTATCGTGCTGGATTGCGAT
TTCCCGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTCTTTAAAAACTCCTC
Found at i:63485018 original size:122 final size:120
Alignment explanation
Indices: 63484799--63485020 Score: 354
Period size: 122 Copynumber: 1.8 Consensus size: 120
63484789 TAAAATAGGC
*
63484799 ACAATGCTCATTTGTTCTTACTGCCATATATACATTATCCCATCTCAAAAGAGTACACATGATGA
1 ACAATGCTCATTTGTTCTGACTGCCATATATACATTATCCCATCTCAAAAGAGTACACATGATGA
* *
63484864 CGACATCCAAAACATCAACCTCGAACAGTTGTACTAAAGTAAAACAATTCTCATG
66 CAACATCCAAAACATCAACCTCGAACAATTGTACTAAAGTAAAACAATTCTCATG
* ** *
63484919 ACAATGCTCATTTTTTCTGACTGCCGTATATATGGATTATCCCATCTCAAAAGAGTACACATGTT
1 ACAATGCTCATTTGTTCTGACTGCC--ATATATACATTATCCCATCTCAAAAGAGTACACATGAT
*
63484984 GACAACATCCAAAACATCACCCTCGAACAATTGTACT
64 GACAACATCCAAAACATCAACCTCGAACAATTGTACT
63485021 CTAAACATCA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
120 23 0.25
122 69 0.75
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (120 bp):
ACAATGCTCATTTGTTCTGACTGCCATATATACATTATCCCATCTCAAAAGAGTACACATGATGA
CAACATCCAAAACATCAACCTCGAACAATTGTACTAAAGTAAAACAATTCTCATG
Found at i:63489713 original size:24 final size:24
Alignment explanation
Indices: 63489664--63489714 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
63489654 GTAGAAATTT
* *
63489664 TAATTTTAGATCTTTTCCATAGAA
1 TAATTTTAGATCTTTTCAAAAGAA
*
63489688 TAATTTTAGAT-TTTTTAAAAGTAA
1 TAATTTTAGATCTTTTCAAAAG-AA
63489712 TAA
1 TAA
63489715 ACTGTCGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATTTTAGATCTTTTCAAAAGAA
Found at i:63490004 original size:19 final size:20
Alignment explanation
Indices: 63489963--63490006 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
63489953 TGTTTTTTGA
* * *
63489963 ATTTTCCTATTTTTTTCTTT
1 ATTTTCCTATTCTCTTCTCT
63489983 ATTTTCC-ATTCTCTTCTCT
1 ATTTTCCTATTCTCTTCTCT
63490002 ATTTT
1 ATTTT
63490007 TTTAAACGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTTCCTATTCTCTTCTCT
Found at i:63491158 original size:21 final size:22
Alignment explanation
Indices: 63491118--63491159 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
63491108 CAAAATATAT
*
63491118 ATATTTATTTAATATATAAATG
1 ATATTTATTAAATATATAAATG
*
63491140 ATATTT-TTAAATATTTAAAT
1 ATATTTATTAAATATATAAAT
63491160 AATTTAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTTATTAAATATATAAATG
Found at i:63491213 original size:17 final size:18
Alignment explanation
Indices: 63491169--63491220 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
63491159 TAATTTAATG
63491169 AAAATA-TTTTTTA-TCT
1 AAAATATTTTTTTATTCT
63491185 AAAAATATTTTTTTTATTCT
1 -AAAATA-TTTTTTTATTCT
63491205 -AAATATTTTTATTATT
1 AAAATATTTTT-TTATT
63491221 AAGTGGATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 11 0.35
18 10 0.32
19 7 0.23
20 3 0.10
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
AAAATATTTTTTTATTCT
Found at i:63491660 original size:26 final size:26
Alignment explanation
Indices: 63491606--63491661 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
63491596 GTGTATGTTT
* * *
63491606 AATATTATCGAAAATTATTATTTTTA
1 AATATTATCGAAAATTATAATATTAA
*
63491632 AATATTATCTAAAATTATAATATTAA
1 AATATTATCGAAAATTATAATATTAA
63491658 AATA
1 AATA
63491662 AATTTATGTT
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:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (26 bp):
AATATTATCGAAAATTATAATATTAA
Found at i:63492357 original size:30 final size:30
Alignment explanation
Indices: 63492323--63492384 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
63492313 ACTTATTTTA
*
63492323 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAAATTTGTTATTATTTTAAAGACAT
* *
63492353 TTGTTAAATTTGTTTTTATTTTAGAGACAT
1 TTGTTAAATTTGTTATTATTTTAAAGACAT
63492383 TT
1 TT
63492385 TTGCTTGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTTTAAAGACAT
Found at i:63492729 original size:24 final size:24
Alignment explanation
Indices: 63492680--63492730 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
63492670 GTAGAAATTT
* *
63492680 TAATTTTAGATCTTTTCCATAGAA
1 TAATTTTAGATCTTTTCAAAAGAA
*
63492704 TAATTTTAGAT-TTTTTAAAAGTAA
1 TAATTTTAGATCTTTTCAAAAG-AA
63492728 TAA
1 TAA
63492731 ACTGTCGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATTTTAGATCTTTTCAAAAGAA
Found at i:63493020 original size:19 final size:20
Alignment explanation
Indices: 63492979--63493022 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
63492969 TGTTTTTTGA
* * *
63492979 ATTTTCCTATTTTTTTCTTT
1 ATTTTCCTATTCTCTTCTCT
63492999 ATTTTCC-ATTCTCTTCTCT
1 ATTTTCCTATTCTCTTCTCT
63493018 ATTTT
1 ATTTT
63493023 TTTAAACGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTTCCTATTCTCTTCTCT
Found at i:63494174 original size:21 final size:22
Alignment explanation
Indices: 63494134--63494175 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
63494124 CAAAATATAT
*
63494134 ATATTTATTTAATATATAAATG
1 ATATTTATTAAATATATAAATG
*
63494156 ATATTT-TTAAATATTTAAAT
1 ATATTTATTAAATATATAAAT
63494176 AATTTAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATATTTATTAAATATATAAATG
Found at i:63494229 original size:17 final size:18
Alignment explanation
Indices: 63494185--63494236 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 18
63494175 TAATTTAATG
63494185 AAAATA-TTTTTTA-TCT
1 AAAATATTTTTTTATTCT
63494201 AAAAATATTTTTTTTATTCT
1 -AAAATA-TTTTTTTATTCT
63494221 -AAATATTTTTATTATT
1 AAAATATTTTT-TTATT
63494237 AAGTGGATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 11 0.35
18 10 0.32
19 7 0.23
20 3 0.10
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
AAAATATTTTTTTATTCT
Found at i:63494676 original size:26 final size:26
Alignment explanation
Indices: 63494622--63494677 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
63494612 GTGTATGTTT
* * *
63494622 AATATTATCGAAAATTATTATTTTTA
1 AATATTATCGAAAATTATAATATTAA
*
63494648 AATATTATCTAAAATTATAATATTAA
1 AATATTATCGAAAATTATAATATTAA
63494674 AATA
1 AATA
63494678 AATTTATGTT
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:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (26 bp):
AATATTATCGAAAATTATAATATTAA
Found at i:63495373 original size:30 final size:30
Alignment explanation
Indices: 63495339--63495400 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
63495329 ACTTATTTTA
*
63495339 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAAATTTGTTATTATTTTAAAGACAT
* *
63495369 TTGTTAAATTTGTTTTTATTTTAGAGACAT
1 TTGTTAAATTTGTTATTATTTTAAAGACAT
63495399 TT
1 TT
63495401 TTGCTTGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAAATTTGTTATTATTTTAAAGACAT
Found at i:63497108 original size:19 final size:19
Alignment explanation
Indices: 63497084--63497122 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63497074 AAACTATAAA
63497084 ATTATTAA-ATTATAAAAAT
1 ATTATTAATA-TATAAAAAT
*
63497103 ATTATTGATATATAAAAAT
1 ATTATTAATATATAAAAAT
63497122 A
1 A
63497123 CAAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
ATTATTAATATATAAAAAT
Found at i:63497274 original size:21 final size:21
Alignment explanation
Indices: 63497232--63497282 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
63497222 AAATTTACTT
* **
63497232 AAAATTATTAAAATGATAAAA
1 AAAATTATAAAAACCATAAAA
*
63497253 AAAATTATAAAAACCATTAAA
1 AAAATTATAAAAACCATAAAA
*
63497274 ACAATTATA
1 AAAATTATA
63497283 GAAATTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATTATAAAAACCATAAAA
Found at i:63499744 original size:18 final size:19
Alignment explanation
Indices: 63499702--63499738 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
63499692 TATCATACTG
63499702 ATAATTTTTATAATAATTA
1 ATAATTTTTATAATAATTA
*
63499721 ATAATTTTTTTAA-AATTA
1 ATAATTTTTATAATAATTA
63499739 TAAATTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAATTTTTATAATAATTA
Found at i:63500612 original size:44 final size:44
Alignment explanation
Indices: 63500549--63500638 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
63500539 TCTCAGTGGG
63500549 AGAATTTATTAGTGAGAGTTCTAATTTTCAAAGGTACAAGAGTA
1 AGAATTTATTAGTGAGAGTTCTAATTTTCAAAGGTACAAGAGTA
63500593 AGAATTTATTAGTGAGAGTTCTAATTTTCAAAGGTACAAGAGTA
1 AGAATTTATTAGTGAGAGTTCTAATTTTCAAAGGTACAAGAGTA
63500637 AG
1 AG
63500639 GAAATTGTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (44 bp):
AGAATTTATTAGTGAGAGTTCTAATTTTCAAAGGTACAAGAGTA
Found at i:63502066 original size:28 final size:28
Alignment explanation
Indices: 63502037--63502092 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
63502027 GTTTGGTAAA
*
63502037 TTAATACAAAATAGTACTTAAAT-ATTAAT
1 TTAATA-AAAATA-AACTTAAATAATTAAT
*
63502066 TTAGTAAAAATAAACTTAAATAATTAA
1 TTAATAAAAATAAACTTAAATAATTAA
63502093 ATATCTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.33
28 11 0.46
29 5 0.21
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (28 bp):
TTAATAAAAATAAACTTAAATAATTAAT
Found at i:63508658 original size:12 final size:12
Alignment explanation
Indices: 63508626--63508659 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
63508616 TGGGTGATTG
*
63508626 ATTAAAAAATTA
1 ATTATAAAATTA
63508638 ATTACTAAAATTA
1 ATTA-TAAAATTA
63508651 ATTATAAAA
1 ATTATAAAA
63508660 AAATAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTATAAAATTA
Found at i:63509499 original size:16 final size:17
Alignment explanation
Indices: 63509464--63509506 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
63509454 GTAAGAAATT
* *
63509464 ATTAATAACATTATTTAC
1 ATTAATAATA-TATTAAC
63509482 ATT-ATAATATATTAAC
1 ATTAATAATATATTAAC
63509498 ATTAATAAT
1 ATTAATAAT
63509507 GAATTATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 9 0.41
17 10 0.45
18 3 0.14
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTAATAATATATTAAC
Found at i:63509849 original size:3 final size:3
Alignment explanation
Indices: 63509843--63509876 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
63509833 AATAATATTT
* *
63509843 TAA TAA TAA TAA TAA TAG TAA TAA TAA TGA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
63509877 TGAATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:63510172 original size:21 final size:22
Alignment explanation
Indices: 63510141--63510187 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
63510131 GTCATTCAAA
*
63510141 TTAATTTTTTAA-ATTTGTATTT
1 TTAATTTTTTAATATTT-TATAT
63510163 TTAA-TTTTTAATATTTTATAT
1 TTAATTTTTTAATATTTTATAT
63510184 TTAA
1 TTAA
63510188 AAGTTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTAATTTTTTAATATTTTATAT
Found at i:63510233 original size:20 final size:18
Alignment explanation
Indices: 63510199--63510235 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
63510189 AGTTATAATA
63510199 ATAAAATATAAAATAAAC
1 ATAAAATATAAAATAAAC
63510217 ATAAAATTATGAAAATAAA
1 ATAAAA-TAT-AAAATAAA
63510236 AAAATCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAAAATATAAAATAAAC
Found at i:63510259 original size:5 final size:5
Alignment explanation
Indices: 63510249--63510336 Score: 61
Period size: 5 Copynumber: 16.2 Consensus size: 5
63510239 ATCCATTTTT
* *
63510249 ATAAA ATAAA ATAAA ATTAGAA A-AATT AGAAA ATATAA ATATAA ATATAA
1 ATAAA ATAAA ATAAA A-TA-AA ATAA-A ATAAA ATA-AA ATA-AA ATA-AA
* *
63510299 ATATA ATAAA TATAAA ATAAA ATAAA AGTAAA GTAAA A
1 ATAAA ATAAA -ATAAA ATAAA ATAAA A-TAAA ATAAA A
63510337 AGGGGCTGCT
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
4 1 0.01
5 35 0.51
6 30 0.43
7 3 0.04
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (5 bp):
ATAAA
Found at i:63510290 original size:6 final size:6
Alignment explanation
Indices: 63510279--63510324 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
63510269 AAAAATTAGA
63510279 AAATAT AAATAT AAATAT AAATAT --A-AT AAATAT AAA-AT AAA-AT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
63510322 AAA
1 AAA
63510325 AGTAAAGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.05
4 1 0.03
5 11 0.30
6 23 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
AAATAT
Found at i:63510309 original size:15 final size:16
Alignment explanation
Indices: 63510249--63510324 Score: 59
Period size: 16 Copynumber: 4.6 Consensus size: 16
63510239 ATCCATTTTT
63510249 ATAAAATAAA-ATAAA
1 ATAAAATAAATATAAA
* *
63510264 ATTAGAAA-AATTAGAAA
1 A-TA-AAATAAATATAAA
63510281 ATATAAATATAA-ATATAA
1 ATA-AAATA-AATATA-AA
*
63510299 ATATAATAAATATAAA
1 ATAAAATAAATATAAA
63510315 ATAAAATAAA
1 ATAAAATAAA
63510325 AGTAAAGTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
15 1 0.02
16 22 0.47
17 18 0.38
18 6 0.13
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
ATAAAATAAATATAAA
Found at i:63510309 original size:21 final size:19
Alignment explanation
Indices: 63510278--63510323 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
63510268 GAAAAATTAG
63510278 AAAAT-ATAAATATAAATAT
1 AAAATAATAAATATAAA-AT
63510297 AAATATAATAAATATAAAAT
1 AAA-ATAATAAATATAAAAT
63510317 AAAATAA
1 AAAATAA
63510324 AAGTAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 7 0.28
21 11 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATAATAAATATAAAAT
Found at i:63510322 original size:27 final size:29
Alignment explanation
Indices: 63510249--63510322 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
63510239 ATCCATTTTT
63510249 ATAAA-ATAAAATAAAATTAGAAAAATTAG
1 ATAAATATAAAATAAAA-TAGAAAAATTAG
* *
63510278 A-AAATAT-AAATATAAATATAAATA-TA-
1 ATAAATATAAAATA-AAATAGAAAAATTAG
63510304 ATAAATATAAAATAAAATA
1 ATAAATATAAAATAAAATA
63510323 AAAGTAAAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
26 1 0.03
27 13 0.33
28 19 0.49
29 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (29 bp):
ATAAATATAAAATAAAATAGAAAAATTAG
Found at i:63510335 original size:11 final size:10
Alignment explanation
Indices: 63510249--63510336 Score: 61
Period size: 11 Copynumber: 8.1 Consensus size: 10
63510239 ATCCATTTTT
63510249 ATAAAATAAA
1 ATAAAATAAA
63510259 ATAAAATTAGAA
1 ATAAAA-TA-AA
* *
63510271 A-AATTAGAAA
1 ATAA-AATAAA
63510281 ATATAAATATAA
1 ATA-AAATA-AA
*
63510293 ATATAAATATA
1 ATA-AAATAAA
63510304 ATAAATATAAA
1 ATAAA-ATAAA
63510315 ATAAAATAAA
1 ATAAAATAAA
*
63510325 AGTAAAGTAAA
1 A-TAAAATAAA
63510336 A
1 A
63510337 AGGGGCTGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
10 17 0.27
11 30 0.48
12 16 0.25
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (10 bp):
ATAAAATAAA
Found at i:63525137 original size:22 final size:22
Alignment explanation
Indices: 63525111--63525162 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
63525101 GTTAGCGAAC
63525111 AAAAATA-TATAAATATAAATAA
1 AAAAATATTATAAATAT-AATAA
*
63525133 AAAAATATTTATAGATATAATAA
1 AAAAATA-TTATAAATATAATAA
63525156 AATAAAT
1 AA-AAAT
63525163 TGAATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
23 7 0.27
24 12 0.46
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAATATTATAAATATAATAA
Found at i:63529091 original size:22 final size:22
Alignment explanation
Indices: 63529048--63529092 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
63529038 TATCAATGTT
*
63529048 ATTAGTGGTAGTTTATCTACAA
1 ATTAGTGGTAGTTTATCCACAA
*
63529070 ATTAGTGGTGGCTTT-TCCACAA
1 ATTAGTGGTAG-TTTATCCACAA
63529092 A
1 A
63529093 CGGTGTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (22 bp):
ATTAGTGGTAGTTTATCCACAA
Found at i:63530186 original size:29 final size:30
Alignment explanation
Indices: 63530132--63530189 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
63530122 CAAATTTCTG
* *
63530132 AAAGGAAATGCCTTTGTGGTGATCTTTGTC
1 AAAGGAAATGCCTCTGTGGTCATCTTTGTC
63530162 AAAGGAAA-GCCTCTGTGG-CATTCTTTGT
1 AAAGGAAATGCCTCTGTGGTCA-TCTTTGT
63530190 GAAGGAAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 16 0.64
30 8 0.32
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAGGAAATGCCTCTGTGGTCATCTTTGTC
Found at i:63553618 original size:15 final size:15
Alignment explanation
Indices: 63553598--63553654 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
63553588 ATTCAATATT
63553598 AATATTTTAATAATA
1 AATATTTTAATAATA
*
63553613 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
63553632 AATATATTAATAATA
1 AATATTTTAATAATA
*
63553647 AATGTTTT
1 AATATTTT
63553655 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:63558625 original size:22 final size:22
Alignment explanation
Indices: 63558577--63558626 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
63558567 AATTTAAATT
**
63558577 TTAAAAAATTATAAAATTTTCA
1 TTAAAAAATTATAAAATAATCA
*
63558599 TTAAAAATTTA-AAAATAATCA
1 TTAAAAAATTATAAAATAATCA
63558620 TATAAAA
1 T-TAAAA
63558627 TACACATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
TTAAAAAATTATAAAATAATCA
Found at i:63565013 original size:13 final size:14
Alignment explanation
Indices: 63564989--63565017 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
63564979 CGACAAACGG
63564989 ATTAATAAATATTT
1 ATTAATAAATATTT
63565003 ATTAA-AAATATTT
1 ATTAATAAATATTT
63565016 AT
1 AT
63565018 GAAGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTAATAAATATTT
Found at i:63565314 original size:8 final size:8
Alignment explanation
Indices: 63565301--63565333 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
63565291 TTATTATAAT
63565301 ATAATATA
1 ATAATATA
63565309 ATAATATA
1 ATAATATA
63565317 ATAATATA
1 ATAATATA
*
63565325 ATAACATA
1 ATAATATA
63565333 A
1 A
63565334 AGTAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (8 bp):
ATAATATA
Found at i:63565333 original size:13 final size:13
Alignment explanation
Indices: 63565282--63565319 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
63565272 ATTATTTAAG
*
63565282 TAATAATA-ATTA
1 TAATAATATAATA
*
63565294 TTATAATATAATA
1 TAATAATATAATA
63565307 TAATAATATAATA
1 TAATAATATAATA
63565320 ATATAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:63571911 original size:21 final size:21
Alignment explanation
Indices: 63571887--63571931 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
63571877 GAGGGATCAA
*
63571887 ATGCTGGAGTCTCAGAAAAAC
1 ATGCTGGAGTCACAGAAAAAC
*
63571908 ATGCTGGAGTCACAGAACAAC
1 ATGCTGGAGTCACAGAAAAAC
63571929 ATG
1 ATG
63571932 ATGAGCCAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (21 bp):
ATGCTGGAGTCACAGAAAAAC
Found at i:63579876 original size:133 final size:133
Alignment explanation
Indices: 63579638--63580257 Score: 1003
Period size: 133 Copynumber: 4.7 Consensus size: 133
63579628 GATTACAGAT
* * *
63579638 ATCATCAGCCTTATCTTCACTGAGCAGGAAG-CGAACAGGCTAAATACCAGGTCTTATCTTCGCT
1 ATCATCAGCCTTATCTTCACTGAGCAGG-AGTGGAGCAGGCTAAATACCAGGTCTTATCTTCGTT
* * *
63579702 GAGCAGGAGCAGAGCAAATCAAATTTTGGTGAATCTTATCTCCAGGTACCGGCGATGGAGCAGAT
65 GAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCACGTACCGGCGATGGAGCAGAT
63579767 TCCA
130 TCCA
*
63579771 ATCATCAGCCTTATATTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGGTCTTATCTTCGTTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGGTCTTATCTTCGTTG
63579836 AGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
66 AGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
*
63579901 CTA
131 CCA
*
63579904 ATCATCAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAATACCAGGTCTTATCTTCGTTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGGTCTTATCTTCGTTG
* *
63579969 AGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCATATCTCCATGTACCGGCGATGGAGCAGATT
66 AGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
63580034 CCA
131 CCA
* * *
63580037 ATCATCAGCCTTATTTTCACTAAGCAGGAGTGGAGCAGGCTAAATACCAGGTCTTATCTTCGCTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGGTCTTATCTTCGTTG
* * * *
63580102 AGTAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCACGTACCGGCAATAGAGCAAATT
66 AGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
63580167 CCA
131 CCA
* ** *
63580170 ATCATCAGCCTTATCTTCACTGAGCAAGAGT-GAGCAGGCTAAATTGCAGATCTTATCTTCGTTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGGTCTTATCTTCGTTG
*
63580234 AGCAAGAGCGGAGCAGAT-AAATTT
66 AGCAGGAGCGGAGCAGATCAAATTT
63580258 CCAACAAATC
Statistics
Matches: 454, Mismatches: 32, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
131 6 0.01
132 47 0.10
133 401 0.88
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (133 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGGTCTTATCTTCGTTG
AGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
CCA
Found at i:63589169 original size:52 final size:48
Alignment explanation
Indices: 63589107--63589299 Score: 187
Period size: 47 Copynumber: 4.0 Consensus size: 48
63589097 GAAATGTGAT
* *
63589107 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
63589159 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
63589206 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATACGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * * *
63589252 ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
63589300 ACTATGTGCA
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
46 26 0.22
47 53 0.44
48 10 0.08
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:63595511 original size:44 final size:44
Alignment explanation
Indices: 63595422--63595535 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 44
63595412 TGTAAATTTA
* * *
63595422 GCGGCGTTTTTGGGGAAAGCGCCGCT-AAAGGACTCTACTTTTG
1 GCGGCATTTGTGGTGAAAGCGCCGCTAAAAGGACTCTACTTTTG
* *
63595465 GCGGCATTTGTGGAT-AAAGCGCCGCTAAAAGGTCTGTACTTTTG
1 GCGGCATTTGTGG-TGAAAGCGCCGCTAAAAGGACTCTACTTTTG
* *
63595509 GCGGCATTTTTGGTGTAAGCGCCGCTA
1 GCGGCATTTGTGGTGAAAGCGCCGCTA
63595536 TAGGTTTATA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
43 23 0.38
44 38 0.62
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (44 bp):
GCGGCATTTGTGGTGAAAGCGCCGCTAAAAGGACTCTACTTTTG
Found at i:63595595 original size:43 final size:42
Alignment explanation
Indices: 63595418--63595895 Score: 299
Period size: 43 Copynumber: 11.2 Consensus size: 42
63595408 AATCTGTAAA
* * *
63595418 TTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGACTCTACT
1 TTTAGCGGC-TTTTTGGGTAAAGCGCCGCTAAAGGTCTATACT
* * * *
63595461 TTTGGCGGCATTTGTGGATAAAGCGCCGCTAAAAGGTCTGTACT
1 TTTAGCGGC-TTTTTGGGTAAAGCGCCGCT-AAAGGTCTATACT
* * * **
63595505 TTTGGCGGCATTTTTGGTGT-AAGCGCCGCTATAGGTTTATAAA
1 TTTAGCGGC-TTTTTGG-GTAAAGCGCCGCTAAAGGTCTATACT
* *
63595548 TTTAGCGGTTTTTTGGGCTAAAGCTCCGCTAAAGGTCTATACT
1 TTTAGCGGCTTTTTGGG-TAAAGCGCCGCTAAAGGTCTATACT
** *** * ***
63595591 TTTAGCGGCGCTTTGCAAACAAACGCCGCTAAAGGTCCGCACT
1 TTTAGCGGCTTTTTGGGTA-AAGCGCCGCTAAAGGTCTATACT
*** * *
63595634 TTTAGCGGCGCTTTCCCCGG-AAA-CGCCGCTAAAGGTCTACACC
1 TTTAGC-G-GCTTT-TTGGGTAAAGCGCCGCTAAAGGTCTATACT
* * * * ** *
63595677 TTTAGTGGCGTTTGTGGATAAAACGCCGCTAAAGGTCTGCACC
1 TTTAGCGGC-TTTTTGGGTAAAGCGCCGCTAAAGGTCTATACT
* *
63595720 TTTAGCGGCGTTTTTTGGGT-AA-CGCCGCTAAAGGTATGTGA-T
1 TTTAGCGGC--TTTTTGGGTAAAGCGCCGCTAAAGGTCTAT-ACT
* * *
63595762 TTTAGTGGCGTTTGTTTGCT-AAGCGCCGCTAAAGGTCTATACT
1 TTTAGCGGC-TTT-TTGGGTAAAGCGCCGCTAAAGGTCTATACT
* * *
63595805 ATTAGCGGCGTTTAT-GGTAATGCGCCGCTAAAGGTCTATACT
1 TTTAGCGGC-TTTTTGGGTAAAGCGCCGCTAAAGGTCTATACT
* * * * *
63595847 ATTAGCGGCGTTTAT-GGTAATGCGCCGCTAAAGGTATCTACT
1 TTTAGCGGC-TTTTTGGGTAAAGCGCCGCTAAAGGTCTATACT
63595889 TTTAGCG
1 TTTAGCG
63595896 ACGTTTTCTG
Statistics
Matches: 349, Mismatches: 69, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
41 9 0.03
42 115 0.33
43 173 0.50
44 47 0.13
45 5 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCTTTTTGGGTAAAGCGCCGCTAAAGGTCTATACT
Found at i:63595773 original size:85 final size:84
Alignment explanation
Indices: 63595611--63595921 Score: 215
Period size: 85 Copynumber: 3.6 Consensus size: 84
63595601 CTTTGCAAAC
* * *** * *
63595611 AAACGCCGCTAAAGGTCCGCACTTTTAGCGGCGCTTTCCCCGGAAACGCCGCTAAAGGTCTACAC
1 AAACGCCGCTAAAGGTCTGCACCTTTAGCGGCG-TTT-TATGGTAACGCCGCTAAAGGTATACAC
63595676 CTTTAGTGGCGTTTG-TGGAT
64 CTTTAGTGGCGTTTGTTGGAT
* **
63595696 AAAACGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTTTGGGTAACGCCGCTAAAGGTATGTGA
1 -AAACGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTAT-GGTAACGCCGCTAAAGGTAT-ACA
* * *
63595761 -TTTTAGTGGCGTTTGTTTGCT
63 CCTTTAGTGGCGTTTGTTGGAT
* ** * *
63595782 AAGCGCCGCTAAAGGTCTATA-CTATTAGCGGCG-TTTATGGTAATGCGCCGCTAAAGGTCTATA
1 AAACGCCGCTAAAGGTCTGCACCT-TTAGCGGCGTTTTATGGTAA--CGCCGCTAAAGGTATACA
* *
63595845 -CTATTAGCGGCGTTT-ATGG-T
63 CCT-TTAGTGGCGTTTGTTGGAT
* * * * * *
63595865 AATGCGCCGCTAAAGGTAT-CTACTTTTAGCGACGTTTTCTGTTCAAACGCCGCTAAA
1 AA-ACGCCGCTAAAGGTCTGC-ACCTTTAGCGGCGTTTTATGGT--AACGCCGCTAAA
63595922 AGTGATGACT
Statistics
Matches: 183, Mismatches: 29, Indels: 27
0.77 0.12 0.11
Matches are distributed among these distances:
83 8 0.04
84 34 0.19
85 104 0.57
86 35 0.19
87 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (84 bp):
AAACGCCGCTAAAGGTCTGCACCTTTAGCGGCGTTTTATGGTAACGCCGCTAAAGGTATACACCT
TTAGTGGCGTTTGTTGGAT
Found at i:63595901 original size:127 final size:128
Alignment explanation
Indices: 63595657--63595901 Score: 304
Period size: 127 Copynumber: 1.9 Consensus size: 128
63595647 TCCCCGGAAA
* * *
63595657 CGCCGCTAAAGGTCTACACCTTTAGTGGCGTTTGTGGATAAAACGCCGCTAAAGGTCTGCACCTT
1 CGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTATGGATAAAACGCCGCTAAAGGTCTACACCTT
* * * *
63595722 TAGCGGCGTTTTTTGGGTAACGCCGCTAAAGGTATGTGATTTTAGTGGCGTTTGTTTGCTAAG
66 TAGCGGCGTTTTATGGGTAACGCCGCTAAAGGTATCTGATTTTAGCGACGTTTGTTTGCTAAG
* ** *
63595785 CGCCGCTAAAGGTCTATA-CTATTAGCGGCGTTTATGG-TAATGCGCCGCTAAAGGTCTATA-CT
1 CGCCGCTAAAGGTCTACACCT-TTAGCGGCGTTTATGGATAAAACGCCGCTAAAGGTCTACACCT
63595847 ATTAGCGGCG-TTTAT-GGTAATGCGCCGCTAAAGGTATCT-ACTTTTAGCGACGTTT
65 -TTAGCGGCGTTTTATGGGTAA--CGCCGCTAAAGGTATCTGA-TTTTAGCGACGTTT
63595902 TCTGTTCAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
125 5 0.05
126 7 0.07
127 58 0.57
128 31 0.31
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (128 bp):
CGCCGCTAAAGGTCTACACCTTTAGCGGCGTTTATGGATAAAACGCCGCTAAAGGTCTACACCTT
TAGCGGCGTTTTATGGGTAACGCCGCTAAAGGTATCTGATTTTAGCGACGTTTGTTTGCTAAG
Found at i:63596211 original size:18 final size:19
Alignment explanation
Indices: 63596181--63596217 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
63596171 TTTAATTAAC
63596181 TAATAAAATATTT-CAATA
1 TAATAAAATATTTCCAATA
63596199 TAATATAAA-ATTTCCAATA
1 TAATA-AAATATTTCCAATA
63596218 CCATCATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAAAATATTTCCAATA
Found at i:63602518 original size:28 final size:27
Alignment explanation
Indices: 63602428--63602552 Score: 196
Period size: 28 Copynumber: 4.6 Consensus size: 27
63602418 ATATTAAGTC
* *
63602428 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
63602455 TGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
63602482 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
63602510 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
63602538 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63602553 GTACAATTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 46 0.49
28 47 0.51
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:63602534 original size:55 final size:55
Alignment explanation
Indices: 63602428--63602552 Score: 198
Period size: 55 Copynumber: 2.3 Consensus size: 55
63602418 ATATTAAGTC
* * * *
63602428 CGCACACTCAGTGCTATATAATCAACTTGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
63602482 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
63602538 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63602553 GTACAATTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
54 21 0.32
55 25 0.38
56 19 0.29
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:63608630 original size:40 final size:40
Alignment explanation
Indices: 63608574--63609525 Score: 1764
Period size: 40 Copynumber: 23.8 Consensus size: 40
63608564 CATTTGAATG
* * *
63608574 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
63608614 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
63608654 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63608694 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63608734 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63608774 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63608814 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63608854 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63608894 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63608934 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63608974 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609014 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609054 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609094 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609134 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609174 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609214 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609254 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609294 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609334 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609374 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
63609414 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
63609454 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
63609494 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
63609526 TTGTGGTTAT
Statistics
Matches: 902, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
40 899 1.00
41 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:63611357 original size:24 final size:24
Alignment explanation
Indices: 63611325--63611374 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
63611315 GACCGGAGTA
63611325 CAAATTGCACCAAGAGTCATAATC
1 CAAATTGCACCAAGAGTCATAATC
63611349 CAAATTGCACCAAGAGTCATAATC
1 CAAATTGCACCAAGAGTCATAATC
63611373 CA
1 CA
63611375 GAAACCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (24 bp):
CAAATTGCACCAAGAGTCATAATC
Found at i:63612600 original size:13 final size:13
Alignment explanation
Indices: 63612584--63612616 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
63612574 TTTGATTAAA
*
63612584 TTAGTTAATTAGT
1 TTAGATAATTAGT
63612597 TTAGATAATTAGT
1 TTAGATAATTAGT
63612610 TTA-ATAA
1 TTAGATAA
63612617 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:63612907 original size:5 final size:5
Alignment explanation
Indices: 63612897--63612921 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
63612887 TTTTTCTTGC
63612897 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
63612922 TACTATTTAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:63616451 original size:20 final size:21
Alignment explanation
Indices: 63616422--63616463 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
63616412 CCTCTCCGCG
63616422 TCACACGCCCGTGT-TCGCCA
1 TCACACGCCCGTGTGTCGCCA
*
63616442 TCACATGCCCGTGTGTCGCCA
1 TCACACGCCCGTGTGTCGCCA
63616463 T
1 T
63616464 ACAGCAGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.14, C:0.40, G:0.21, T:0.24
Consensus pattern (21 bp):
TCACACGCCCGTGTGTCGCCA
Found at i:63617739 original size:6 final size:6
Alignment explanation
Indices: 63617728--63617817 Score: 87
Period size: 6 Copynumber: 15.2 Consensus size: 6
63617718 ATCCTCCTAC
*
63617728 TTTATT TTTATT TTTATT TTTA-- TTTATT CTTATT TTTA-T TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * * *
63617773 TTATTTAT TTTATT CTTATT TTTCTT TTTCTT TTTATT TTCATT T
1 TT-TAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT T
63617818 CAATTTTCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
4 4 0.06
5 5 0.07
6 54 0.77
7 4 0.06
8 3 0.04
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:63617754 original size:22 final size:22
Alignment explanation
Indices: 63617728--63617817 Score: 87
Period size: 22 Copynumber: 4.1 Consensus size: 22
63617718 ATCCTCCTAC
63617728 TTTATTTTTATTTTTATTTTTA
1 TTTATTTTTATTTTTATTTTTA
*
63617750 TTTATTCTTATTTTTA-TTTTA
1 TTTATTTTTATTTTTATTTTTA
* *
63617771 TTT-TATTTA-TTTTATTCTTATT
1 TTTATTTTTATTTTTATT-TT-TA
* * *
63617793 TTTCTTTTTCTTTTTATTTTCA
1 TTTATTTTTATTTTTATTTTTA
63617815 TTT
1 TTT
63617818 CAATTTTCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
19 5 0.09
20 5 0.09
21 10 0.18
22 22 0.40
23 6 0.11
24 7 0.13
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTATTTTTATTTTTATTTTTA
Found at i:63617755 original size:16 final size:16
Alignment explanation
Indices: 63617734--63617804 Score: 85
Period size: 16 Copynumber: 4.6 Consensus size: 16
63617724 CTACTTTATT
*
63617734 TTTATTTTTATTTTTA
1 TTTATTCTTATTTTTA
63617750 TTTATTCTTATTTTTA
1 TTTATTCTTATTTTTA
*
63617766 TTTTATT-TTATTTAT-
1 -TTTATTCTTATTTTTA
*
63617781 TTTATTCTTATTTTTC
1 TTTATTCTTATTTTTA
63617797 TTT-TTCTT
1 TTTATTCTT
63617805 TTTATTTTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
14 6 0.12
15 12 0.24
16 25 0.51
17 6 0.12
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTCTTATTTTTA
Found at i:63619350 original size:40 final size:40
Alignment explanation
Indices: 63619306--63619571 Score: 358
Period size: 40 Copynumber: 6.7 Consensus size: 40
63619296 GCTCCTCGTT
* * * *
63619306 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCATCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
63619346 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
63619386 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
63619426 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
63619466 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
63619506 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCATCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
63619547 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCATCGGGACTTAACCCGGA
63619572 CACCATTCAA
Statistics
Matches: 210, Mismatches: 12, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
39 3 0.01
40 194 0.92
41 13 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:63623920 original size:13 final size:13
Alignment explanation
Indices: 63623904--63623936 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
63623894 TTTGATTAAA
*
63623904 TTAGTTAATTAGT
1 TTAGATAATTAGT
63623917 TTAGATAATTAGT
1 TTAGATAATTAGT
63623930 TTA-ATAA
1 TTAGATAA
63623937 ACAAACCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:63628250 original size:19 final size:19
Alignment explanation
Indices: 63628226--63628266 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
63628216 TTAAATTGTT
*
63628226 TTATAATATGAAATGAATA
1 TTATAATATGAAAGGAATA
*
63628245 TTATAATATTAAAGGAATA
1 TTATAATATGAAAGGAATA
63628264 TTA
1 TTA
63628267 ATATTATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (19 bp):
TTATAATATGAAAGGAATA
Found at i:63630305 original size:39 final size:39
Alignment explanation
Indices: 63630251--63630463 Score: 399
Period size: 39 Copynumber: 5.5 Consensus size: 39
63630241 TTATATGATT
63630251 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
63630290 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
63630329 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
63630368 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
*
63630407 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTTGTGC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
* *
63630446 TGGTATTATATTCGGGCT
1 TGGTGTTATATCCGGGCT
63630464 TAAAGTCCCG
Statistics
Matches: 171, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 171 1.00
ACGTcount: A:0.18, C:0.24, G:0.31, T:0.28
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
Found at i:63636327 original size:38 final size:39
Alignment explanation
Indices: 63636243--63636376 Score: 234
Period size: 39 Copynumber: 3.5 Consensus size: 39
63636233 TTATATGATT
63636243 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
63636282 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCA-TCGTGC
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
* *
63636320 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTTGTGT
1 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
*
63636359 TGGTGTTATATTCGGGCT
1 TGGTGTTATATCCGGGCT
63636377 TAAAGTCCCG
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
38 38 0.42
39 53 0.58
ACGTcount: A:0.17, C:0.22, G:0.31, T:0.29
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
Found at i:63643373 original size:15 final size:15
Alignment explanation
Indices: 63643325--63643374 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
63643315 GTATCTTGGG
*
63643325 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
63643340 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
63643355 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
63643370 TTTCT
1 TTTCT
63643375 CTATCTTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:63658545 original size:82 final size:82
Alignment explanation
Indices: 63658408--63658571 Score: 310
Period size: 82 Copynumber: 2.0 Consensus size: 82
63658398 AGTCTAGTTT
*
63658408 CTCATAAAAGAAACGGTGTAAGCAAAGGATTTGTAAATAATGAGATATAATTAATTTTGTGAGAC
1 CTCATAAAAGAAACAGTGTAAGCAAAGGATTTGTAAATAATGAGATATAATTAATTTTGTGAGAC
63658473 AAGGTCATAATGAATTC
66 AAGGTCATAATGAATTC
*
63658490 CTCATAAAAGAAACAGTGTAAGCAAAGGATTTGTAAATCATGAGATATAATTAATTTTGTGAGAC
1 CTCATAAAAGAAACAGTGTAAGCAAAGGATTTGTAAATAATGAGATATAATTAATTTTGTGAGAC
63658555 AAGGTCATAATGAATTC
66 AAGGTCATAATGAATTC
63658572 GAGTTCCCCT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (82 bp):
CTCATAAAAGAAACAGTGTAAGCAAAGGATTTGTAAATAATGAGATATAATTAATTTTGTGAGAC
AAGGTCATAATGAATTC
Found at i:63659508 original size:21 final size:20
Alignment explanation
Indices: 63659483--63659547 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
63659473 TAGCCTTCGG
63659483 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTT-TGT
* * *
63659504 GCTTCAG-TTAGC-CTTCGG
1 GCTTCCGTTTAGCACTTTGT
63659522 GCTTCCGTTTAGCACTTTTGT
1 GCTTCCGTTTAGCAC-TTTGT
63659543 GCTTC
1 GCTTC
63659548 AGTTAGATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 6 0.17
21 14 0.40
ACGTcount: A:0.11, C:0.26, G:0.22, T:0.42
Consensus pattern (20 bp):
GCTTCCGTTTAGCACTTTGT
Found at i:63659561 original size:39 final size:39
Alignment explanation
Indices: 63659465--63659553 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
63659455 GCTCTGATGA
63659465 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
63659504 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
63659543 GCTTCAGTTAG
1 GCTTCAGTTAG
63659554 ATTTCGGGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:63665768 original size:15 final size:15
Alignment explanation
Indices: 63665748--63665804 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
63665738 CGATGAATTT
63665748 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
63665763 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
63665778 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
63665793 ATTTAA-TTATAT
1 ATTGAATTTATAT
63665805 AATATATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 6 0.16
15 31 0.84
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:63666224 original size:21 final size:21
Alignment explanation
Indices: 63666189--63666270 Score: 119
Period size: 21 Copynumber: 3.8 Consensus size: 21
63666179 AGGCACTTTA
63666189 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
63666212 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
63666233 TGTGTCGTATCAGGCATCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
63666254 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATCAGGCAC
63666271 TTTATGTGTC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 46 0.84
23 9 0.16
ACGTcount: A:0.13, C:0.24, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:63666278 original size:21 final size:21
Alignment explanation
Indices: 63666176--63666283 Score: 110
Period size: 21 Copynumber: 5.0 Consensus size: 21
63666166 GGCTTTATCG
**
63666176 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
*
63666197 ATTTCAGGCACCTCGTGTGTCGT
1 A--TCAGGCACTTCGTGTGTCGT
*
63666220 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
63666241 ATCAGGCA-TCTCGTGTGTCGT
1 ATCAGGCACT-TCGTGTGTCGT
* * **
63666262 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACTTCGTGTGTCGT
63666283 A
1 A
63666284 CTCTGATCAG
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
21 55 0.74
22 1 0.01
23 18 0.24
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (21 bp):
ATCAGGCACTTCGTGTGTCGT
Found at i:63666279 original size:42 final size:43
Alignment explanation
Indices: 63666176--63666283 Score: 146
Period size: 42 Copynumber: 2.5 Consensus size: 43
63666166 GGCTTTATCG
63666176 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA-TTCAGGCACCTCGTGTGTCGT
* ** *
63666220 ATCAGGCACCTCGTGTGTCGTA-TCAGGCATCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTATTCAGGCACCTCGTGTGTCGT
* *
63666262 TTTAGGCACTTTATGTGTCGTA
1 ATCAGGCACTTTATGTGTCGTA
63666284 CTCTGATCAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 36 0.65
44 19 0.35
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (43 bp):
ATCAGGCACTTTATGTGTCGTATTCAGGCACCTCGTGTGTCGT
Found at i:63669293 original size:126 final size:128
Alignment explanation
Indices: 63669067--63669324 Score: 484
Period size: 126 Copynumber: 2.0 Consensus size: 128
63669057 GAGTAGGGAC
63669067 GAAATTGTTATTTATTAAAAGCTTAGGGGAAAAATGGTAATAAAAAGCTTGCACTAAAACAGTTT
1 GAAATTGTTATTTATTAAAAGCTTAGGGGAAAAATGGTAATAAAAAGCTTGCACTAAAACAGTTT
63669132 GGACAGCAGCAGTAGACTAACTTTGAAAAATAACCATAAATTGTAGGAATAGAATTAG-AAAT
66 GGACAGCAGCAGTAGACTAACTTTGAAAAATAACCATAAATTGTAGGAATAGAATTAGAAAAT
* *
63669194 GAAATTGTTATTTATTAAAAGTTTAGGGG-AAAATGGTAATAAACAGCTTGCACTAAAACAGTTT
1 GAAATTGTTATTTATTAAAAGCTTAGGGGAAAAATGGTAATAAAAAGCTTGCACTAAAACAGTTT
63669258 GGACAGCAGCAGTAGACTAACTTTGAAAAATAACCATAAATTGTAGGAATAGAATTAGAAAAT
66 GGACAGCAGCAGTAGACTAACTTTGAAAAATAACCATAAATTGTAGGAATAGAATTAGAAAAT
63669321 GAAA
1 GAAA
63669325 AAAATATGAA
Statistics
Matches: 128, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
126 92 0.72
127 36 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.27
Consensus pattern (128 bp):
GAAATTGTTATTTATTAAAAGCTTAGGGGAAAAATGGTAATAAAAAGCTTGCACTAAAACAGTTT
GGACAGCAGCAGTAGACTAACTTTGAAAAATAACCATAAATTGTAGGAATAGAATTAGAAAAT
Found at i:63672863 original size:42 final size:42
Alignment explanation
Indices: 63672800--63672926 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 42
63672790 CTTCGTTTTC
** * *
63672800 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
63672843 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
63672884 TCGATACCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
63672925 TC
1 TC
63672927 TCACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:63673068 original size:31 final size:31
Alignment explanation
Indices: 63673033--63673212 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
63673023 CTTGTCACTT
*
63673033 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
63673064 GTAGCCGGAGCTACCATTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
63673095 GTAGCCGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
63673126 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
63673157 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
63673188 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
63673213 TGTCATTTGT
Statistics
Matches: 136, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 3 0.02
31 131 0.96
32 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:63673295 original size:50 final size:51
Alignment explanation
Indices: 63673202--63673316 Score: 171
Period size: 50 Copynumber: 2.3 Consensus size: 51
63673192 CTGAAGCTAC
* *
63673202 CACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCGAAACTAT
1 CACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGCAGCCGAAACTAT
* *
63673253 CACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTGCAGCCGAAGCTAT
1 CACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGCAGCCGAAACTAT
63673303 CACTTATCACTTGT
1 CACTTATCACTTGT
63673317 TGCCATGGTC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
50 43 0.74
51 15 0.26
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (51 bp):
CACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGCAGCCGAAACTAT
Found at i:63673451 original size:14 final size:15
Alignment explanation
Indices: 63673432--63673460 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
63673422 TTTTATCATC
63673432 AACACAT-ATGAAAT
1 AACACATCATGAAAT
63673446 AACACATCATGAAAT
1 AACACATCATGAAAT
63673461 TCATAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (15 bp):
AACACATCATGAAAT
Found at i:63676749 original size:38 final size:38
Alignment explanation
Indices: 63676670--63676753 Score: 91
Period size: 38 Copynumber: 2.2 Consensus size: 38
63676660 TCCTTCTTTA
* * * * *
63676670 AAGTTTAAATTATTGATGTTTTATAATCAATTTGATTT
1 AAGTTCAAAATATTAATGTTTTATAATCAATTCGATAT
*
63676708 AAGTTCAAAATATTAATTTTTTATAAT-AATATCGATAT
1 AAGTTCAAAATATTAATGTTTTATAATCAAT-TCGATAT
63676746 AAG-TCAAA
1 AAGTTCAAA
63676754 TTTAACGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
37 8 0.21
38 31 0.79
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (38 bp):
AAGTTCAAAATATTAATGTTTTATAATCAATTCGATAT
Found at i:63683754 original size:28 final size:26
Alignment explanation
Indices: 63683686--63683754 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
63683676 AACTTTAATC
*
63683686 ATACAAAATATTATGCAATTAAAAAT
1 ATACAAAACATTATGCAATTAAAAAT
*
63683712 -TACAATAACTTATTATGTAATTAAACAATT
1 ATACAA-AAC--ATTATGCAATTAAA-AA-T
63683742 ATACAAAACATTA
1 ATACAAAACATTA
63683755 ATTAATTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
25 5 0.14
26 2 0.06
28 17 0.49
29 2 0.06
30 4 0.11
31 5 0.14
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (26 bp):
ATACAAAACATTATGCAATTAAAAAT
Found at i:63684633 original size:79 final size:79
Alignment explanation
Indices: 63684502--63684659 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
63684492 GGGTCTATTC
*
63684502 CTCCTCTGAATAAGAGCTTATCTTGAATCAGTATCCTGGGATATCAAAACAAGAATCAAGAACAC
1 CTCCTCTGAATAAGAGCTTATCTTGAATCAGTAACCTGGGATATCAAAACAAGAATCAAGAACAC
63684567 ATAATTAAGAACAA
66 ATAATTAAGAACAA
63684581 CTCCTCTGAATAAGAGCTTATCTTGAATCAGTAACCTGGGATATCAAAACAAGAATCAAGAACAC
1 CTCCTCTGAATAAGAGCTTATCTTGAATCAGTAACCTGGGATATCAAAACAAGAATCAAGAACAC
63684646 ATAATTAAGAACAA
66 ATAATTAAGAACAA
63684660 GTTAAATATT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (79 bp):
CTCCTCTGAATAAGAGCTTATCTTGAATCAGTAACCTGGGATATCAAAACAAGAATCAAGAACAC
ATAATTAAGAACAA
Found at i:63685932 original size:22 final size:22
Alignment explanation
Indices: 63685889--63685932 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
63685879 TGAATAAACC
* *
63685889 AAATAAACTTTATTTCTGTAAA
1 AAATAAACTTAATATCTGTAAA
*
63685911 AAATAAACTTAATATCTTTAAA
1 AAATAAACTTAATATCTGTAAA
63685933 CTGAAATAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (22 bp):
AAATAAACTTAATATCTGTAAA
Found at i:63689346 original size:47 final size:47
Alignment explanation
Indices: 63689241--63689494 Score: 269
Period size: 47 Copynumber: 5.3 Consensus size: 47
63689231 TGTGATTTCC
* * * * * *
63689241 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGCTTCC
1 GTATAAGACCATATCTGGGATATGGCATC-G-G---TGTGATATGTGCTACT
*
63689293 GTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACT
63689340 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACT
* * * *
63689387 GTATAAGACCATATCTGGGATATGACATCAGTGTGATATGTGAT-CC
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACT
** * *
63689433 GTATAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTGACTA-T
1 GTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG-CTACT
**
63689482 GTGCAAGACCATA
1 GTATAAGACCATA
63689495 ATTTTACTAT
Statistics
Matches: 175, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
46 26 0.15
47 100 0.57
48 11 0.06
49 11 0.06
50 1 0.01
51 1 0.01
52 25 0.14
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACT
Done.