Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 14 of 255
Found at i:3911571 original size:27 final size:25
Alignment explanation
Indices: 3911527--3911581 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
3911517 TTCCTCTCCC
3911527 CGTGATTTTTCTCGAAAGAGTTTCAA
1 CGTGATTTTTCTCGAAAG-GTTTCAA
* * *
3911553 CGTGGTTTTTCTTGAAAAGGTTTCCA
1 CGTGATTTTTCTCG-AAAGGTTTCAA
3911579 CGT
1 CGT
3911582 AAAACCTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (25 bp):
CGTGATTTTTCTCGAAAGGTTTCAA
Found at i:3911810 original size:20 final size:21
Alignment explanation
Indices: 3911776--3911825 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
3911766 TGTCACTAAA
*
3911776 TAATCAAATTAAATTTATTTT
1 TAATCAAATTAAATTAATTTT
3911797 TAATCAAA-TAAATTAATTTT
1 TAATCAAATTAAATTAATTTT
*
3911817 TGA-CAAATT
1 TAATCAAATT
3911826 TGGATGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 8 0.31
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (21 bp):
TAATCAAATTAAATTAATTTT
Found at i:3911917 original size:12 final size:12
Alignment explanation
Indices: 3911900--3911932 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
3911890 TTCCCTGTAA
3911900 AATAGTAAAAAT
1 AATAGTAAAAAT
*
3911912 AATAGTAAAAGT
1 AATAGTAAAAAT
3911924 AATAGTAAA
1 AATAGTAAA
3911933 GGCGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:3913354 original size:30 final size:30
Alignment explanation
Indices: 3913315--3913371 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
3913305 TTTTATAAGT
3913315 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
3913345 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
3913372 AACAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:3913602 original size:13 final size:13
Alignment explanation
Indices: 3913545--3913610 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
3913535 TTTAAACCAA
*
3913545 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
**
3913558 ACTCCTCAAAAGC
1 ACTTTTCAAAAGC
* *
3913571 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
* *
3913584 ATTTTTCAAAAAC
1 ACTTTTCAAAAGC
3913597 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
3913610 A
1 A
3913611 TTGCCAAACT
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:3919438 original size:14 final size:16
Alignment explanation
Indices: 3919419--3919450 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3919409 CATAAAGTGC
3919419 AATAAA-CC-ACAATT
1 AATAAATCCAACAATT
3919433 AATAAATCCAACAATT
1 AATAAATCCAACAATT
3919449 AA
1 AA
3919451 ATACAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAATCCAACAATT
Found at i:3936759 original size:43 final size:40
Alignment explanation
Indices: 3936654--3936767 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 40
3936644 GATCTGCTAT
* * *
3936654 ATTTTAACCTGTTACCCTACTGCTTAGGGGGTTAAGTCGC
1 ATTTTGACCTGTTACCCTACTGCTTAGGGAGATAAGTCGC
* * *
3936694 ATCTTGGATCTGCT-CCACTACTGCTTAGGGAGATAAGATTCGC
1 AT-TTTGACCTGTTACC-CTACTGCTTAGGGAGATAAG--TCGC
3936737 AATTTTGACCTGTTACCCTACTGCTTAGGGA
1 -ATTTTGACCTGTTACCCTACTGCTTAGGGA
3936768 TTAAGGCGTT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
40 4 0.07
41 25 0.42
43 26 0.44
44 4 0.07
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (40 bp):
ATTTTGACCTGTTACCCTACTGCTTAGGGAGATAAGTCGC
Found at i:3941034 original size:19 final size:18
Alignment explanation
Indices: 3940992--3941047 Score: 87
Period size: 18 Copynumber: 3.1 Consensus size: 18
3940982 ACAAAATAAT
3940992 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
3941010 GATTTTTG-AAACACGAA
1 AATTTTTGAAAACACGAA
3941027 AATTTTTTGAAAACACGAA
1 AA-TTTTTGAAAACACGAA
3941046 AA
1 AA
3941048 CACAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 10 0.29
18 13 0.38
19 11 0.32
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:3941110 original size:17 final size:18
Alignment explanation
Indices: 3941062--3941111 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
3941052 AAATTTTTTT
*
3941062 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
* *
3941080 AACACGACAGTTTTTG-A
1 AACACGAGAATTTTTGAA
*
3941097 AACATGAGAATTTTT
1 AACACGAGAATTTTT
3941112 TTAAAACACA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (18 bp):
AACACGAGAATTTTTGAA
Found at i:3941204 original size:38 final size:38
Alignment explanation
Indices: 3941157--3941350 Score: 136
Period size: 37 Copynumber: 5.2 Consensus size: 38
3941147 TTTTGATAAA
* *
3941157 TTATGAAACACGAGGATTTTTTTTTG-AAACGCGGAAAT
1 TTATGAAACACGA-GATATTTTTTTGAAAACACGGAAAT
* * *
3941195 TTATGAAACA--AGGTCAATTTTTTGAAAACACGAAAAT
1 TTATGAAACACGAGAT-ATTTTTTTGAAAACACGGAAAT
* * *
3941232 TTTTGAAAGACGAGA-ATTTTTTTGAAAACACGGAGAT
1 TTATGAAACACGAGATATTTTTTTGAAAACACGGAAAT
* * * *
3941269 TTATAAAACACGAAAGT-TTTTTTTGAAAACAAGAAAAT
1 TTATGAAACACGAGA-TATTTTTTTGAAAACACGGAAAT
* * *
3941307 TT-TCAAAATACGAGA-A--TTTTTGAAAACAGGGGAAAT
1 TTAT-GAAACACGAGATATTTTTTTGAAAACA-CGGAAAT
*
3941343 TTTTGAAA
1 TTATGAAA
3941351 ACATGAAAAT
Statistics
Matches: 123, Mismatches: 23, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
35 14 0.11
36 18 0.15
37 50 0.41
38 39 0.32
39 2 0.02
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (38 bp):
TTATGAAACACGAGATATTTTTTTGAAAACACGGAAAT
Found at i:3941244 original size:17 final size:18
Alignment explanation
Indices: 3941213--3941706 Score: 214
Period size: 17 Copynumber: 27.2 Consensus size: 18
3941203 CAAGGTCAAT
3941213 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
**
3941231 TTTTTGAAAGACGA-GAATT
1 TTTTTGAAA-AC-ACGAAAA
* *
3941250 TTTTTGAAAACACGGAGA
1 TTTTTGAAAACACGAAAA
* *
3941268 TTTAT-AAAACACGAAAGTTT
1 TTTTTGAAAACACGAAA---A
*
3941288 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACGAAAA
* * *
3941306 -TTTTCAAAATACGAGAA
1 TTTTTGAAAACACGAAAA
* *
3941323 TTTTTGAAAACAGGGGAAA
1 TTTTTGAAAACA-CGAAAA
*
3941342 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
3941360 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAAAA
*
3941377 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* * *
3941394 TTTTT-TAAACATGAGAA
1 TTTTTGAAAACACGAAAA
* *
3941411 TTTTTGAAAACACGAGGAT
1 TTTTTGAAAACACGA-AAA
3941430 TTTTTGAAAA-AC-AAACA
1 TTTTTGAAAACACGAAA-A
* *
3941447 TTTTAG-AAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
3941464 TTTTT-AAAACATGACAATT
1 TTTTTGAAAACACGA-AA-A
3941483 TTTTTG-AAACACGAGAAATTTA
1 TTTTTGAAAACAC--GAAA---A
* **
3941505 TTTTTTTAAAACATAAAAA
1 -TTTTTGAAAACACGAAAA
* *
3941524 ATTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
3941541 TTTGTG-AAACTCGAGAA
1 TTTTTGAAAACACGAAAA
* * **
3941558 TTGTTGAAAAAAAATAAAAAA
1 TTTTTG--AAAACA-CGAAAA
* *
3941579 ATTTTGAAAATACG-AAA
1 TTTTTGAAAACACGAAAA
* *
3941596 TTTTT-TAGACACGAAAA
1 TTTTTGAAAACACGAAAA
* * * *
3941613 TTTTAG-AAATATGGAAA
1 TTTTTGAAAACACGAAAA
*
3941630 TTTTTAGAAAACAAGAAAA
1 TTTTT-GAAAACACGAAAA
* * *
3941649 ATTTTGAAAA-A-TAAATT
1 TTTTTGAAAACACGAAA-A
*
3941666 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
3941684 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
3941703 TTTT
1 TTTT
3941707 CTGATTTTTC
Statistics
Matches: 350, Mismatches: 87, Indels: 77
0.68 0.17 0.15
Matches are distributed among these distances:
16 17 0.05
17 133 0.38
18 79 0.23
19 78 0.22
20 10 0.03
21 19 0.05
22 4 0.01
23 5 0.01
24 5 0.01
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:3941251 original size:75 final size:77
Alignment explanation
Indices: 3941160--3941327 Score: 177
Period size: 75 Copynumber: 2.2 Consensus size: 77
3941150 TGATAAATTA
* * * *
3941160 TGAAACACGAGGATTTTTTTTTG-AAACGCGGAAATTTAT-GAA-AC-AAGGTCAATTTTTTGAA
1 TGAAACACGAGAATTTTTTTTTGAAAACACGGAAATTTATAAAACACGAAAGT--ATTTTTTGAA
*
3941221 AACACGAAAATTTT
64 AACAAGAAAATTTT
* * *
3941235 TGAAAGACGAGAA--TTTTTTTGAAAACACGGAGATTTATAAAACACGAAAGTTTTTTTTGAAAA
1 TGAAACACGAGAATTTTTTTTTGAAAACACGGAAATTTATAAAACACGAAAGTATTTTTTGAAAA
3941298 CAAGAAAATTTT
66 CAAGAAAATTTT
** *
3941310 CAAAATACGAGAATTTTT
1 TGAAACACGAGAATTTTT
3941328 GAAAACAGGG
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
73 8 0.11
74 14 0.18
75 45 0.59
76 2 0.03
77 7 0.09
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.33
Consensus pattern (77 bp):
TGAAACACGAGAATTTTTTTTTGAAAACACGGAAATTTATAAAACACGAAAGTATTTTTTGAAAA
CAAGAAAATTTT
Found at i:3941352 original size:75 final size:74
Alignment explanation
Indices: 3941212--3941364 Score: 191
Period size: 75 Copynumber: 2.0 Consensus size: 74
3941202 ACAAGGTCAA
* ** *
3941212 TTTTTTGAAAACACGAAAATTTTTGAAAGACGAGAATTTTTTTGAAAACACGGAGATTTATAAAA
1 TTTTTTGAAAACAAGAAAATTTTCAAAAGACGAGAA-TTTTTTGAAAACACGGAAATTTATAAAA
*
3941277 CACGAAAGTT
65 CACGAAAATT
* * *
3941287 TTTTTTGAAAACAAGAAAATTTTCAAAATACGAGAA-TTTTTGAAAACAGGGGAAATTTTTGAAA
1 TTTTTTGAAAACAAGAAAATTTTCAAAAGACGAGAATTTTTTGAAAACA-CGGAAATTTAT-AAA
*
3941351 ACATGAAAATT
64 ACACGAAAATT
3941362 TTT
1 TTT
3941365 GAAACACTAG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
73 12 0.18
74 8 0.12
75 47 0.70
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (74 bp):
TTTTTTGAAAACAAGAAAATTTTCAAAAGACGAGAATTTTTTGAAAACACGGAAATTTATAAAAC
ACGAAAATT
Found at i:3941525 original size:24 final size:24
Alignment explanation
Indices: 3941480--3941527 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3941470 AAACATGACA
* * *
3941480 ATTTTTTTGAAACACGAGAAATTT
1 ATTTTTTTAAAACACAAAAAATTT
*
3941504 ATTTTTTTAAAACATAAAAAATTT
1 ATTTTTTTAAAACACAAAAAATTT
3941528 TAAAACACGA
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:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (24 bp):
ATTTTTTTAAAACACAAAAAATTT
Found at i:3942029 original size:5 final size:5
Alignment explanation
Indices: 3942019--3942048 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
3942009 TAAAAGTATT
3942019 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
3942049 ATTGAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:3942237 original size:8 final size:8
Alignment explanation
Indices: 3942224--3942275 Score: 59
Period size: 8 Copynumber: 6.0 Consensus size: 8
3942214 ATTGAACCCC
3942224 TTTTTTCT
1 TTTTTTCT
3942232 TTTTTTCT
1 TTTTTTCT
*
3942240 CTTTTTCTT
1 TTTTTTC-T
3942249 TTTTTTCTT
1 TTTTTTC-T
3942258 CTTTCTTTCT
1 -TTT-TTTCT
3942268 TTTTTTCT
1 TTTTTTCT
3942276 CTCTGCTGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 19 0.49
9 12 0.31
10 4 0.10
11 4 0.10
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTCT
Found at i:3942246 original size:16 final size:16
Alignment explanation
Indices: 3942225--3942277 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 16
3942215 TTGAACCCCT
3942225 TTTTTCTTTTTTTCTC
1 TTTTTCTTTTTTTCTC
3942241 TTTTTCTTTTTTTTCTTC
1 TTTTTC-TTTTTTTC-TC
3942259 TTTCTTTCTTTTTTTCTC
1 -TT-TTTCTTTTTTTCTC
3942277 T
1 T
3942278 CTGCTGGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
16 6 0.18
17 9 0.27
18 4 0.12
19 10 0.30
20 4 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTCTTTTTTTCTC
Found at i:3942259 original size:20 final size:19
Alignment explanation
Indices: 3942231--3942273 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
3942221 CCCTTTTTTC
3942231 TTTTTTTCTCTT-TTTCTTT
1 TTTTTTTCT-TTCTTTCTTT
3942250 TTTTTCTTCTTTCTTTCTTT
1 TTTTT-TTCTTTCTTTCTTT
3942270 TTTT
1 TTTT
3942274 CTCTCTGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTCTTTCTTTCTTT
Found at i:3942742 original size:18 final size:19
Alignment explanation
Indices: 3942701--3942742 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
3942691 GTCTCTGGCG
*
3942701 TCTCCTCTTCTCTTCTTCT
1 TCTCTTCTTCTCTTCTTCT
3942720 T-TCTTCTTCTCTTCTT-T
1 TCTCTTCTTCTCTTCTTCT
3942737 TCTCTT
1 TCTCTT
3942743 TTTTTTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.86
19 1 0.05
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (19 bp):
TCTCTTCTTCTCTTCTTCT
Found at i:3943156 original size:29 final size:30
Alignment explanation
Indices: 3943124--3943180 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
3943114 GTAATTTTTA
*
3943124 GAAAATTT-AGGATTAAAATGAAATTTAAT
1 GAAAATTTAAGGATCAAAATGAAATTTAAT
* *
3943153 GAAAGTTTAAGGGTCAAAATGAAATTTA
1 GAAAATTTAAGGATCAAAATGAAATTTA
3943181 GGAAAAGTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.32
Consensus pattern (30 bp):
GAAAATTTAAGGATCAAAATGAAATTTAAT
Found at i:3943174 original size:30 final size:30
Alignment explanation
Indices: 3943138--3943209 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
3943128 ATTTAGGATT
* *
3943138 AAAATGAAATTTAATG-AAAGTTTAAGGGTC
1 AAAATGAAATTT-AGGAAAAGTCTAAGGGTC
*
3943168 AAAATGAAATTTAGGAAAAGTCTAGGGGTC
1 AAAATGAAATTTAGGAAAAGTCTAAGGGTC
*
3943198 AAAATGCAATTT
1 AAAATGAAATTT
3943210 TTATTTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (30 bp):
AAAATGAAATTTAGGAAAAGTCTAAGGGTC
Found at i:3944115 original size:16 final size:16
Alignment explanation
Indices: 3944089--3944128 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
3944079 TCTAAACTCG
3944089 AAAAT-ATTCAAATCT
1 AAAATGATTCAAATCT
*
3944104 AAAATGATTCAAATTT
1 AAAATGATTCAAATCT
3944120 AAAATGATT
1 AAAATGATT
3944129 TGAATGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (16 bp):
AAAATGATTCAAATCT
Found at i:3946405 original size:26 final size:27
Alignment explanation
Indices: 3946353--3946423 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 27
3946343 GTAGCAAATA
*
3946353 AATAAAAG--AATAAAT-GAAAGGCAC
1 AATAAAAGAAAATAAATAAAAAGGCAC
3946377 AATAAAAGAAAATAAATAAAAAGGC-C
1 AATAAAAGAAAATAAATAAAAAGGCAC
* *
3946403 AATTATA-AAAATAAAATAAAA
1 AATAAAAGAAAAT-AAATAAAA
3946424 TAAATATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 8 0.20
25 5 0.12
26 21 0.52
27 6 0.15
ACGTcount: A:0.69, C:0.06, G:0.10, T:0.15
Consensus pattern (27 bp):
AATAAAAGAAAATAAATAAAAAGGCAC
Found at i:3948489 original size:34 final size:33
Alignment explanation
Indices: 3948426--3948489 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
3948416 CAAAATTACA
* *
3948426 AAAAATCAAAATTTTATAAAAATTGTAAAATAT
1 AAAAATCAAAAATTTATAAAAATTATAAAATAT
* *
3948459 AAAAATTAAAAATTTATAAAACTCTATAAAA
1 AAAAATCAAAAATTTATAAAAAT-TATAAAA
3948490 ATTTTAAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 20 0.77
34 6 0.23
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (33 bp):
AAAAATCAAAAATTTATAAAAATTATAAAATAT
Found at i:3951135 original size:28 final size:29
Alignment explanation
Indices: 3951077--3951135 Score: 68
Period size: 32 Copynumber: 2.0 Consensus size: 29
3951067 ATATTTTTTT
3951077 AAAAAAATTAATGGTTTTTATTTAAAAATGAA
1 AAAAAAATTAAT-GTTTTTA--TAAAAATGAA
3951109 AAAAAAATTAAT-TTTTTA-AAAATATGA
1 AAAAAAATTAATGTTTTTATAAAA-ATGA
3951136 TTTTTATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
27 4 0.15
28 4 0.15
30 6 0.23
32 12 0.46
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (29 bp):
AAAAAAATTAATGTTTTTATAAAAATGAA
Found at i:3952585 original size:38 final size:38
Alignment explanation
Indices: 3952543--3952617 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
3952533 GCATGGAAGA
3952543 TAAAATTAATTAATTAAACTAATTGCAAGATTTTTTTT
1 TAAAATTAATTAATTAAACTAATTGCAAGATTTTTTTT
3952581 TAAAATTAATTAATTAAACTAATTGCAAGATTTTTTT
1 TAAAATTAATTAATTAAACTAATTGCAAGATTTTTTT
3952618 CTTTGCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (38 bp):
TAAAATTAATTAATTAAACTAATTGCAAGATTTTTTTT
Found at i:3964384 original size:12 final size:12
Alignment explanation
Indices: 3964367--3964391 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3964357 CTAAGTTAAG
3964367 AAGAAGAAGAAA
1 AAGAAGAAGAAA
3964379 AAGAAGAAGAAA
1 AAGAAGAAGAAA
3964391 A
1 A
3964392 TATAATTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAA
Found at i:3965816 original size:27 final size:28
Alignment explanation
Indices: 3965786--3965857 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 28
3965776 TAATATAATT
3965786 AAAATATATACATAAGATAACAT-GTA-G
1 AAAATATATACATAA-ATAACATAGTATG
* * * * *
3965813 AAAAAAAATATATAAATAATATAGTATT
1 AAAATATATACATAAATAACATAGTATG
3965841 AAAGATATATACATAAA
1 AAA-ATATATACATAAA
3965858 ATAGTATAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
26 6 0.18
27 15 0.44
28 3 0.09
29 10 0.29
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (28 bp):
AAAATATATACATAAATAACATAGTATG
Found at i:3965871 original size:23 final size:25
Alignment explanation
Indices: 3965742--3965949 Score: 89
Period size: 23 Copynumber: 8.6 Consensus size: 25
3965732 ATATAAAAAA
* * * *
3965742 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
3965767 ATAAATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
3965789 ATATATACATAAGATAACATGTAGAAAAAAA
1 ATATATACAT-A-AT-ATA-GT--ATTAAAG
*
3965820 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
3965845 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
3965868 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
3965892 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* * *
3965914 A-ATATATATAATATAATA-TAAAA
1 ATATATACATAATATAGTATTAAAG
*
3965937 AAATATA-ATAATA
1 ATATATACATAATA
3965950 ACAAAAAAAG
Statistics
Matches: 140, Mismatches: 29, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
21 1 0.01
22 24 0.17
23 47 0.34
24 11 0.08
25 37 0.26
27 2 0.01
28 2 0.01
29 2 0.01
30 5 0.04
31 9 0.06
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:3965935 original size:24 final size:21
Alignment explanation
Indices: 3965890--3965949 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
3965880 TATAGAATTT
*
3965890 AGAATATACCTAATATATTAAA
1 AGAATATA-ATAATATATTAAA
3965912 AGAATATATATAATATAATATAAA
1 AGAATATA-ATAATAT-AT-TAAA
*
3965936 AAAATATAATAATA
1 AGAATATAATAATA
3965950 ACAAAAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.42
23 8 0.24
24 11 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (21 bp):
AGAATATAATAATATATTAAA
Found at i:3965941 original size:15 final size:17
Alignment explanation
Indices: 3965923--3965956 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
3965913 GAATATATAT
3965923 AATATAAT-ATAA-AAA
1 AATATAATAATAACAAA
3965938 AATATAATAATAACAAA
1 AATATAATAATAACAAA
3965955 AA
1 AA
3965957 AAGAGAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AATATAATAATAACAAA
Found at i:3965956 original size:20 final size:20
Alignment explanation
Indices: 3965919--3965958 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3965909 AAAAGAATAT
*
3965919 ATATAATATAATATAAAAAA
1 ATATAATATAACATAAAAAA
3965939 ATATAATAATAACA-AAAAAA
1 ATATAAT-ATAACATAAAAAA
3965959 GAGAGGGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (20 bp):
ATATAATATAACATAAAAAA
Found at i:3966243 original size:16 final size:16
Alignment explanation
Indices: 3966205--3966243 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3966195 CTCCAAAAAA
*
3966205 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
3966221 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
3966237 AATAACT
1 AAAAACT
3966244 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:3966438 original size:30 final size:30
Alignment explanation
Indices: 3966402--3966529 Score: 204
Period size: 30 Copynumber: 4.3 Consensus size: 30
3966392 AGGTACAAGT
* * *
3966402 GGTGGTGGAGCAAGTGTGCCTAATGGACTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
3966432 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
3966462 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAG-TA
*
3966493 -GTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
3966522 GGTGGTGG
1 GGTGGTGG
3966530 CAAAGGCTAG
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
29 1 0.01
30 89 0.97
31 2 0.02
ACGTcount: A:0.19, C:0.08, G:0.48, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:3966519 original size:18 final size:18
Alignment explanation
Indices: 3966436--3966489 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
3966426 GGACTAGGTG
3966436 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
3966454 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
3966466 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
3966484 GTGGAG
1 GTGGAG
3966490 TTAGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:3967318 original size:87 final size:88
Alignment explanation
Indices: 3967175--3967738 Score: 450
Period size: 87 Copynumber: 6.3 Consensus size: 88
3967165 TTAACTCATT
* * * * *
3967175 TCTCGCAATATGAATTGACTCTTT-AAAACTAAACATT-AAAAACAGAAATTGAAAATAGCTCAG
1 TCTCGCAATATGAGTTGATTTTTTGAAAAC-AAA-ATTGAAAAACAGAATTTGAAAATACCTCAG
* *
3967238 CACGTGAGCCAAGGCTCAACTCACT
64 CATGTGAGCCAAGGCTCAACTCACC
* * * *
3967263 TCTCGCAATATGAGTTGA-TTTTT-AAAACAAAATTTGTAAAACAGATTTTGAAAATACCTCGGT
1 TCTCGCAATATGAGTTGATTTTTTGAAAACAAAA-TTGAAAAACAGAATTTGAAAATACCTCAGC
*
3967326 ATGTGACCCAAGGCTCAACTCACC
65 ATGTGAGCCAAGGCTCAACTCACC
* * * *
3967350 TCTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAATTGAAAAAAAAATAAAAATCAATTGAAAA
1 TCTCGCAATATGAGTTGATTTTTTG-AAAACA-AAATTG----AAAAA-CAGAAT---TTGAAAA
* * * ** *
3967414 TACCTCGGCGTGTGATCTGAGACTCAACTCACC
56 TACCTCAGCATGTGAGCCAAGGCTCAACTCACC
* * *
3967447 TCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAAAAAGAAATTGAAAATATCTC
1 TCTCGCAATATGAGTTGA-TTTTTTGA-AAACA-AAATTG-AAAAACAGAATTTGAAAATACCTC
* * *
3967512 AGC--GTG-TCCTGAGGCTGAACTCACC
62 AGCATGTGAGCC-AAGGCTCAACTCACC
3967537 TCTCGCAATATGAGTTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAATTTGAAAATACCTCA
1 TCTCGCAATATGAGTTGATTTTTT-G-AAAACAAAA-TTGAAAAACAGAATTTGAAAATACCTCA
* *
3967602 GCGTGTGAGTCAAGGCTCAACTCACC
63 GCATGTGAGCCAAGGCTCAACTCACC
* * * * * *
3967628 ACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCA
1 TCTCGCAATATGAGTTGA-TTTTTTGAAA-ACA-AAATTGAAAAACAGAATTTGAAAATACCTCA
* * * *
3967693 GCGTCT-TG---AGGTTCAACTCACC
63 GCATGTGAGCCAAGGCTCAACTCACC
* *
3967715 TTTCGCAATATGAGCTGATTTTTT
1 TCTCGCAATATGAGTTGATTTTTT
3967739 TTGAAAGACG
Statistics
Matches: 400, Mismatches: 50, Indels: 54
0.79 0.10 0.11
Matches are distributed among these distances:
85 1 0.00
86 11 0.03
87 102 0.25
88 17 0.04
89 43 0.11
90 50 0.12
91 66 0.17
92 24 0.06
93 4 0.01
94 3 0.01
95 4 0.01
96 6 0.01
97 51 0.13
98 1 0.00
99 17 0.04
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (88 bp):
TCTCGCAATATGAGTTGATTTTTTGAAAACAAAATTGAAAAACAGAATTTGAAAATACCTCAGCA
TGTGAGCCAAGGCTCAACTCACC
Found at i:3967594 original size:13 final size:14
Alignment explanation
Indices: 3967562--3967594 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
3967552 TGATTTTTTG
3967562 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
3967576 GAAAAACAGAATTT
1 GAAAAACAAAATTT
3967590 GAAAA
1 GAAAA
3967595 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:3967635 original size:181 final size:178
Alignment explanation
Indices: 3967407--3967738 Score: 461
Period size: 181 Copynumber: 1.8 Consensus size: 178
3967397 TAAAAATCAA
* * * *
3967407 TTGAAAATACCTCGGCGTGTGATCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGATCTAAGACTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
* * * * *
3967472 GACAA-ACATAAATTGAAAAAAAAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTCAC
66 GA-AACACAGAAATTG-AAAAAAAGAAATGGAAAACACCTCAGC--GTCCTGAGGCTCAACTCAC
*
3967536 CTCTCGCAATATGAGTTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
127 CTCTCGCAATATGAGCTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
*
3967588 TTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTT
1 TTGAAAATACCTCAGCGTGTGA-TCTAAGACTCAACTCACCACTCGCAATATGAGCTGATTTTTT
* * * * *
3967652 TGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTT
65 TGAAACACAGAAATTGAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTC
3967717 TCGCAATATGAGCTGATTTTTT
130 TCGCAATATGAGCTGATTTTTT
3967739 TTGAAAGACG
Statistics
Matches: 133, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
178 39 0.29
180 24 0.18
181 68 0.51
182 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (178 bp):
TTGAAAATACCTCAGCGTGTGATCTAAGACTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
GAAACACAGAAATTGAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGCTGATTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
Found at i:3967647 original size:91 final size:88
Alignment explanation
Indices: 3967405--3967759 Score: 399
Period size: 91 Copynumber: 3.9 Consensus size: 88
3967395 AATAAAAATC
* * *
3967405 AATTGAAAATACCTCGGCGTGTGATCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGT-A--TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
* * *
3967470 TTGACAAACATAAATTGAAAAAAAAGA
63 TTGAAAAACAGAAATTG-AAAAACAGA
* * * * *
3967497 AATTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTG
1 AATTGAAAATACCTCAGCGTGT-ATGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
3967562 GAAAAACA-AAATTTGAAAAACAGA
65 GAAAAACAGAAA-TTGAAAAACAGA
* * *
3967586 ATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGT-A-T-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
* *
3967651 TTGAAACACAGAAATTGAAGAACAGA
63 TTGAAAAACAGAAATTGAAAAACAGA
* * * * *
3967677 AATGGAAAACACCTCAGCGTCT-TGAGGTTCAACTCACCTTTCGCAATATGAGCTGATTTTTTTT
1 AATTGAAAATACCTCAGCGTGTATGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTT
* *
3967741 GAAAGACGGAAATTGAAAA
65 GAAAAACAGAAATTGAAAA
3967760 TACCTCAACG
Statistics
Matches: 227, Mismatches: 31, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
87 29 0.13
88 24 0.11
89 31 0.14
90 49 0.22
91 71 0.31
92 23 0.10
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (88 bp):
AATTGAAAATACCTCAGCGTGTATGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG
AAAAACAGAAATTGAAAAACAGA
Found at i:3967945 original size:75 final size:75
Alignment explanation
Indices: 3967665--3968274 Score: 767
Period size: 75 Copynumber: 8.3 Consensus size: 75
3967655 AACACAGAAA
* * * * * *
3967665 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
3967728 GCTGATTTTTT
66 GTTGA-TTTTT
* * *
3967739 TTGAAAGACGGAAATTGAAAATACCTCAACGTGTCTTGATGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
3967804 GTTGA--TTT
66 GTTGATTTTT
* * * * * *
3967812 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
3967875 GTTGATTTTT
66 GTTGATTTTT
*
3967885 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
3967950 GCTGGTTTTT
66 GTTGATTTTT
* *
3967960 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
3968025 GTTGA--TTT
66 GTTGATTTTT
* * * * * *
3968033 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
3968098 GTTGATTTTT
66 GTTGATTTTT
*
3968108 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATAT-A
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
3968172 GTTGA--GTT
66 GTTGATTTTT
* * * ** * * *
3968180 TTGACAAACAAAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACTTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
3968245 GTTGATTTTT
66 GTTGATTTTT
* * *
3968255 TT-AGAAACATAAATTAAAAA
1 TTGAAAAACAGAAATTGAAAA
3968275 AACGAAAATT
Statistics
Matches: 466, Mismatches: 59, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
71 36 0.08
72 59 0.13
73 123 0.26
74 43 0.09
75 170 0.36
76 35 0.08
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:3968228 original size:147 final size:147
Alignment explanation
Indices: 3967665--3968274 Score: 757
Period size: 148 Copynumber: 4.1 Consensus size: 147
3967655 AACACAGAAA
* * * * * *
3967665 TTGAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTTTCGCAATATGAGC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
** * *
3967730 TGATTTTTTTTGA-AAGACGGAAATTGAAAATACCTCAACGTGTCTTGATGCTCAACTCACCTCT
66 TGA--TTTTTTGACAA-ACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCT
3967794 CGCAATATGAGTTGA--TTT
128 CGCAATATGAGTTGATTTTT
* * * * *
3967812 TTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
3967877 TGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCG
66 TGA-TTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
* *
3967942 CAATATGAGCTGGTTTTT
130 CAATATGAGTTGATTTTT
* * *
3967960 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * *
3968025 GTTGA-TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATC
64 GTTGATTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
3968089 GCAATATGAGTTGATTTTT
129 GCAATATGAGTTGATTTTT
* *
3968108 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATAT-A
1 TTGAAAAACAGAAATTGAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * ** * *
3968172 GTTGA-GTTTTGACAAACAAAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACTTCTT
64 GTTGATTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
3968236 GCAATATGAGTTGATTTTT
129 GCAATATGAGTTGATTTTT
* * *
3968255 TT-AGAAACATAAATTAAAAA
1 TTGAAAAACAGAAATTGAAAA
3968275 AACGAAAATT
Statistics
Matches: 417, Mismatches: 41, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
146 82 0.20
147 143 0.34
148 154 0.37
149 1 0.00
150 37 0.09
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (147 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTT
Found at i:3968479 original size:14 final size:13
Alignment explanation
Indices: 3968444--3968488 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
3968434 TTGATTTTTG
3968444 AAAAACAGAAATT
1 AAAAACAGAAATT
*
3968457 AAAAGCAGAAATT
1 AAAAACAGAAATT
3968470 GAAAAACAGAAATT
1 -AAAAACAGAAATT
3968484 AAAAA
1 AAAAA
3968489 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:3968502 original size:100 final size:98
Alignment explanation
Indices: 3968272--3968632 Score: 408
Period size: 100 Copynumber: 3.7 Consensus size: 98
3968262 CATAAATTAA
* *
3968272 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
3968336 TGA--TTTGAAAAGA-AGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAA-ACAGAA-AT-TAA-GCAGAAATTG
*
3968371 AAAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
3968436 GATTTTTGAAAAACAGAAATTAAAAGCAGAAATTG
66 GATTTTTGAAAAACAGAAATT--AAGCAGAAATTG
* * * * *
3968471 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGTAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
3968536 GATTTTTGAAAAGCATAAATT-----G--A---
66 GATTTTTGAAAAACAGAAATTAAGCAGAAATTG
* * *
3968559 AAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
3968624 TTGATTTTT
64 TTGATTTTT
3968633 TTGAAAGATA
Statistics
Matches: 233, Mismatches: 21, Indels: 25
0.84 0.08 0.09
Matches are distributed among these distances:
88 24 0.10
90 40 0.17
91 1 0.00
93 1 0.00
99 63 0.27
100 90 0.39
101 14 0.06
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (98 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAAATTAAGCAGAAATTG
Found at i:3968626 original size:90 final size:87
Alignment explanation
Indices: 3968457--3968632 Score: 244
Period size: 90 Copynumber: 2.0 Consensus size: 87
3968447 AACAGAAATT
* * *
3968457 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
*
3968522 TCGTAATATGAGTTGATTTTTG
66 TCGCAATATGAGTTGATTTTTG
* * * * *
3968544 AAAAGCATAAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCAC
1 AAAAGCAGAAATTG-AAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCAC
3968609 CTCTCGCAATATGAGTTGATTTTT
63 CTCTCGCAATATGAGTTGATTTTT
3968633 TTGAAAGATA
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
87 13 0.17
88 22 0.29
89 1 0.01
90 41 0.53
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.24
Consensus pattern (87 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:3972393 original size:100 final size:100
Alignment explanation
Indices: 3972201--3972393 Score: 221
Period size: 100 Copynumber: 1.9 Consensus size: 100
3972191 TTATAGAGAA
*
3972201 TCAAAGATAATATCACAAATGTGCATACCTATATGGCCAAATATGCAAGATCAAATTTAACATCA
1 TCAAAGATAATATCACAAATGTGCATACCTATATGGCCAAATATGCAAGATCAAATATAACATCA
* * *
3972266 CCTAAGTACTTACTCATATGGCTGAATATACAAAT
66 CATAAGTACATACTCATATGGCCGAATATACAAAT
* *** * * *
3972301 TCAAATATAATATCACTTTTGTGCATACCT-TCATGGTCAAATATTCAAGATTC-AATATAACGT
1 TCAAAGATAATATCACAAATGTGCATACCTAT-ATGGCCAAATATGCAAGA-TCAAATATAACAT
* *
3972364 CACATATGTACATAC-CTATGTGGCCGAATA
64 CACATAAGTACATACTC-ATATGGCCGAATA
3972394 AATACAAGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
99 2 0.03
100 73 0.95
101 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (100 bp):
TCAAAGATAATATCACAAATGTGCATACCTATATGGCCAAATATGCAAGATCAAATATAACATCA
CATAAGTACATACTCATATGGCCGAATATACAAAT
Found at i:3972602 original size:40 final size:41
Alignment explanation
Indices: 3972553--3972629 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
3972543 GTCTGATATT
3972553 ATTCACCAGCA-ATAA-CCTGCTAGGCAT-AAAGCCCGATTAC
1 ATTCACCAGCATA-AAGCCTGCTAGGC-TGAAAGCCCGATTAC
* *
3972593 ATTCTCCAGCATAAAGCTTGCTAGGCTGAAAGCCCGA
1 ATTCACCAGCATAAAGCCTGCTAGGCTGAAAGCCCGA
3972630 ATATCCCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
40 13 0.41
41 19 0.59
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (41 bp):
ATTCACCAGCATAAAGCCTGCTAGGCTGAAAGCCCGATTAC
Found at i:3973550 original size:23 final size:22
Alignment explanation
Indices: 3973524--3973577 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
3973514 TTAATTTATG
*
3973524 TTATAATATATAC-ATATTATTA
1 TTATAATATA-ACTATAATATTA
* *
3973546 CTTATATTATAACTTTAATATTA
1 -TTATAATATAACTATAATATTA
3973569 TTATAATAT
1 TTATAATAT
3973578 TATTTCCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAATATAACTATAATATTA
Found at i:3983623 original size:25 final size:25
Alignment explanation
Indices: 3983512--3983716 Score: 110
Period size: 23 Copynumber: 8.6 Consensus size: 25
3983502 ATATAAAAAA
* * * *
3983512 ATATGTACATAATATAGTGTAAAAA
1 ATATATACATAATATAGTATTAAAG
*
3983537 ATACATACATAATATA--ATTAAA-
1 ATATATACATAATATAGTATTAAAG
* ** *
3983559 ATATATACATAAGATAAATGTAGAAAAA
1 ATATATACAT-A-ATATA-GTATTAAAG
* *
3983587 AAATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
3983612 ATATATACATAAAATAGTA-T-AAT
1 ATATATACATAATATAGTATTAAAG
* * *
3983635 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
3983659 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
3983681 A-ATATATATAATATAATATTAAA-
1 ATATATACATAATATAGTATTAAAG
*
3983704 AAATATA-ATAATA
1 ATATATACATAATA
3983717 ACAAAAAAAG
Statistics
Matches: 139, Mismatches: 30, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
21 1 0.01
22 24 0.17
23 44 0.32
24 17 0.12
25 36 0.26
26 4 0.03
27 5 0.04
28 8 0.06
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:3984229 original size:30 final size:30
Alignment explanation
Indices: 3984187--3984284 Score: 160
Period size: 30 Copynumber: 3.3 Consensus size: 30
3984177 AGGTACAAGT
* *
3984187 GGTGGTGAAGCAAGTGTGGCTAATGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
3984217 GATGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
3984247 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
3984277 GGTGGTGG
1 GGTGGTGG
3984285 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.20, C:0.06, G:0.49, T:0.24
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:3984244 original size:18 final size:18
Alignment explanation
Indices: 3984221--3984274 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
3984211 GGAGTAGATG
3984221 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
3984239 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
3984251 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
3984269 GTGGAG
1 GTGGAG
3984275 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:3987405 original size:38 final size:39
Alignment explanation
Indices: 3987356--3987433 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
3987346 AAATATGGTT
*
3987356 TTAATTAATAATAAAA-AAAGTGGCATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
3987394 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
3987433 T
1 T
3987434 CAGCTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 16 0.42
39 22 0.58
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.24
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
Found at i:3987962 original size:24 final size:24
Alignment explanation
Indices: 3987916--3987981 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
3987906 TTTATTTTTT
* **
3987916 ACATTATTATGTATATACCATGTAA
1 ACATT-TTATATATATATTATGTAA
* *
3987941 ATATTTTA-ATATTATATTATGTAT
1 ACATTTTATATA-TATATTATGTAA
3987965 ACATTTTATATATATAT
1 ACATTTTATATATATAT
3987982 CTTTTAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
23 2 0.06
24 24 0.73
25 7 0.21
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (24 bp):
ACATTTTATATATATATTATGTAA
Found at i:3996159 original size:44 final size:44
Alignment explanation
Indices: 3996096--3997745 Score: 2218
Period size: 44 Copynumber: 38.1 Consensus size: 44
3996086 AATCCAAGAT
* * *
3996096 GATTTGGCGTATCTATAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
**
3996140 GATTTGGCGTCTCTGTAGCGGCATAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
3996184 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** * * * *
3996228 GATTTGGTATTTCTGTAGCAGCGGAGAGTAGATTGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
3996268 GATTTGGCATTTCTGTAGCAGCGGAGAGCAGATGGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
3996308 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
3996352 GATTTGACATCTCTGTAGCGGCAGAGAGCAGATCAAATATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3996396 GATTTGCCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
3996440 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
3996484 TATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3996528 GATTTGGCGTCTCTGTAGCGACGGAGAGTAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3996572 GAATTGGCGTCTTTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3996616 GATTTGGCATCTTTGTAGCGGCGGAGAGTAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
3996656 GATTTAGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** *
3996696 GATTTGGCATCTCTGTAATGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
3996740 GATTTGGCGTCTCTGTAACGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
3996784 TATTTAGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3996828 GATTTGGCGTCTCTGTAGCGACGGAGAGTAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3996872 GAATTGGCGTCTTTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3996916 GATTTGGCATCTTTGTAGCGGCGGAGAGTAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
3996956 GATTTAGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3997000 GATTTGGCATCTCTGTAGCGACGGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
3997044 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
3997088 GATTTGGCGTTTCTGTAGCGGCGGAAAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
3997132 GATTTGGCATCTTTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
3997176 GATTTGGCGTCTCTGTAGAGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
3997220 GATTTGGCATCTCTGTAGCGGCGAAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3997260 GATTTGGCATCTCTGTAGCGGCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
3997304 GATTTGGCGTCTCTGTAGCGGCGGAGAACAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
3997348 GATTTGGCCTCTTTGTAGCGGCGGAGAGTAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
3997392 GATTTGGCGTCTTTGTAGCGGCGGAGAGCAGATC-AAGGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAA-GATAACA
*
3997436 GATTTGGCGTCTCTGTAGCGGCTGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * **
3997480 GATTTGGCGTCTCTGTAGTGGCTGAGAGCAGATCGAAGATTGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** *
3997524 GATTCCGCGTCTCTGTAGCGACGGA-AGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
3997567 GATTTAGCGTCTCTGTAGTGGCGGAGAGTAGATCGAAGATAAAA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3997611 GATTTGGCATCTCTGTAGCGGCGGAAAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
3997655 AATTTGGCGTCTCTGTAGCTGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
3997699 TATTTGGCGTATCTGTAGCGGCGAAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
3997743 GAT
1 GAT
3997746 CGGTGTTCCT
Statistics
Matches: 1439, Mismatches: 148, Indels: 38
0.89 0.09 0.02
Matches are distributed among these distances:
40 222 0.15
43 39 0.03
44 1176 0.82
45 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:3999175 original size:39 final size:39
Alignment explanation
Indices: 3999123--3999203 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
3999113 AAATATGATT
*
3999123 TTAATTAATAATAAAACAAAGTGGCATGGGGGAGTGGAA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGAA
*
3999162 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGGA
1 TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGAA
3999201 TTA
1 TTA
3999204 GCTTTTTTGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.25
Consensus pattern (39 bp):
TTAATTAATAATAAAACAAAGTAGCATGGGGGAGTGGAA
Found at i:3999728 original size:24 final size:24
Alignment explanation
Indices: 3999682--3999748 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
3999672 TTTATTTTTT
* **
3999682 ACATTATTATGTATATACCATGTAA
1 ACATT-TTATATATATATTATGTAA
* *
3999707 ATATTTTA-ATATTATATTATGTAT
1 ACATTTTATATA-TATATTATGTAA
3999731 ACATTTTATATATATATT
1 ACATTTTATATATATATT
3999749 TTAATATTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.06
24 25 0.74
25 7 0.21
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (24 bp):
ACATTTTATATATATATTATGTAA
Found at i:4001290 original size:17 final size:17
Alignment explanation
Indices: 4001268--4001309 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4001258 GCATTGTTTT
*
4001268 TCAAAAGTGTTTTTGAG
1 TCAAAAGTATTTTTGAG
*
4001285 TCAAAAGACATTTTTGAG
1 TCAAAAG-TATTTTTGAG
4001303 -CAAAAGT
1 TCAAAAGT
4001310 TAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (17 bp):
TCAAAAGTATTTTTGAG
Found at i:4003263 original size:34 final size:31
Alignment explanation
Indices: 4003203--4003264 Score: 88
Period size: 34 Copynumber: 1.9 Consensus size: 31
4003193 AATTTAATCC
*
4003203 TTATAATTTATTATAATTTAATTATTTATTT
1 TTATAATTTATTATAATTTAAATATTTATTT
4003234 TTATAATATTATTAATTAATTTAAATATTTA
1 TTATAAT-TTATT-A-TAATTTAAATATTTA
4003265 ACAATATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 5 0.19
33 1 0.04
34 14 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
TTATAATTTATTATAATTTAAATATTTATTT
Found at i:4021918 original size:16 final size:16
Alignment explanation
Indices: 4021897--4021929 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4021887 AATAACTTTT
4021897 ATTAGGCTTAGAGTAA
1 ATTAGGCTTAGAGTAA
4021913 ATTAGGCTTAGAGTAA
1 ATTAGGCTTAGAGTAA
4021929 A
1 A
4021930 CATAAGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (16 bp):
ATTAGGCTTAGAGTAA
Found at i:4025772 original size:64 final size:65
Alignment explanation
Indices: 4025703--4025844 Score: 180
Period size: 64 Copynumber: 2.2 Consensus size: 65
4025693 AGTTCAATAT
* * *
4025703 CCTAGTTTTGAGGTCCAATTACGTTTTAGTGGACTAGTTGTAAGAT-CTAGTTTGTTTTGTAG-G
1 CCTAGTTTTGAGGTCCAATTACGTTTTAGTGCACTAGTTATAAGATCCAAGTTTGTTTT-TAGTG
4025766 A
65 A
* * * * * *
4025767 CCTAGTTTTGAGGTCTATTTACGTTTTAGTGCCCTAGTTATGAGATCCAATTTTGTTTTTAGTGC
1 CCTAGTTTTGAGGTCCAATTACGTTTTAGTGCACTAGTTATAAGATCCAAGTTTGTTTTTAGTGA
4025832 CCTAGTTTTGAGG
1 CCTAGTTTTGAGG
4025845 ACCATTTTGA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 43 0.64
65 24 0.36
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (65 bp):
CCTAGTTTTGAGGTCCAATTACGTTTTAGTGCACTAGTTATAAGATCCAAGTTTGTTTTTAGTGA
Found at i:4025803 original size:32 final size:31
Alignment explanation
Indices: 4025703--4025844 Score: 99
Period size: 32 Copynumber: 4.4 Consensus size: 31
4025693 AGTTCAATAT
* * *
4025703 CCTAGTTTTGAGGTCCAATTACGTTTTAGTGG
1 CCTAGTTTTGAGGT-CTATTTCGTTTTAGTGC
* * * * *
4025735 ACTAGTTGTAAGATCTAGTTT-GTTTT-GTAGGA
1 CCTAGTTTTGAGGTCTA-TTTCGTTTTAGT--GC
4025767 CCTAGTTTTGAGGTCTATTTACGTTTTAGTGC
1 CCTAGTTTTGAGGTCTATTT-CGTTTTAGTGC
* * * *
4025799 CCTAGTTATGAGATCCAATTTTGTTTTTAGTGC
1 CCTAGTTTTGAGGT-CTATTTCG-TTTTAGTGC
4025832 CCTAGTTTTGAGG
1 CCTAGTTTTGAGG
4025845 ACCATTTTGA
Statistics
Matches: 84, Mismatches: 18, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
30 2 0.02
31 10 0.12
32 40 0.48
33 30 0.36
34 2 0.02
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (31 bp):
CCTAGTTTTGAGGTCTATTTCGTTTTAGTGC
Found at i:4025852 original size:32 final size:32
Alignment explanation
Indices: 4025753--4025853 Score: 100
Period size: 33 Copynumber: 3.1 Consensus size: 32
4025743 TAAGATCTAG
* * *
4025753 TTTGTTTTGTAG-GACCTAGTTTTGAGGTCTAT
1 TTTGTTTT-TAGTGCCCTAGTTTTGAGGACCAT
* *
4025785 TTACG-TTTTAGTGCCCTAGTTATGA-GATCCAAT
1 TT-TGTTTTTAGTGCCCTAGTTTTGAGGA-CC-AT
4025818 TTTGTTTTTAGTGCCCTAGTTTTGAGGACCAT
1 TTTGTTTTTAGTGCCCTAGTTTTGAGGACCAT
4025850 TTTG
1 TTTG
4025854 AGAGAGATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
31 4 0.07
32 24 0.43
33 26 0.46
34 2 0.04
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.47
Consensus pattern (32 bp):
TTTGTTTTTAGTGCCCTAGTTTTGAGGACCAT
Found at i:4027848 original size:21 final size:21
Alignment explanation
Indices: 4027810--4027869 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
4027800 ATAACAGATT
* *
4027810 CAAACCATGCTTAGCATAATA
1 CAAATCATACTTAGCATAATA
** *
4027831 CGGATCATACTTATCATAATA
1 CAAATCATACTTAGCATAATA
*
4027852 CAAATCATACTAAGCATA
1 CAAATCATACTTAGCATA
4027870 TAACATATTA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (21 bp):
CAAATCATACTTAGCATAATA
Found at i:4037551 original size:16 final size:15
Alignment explanation
Indices: 4037525--4037559 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
4037515 TGATGTGAAT
4037525 AATATAAAATATTAA
1 AATATAAAATATTAA
*
4037540 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
4037556 AATA
1 AATA
4037560 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:4037745 original size:20 final size:21
Alignment explanation
Indices: 4037703--4037745 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
4037693 CCTTTTTTAG
* *
4037703 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
4037724 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
4037744 AA
1 AA
4037746 GGTATTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:4037917 original size:21 final size:23
Alignment explanation
Indices: 4037875--4037917 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4037865 AGTATTTCGG
*
4037875 AGTATGTACATGAGACAATATAA
1 AGTATATACATGAGACAATATAA
4037898 AGTATATACAT-AGA-AATATA
1 AGTATATACATGAGACAATATA
4037918 CAAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (23 bp):
AGTATATACATGAGACAATATAA
Found at i:4037928 original size:23 final size:23
Alignment explanation
Indices: 4037881--4037930 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
4037871 TCGGAGTATG
*
4037881 TACATGAGACAATATAAAGTATA
1 TACATGAGACAATATAAAGAATA
4037904 TACAT-AGA-AATATACAAGAAGTA
1 TACATGAGACAATATA-AAGAA-TA
4037927 TACA
1 TACA
4037931 ACTAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (23 bp):
TACATGAGACAATATAAAGAATA
Found at i:4038507 original size:13 final size:13
Alignment explanation
Indices: 4038489--4038513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4038479 AAAAAAGGAA
4038489 AAAAATAAAAAAT
1 AAAAATAAAAAAT
4038502 AAAAATAAAAAA
1 AAAAATAAAAAA
4038514 AGAGTAAAAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:4038793 original size:27 final size:25
Alignment explanation
Indices: 4038762--4038834 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 25
4038752 TTTTTTTTTT
**
4038762 GGGGGTTAGGTTTTTCTTTTTTTGGG
1 GGGGGTTAGGTTTTT-TTTTTTCCGG
4038788 GAGGGGTTAGGTTTTTTCTTTTTCCGG
1 G-GGGGTTAGGTTTTTT-TTTTTCCGG
4038815 GGGGGTTAGGTTTTTTTTTT
1 GGGGGTTAGGTTTTTTTTTT
4038835 GGAGGGCTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
25 4 0.09
26 17 0.40
27 22 0.51
ACGTcount: A:0.05, C:0.05, G:0.36, T:0.53
Consensus pattern (25 bp):
GGGGGTTAGGTTTTTTTTTTTCCGG
Found at i:4040105 original size:146 final size:145
Alignment explanation
Indices: 4039689--4040309 Score: 911
Period size: 146 Copynumber: 4.2 Consensus size: 145
4039679 GTGATTTGAA
4039689 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
* **
4039754 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAAATTGAAAAA
66 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAC-AGAAATTGAAATT
* * *
4039819 ACCTTAGCATGTCTTGAG
128 ACCTCAGCGTGTCCTGAG
** *
4039837 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
* ** *
4039902 TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTAC
66 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA-AACAGAAATTGAAATTAC
4039967 CTCAGCGTGTCCTGAG
130 CTCAGCGTGTCCTGAG
* * * * *
4039983 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTAAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAA-ACAGAAATTGAAATTACCTCAGCG
** ** * *
4040048 TGTCTTGAGGCTCAACTCATTTCTCGCAATAGGAGTTGA-ATTTTGAAAACAGAAATTGAAATTA
64 TGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTA
*
4040112 CCTCAGCGTGTCCCGAG
129 CCTCAGCGTGTCCTGAG
*
4040129 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
* *
4040194 TCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTAC
66 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTAC
4040259 CTCAGCGTGTCCTGAG
130 CTCAGCGTGTCCTGAG
*
4040275 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
4040310 TTTTGAAACA
Statistics
Matches: 426, Mismatches: 42, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
144 52 0.12
145 9 0.02
146 189 0.44
147 23 0.05
148 153 0.36
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (145 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACC
TCAGCGTGTCCTGAG
Found at i:4040311 original size:74 final size:73
Alignment explanation
Indices: 4039689--4040310 Score: 901
Period size: 72 Copynumber: 8.5 Consensus size: 73
4039679 GTGATTTGAA
4039689 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
*
4039753 GTCCCGAG
66 GTCCTGAG
* ** *
4039761 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAAAAAATTGAAAAAACCTTAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAC-AGAAATTGAAATTACCTCAG
* *
4039826 CATGTCTTGAG
63 CGTGTCCTGAG
** *
4039837 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
4039901 GTCCTGAG
66 GTCCTGAG
** *
4039909 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA-AACAGAAATTGAAATTACCTCAGCG
4039974 TGTCCTGAG
65 TGTCCTGAG
* * * * *
4039983 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTAAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-ACAGAAATTGAAATTACCTCAGCG
*
4040048 TGTCTTGAG
65 TGTCCTGAG
** * *
4040057 GCTCAACTCATTTCTCGCAATAGGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
*
4040121 GTCCCGAG
66 GTCCTGAG
4040129 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
* *
4040193 CTCCCGAG
66 GTCCTGAG
* *
4040201 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
4040266 TGTCCTGAG
65 TGTCCTGAG
*
4040275 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
4040311 TTTGAAACAG
Statistics
Matches: 492, Mismatches: 49, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
72 208 0.42
73 26 0.05
74 201 0.41
75 5 0.01
76 52 0.11
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (73 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
GTCCTGAG
Found at i:4052173 original size:16 final size:15
Alignment explanation
Indices: 4052147--4052181 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
4052137 TGATGTGAAT
4052147 AATATAAAATATTAA
1 AATATAAAATATTAA
*
4052162 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
4052178 AATA
1 AATA
4052182 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:4052364 original size:20 final size:21
Alignment explanation
Indices: 4052322--4052364 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
4052312 CCTTTTTTAG
* *
4052322 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
4052343 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
4052363 AA
1 AA
4052365 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:4052535 original size:21 final size:23
Alignment explanation
Indices: 4052493--4052535 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4052483 AGTATTTCGG
*
4052493 AGTATGTACATGAGACAATATAA
1 AGTATATACATGAGACAATATAA
4052516 AGTATATACAT-AGA-AATATA
1 AGTATATACATGAGACAATATA
4052536 CAAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (23 bp):
AGTATATACATGAGACAATATAA
Found at i:4052546 original size:23 final size:23
Alignment explanation
Indices: 4052499--4052548 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
4052489 TCGGAGTATG
*
4052499 TACATGAGACAATATAAAGTATA
1 TACATGAGACAATATAAAGAATA
4052522 TACAT-AGA-AATATACAAGAAGTA
1 TACATGAGACAATATA-AAGAA-TA
4052545 TACA
1 TACA
4052549 ACTAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (23 bp):
TACATGAGACAATATAAAGAATA
Found at i:4053389 original size:25 final size:25
Alignment explanation
Indices: 4053361--4053437 Score: 115
Period size: 26 Copynumber: 3.2 Consensus size: 25
4053351 AGTTTCTTGG
4053361 TTTTTTTT--GGGGTTAGGTTTTTC
1 TTTTTTTTGGGGGGTTAGGTTTTTC
*
4053384 TTTTTTTGGGGGGGTTAGGTTTTTTC
1 TTTTTTTTGGGGGGTTAGG-TTTTTC
4053410 TTTTTTTTGGGGGGTTAGGTTTTT-
1 TTTTTTTTGGGGGGTTAGGTTTTTC
4053434 TTTT
1 TTTT
4053438 GGAGGGCTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
23 7 0.14
24 4 0.08
25 14 0.29
26 24 0.49
ACGTcount: A:0.04, C:0.03, G:0.30, T:0.64
Consensus pattern (25 bp):
TTTTTTTTGGGGGGTTAGGTTTTTC
Found at i:4053407 original size:26 final size:26
Alignment explanation
Indices: 4053369--4053434 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
4053359 GGTTTTTTTT
4053369 GGGGTTAGG-TTTTTCTTTTTTTGGG
1 GGGGTTAGGTTTTTTCTTTTTTTGGG
*
4053394 GGGGTTAGGTTTTTTCTTTTTTTTGG
1 GGGGTTAGGTTTTTTCTTTTTTTGGG
4053420 GGGGTTAGGTTTTTT
1 GGGGTTAGGTTTTTT
4053435 TTTGGAGGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 9 0.23
26 30 0.77
ACGTcount: A:0.05, C:0.03, G:0.35, T:0.58
Consensus pattern (26 bp):
GGGGTTAGGTTTTTTCTTTTTTTGGG
Found at i:4054844 original size:3 final size:3
Alignment explanation
Indices: 4054831--4054963 Score: 74
Period size: 3 Copynumber: 47.0 Consensus size: 3
4054821 ATATAAAAAT
* * * *
4054831 ATA ATA A-A ATA ATA ATA GTA CTA ATA GTA ATA ATA A-A ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
4054877 ATA ATA ATA TATAA ATA A-A ATA A-A AT- ATG ATA TTG ATA AT- ATA
1 ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
4054920 TATA A-A AT- ATA A-A ATAA ATA AAA ATA ATA A-A A-A ATA AT- ATA
1 -ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
4054961 ATA
1 ATA
4054964 GTAAATAGTT
Statistics
Matches: 101, Mismatches: 14, Indels: 30
0.70 0.10 0.21
Matches are distributed among these distances:
2 24 0.24
3 66 0.65
4 10 0.10
5 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4054864 original size:29 final size:27
Alignment explanation
Indices: 4054829--4054963 Score: 104
Period size: 29 Copynumber: 4.9 Consensus size: 27
4054819 AAATATAAAA
* *
4054829 ATATAATAAAATAATAATAGTACTAAT
1 ATATAATAAAATAATAATAATAATAAT
*
4054856 AGTAATAATAAAATGATAATAATAATAAT
1 A-T-ATAATAAAATAATAATAATAATAAT
4054885 ATATAAATAAAATAA-AATATGATATTGATAAT
1 ATAT-AATAAAATAATAATA--ATA---ATAAT
4054917 ATAT-ATAAAAT-ATAA-AATAAATAA-
1 ATATAATAAAATAATAATAAT-AATAAT
*
4054941 AAATAATAAAA-AATAAT-ATAATA
1 ATATAATAAAATAATAATAATAATA
4054964 GTAAATAGTT
Statistics
Matches: 90, Mismatches: 5, Indels: 29
0.73 0.04 0.23
Matches are distributed among these distances:
24 7 0.08
25 16 0.18
27 9 0.10
28 12 0.13
29 28 0.31
30 9 0.10
32 9 0.10
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (27 bp):
ATATAATAAAATAATAATAATAATAAT
Found at i:4054921 original size:32 final size:32
Alignment explanation
Indices: 4054816--4054948 Score: 103
Period size: 32 Copynumber: 4.1 Consensus size: 32
4054806 AATAACTATA
* * *
4054816 AATAAATAT-AAAAATATAATAAAATAATAAT
1 AATATATATAAAAAATAAAATATAATAATAAT
* *
4054847 AGTACTA-ATAGTAATAATAAAATGATAATAATAAT
1 AATA-TATATA--AAAAATAAAAT-ATAATAATAAT
* * *
4054882 AATATATA-AATAAAATAAAATATGATATTGAT
1 AATATATATAA-AAAATAAAATATAATAATAAT
* *
4054914 AATATATATAAAATATAAAATA-AATAAAAAT
1 AATATATATAAAAAATAAAATATAATAATAAT
4054945 AATA
1 AATA
4054949 AAAAATAATA
Statistics
Matches: 79, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
31 14 0.18
32 28 0.35
33 11 0.14
34 12 0.15
35 14 0.18
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (32 bp):
AATATATATAAAAAATAAAATATAATAATAAT
Found at i:4055125 original size:15 final size:15
Alignment explanation
Indices: 4055096--4055134 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
4055086 AATACAATAG
4055096 AATATAAA-A-TAGA
1 AATATAAATAGTAGA
4055109 AATATAAATAGTAGA
1 AATATAAATAGTAGA
4055124 AATATAAATAG
1 AATATAAATAG
4055135 ATAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 8 0.33
14 1 0.04
15 15 0.62
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (15 bp):
AATATAAATAGTAGA
Found at i:4055149 original size:14 final size:13
Alignment explanation
Indices: 4055083--4055179 Score: 74
Period size: 14 Copynumber: 7.1 Consensus size: 13
4055073 ATATTAGTAT
*
4055083 ATAAATACAATAG
1 ATAAATAAAATAG
*
4055096 A-ATATAAAATAG
1 ATAAATAAAATAG
4055108 --AAATATAAATAG
1 ATAAATA-AAATAG
*
4055120 TAGAAATATAAATAG
1 -ATAAATA-AAATAG
4055135 ATAAATAAAATTAG
1 ATAAATAAAA-TAG
4055149 ATAAATAATAATAG
1 ATAAATAA-AATAG
4055163 TATTAGAATAAAATAG
1 -A-TA-AATAAAATAG
4055179 A
1 A
4055180 AACATAATAA
Statistics
Matches: 71, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
11 4 0.06
12 15 0.21
13 4 0.06
14 20 0.28
15 16 0.23
16 7 0.10
17 5 0.07
ACGTcount: A:0.63, C:0.01, G:0.09, T:0.27
Consensus pattern (13 bp):
ATAAATAAAATAG
Found at i:4055737 original size:19 final size:19
Alignment explanation
Indices: 4055700--4055754 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
4055690 TTAATTTAAT
* *
4055700 AAATTAAAATAAATGAAATG
1 AAATAAAAATAAAT-AAATA
4055720 AAATAAAAATAAATAAATA
1 AAATAAAAATAAATAAATA
* *
4055739 AAACAAAAACAAATAA
1 AAATAAAAATAAATAA
4055755 TTATCTTCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.18
Consensus pattern (19 bp):
AAATAAAAATAAATAAATA
Found at i:4056620 original size:44 final size:44
Alignment explanation
Indices: 4056169--4056629 Score: 205
Period size: 44 Copynumber: 10.4 Consensus size: 44
4056159 ACTCTGCTGA
* ** *
4056169 AACTTCAAGGAGATAAGAATTGATAATTTCAACCTGCTCCACTAC
1 AACTTCAGGGAGATAAGGTTTG-TAATTTCAACCTGCTCCACTGC
* * * * *
4056214 AACTTCAGGGAGATAAGGTTCGTGACTTCAACTTGCTCCACTAC
1 AACTTCAGGGAGATAAGGTTTGTAATTTCAACCTGCTCCACTGC
* * *
4056258 AACTTCA-GGAGATAAGACTCGTTT-T-ATTT--TCTTGCTCCACTAC
1 AACTTCAGGGAGATAAG----GTTTGTAATTTCAACCTGCTCCACTGC
* * * * *
4056301 AACTTTAGGGAGATAAGGATTGGTAATGTCAACTTGCTCCACTGT
1 AACTTCAGGGAGATAAGG-TTTGTAATTTCAACCTGCTCCACTGC
* * *** * * *
4056346 AA-TTCA-GGAGATAAGGCTGGTGGCTTAAATCTTCTTCC-CTGC
1 AACTTCAGGGAGATAAGGTTTGTAATTTCAACCTGC-TCCACTGC
* * * *** * *
4056388 TACCTCAAGGAGATAAGACCTGTTACTTCAACCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGTTTGTAATTTCAACCTGCTCCACTGC
* * * *
4056432 AACTTCAGGGAGATAAAGTTTGCT-A--T-GATCTGCTCTACTGC
1 AACTTCAGGGAGATAAGGTTTG-TAATTTCAACCTGCTCCACTGC
* * * * *
4056473 AA-TTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGC
1 AACTTCAGGGAGATAAG----G-TT-TGTA-A-TTTCAACCTGCTCCACTGC
* * * ** * *
4056524 ATCTTCAGGGAAATAAGATTTGCT-ATCTTCAGTCTACTCCAATGC
1 AACTTCAGGGAGATAAGGTTTG-TAAT-TTCAACCTGCTCCACTGC
*
4056569 AAC-TCAGGGAGATAAGGTTTGTAATTTCGACCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGTTTGTAATTTCAACCTGCTCCACTGC
4056612 AACTTCAGGGAGATAAGG
1 AACTTCAGGGAGATAAGG
4056630 CTGGTGGCTT
Statistics
Matches: 313, Mismatches: 71, Indels: 65
0.70 0.16 0.14
Matches are distributed among these distances:
40 13 0.04
41 16 0.05
42 15 0.05
43 67 0.21
44 111 0.35
45 55 0.18
46 3 0.01
47 7 0.02
50 1 0.00
51 13 0.04
52 12 0.04
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGGTTTGTAATTTCAACCTGCTCCACTGC
Found at i:4056842 original size:89 final size:89
Alignment explanation
Indices: 4056680--4057020 Score: 233
Period size: 89 Copynumber: 3.8 Consensus size: 89
4056670 AAGATTCGCC
* *
4056680 ATCTTC-GATCTGCT-CTATTGCTACCTCATG-AAGATAAGATCTACAATCCTCAGCCTGCT--C
1 ATCTTCAG-TCTGCTCCT-TTGCTACCTCA-GAAAGATAAGATCTACAATCTTCAGCCTACTCCC
* *
4056740 TATGCTGCTTCAGGAATACAAGATCTTCA
63 T-TGCTACCTCAGGAATA-AAGATCTTCA
* * *
4056769 ATCTTCAGTCTGTTCCTTTGCTACCTCAGAAAGATAAGA-CTGCAATCTTTAGCCTACTCCCTTG
1 ATCTTCAGTCTGCTCCTTTGCTACCTCAGAAAGATAAGATCTACAATCTTCAGCCTACTCCCTTG
* ***
4056833 CTACCTCAGGGAA-ATAAG-GCTGGT
66 CTACCTCA-GGAATA-AAGATCTTCA
** ** * * * * * * * *
4056857 GGCTAAAATCTGCTCCTCTGCTACCTCGGGAAGATAAGATTTGTC-ATATTC-GATCTACTCCAC
1 ATCTTCAGTCTGCTCCTTTGCTACCTCAGAAAGATAAGATCT-ACAATCTTCAG-CCTACTCC-C
*
4056920 -TGCTATCTCAGAGAGAT-AAGATCTTCA
63 TTGCTACCTCAG-GA-ATAAAGATCTTCA
* *
4056947 ATCTTCAGTCTGCCTCC-TTGCTACCTCAAAAAGATAAGA-CTACAATCTTCAGCCTACTCCTTT
1 ATCTTCAGTCTG-CTCCTTTGCTACCTCAGAAAGATAAGATCTACAATCTTCAGCCTACTCCCTT
4057010 GCTACCTCAGG
65 GCTACCTCAGG
4057021 GAAATAAGGC
Statistics
Matches: 188, Mismatches: 46, Indels: 37
0.69 0.17 0.14
Matches are distributed among these distances:
88 52 0.28
89 92 0.49
90 40 0.21
91 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (89 bp):
ATCTTCAGTCTGCTCCTTTGCTACCTCAGAAAGATAAGATCTACAATCTTCAGCCTACTCCCTTG
CTACCTCAGGAATAAAGATCTTCA
Found at i:4056995 original size:222 final size:222
Alignment explanation
Indices: 4056616--4057019 Score: 512
Period size: 222 Copynumber: 1.8 Consensus size: 222
4056606 CACTGCAACT
* * *
4056616 TCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCTACCTTATGGAGATAAGATTCGCCA
1 TCAGGGAAATAAGGCTGGTGGCTAAAATCTGCTCCATTGCTACCTTAGGGAGATAAGATTCGCCA
* * * *
4056681 TCTTCGATCTGCTCTATTGCTACCTCATGAAGATAAGATCTACAATCCTCAGCCTGCTCTATGCT
66 TATTCGATCTACTCCACTGCTACCTCATGAAGATAAGATCTACAATCCTCAGCCTGCTCTATGCT
* * ** * * * **
4056746 GCTTCAGGAATACAAGATCTTCAATCTTCAGTCTGTTCCTTTGCTACCTCAGAAAGATAAGACTG
131 ACCTCAAAAAGACAAGATCTACAATCTTCAGCCTACTCCTTTGCTACCTCAGAAAGATAAGACTG
4056811 CAATCTTTAGCCTACTCCCTTGCTACC
196 CAATCTTTAGCCTACTCCCTTGCTACC
* * *
4056838 TCAGGGAAATAAGGCTGGTGGCTAAAATCTGCTCC-TCTGCTACC-TCGGGAAGATAAGATTTGT
1 TCAGGGAAATAAGGCTGGTGGCTAAAATCTGCTCCAT-TGCTACCTTAGGG-AGATAAGATTCGC
* * * *
4056901 CATATTCGATCTACTCCACTGCTATCTCA-GAGAGATAAGATCTTCAATCTTCAGTCTGCCTCCT
64 CATATTCGATCTACTCCACTGCTACCTCATGA-AGATAAGATCTACAATCCTCAGCCTG-CT-CT
*
4056965 -TGCTACCTCAAAAAGATAAGA-CTACAATCTTCAGCCTACTCCTTTGCTACCTCAG
126 ATGCTACCTCAAAAAGACAAGATCTACAATCTTCAGCCTACTCCTTTGCTACCTCAG
4057020 GGAAATAAGG
Statistics
Matches: 153, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
221 6 0.04
222 128 0.84
223 17 0.11
224 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (222 bp):
TCAGGGAAATAAGGCTGGTGGCTAAAATCTGCTCCATTGCTACCTTAGGGAGATAAGATTCGCCA
TATTCGATCTACTCCACTGCTACCTCATGAAGATAAGATCTACAATCCTCAGCCTGCTCTATGCT
ACCTCAAAAAGACAAGATCTACAATCTTCAGCCTACTCCTTTGCTACCTCAGAAAGATAAGACTG
CAATCTTTAGCCTACTCCCTTGCTACC
Found at i:4057028 original size:44 final size:45
Alignment explanation
Indices: 4056697--4057028 Score: 189
Period size: 44 Copynumber: 7.5 Consensus size: 45
4056687 ATCTGCTCTA
* * * * *
4056697 TTGCTACCTCATGAAGATAAGATCTACAATCCTCAGCCTGCT-CT
1 TTGCTACCTCAGGAAGATAAGATCTTCAATCTTCAGTCTACTCCT
* * * * * **
4056741 ATGCTGCTTCAGGAATACAAGATCTTCAATCTTCAGTCTGTTCCT
1 TTGCTACCTCAGGAAGATAAGATCTTCAATCTTCAGTCTACTCCT
* * * * *
4056786 TTGCTACCTCAGAAAGATAAGA-CTGCAATCTTTAGCCTACTCCC
1 TTGCTACCTCAGGAAGATAAGATCTTCAATCTTCAGTCTACTCCT
* ***** ** * *
4056830 TTGCTACCTCAGGGAA-ATAAG-GCTGGTGGCTAAAATCTGCTCCT
1 TTGCTACCTCA-GGAAGATAAGATCTTCAATCTTCAGTCTACTCCT
* * * * *
4056874 CTGCTACCTCGGGAAGATAAGATTTGTC-ATATTC-GATCTACTCCA
1 TTGCTACCTCAGGAAGATAAGATCT-TCAATCTTCAG-TCTACTCCT
* * *
4056919 CTGCTATCTCA-GAGAGATAAGATCTTCAATCTTCAGTCTGCCTCC-
1 TTGCTACCTCAGGA-AGATAAGATCTTCAATCTTCAGTCT-ACTCCT
** * *
4056964 TTGCTACCTCAAAAAGATAAGA-CTACAATCTTCAGCCTACTCCT
1 TTGCTACCTCAGGAAGATAAGATCTTCAATCTTCAGTCTACTCCT
4057008 TTGCTACCTCAGGGAA-ATAAG
1 TTGCTACCTCA-GGAAGATAAG
4057029 GCTGGTGGCT
Statistics
Matches: 214, Mismatches: 60, Indels: 28
0.71 0.20 0.09
Matches are distributed among these distances:
43 8 0.04
44 124 0.58
45 76 0.36
46 6 0.03
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (45 bp):
TTGCTACCTCAGGAAGATAAGATCTTCAATCTTCAGTCTACTCCT
Found at i:4057050 original size:222 final size:222
Alignment explanation
Indices: 4056616--4057066 Score: 484
Period size: 222 Copynumber: 2.0 Consensus size: 222
4056606 CACTGCAACT
* * *
4056616 TCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCTACCTTATGGAGATAAGATTCGCCA
1 TCAGGGAAATAAGGCTGGTGGCTAAAATCTGCTCCATTGCTACCTTAGGGAGATAAGATTCGCCA
* * * *
4056681 TCTTCGATCTGCTCTATTGCTACCTCATGAAGATAAGATCTACAATCCTCAGCCTGCTCTATGCT
66 TATTCGATCTACTCCACTGCTACCTCATGAAGATAAGATCTACAATCCTCAGCCTGCTCTATGCT
* * ** * * * **
4056746 GCTTCAGGAATACAAGATCTTCAATCTTCAGTCTGTTCCTTTGCTACCTCAGAAAGATAAGACTG
131 ACCTCAAAAAGACAAGATCTACAATCTTCAGCCTACTCCTTTGCTACCTCAGAAAGATAAGACTG
* ** * *
4056811 CAATCTTTAGCCTACTCCCTTGCTACC
196 CAAGCTAAAACCTACTCCCATGCTACC
* * *
4056838 TCAGGGAAATAAGGCTGGTGGCTAAAATCTGCTCC-TCTGCTACC-TCGGGAAGATAAGATTTGT
1 TCAGGGAAATAAGGCTGGTGGCTAAAATCTGCTCCAT-TGCTACCTTAGGG-AGATAAGATTCGC
* * * *
4056901 CATATTCGATCTACTCCACTGCTATCTCA-GAGAGATAAGATCTTCAATCTTCAGTCTGCCTCCT
64 CATATTCGATCTACTCCACTGCTACCTCATGA-AGATAAGATCTACAATCCTCAGCCTG-CT-CT
* *
4056965 -TGCTACCTCAAAAAGATAAGA-CTACAATCTTCAGCCTACTCCTTTGCTACCTCAGGGAA-ATA
126 ATGCTACCTCAAAAAGACAAGATCTACAATCTTCAGCCTACTCCTTTGCTACCTCA-GAAAGATA
* *** *
4057027 AGGCTGGTGGCTAAAATCTACTCCCATGCTACC
190 AGACTGCAAGCTAAAACCTACTCCCATGCTACC
4057060 TC-GGGAA
1 TCAGGGAA
4057067 GATAGATTCG
Statistics
Matches: 188, Mismatches: 35, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
221 11 0.06
222 155 0.82
223 20 0.11
224 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (222 bp):
TCAGGGAAATAAGGCTGGTGGCTAAAATCTGCTCCATTGCTACCTTAGGGAGATAAGATTCGCCA
TATTCGATCTACTCCACTGCTACCTCATGAAGATAAGATCTACAATCCTCAGCCTGCTCTATGCT
ACCTCAAAAAGACAAGATCTACAATCTTCAGCCTACTCCTTTGCTACCTCAGAAAGATAAGACTG
CAAGCTAAAACCTACTCCCATGCTACC
Found at i:4070293 original size:18 final size:18
Alignment explanation
Indices: 4070269--4070542 Score: 113
Period size: 18 Copynumber: 15.1 Consensus size: 18
4070259 ACAAAATAAC
4070269 AATTTTTGAAAACAC-AA
1 AATTTTTGAAAACACGAA
4070286 AGATTTTTG-AAACACGAA
1 A-ATTTTTGAAAACACGAA
4070304 AATTTTTTGAAAACACGAAAACACAA
1 AA-TTTTTGAAAACACG-------AA
* **
4070330 AATATTTT--TAACACGGG
1 AAT-TTTTGAAAACACGAA
4070347 AATTTTTGAAAACACGACA
1 AATTTTTGAAAACACGA-A
** ***
4070366 GTTTTTTTTTAACACGAA
1 AATTTTTGAAAACACGAA
4070384 AATTTTTTGAAAACACAGAA
1 AA-TTTTTGAAAACAC-GAA
* * *
4070404 ATTTTTTGAAAACAAGGA
1 AATTTTTGAAAACACGAA
* * * *
4070422 AATTTTAG-ATACATGAG
1 AATTTTTGAAAACACGAA
4070439 AATTCTTTG---ACACGAA
1 AATT-TTTGAAAACACGAA
* * *
4070455 AAATTTTGAAAACATGAG
1 AATTTTTGAAAACACGAA
** *
4070473 AA-TTCCGAAAACATG--
1 AATTTTTGAAAACACGAA
*
4070488 AATTTTT-AAAACATGAA
1 AATTTTTGAAAACACGAA
* * *
4070505 ATTTTTTAAAAACACGAG
1 AATTTTTGAAAACACGAA
4070523 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
4070541 AA
1 AA
4070543 CATGAAAATT
Statistics
Matches: 191, Mismatches: 41, Indels: 49
0.68 0.15 0.17
Matches are distributed among these distances:
15 14 0.07
16 14 0.07
17 37 0.19
18 66 0.35
19 41 0.21
20 4 0.02
24 6 0.03
25 1 0.01
26 8 0.04
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:4070326 original size:44 final size:42
Alignment explanation
Indices: 4070276--4070363 Score: 115
Period size: 42 Copynumber: 2.0 Consensus size: 42
4070266 AACAATTTTT
4070276 GAAAACACAAAGAT-TTTTGAAACACGAAAATTTTTTGAAAACAC
1 GAAAACACAAA-ATATTTT-AAACACGAAAA-TTTTTGAAAACAC
* **
4070320 GAAAACACAAAATATTTTTAACACGGGAATTTTTGAAAACAC
1 GAAAACACAAAATATTTTAAACACGAAAATTTTTGAAAACAC
4070362 GA
1 GA
4070364 CAGTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
42 15 0.38
43 10 0.25
44 15 0.38
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (42 bp):
GAAAACACAAAATATTTTAAACACGAAAATTTTTGAAAACAC
Found at i:4070409 original size:37 final size:36
Alignment explanation
Indices: 4070320--4070410 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 36
4070310 TTGAAAACAC
* **
4070320 GAAAACACA-AAA-TATTTTTAACACGGGAATTTTT
1 GAAAACACAGAAATTTTTTTTAACACGAAAATTTTT
*
4070354 GAAAACAC-GACAGTTTTTTTTTAACACGAAAATTTTTT
1 GAAAACACAGA-A-ATTTTTTTTAACACGAAAA-TTTTT
4070392 GAAAACACAGAAATTTTTT
1 GAAAACACAGAAATTTTTT
4070411 GAAAACAAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
34 9 0.20
35 1 0.02
37 20 0.43
38 14 0.30
39 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAAACACAGAAATTTTTTTTAACACGAAAATTTTT
Found at i:4070543 original size:26 final size:25
Alignment explanation
Indices: 4070513--4070562 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4070503 AAATTTTTTA
*
4070513 AAAACACGAGAATTTTTGAAAACACG
1 AAAACACGA-AAATTTTGAAAACACG
*
4070539 AAAACATGAAAATTTTGAAAACAC
1 AAAACACGAAAATTTTGAAAACAC
4070563 AGGCAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.54, C:0.14, G:0.12, T:0.20
Consensus pattern (25 bp):
AAAACACGAAAATTTTGAAAACACG
Found at i:4070574 original size:43 final size:44
Alignment explanation
Indices: 4070495--4070585 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 44
4070485 ATGAATTTTT
* *
4070495 AAAACATGAAATTTTTTAAAAACACGAGAATTTTTGAAAACACG
1 AAAACATGAAAATTTTGAAAAACACGAGAATTTTTGAAAACACG
4070539 AAAACATGAAAATTTTG-AAAACAC-AGGCAA-TTTTGAAAACACG
1 AAAACATGAAAATTTTGAAAAACACGA-G-AATTTTTGAAAACACG
4070582 AAAA
1 AAAA
4070586 TTTCTGAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
42 1 0.02
43 25 0.58
44 17 0.40
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (44 bp):
AAAACATGAAAATTTTGAAAAACACGAGAATTTTTGAAAACACG
Found at i:4070593 original size:18 final size:17
Alignment explanation
Indices: 4070538--4070594 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
4070528 TTGAAAACAC
*
4070538 GAAAACATGAAAATTTT
1 GAAAACACGAAAATTTT
**
4070555 GAAAACACAGGCAATTTT
1 GAAAACAC-GAAAATTTT
4070573 GAAAACACGAAAATTTCT
1 GAAAACACGAAAATTT-T
4070591 GAAA
1 GAAA
4070595 GACGGGAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 13 0.39
18 20 0.61
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (17 bp):
GAAAACACGAAAATTTT
Found at i:4070678 original size:24 final size:23
Alignment explanation
Indices: 4070619--4070710 Score: 113
Period size: 23 Copynumber: 4.2 Consensus size: 23
4070609 TTGTTTTTTG
4070619 TTTT-ATTTTAAAACACGAAAAT
1 TTTTCATTTTAAAACACGAAAAT
*
4070641 TTTTCATTTGAAAACACGAAAAT
1 TTTTCATTTTAAAACACGAAAAT
*
4070664 TTGTTCATTTTAAAACGCG--AAT
1 TT-TTCATTTTAAAACACGAAAAT
*
4070686 TTTT--TTTTAAAACACGAAAAC
1 TTTTCATTTTAAAACACGAAAAT
4070707 TTTT
1 TTTT
4070711 GAAAACGCGA
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
19 11 0.18
21 8 0.13
22 9 0.15
23 19 0.31
24 14 0.23
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (23 bp):
TTTTCATTTTAAAACACGAAAAT
Found at i:4070710 original size:19 final size:18
Alignment explanation
Indices: 4070689--4070723 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4070679 CGCGAATTTT
*
4070689 TTTTTAAAACACGAAAAC
1 TTTTGAAAACACGAAAAC
*
4070707 TTTTGAAAACGCGAAAA
1 TTTTGAAAACACGAAAA
4070724 GTCGAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (18 bp):
TTTTGAAAACACGAAAAC
Found at i:4072045 original size:30 final size:30
Alignment explanation
Indices: 4071996--4072091 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
4071986 ATTTAGGATT
* * *
4071996 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAAGTTAAAGAAAGTTTAAGGGTC
* *
4072026 TAAGTGAAAGTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAAGTTAAAGAAAGTTTAAGGGTC
* * **
4072056 AAAATGAAA-TTTAGGAAAAGTTTGGGGGTC
1 AAAATGAAAGTTAAAG-AAAGTTTAAGGGTC
4072086 AAAATG
1 AAAATG
4072092 CAATTTTTAT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 4 0.07
30 50 0.93
ACGTcount: A:0.44, C:0.03, G:0.26, T:0.27
Consensus pattern (30 bp):
AAAATGAAAGTTAAAGAAAGTTTAAGGGTC
Found at i:4072112 original size:14 final size:15
Alignment explanation
Indices: 4072093--4072127 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
4072083 GTCAAAATGC
4072093 AATTTTTATTTTT-A
1 AATTTTTATTTTTGA
*
4072107 AATTTTTTTTTTTGA
1 AATTTTTATTTTTGA
4072122 AATTTT
1 AATTTT
4072128 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:4073497 original size:38 final size:38
Alignment explanation
Indices: 4073455--4073532 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
4073445 TGTATTTTTT
* *
4073455 AATAATTTT-GAATATTTTAATAATTTTTCATTTTTAAA
1 AATAATTTTAGAATATTTTAA-AATTTTTAAATTTTAAA
* *
4073493 AATAATTTTATAATATTTTAAATTTTTTAAATTTTAAA
1 AATAATTTTAGAATATTTTAAAATTTTTAAATTTTAAA
4073531 AA
1 AA
4073533 ATTAATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 25 0.71
39 10 0.29
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (38 bp):
AATAATTTTAGAATATTTTAAAATTTTTAAATTTTAAA
Found at i:4073518 original size:17 final size:16
Alignment explanation
Indices: 4073496--4073530 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4073486 TTTTAAAAAT
4073496 AATTTTATAATATTTTA
1 AATTTTATAA-ATTTTA
*
4073513 AATTTTTTAAATTTTA
1 AATTTTATAAATTTTA
4073529 AA
1 AA
4073531 AAATTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTTATAAATTTTA
Found at i:4073533 original size:39 final size:38
Alignment explanation
Indices: 4073455--4073539 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 38
4073445 TGTATTTTTT
* *
4073455 AATAATTTTGAATATTTTAATAATTTTTCATTTTTAAA
1 AATAATTTTGAATATTTTAATAATTTTTAATTTTAAAA
* *
4073493 AATAATTTTATAATATTTTAA-ATTTTTTAAATTTTAAAA
1 AATAATTTT-GAATATTTTAATAATTTTT-AATTTTAAAA
4073532 AATTAATT
1 AA-TAATT
4073540 AAATGTTGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
38 15 0.38
39 20 0.50
40 5 0.12
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (38 bp):
AATAATTTTGAATATTTTAATAATTTTTAATTTTAAAA
Found at i:4074333 original size:37 final size:36
Alignment explanation
Indices: 4074291--4074372 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 36
4074281 TTTTGTTTTT
4074291 AAACACGAGAACTTTGAAACA-AAATAATAATTTTTGA
1 AAACACGAGAACTTTGAAACACAAA-AAT-ATTTTTGA
** * *
4074328 AAACACGAAGATTTTTGAAACACGAAAATTTTTTTGA
1 AAACACG-AGAACTTTGAAACACAAAAATATTTTTGA
4074365 AAACACGA
1 AAACACGA
4074373 AAACACAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
36 1 0.03
37 21 0.54
38 15 0.38
39 2 0.05
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (36 bp):
AAACACGAGAACTTTGAAACACAAAAATATTTTTGA
Found at i:4074361 original size:19 final size:18
Alignment explanation
Indices: 4074319--4074375 Score: 80
Period size: 20 Copynumber: 3.1 Consensus size: 18
4074309 ACAAAATAAT
4074319 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
4074337 GATTTTTG-AAACACGAA
1 AATTTTTGAAAACACGAA
4074354 AATTTTTTTGAAAACACGAA
1 AA--TTTTTGAAAACACGAA
4074374 AA
1 AA
4074376 CACAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 10 0.29
18 7 0.21
19 6 0.18
20 11 0.32
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:4074438 original size:17 final size:18
Alignment explanation
Indices: 4074390--4074439 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
4074380 AAATTTTCTT
*
4074390 AACACGGGAATTTTTGAA
1 AACACGAGAATTTTTGAA
* *
4074408 AACACGACAGTTTTTG-A
1 AACACGAGAATTTTTGAA
*
4074425 AACATGAGAATTTTT
1 AACACGAGAATTTTT
4074440 TTAAAACACA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (18 bp):
AACACGAGAATTTTTGAA
Found at i:4074466 original size:21 final size:22
Alignment explanation
Indices: 4074437--4074478 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
4074427 CATGAGAATT
*
4074437 TTTTTAAAACAC-AAAATTTTA
1 TTTTGAAAACACAAAAATTTTA
4074458 TTTTGAAAACACAAAAATTTT
1 TTTTGAAAACACAAAAATTTT
4074479 TGATAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTTGAAAACACAAAAATTTTA
Found at i:4074481 original size:18 final size:18
Alignment explanation
Indices: 4074398--4074481 Score: 53
Period size: 18 Copynumber: 4.5 Consensus size: 18
4074388 TTAACACGGG
* *
4074398 AATTTTTGAAAACACGAC
1 AATTTTTGAAAACACAAA
* * *
4074416 AGTTTTTG-AAACATGAGA
1 AATTTTTGAAAACA-CAAA
* *
4074434 ATTTTTTTAAAACACAAA
1 AATTTTTGAAAACACAAA
*
4074452 ATTTTATTTTGAAAACACAAA
1 A--AT-TTTTGAAAACACAAA
4074473 AATTTTTGA
1 AATTTTTGA
4074482 TAAATTATGA
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
17 5 0.10
18 22 0.44
19 6 0.12
20 2 0.04
21 15 0.30
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (18 bp):
AATTTTTGAAAACACAAA
Found at i:4074533 original size:38 final size:38
Alignment explanation
Indices: 4074486--4074680 Score: 129
Period size: 37 Copynumber: 5.2 Consensus size: 38
4074476 TTTTGATAAA
* *
4074486 TTATGAAACACGAGGATTTTTTTTTG-AAACGCGGAAAT
1 TTATGAAACACGA-GATATTTTTTTGAAAACACGGAAAT
* * *
4074524 TTATGAAACA--AGGTCAATTTTTTGAAAACACGAAAAT
1 TTATGAAACACGAGAT-ATTTTTTTGAAAACACGGAAAT
* *
4074561 TT-TCGAAAGACGAGA-ATTTTTTTGAAAACACGGAGAT
1 TTAT-GAAACACGAGATATTTTTTTGAAAACACGGAAAT
* * * * *
4074598 TTATAAAACACGAAAGTTTTTTTTTGAAAACAAGAAAAT
1 TTATGAAACACGAGA-TATTTTTTTGAAAACACGGAAAT
* * *
4074637 TT-TCAAAATACGAGA-A--TTTTTGAAAACAGGGGAAAT
1 TTAT-GAAACACGAGATATTTTTTTGAAAACA-CGGAAAT
*
4074673 TTTTGAAA
1 TTATGAAA
4074681 ACATGAAAAT
Statistics
Matches: 123, Mismatches: 23, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
35 14 0.11
36 19 0.15
37 47 0.38
38 12 0.10
39 31 0.25
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (38 bp):
TTATGAAACACGAGATATTTTTTTGAAAACACGGAAAT
Found at i:4074568 original size:18 final size:18
Alignment explanation
Indices: 4074542--4075033 Score: 235
Period size: 17 Copynumber: 27.2 Consensus size: 18
4074532 CAAGGTCAAT
4074542 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
4074560 TTTTCGAAAGACGA-GAATT
1 TTTTTGAAA-AC-ACGAAAA
* *
4074579 TTTTTGAAAACACGGAGA
1 TTTTTGAAAACACGAAAA
* *
4074597 TTTAT-AAAACACGAAAGTTTT
1 TTTTTGAAAACACGAAA----A
*
4074618 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACGAAAA
* * *
4074636 -TTTTCAAAATACGAGAA
1 TTTTTGAAAACACGAAAA
* *
4074653 TTTTTGAAAACAGGGGAAA
1 TTTTTGAAAACA-CGAAAA
*
4074672 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
4074690 TTTTT-AAAACACTAGAA
1 TTTTTGAAAACACGAAAA
* *
4074707 -TTTTGAAAACAAGAAGA
1 TTTTTGAAAACACGAAAA
* * *
4074724 TTTTT-TAAACATGAGAA
1 TTTTTGAAAACACGAAAA
* *
4074741 TTTTTGAAAACACGAGGAT
1 TTTTTGAAAACACGA-AAA
*
4074760 TTTTTGAAATACA--AACA
1 TTTTTGAAA-ACACGAAAA
* *
4074777 TTTTAG-AAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
4074794 TTTTT-AAAACATGACAAT
1 TTTTTGAAAACACGA-AAA
4074812 TTTTTG-AAACACGAGAAATTTA
1 TTTTTGAAAACAC--GAAA---A
* **
4074834 TTTTTTAAAACATAAAAA
1 TTTTTGAAAACACGAAAA
* *
4074852 ATTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
4074869 TTTGTG-AAACTCGAGAA
1 TTTTTGAAAACACGAAAA
* * **
4074886 TTGTTGAAAAAAATAAAAA
1 TTTTTG-AAAACACGAAAA
* *
4074905 ATTTTGAAAATACG-AAA
1 TTTTTGAAAACACGAAAA
**
4074922 TTTTTTTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * * *
4074940 TTTTAG-AAATATGGAAA
1 TTTTTGAAAACACGAAAA
4074957 TTTTTAGAAAACACGAAAA
1 TTTTT-GAAAACACGAAAA
* *
4074976 ATTTTGAAAA-A-TAAAA
1 TTTTTGAAAACACGAAAA
*
4074992 TTTTTTGAAAACACGAGAA
1 -TTTTTGAAAACACGAAAA
4075011 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
4075030 TTTT
1 TTTT
4075034 CTGATTTTTC
Statistics
Matches: 349, Mismatches: 89, Indels: 71
0.69 0.17 0.14
Matches are distributed among these distances:
15 3 0.01
16 10 0.03
17 134 0.38
18 96 0.28
19 73 0.21
20 6 0.02
21 7 0.02
22 15 0.04
23 5 0.01
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:4074582 original size:37 final size:37
Alignment explanation
Indices: 4074541--4074871 Score: 133
Period size: 35 Copynumber: 9.1 Consensus size: 37
4074531 ACAAGGTCAA
* *
4074541 TTTTTTGAAAACACGAAAATTTTCGAAAGACGAGAAT
1 TTTTTTGAAAACACGAAAATTTTCAAAACACGAGAAT
* *
4074578 TTTTTTGAAAACACGGAGATTTAT-AAAACACGA-AAGTTT
1 TTTTTTGAAAACACGAAAATTT-TCAAAACACGAGAA---T
* *
4074617 TTTTTTGAAAACAAGAAAATTTTCAAAATACGAGAA-
1 TTTTTTGAAAACACGAAAATTTTCAAAACACGAGAAT
* * * *
4074653 -TTTTTGAAAACAGGGGAAATTTTTGAAAACATGA-AA-
1 TTTTTTGAAAACA--CGAAAATTTTCAAAACACGAGAAT
* * * * *
4074689 ATTTTT-AAAACACTAGAATTTTGAAAACA--AGAAGA
1 TTTTTTGAAAACACGAAAATTTTCAAAACACGAGAA-T
* * * *
4074724 TTTTTT--AAACATGAGAATTTTTGAAAACACGAGGA-
1 TTTTTTGAAAACACGA-AAATTTTCAAAACACGAGAAT
* *
4074759 TTTTTTGAAATACA--AACATTTT-AGAAACATGA-AA-
1 TTTTTTGAAA-ACACGAAAATTTTCA-AAACACGAGAAT
* * * **
4074793 ATTTTT-AAAACATGACAATTTTTTGAAACACGAGAAATT
1 TTTTTTGAAAACACGA-AAATTTTCAAAACACGAG-AA-T
* **
4074832 TATTTTTTAAAACATAAAAAATTTT-AAAACACGAGAAT
1 T-TTTTTGAAAACA-CGAAAATTTTCAAAACACGAGAAT
4074870 TT
1 TT
4074872 GTGAAACTCG
Statistics
Matches: 227, Mismatches: 37, Indels: 60
0.70 0.11 0.19
Matches are distributed among these distances:
32 4 0.02
33 5 0.02
34 27 0.12
35 59 0.26
36 11 0.05
37 55 0.24
38 7 0.03
39 30 0.13
40 16 0.07
41 12 0.05
42 1 0.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (37 bp):
TTTTTTGAAAACACGAAAATTTTCAAAACACGAGAAT
Found at i:4074682 original size:76 final size:75
Alignment explanation
Indices: 4074541--4074694 Score: 202
Period size: 76 Copynumber: 2.0 Consensus size: 75
4074531 ACAAGGTCAA
* * *
4074541 TTTTTTGAAAACACGAAAATTTTCGAAAGACGAGAATTTTTTTGAAAACACGGAGATTTATAAAA
1 TTTTTTGAAAACAAGAAAATTTTCAAAAGACGAGAA-TTTTTTGAAAACACGGAAATTTATAAAA
*
4074606 CACGAAAGTTT
65 CACGAAAATTT
* * *
4074617 TTTTTTGAAAACAAGAAAATTTTCAAAATACGAGAA-TTTTTGAAAACAGGGGAAATTTTTGAAA
1 TTTTTTGAAAACAAGAAAATTTTCAAAAGACGAGAATTTTTTGAAAACA-CGGAAATTTAT-AAA
*
4074681 ACATGAAAATTT
64 ACACGAAAATTT
4074693 TT
1 TT
4074695 AAAACACTAG
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
74 12 0.18
75 8 0.12
76 48 0.71
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (75 bp):
TTTTTTGAAAACAAGAAAATTTTCAAAAGACGAGAATTTTTTGAAAACACGGAAATTTATAAAAC
ACGAAAATTT
Found at i:4074821 original size:35 final size:35
Alignment explanation
Indices: 4074618--4075022 Score: 156
Period size: 35 Copynumber: 11.3 Consensus size: 35
4074608 CGAAAGTTTT
* * * * *
4074618 TTTTTGAAAACAAGA-AAATTTTCAAAATACGAGAA
1 TTTTT-AAAACATGACAATTTTTGAAAACACGAAAA
* *
4074653 TTTTTGAAAACAGGGGA-AATTTTTGAAAACATGAAAA
1 TTTTT-AAAACA--TGACAATTTTTGAAAACACGAAAA
* * *
4074690 TTTTTAAAACACT-AGAA-TTTTGAAAACAAGAAGA
1 TTTTTAAAACA-TGACAATTTTTGAAAACACGAAAA
* * * *
4074724 TTTTTTAAACATGAGAATTTTTGAAAACACGAGGAT
1 TTTTTAAAACATGACAATTTTTGAAAACACGA-AAA
* * *
4074760 TTTTTGAAATACA-AAC-ATTTTAG-AAACATGAAAA
1 TTTTT-AAA-ACATGACAATTTTTGAAAACACGAAAA
4074794 TTTTTAAAACATGACAATTTTTTG-AAACACGAGAAATTTA
1 TTTTTAAAACATGACAA-TTTTTGAAAACAC--GAAA---A
* * * *
4074834 TTTTTTAAAACATAAAAAATTTT-AAAACACGAGAA
1 -TTTTTAAAACATGACAATTTTTGAAAACACGAAAA
* * * * * **
4074869 TTTGTGAAAC-TCGAGAATTGTTGAAAAAAATAAAAAA
1 TTTTTAAAACAT-GACAATTTTTG-AAAACA-CGAAAA
* * * **
4074906 TTTTGAAAATACGA-AATTTTTTTAAACACGAAAA
1 TTTTTAAAACATGACAATTTTTGAAAACACGAAAA
*
4074940 -TTTTAGAAATATGGA-AATTTTTAGAAAACACGAAAAA
1 TTTTTA-AAACAT-GACAATTTTT-GAAAACACG-AAAA
* * *
4074977 TTTTGAAAA-AT-AAAATTTTTTGAAAACACGAGAA
1 TTTTTAAAACATGACAA-TTTTTGAAAACACGAAAA
4075011 TTTTTGAAAACA
1 TTTTT-AAAACA
4075023 CGAAAAATTT
Statistics
Matches: 281, Mismatches: 57, Indels: 63
0.70 0.14 0.16
Matches are distributed among these distances:
32 3 0.01
33 11 0.04
34 68 0.24
35 73 0.26
36 43 0.15
37 47 0.17
38 10 0.04
40 11 0.04
41 15 0.05
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (35 bp):
TTTTTAAAACATGACAATTTTTGAAAACACGAAAA
Found at i:4075178 original size:21 final size:22
Alignment explanation
Indices: 4075138--4075180 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4075128 CGTTACCTTA
*
4075138 TTTTTGAAAACATGAGAAATTT
1 TTTTTGAAAACACGAGAAATTT
*
4075160 TTTTTGAAGACACGA-AAATTT
1 TTTTTGAAAACACGAGAAATTT
4075181 CGAAACGCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (22 bp):
TTTTTGAAAACACGAGAAATTT
Found at i:4075374 original size:6 final size:5
Alignment explanation
Indices: 4075347--4075409 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
4075337 TAAAAGTATT
* * *
4075347 TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAAA TTAAAT TAAAT TAAAT
1 TAAAA TAAAA TAAAA TAAAA T-AAAA T-AAAA -TAAAA TAAAA TAAAA
* *
4075395 TAAAT TAAAT TAAAA
1 TAAAA TAAAA TAAAA
4075410 ATATAAATGC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
5 40 0.74
6 13 0.24
7 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (5 bp):
TAAAA
Found at i:4075384 original size:22 final size:22
Alignment explanation
Indices: 4075348--4075398 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
4075338 AAAAGTATTT
4075348 AAAAT-AAAATAAAATAAAATA
1 AAAATAAAAATAAAATAAAATA
* * *
4075369 AAAATAAAAATTAAATTAAATT
1 AAAATAAAAATAAAATAAAATA
*
4075391 AAATTAAA
1 AAAATAAA
4075399 TTAAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAATAAAAATAAAATAAAATA
Found at i:4075598 original size:17 final size:16
Alignment explanation
Indices: 4075560--4075601 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
4075550 TGAACCCCTT
4075560 TTTTTCTTGTTTTTTC
1 TTTTTCTTGTTTTTTC
4075576 TCTTTTCTT-TTTTTCTCC
1 T-TTTTCTTGTTTTT-T-C
4075594 TTTTTCTT
1 TTTTTCTT
4075602 CCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 15 0.65
18 2 0.09
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTTCTTGTTTTTTC
Found at i:4075896 original size:3 final size:3
Alignment explanation
Indices: 4075890--4075948 Score: 73
Period size: 3 Copynumber: 18.0 Consensus size: 3
4075880 TTTCTTTTTT
4075890 TTC TTC TTTC TTC TTC TCTC TTTC TTTC TTC TTC TTC TTC TTCC TTC
1 TTC TTC -TTC TTC TTC T-TC -TTC -TTC TTC TTC TTC TTC TT-C TTC
4075937 TTC TTC TTC TTC
1 TTC TTC TTC TTC
4075949 AAAATCGAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
3 37 0.71
4 14 0.27
5 1 0.02
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:4075901 original size:16 final size:16
Alignment explanation
Indices: 4075880--4075947 Score: 91
Period size: 16 Copynumber: 4.1 Consensus size: 16
4075870 TTAAATTTTT
* *
4075880 TTTCTTTTTTTTCTTC
1 TTTCTTCTTCTTCTTC
4075896 TTTCTTCTTCTCTCTTTC
1 TTTCTTCTTCT-TC-TTC
4075914 TTTCTTCTTCTTCTTC
1 TTTCTTCTTCTTCTTC
*
4075930 TTCCTTCTTCTTCTTC
1 TTTCTTCTTCTTCTTC
4075946 TT
1 TT
4075948 CAAAATCGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
16 29 0.62
17 4 0.09
18 14 0.30
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTCTTCTTCTTCTTC
Found at i:4075928 original size:34 final size:33
Alignment explanation
Indices: 4075880--4075944 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
4075870 TTAAATTTTT
* * *
4075880 TTTCTTTTTTTTCTTCTTTCTTCTTCTCTCTTTC
1 TTTCTTCTTCTTCTTCTTCCTTCTTCT-TCTTTC
4075914 TTTCTTCTTCTTCTTCTTCCTTCTTCTTCTT
1 TTTCTTCTTCTTCTTCTTCCTTCTTCTTCTT
4075945 CTTCAAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 24 0.86
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (33 bp):
TTTCTTCTTCTTCTTCTTCCTTCTTCTTCTTTC
Found at i:4076340 original size:29 final size:29
Alignment explanation
Indices: 4076307--4076423 Score: 103
Period size: 30 Copynumber: 3.9 Consensus size: 29
4076297 TGTAATTTTT
*
4076307 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* *
4076336 TGAAAGTTTAGGGGTCT-AAATGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
4076366 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
4076395 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
4076424 TTATTTTTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
29 14 0.19
30 58 0.78
31 2 0.03
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:4076359 original size:30 final size:30
Alignment explanation
Indices: 4076322--4076423 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
4076312 ATTTAGGATT
*
4076322 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
4076352 TAAATGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
4076382 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
4076412 AAAATGCAATTT
1 AAAATGAAATTT
4076424 TTATTTTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
29 2 0.03
30 62 0.97
ACGTcount: A:0.45, C:0.04, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:4076402 original size:60 final size:59
Alignment explanation
Indices: 4076288--4076423 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 59
4076278 CAAAACTTCT
* ** * *
4076288 GGGG-CTAAATGTAATTTTTAGAAAATTTAGGATTAAAATGAAATTTAATGAAAGTTTA
1 GGGGTCTAAATGAAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTA
* *
4076346 GGGGTCTAAATGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTA
1 GGGGTCTAAATGAAATTTAAAGAAAATTT-AGGATCAAAATGAAATTTAAGG-AAAGTTTA
* *
4076406 GGGGTCAAAATGCAATTT
1 GGGGTCTAAATGAAATTT
4076424 TTATTTTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 4 0.06
59 22 0.33
60 40 0.61
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.32
Consensus pattern (59 bp):
GGGGTCTAAATGAAATTTAAAGAAAATTTAGGATCAAAATGAAATTTAAGGAAAGTTTA
Done.