Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 109 of 325
Found at i:34793230 original size:28 final size:28
Alignment explanation
Indices: 34793199--34793260 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
34793189 TTTCATTTAA
34793199 ATTTCAA-TTCTATTTAATTTGAATTTCT
1 ATTTCAATTTC-ATTTAATTTGAATTTCT
* * **
34793227 ATTTCTATTTCATTTCATTTTCATTTCT
1 ATTTCAATTTCATTTAATTTGAATTTCT
34793255 ATTTCA
1 ATTTCA
34793261 TTTAAATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.24, C:0.15, G:0.02, T:0.60
Consensus pattern (28 bp):
ATTTCAATTTCATTTAATTTGAATTTCT
Found at i:34793309 original size:49 final size:48
Alignment explanation
Indices: 34793250--34793386 Score: 169
Period size: 48 Copynumber: 2.9 Consensus size: 48
34793240 TTCATTTTCA
34793250 TTTCT-ATTTCATTTAAATTATATTTTTCTCCATTTAAATTTAATTTTT
1 TTTCTCATTTCATTTAAATTATATTTTTCTCCATTTAAATTTAA-TTTT
* * *
34793298 TTTCTCATTTCATTT-AGTT-TATCTATCTTCCTATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATATTTTTC-TCC-ATTTAAATTTAATTTT
*
34793346 TTTCTCATTTCATTTATATTAT-TTTTT-T-CATTTAAATTTAA
1 TTTCTCATTTCATTTAAATTATATTTTTCTCCATTTAAATTTAA
34793387 ATTATCTATC
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
45 12 0.16
46 1 0.01
47 7 0.09
48 30 0.39
49 26 0.34
50 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.62
Consensus pattern (48 bp):
TTTCTCATTTCATTTAAATTATATTTTTCTCCATTTAAATTTAATTTT
Found at i:34793359 original size:164 final size:162
Alignment explanation
Indices: 34793178--34793531 Score: 391
Period size: 164 Copynumber: 2.2 Consensus size: 162
34793168 GTCATGTCAC
* **
34793178 TTTTTTTT-TCATTTCATTTAAATTTCAATTCTATTTAATTTGAATTTCTATT-TCTAT-TT-CA
1 TTTTTTTTCTCATTTCATTTAAA-TT--ATT-TATTTAATTTAAATTTAAATTATCTATCTTCCA
* * * *
34793239 TTTCATTTTCATTTCTATTT-CATTTAAATTATAT-TTTTCTCCATTTAAATTTAATTTTTTTTC
62 TTTCAATTTAATTT-T-TTTACATTTAAATTATATATTTT-TCCATTTAAATTTAA-TATTTTCC
**
34793302 TCATTTCATTTAGTTTATCTATCTTC-CTATTTAAATTTAA
123 TCATTTCATTTAAATTATCTATCTTCTC-ATTTAAATTTAA
* * *
34793342 -TTTTTTTCTCATTTCATTTATATTATTTTTTTCATTTAAATTTAAATTATCTATCTTCCCATTT
1 TTTTTTTTCTCATTTCATTTAAATTATTTATTTAATTTAAATTTAAATTATCTATCTT-CCATTT
* * *
34793406 TAATTTAATTTTTTTCACATTTAATTTATATATTTTTTCATTTAAATTTAATATTTTCCTCATTT
65 CAATTTAATTTTTTT-ACATTTAAATTATATATTTTTCCATTTAAATTTAATATTTTCCTCATTT
* *
34793471 CATTTAAATTATCTTTCTTTTCATTTAAATTTAA
129 CATTTAAATTATCTATCTTCTCATTTAAATTTAA
*
34793505 TTTTTTTTCTCATTTCATTTAATTTAT
1 TTTTTTTTCTCATTTCATTTAAATTAT
34793532 CTATCTTCCC
Statistics
Matches: 161, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
160 16 0.10
161 8 0.05
162 5 0.03
163 50 0.31
164 78 0.48
165 4 0.02
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.62
Consensus pattern (162 bp):
TTTTTTTTCTCATTTCATTTAAATTATTTATTTAATTTAAATTTAAATTATCTATCTTCCATTTC
AATTTAATTTTTTTACATTTAAATTATATATTTTTCCATTTAAATTTAATATTTTCCTCATTTCA
TTTAAATTATCTATCTTCTCATTTAAATTTAA
Found at i:34793377 original size:115 final size:113
Alignment explanation
Indices: 34793208--34793529 Score: 309
Period size: 115 Copynumber: 2.8 Consensus size: 113
34793198 AATTTCAATT
*
34793208 CTATTT-AATTTGAATTTCTATTTCT-ATTTCATTTCATTTTCATTTCTATTTCATTTAAATTAT
1 CTATTTAAATTT-AATTT-T-TTTCTCATTTCATTT-ATATT-ATTTCT-TTTCATTTAAATTAT
* * *
34793271 ATTTTTC-T-CCATTTAAATTTAATTTTTTTTCTCATTTCATTTAGTTTATCTATCTTC
60 ATTTTTCTTCCCATTTAAATTTAA-TTTTTTTCACATTTAATTTA-TATAT-T-T-TTC
*
34793328 CTATTTAAATTTAATTTTTTTCTCATTTCATTTATATTATTT-TTTTCATTTAAATTTAAATTAT
1 CTATTTAAATTTAATTTTTTTCTCATTTCATTTATATTATTTCTTTTCATTTAAA-TTATATT-T
* *
34793392 CTATCTTCCCATTTTAATTTAATTTTTTTCACATTTAATTTATATATTTTTT
64 -T-TCTTCCCATTTAAATTTAATTTTTTTCACATTTAATTTATATATTTTTC
* * *
34793444 C-ATTTAAATTTAATATTTTCCTCATTTCATTTAAATTATCTTTCTTTTCATTTAAATT-TAATT
1 CTATTTAAATTTAATTTTTTTCTCATTTCATTTATATTA--TTTCTTTTCATTTAAATTAT-ATT
* * *
34793507 TTTTTTCTCATTT-CATTTAATTT
63 TTTCTTCCCATTTAAATTTAATTT
34793530 ATCTATCTTC
Statistics
Matches: 176, Mismatches: 14, Indels: 31
0.80 0.06 0.14
Matches are distributed among these distances:
113 9 0.05
114 9 0.05
115 46 0.26
116 11 0.06
117 14 0.08
118 23 0.13
119 16 0.09
120 30 0.17
121 18 0.10
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.61
Consensus pattern (113 bp):
CTATTTAAATTTAATTTTTTTCTCATTTCATTTATATTATTTCTTTTCATTTAAATTATATTTTT
CTTCCCATTTAAATTTAATTTTTTTCACATTTAATTTATATATTTTTC
Found at i:34793456 original size:48 final size:48
Alignment explanation
Indices: 34793404--34793577 Score: 119
Period size: 48 Copynumber: 3.6 Consensus size: 48
34793394 ATCTTCCCAT
** *
34793404 TTTAATTTAATTTTTTTCA-CATTTAATTTATATATT-TTTTCATTTAAA
1 TTTAATTT-ATTTTCCTCATCATTTAAATTATAT-TTCTTTTCATTTAAA
*
34793452 TTTAA--TATTTTCCTCATTTCATTTAAATTATCTTTCTTTTCATTTAAA
1 TTTAATTTATTTTCCTCA--TCATTTAAATTATATTTCTTTTCATTTAAA
* * * * ** * *
34793500 TTTAATTT-TTTTTCTCATTTCATTTAATTTATCTATCTTCCCTTTTTAA
1 TTTAATTTATTTTCCTCA--TCATTTAAATTATATTTCTTTTCATTTAAA
34793549 TTTAATTT-TTTT-CTCATTTCATTTAAATT
1 TTTAATTTATTTTCCTCA--TCATTTAAATT
34793578 TAATTTTTTT
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
45 8 0.07
46 1 0.01
47 2 0.02
48 50 0.46
49 46 0.43
50 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.62
Consensus pattern (48 bp):
TTTAATTTATTTTCCTCATCATTTAAATTATATTTCTTTTCATTTAAA
Found at i:34793522 original size:28 final size:28
Alignment explanation
Indices: 34793489--34793605 Score: 133
Period size: 28 Copynumber: 4.5 Consensus size: 28
34793479 TTATCTTTCT
34793489 TTTCATTTAAATTTAATTTTTTTTCTCA
1 TTTCATTTAAATTTAATTTTTTTTCTCA
* * *
34793517 TTTCATTT-AATTT-ATCTATCTTC-C-
1 TTTCATTTAAATTTAATTTTTTTTCTCA
*
34793541 CTT--TTT-AATTTAA-TTTTTTTCTCA
1 TTTCATTTAAATTTAATTTTTTTTCTCA
*
34793565 TTTCATTTAAATTTAATTTTTTTTCTCT
1 TTTCATTTAAATTTAATTTTTTTTCTCA
34793593 TTTCATTTAAATT
1 TTTCATTTAAATT
34793606 ATCTTTCTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
22 13 0.18
23 2 0.03
24 4 0.05
25 1 0.01
26 10 0.14
27 12 0.16
28 31 0.42
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTCATTTAAATTTAATTTTTTTTCTCA
Found at i:34793525 original size:22 final size:22
Alignment explanation
Indices: 34793178--34793602 Score: 188
Period size: 22 Copynumber: 18.0 Consensus size: 22
34793168 GTCATGTCAC
*
34793178 TTTTTTTT-TCATTTCATTTAAA
1 TTTTTTTTCTCATTTAATTT-AA
***
34793200 TTTCAATTCT-ATTTAATTTGAA
1 TTTTTTTTCTCATTTAATTT-AA
* * *
34793222 TTTCTATTTCT-ATTTCATTTCA
1 TTT-TTTTTCTCATTTAATTTAA
* *
34793244 TTTTCATTTCT-ATTTCATTTAAA
1 TTTT-TTTTCTCATTTAATTT-AA
34793267 TTATATTTTTCTCCATTTAAATTTAA
1 TT-T-TTTTTCT-CATTT-AATTTAA
* *
34793293 TTTTTTTTCTCATTTCATTTAG
1 TTTTTTTTCTCATTTAATTTAA
34793315 TTTATCTATCTTC-CTATTTAAATTTAA
1 TTT-T-T-T-TTCTC-ATTT-AATTTAA
*
34793342 -TTTTTTTCTCATTTCATTTATA
1 TTTTTTTTCTCATTTAATTTA-A
34793364 TTATTTTTT-TCATTTAAATTTAAA
1 TT-TTTTTTCTCATTT-AATTT-AA
* *
34793388 TTATCTATCTTCCCATTTTAATTTAA
1 TT-T-T-TTTTCTCA-TTTAATTTAA
*
34793414 -TTTTTTTCACATTTAATTT-A
1 TTTTTTTTCTCATTTAATTTAA
*
34793434 TATATTTTT-TCATTTAAATTTAA
1 T-TTTTTTTCTCATTT-AATTTAA
* * *
34793457 -TATTTTCCTCATTTCATTTAAA
1 TTTTTTTTCTCATTTAATTT-AA
*
34793479 TTATCTTTCTTTTCATTTAAATTTAA
1 TT-T-TTT-TTCTCATTT-AATTTAA
*
34793505 TTTTTTTTCTCATTTCATTTAA
1 TTTTTTTTCTCATTTAATTTAA
* *
34793527 TTTATCTATCTTCCCTTTTTAATTTAA
1 TTT-T-T-T-TTCTC-ATTTAATTTAA
34793554 TTTTTTTCTCATTTCATTTAAATTTAA
1 TTTTTTT-TC---TCATTT-AATTTAA
* *
34793581 TTTTTTTTCTCTTTTCATTTAA
1 TTTTTTTTCTCATTTAATTTAA
34793603 ATTATCTTTC
Statistics
Matches: 318, Mismatches: 39, Indels: 92
0.71 0.09 0.20
Matches are distributed among these distances:
20 1 0.00
21 29 0.09
22 93 0.29
23 50 0.16
24 38 0.12
25 14 0.04
26 43 0.14
27 47 0.15
28 3 0.01
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTTTCTCATTTAATTTAA
Found at i:34793528 original size:27 final size:27
Alignment explanation
Indices: 34793441--34793602 Score: 125
Period size: 28 Copynumber: 6.4 Consensus size: 27
34793431 TTATATATTT
* *
34793441 TTTCATTTAAATTTAA-TATTTTCCTCA
1 TTTCATTT-AATTTAATTTTTTTTCTCA
* *
34793468 TTTCATTT-A---AATTATCTTTCT--
1 TTTCATTTAATTTAATTTTTTTTCTCA
34793489 TTTCATTTAAATTTAATTTTTTTTCTCA
1 TTTCATTT-AATTTAATTTTTTTTCTCA
* * *
34793517 TTTCATTTAATTT-ATCTATCTTC-C-
1 TTTCATTTAATTTAATTTTTTTTCTCA
*
34793541 CTT--TTTAATTTAA-TTTTTTTCTCA
1 TTTCATTTAATTTAATTTTTTTTCTCA
*
34793565 TTTCATTTAAATTTAATTTTTTTTCTCT
1 TTTCATTT-AATTTAATTTTTTTTCTCA
34793593 TTTCATTTAA
1 TTTCATTTAA
34793603 ATTATCTTTC
Statistics
Matches: 107, Mismatches: 13, Indels: 30
0.71 0.09 0.20
Matches are distributed among these distances:
21 8 0.07
22 15 0.14
23 10 0.09
24 4 0.04
25 2 0.02
26 20 0.19
27 22 0.21
28 26 0.24
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (27 bp):
TTTCATTTAATTTAATTTTTTTTCTCA
Found at i:34793532 original size:49 final size:48
Alignment explanation
Indices: 34793423--34793579 Score: 199
Period size: 48 Copynumber: 3.2 Consensus size: 48
34793413 ATTTTTTTCA
* * *
34793423 CATTTAATTTATATATT-TTTTCATTTAAATTTAATATTTTCCTCATTT
1 CATTTAATTTATCT-TTCTTTTCATTTAAATTTAATTTTTTTCTCATTT
*
34793471 CATTTAAATTATCTTTCTTTTCATTTAAATTTAATTTTTTTTCTCATTT
1 CATTTAATTTATCTTTCTTTTCATTTAAATTTAA-TTTTTTTCTCATTT
* ** * *
34793520 CATTTAATTTATCTATCTTCCCTTTTTAATTTAATTTTTTTCTCATTT
1 CATTTAATTTATCTTTCTTTTCATTTAAATTTAATTTTTTTCTCATTT
34793568 CATTTAAATTTA
1 CATTT-AATTTA
34793580 ATTTTTTTTC
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
47 2 0.02
48 48 0.50
49 46 0.48
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (48 bp):
CATTTAATTTATCTTTCTTTTCATTTAAATTTAATTTTTTTCTCATTT
Found at i:34793569 original size:76 final size:77
Alignment explanation
Indices: 34793489--34793636 Score: 244
Period size: 76 Copynumber: 1.9 Consensus size: 77
34793479 TTATCTTTCT
* *
34793489 TTTCATTTAAATTTAATTTTTTTTCTCATTTCATTTAATTTATCTATCTTCCCTTTTTAATTTA-
1 TTTCATTTAAATTTAATTTTTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTAATTTAC
34793553 ATTTTTTTCTCA
66 ATTTTTTTCTCA
* * *
34793565 TTTCATTTAAATTTAATTTTTTTTCTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAC
1 TTTCATTTAAATTTAATTTTTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTAATTTAC
34793630 ATTTTTT
66 ATTTTTT
34793637 CATATTAATT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
76 59 0.89
77 7 0.11
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (77 bp):
TTTCATTTAAATTTAATTTTTTTTCTCATTTCATTTAAATTATCTATCTTCCCATTTTAATTTAC
ATTTTTTTCTCA
Found at i:34793601 original size:49 final size:49
Alignment explanation
Indices: 34793280--34793636 Score: 201
Period size: 49 Copynumber: 7.4 Consensus size: 49
34793270 TATTTTTCTC
* * * * * * *
34793280 CATTTAAATTTAATTTTTTTTCTCATTTCATTTAGTTTATCTATC-TTC
1 CATTTAAATTTAATTTTTTTTCTCTTTTAATTTAATTTTTTTCTCATTT
* * *
34793328 CTATTTAAATTTAA-TTTTTTTCTCATTTCATTTATATTATTTTTTTCATTT
1 C-ATTTAAATTTAATTTTTTTTCTCTTTTAATTTA-ATT-TTTTTCTCATTT
* * * * *
34793379 AAATTTAAA-TT-ATCTATCTTCCCATTTTAATTTAA-TTTTTT-TCA---
1 -CATTTAAATTTAATTTTTTTTCTC-TTTTAATTTAATTTTTTTCTCATTT
* * * * *
34793423 CATTT-AATTTATATATTTTTTC-ATTTAAATTTAATATTTTCCTCATTT
1 CATTTAAATTTA-ATTTTTTTTCTCTTTTAATTTAATTTTTTTCTCATTT
* *
34793471 CATTTAAA-TT-ATCTTTCTTTTC-ATTTAAATTTAATTTTTTTTCTCATTT
1 CATTTAAATTTAAT-TTT-TTTTCTCTTTTAATTTAA-TTTTTTTCTCATTT
* * * *
34793520 CATTT-AATTT-ATCTATCTTCCCTTTTTAATTTAATTTTTTTCTCATTT
1 CATTTAAATTTAATTTTTTTTCTC-TTTTAATTTAATTTTTTTCTCATTT
* * *
34793568 CATTTAAATTTAATTTTTTTTCTCTTTTCATTTAAATTATCTTTCT--TTC
1 CATTTAAATTTAATTTTTTTTCTCTTTTAATTT-AATT-TTTTTCTCATTT
*
34793617 CATTTTAATTTACATTTTTT
1 CATTTAAATTTA-ATTTTTT
34793637 CATATTAATT
Statistics
Matches: 246, Mismatches: 36, Indels: 52
0.74 0.11 0.16
Matches are distributed among these distances:
42 2 0.01
43 16 0.07
44 4 0.02
45 10 0.04
46 2 0.01
47 9 0.04
48 72 0.29
49 75 0.30
50 33 0.13
51 23 0.09
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (49 bp):
CATTTAAATTTAATTTTTTTTCTCTTTTAATTTAATTTTTTTCTCATTT
Found at i:34793627 original size:27 final size:26
Alignment explanation
Indices: 34793330--34793637 Score: 102
Period size: 27 Copynumber: 12.6 Consensus size: 26
34793320 CTATCTTCCT
*
34793330 ATTTAAATTTAATTTT-TTTCTCA-TTTC
1 ATTTAAA-TT-ATTTTCTTTC-CATTTTA
* *
34793357 ATTTATATTATTTT-TTT-CATTTAA
1 ATTTAAATTATTTTCTTTCCATTTTA
* *
34793381 ATTTAAATTATCTATCTTCCCATTTTA
1 ATTTAAATTAT-TTTCTTTCCATTTTA
34793408 ATTT--A--ATTTT-TTTCACA-TTTA
1 ATTTAAATTATTTTCTTTC-CATTTTA
* *
34793429 ATTTATA-TA-TTT-TTT-CATTTAA
1 ATTTAAATTATTTTCTTTCCATTTTA
* *
34793451 ATTT-AA-TATTTTC-CT-CA-TTTC
1 ATTTAAATTATTTTCTTTCCATTTTA
* *
34793472 ATTTAAATTATCTTTCTTTTCATTTAA
1 ATTTAAATTAT-TTTCTTTCCATTTTA
*
34793499 ATTT-AA-T-TTTT-TTTCTCA-TTTC
1 ATTTAAATTATTTTCTTTC-CATTTTA
* * * *
34793521 ATTTAATTTATCTATCTTCCCTTTTTA
1 ATTTAAATTAT-TTTCTTTCCATTTTA
* *
34793548 ATTT-AATT-TTTT-TCT-CA-TTTC
1 ATTTAAATTATTTTCTTTCCATTTTA
* *
34793569 ATTTAAATTTAATTTTTTTTCTC-TTTTC
1 ATTTAAA-TT-ATTTTCTTTC-CATTTTA
34793597 ATTTAAATTATCTTTCTTTCCATTTTA
1 ATTTAAATTAT-TTTCTTTCCATTTTA
*
34793624 ATTTACATT-TTTTC
1 ATTTAAATTATTTTC
34793638 ATATTAATTT
Statistics
Matches: 212, Mismatches: 35, Indels: 70
0.67 0.11 0.22
Matches are distributed among these distances:
21 29 0.14
22 31 0.15
23 23 0.11
24 21 0.10
25 23 0.11
26 20 0.09
27 53 0.25
28 12 0.06
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTAAATTATTTTCTTTCCATTTTA
Found at i:34796804 original size:7 final size:7
Alignment explanation
Indices: 34796792--34796825 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
34796782 TGTCATCCAT
34796792 CCTAAAC
1 CCTAAAC
34796799 CCTAAAC
1 CCTAAAC
*
34796806 CCTAAAT
1 CCTAAAC
*
34796813 CTTAAAC
1 CCTAAAC
34796820 CCTAAA
1 CCTAAA
34796826 ACCTGATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:34804882 original size:104 final size:104
Alignment explanation
Indices: 34804702--34804968 Score: 437
Period size: 104 Copynumber: 2.6 Consensus size: 104
34804692 TGTATATAAA
** * * *
34804702 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
34804766 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
34804806 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
34804871 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * *
34804910 AGGGGTTGCTAAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
34804969 ATAACGGTTA
Statistics
Matches: 152, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
104 151 0.99
105 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:34812269 original size:26 final size:26
Alignment explanation
Indices: 34812240--34812289 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
34812230 GAAATGTGAA
*
34812240 AGGGGTGCTATGTGCTGATTCCCCCG
1 AGGGGTGCTAAGTGCTGATTCCCCCG
34812266 AGGGGTGCTAAGTGCTGATTCCCC
1 AGGGGTGCTAAGTGCTGATTCCCC
34812290 GGTTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.26, G:0.34, T:0.26
Consensus pattern (26 bp):
AGGGGTGCTAAGTGCTGATTCCCCCG
Found at i:34812367 original size:101 final size:102
Alignment explanation
Indices: 34812170--34812424 Score: 355
Period size: 101 Copynumber: 2.5 Consensus size: 102
34812160 GTATATAAAA
* * * *
34812170 GGGTTGCTGTGTGCTGATT-CCCGATTTAG-GGTGGTGCTATGTGCG-TAT-CACC-TATCTCTT
1 GGGTTGCT-AGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGATATCCACCATATCTCTT
34812230 GAAATGTGAAAGGGGTGCTATGTGCTGATTCCCCCGAG
65 GAAATGTGAAAGGGGTGCTATGTGCTGATTCCCCCGAG
* * *
34812268 GGG-TGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT-TT
1 GGGTTGCT-AGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGATATCCACCATATCTCTT
34812331 GAAATGTGAAAGGGGTTGCTATGTGCTGATT-CCCCGAG
65 GAAATGTGAAAGGGG-TGCTATGTGCTGATTCCCCCGAG
*
34812369 GGGTTGCTAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 GGGTTGCTAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGATATCCACCA
34812425 ATAACGGTTA
Statistics
Matches: 140, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
97 13 0.09
98 10 0.07
99 15 0.11
100 3 0.02
101 75 0.54
102 24 0.17
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (102 bp):
GGGTTGCTAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGATATCCACCATATCTCTTG
AAATGTGAAAGGGGTGCTATGTGCTGATTCCCCCGAG
Found at i:34812391 original size:25 final size:26
Alignment explanation
Indices: 34812341--34812392 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
34812331 GAAATGTGAA
*
34812341 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTATGTGATGATTCCCCG
34812367 AGGGGTTGCTA-GTGATGATTCCCCG
1 AGGGGTTGCTATGTGATGATTCCCCG
34812392 A
1 A
34812393 TTCAGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
AGGGGTTGCTATGTGATGATTCCCCG
Found at i:34817500 original size:22 final size:21
Alignment explanation
Indices: 34817457--34817509 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 21
34817447 ATATTACGCA
*
34817457 TATATATATTTATATATTATG
1 TATATATATTTATAAATTATG
*
34817478 TATATATTTTTAATAAATTATG
1 TATATATATTT-ATAAATTATG
34817500 TATATATATT
1 TATATATATT
34817510 ATGTGCGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
TATATATATTTATAAATTATG
Found at i:34817653 original size:24 final size:23
Alignment explanation
Indices: 34817625--34817698 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 23
34817615 ACGTATACGC
*
34817625 TATGTAAATGTTTTAATATTATA
1 TATGTAAATCTTTTAATATTATA
* **
34817648 TCATGTATACATTTTTTATATATTACG
1 T-ATGTA-A-ATCTTTTA-ATATTATA
* *
34817675 TATATATATCTTTTAATATTATA
1 TATGTAAATCTTTTAATATTATA
34817698 T
1 T
34817699 TTTTATTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
23 8 0.21
24 12 0.31
25 1 0.03
26 11 0.28
27 7 0.18
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (23 bp):
TATGTAAATCTTTTAATATTATA
Found at i:34817865 original size:21 final size:22
Alignment explanation
Indices: 34817839--34817880 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
34817829 ATATATATAC
34817839 TTTTTATATAT-AATATTATTT
1 TTTTTATATATCAATATTATTT
*
34817860 TTTTTATATATCATTATTATT
1 TTTTTATATATCAATATTATT
34817881 ATACTTATTG
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:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTATATATCAATATTATTT
Found at i:34827673 original size:74 final size:74
Alignment explanation
Indices: 34827544--34827685 Score: 230
Period size: 74 Copynumber: 1.9 Consensus size: 74
34827534 TGAAATACTG
*
34827544 GATTCTATGCAAAATGCAAAGCAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATGATGA
1 GATTCTATGCAAAATGCAAAACAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATGATGA
34827609 ACAGGGCAT
66 ACAGGGCAT
* * ** *
34827618 GATTCTATTCAATATGCAAAACAGATTGACTATCACAAAATAAATTAATAGCTTTAGGATGATGA
1 GATTCTATGCAAAATGCAAAACAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATGATGA
34827683 ACA
66 ACA
34827686 CCTAAGCTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (74 bp):
GATTCTATGCAAAATGCAAAACAGATTGACTATCACAAAATAAAGGAATAACTTTAGGATGATGA
ACAGGGCAT
Found at i:34827865 original size:42 final size:43
Alignment explanation
Indices: 34827806--34827955 Score: 230
Period size: 43 Copynumber: 3.5 Consensus size: 43
34827796 CGCTATAGGT
*
34827806 CCCACAAACGCCGCTAAAGGTCGGGGCCTTTAGCAGCGC-TTC
1 CCCACAAACGCCGCTAAAGGTCGGGGCCTTTAGCGGCGCTTTC
* * *
34827848 CCCACAAACGCCGCTAAAAGTCAGGGCTTTTAGCGGCGCTTTC
1 CCCACAAACGCCGCTAAAGGTCGGGGCCTTTAGCGGCGCTTTC
* * *
34827891 CCCACAAATGTCGCTAAAGGTCGGGGTCTTTAGCGGCGCTTTC
1 CCCACAAACGCCGCTAAAGGTCGGGGCCTTTAGCGGCGCTTTC
34827934 CCCACAAACGCCGCTAAAGGTC
1 CCCACAAACGCCGCTAAAGGTC
34827956 ATAAAATTTA
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 35 0.37
43 60 0.63
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.19
Consensus pattern (43 bp):
CCCACAAACGCCGCTAAAGGTCGGGGCCTTTAGCGGCGCTTTC
Found at i:34828927 original size:43 final size:43
Alignment explanation
Indices: 34828613--34828905 Score: 480
Period size: 43 Copynumber: 6.8 Consensus size: 43
34828603 TTTATGGGGA
* * *
34828613 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCATTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
*
34828656 AAAACCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
* *
34828699 AAAAGTGCCACTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGAG-
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GT
* *
34828742 AAAAGCGCTGCTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
34828785 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
* *
34828828 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCAGCGTTTGGGGT
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
34828871 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
34828906 CTTTTTTTAC
Statistics
Matches: 233, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
42 1 0.00
43 231 0.99
44 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGT
Found at i:34834965 original size:9 final size:9
Alignment explanation
Indices: 34834951--34835131 Score: 98
Period size: 9 Copynumber: 19.6 Consensus size: 9
34834941 TATTTAAGTA
34834951 TTATGTAAG
1 TTATGTAAG
34834960 TTATGTAAG
1 TTATGTAAG
*
34834969 TTATGATATG
1 TTATG-TAAG
* * *
34834979 ATATAT-AT
1 TTATGTAAG
*
34834987 TTATGTAAA
1 TTATGTAAG
* *
34834996 TTATAT-AT
1 TTATGTAAG
*
34835004 TTATCTAAG
1 TTATGTAAG
34835013 TTATGTAAG
1 TTATGTAAG
*
34835022 TTATGTAAA
1 TTATGTAAG
*
34835031 TTATGATATAAAA
1 TTATG---T-AAG
*
34835044 TATATTTAAG
1 T-TATGTAAG
34835054 TATTATGTAAG
1 --TTATGTAAG
34835065 TTATGTAAG
1 TTATGTAAG
* *
34835074 TTATAT-AT
1 TTATGTAAG
*
34835082 TTATCTAAG
1 TTATGTAAG
*
34835091 TTATATAAG
1 TTATGTAAG
*
34835100 TTATGTACG
1 TTATGTAAG
*
34835109 TTTTGTAAG
1 TTATGTAAG
* *
34835118 TTATATAAA
1 TTATGTAAG
34835127 TTATG
1 TTATG
34835132 ATATCAAATA
Statistics
Matches: 131, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
8 16 0.12
9 90 0.69
10 8 0.06
11 8 0.06
12 2 0.02
13 4 0.03
14 3 0.02
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:34835002 original size:17 final size:17
Alignment explanation
Indices: 34834980--34835039 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
34834970 TATGATATGA
34834980 TATATATTTATGTAAAT
1 TATATATTTATGTAAAT
* *
34834997 TATATATTTATCTAAGT
1 TATATATTTATGTAAAT
* *
34835014 TATGTAAGTTATGTAAAT
1 TATAT-ATTTATGTAAAT
34835032 TATGATAT
1 TAT-ATAT
34835040 AAAATATATT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
17 19 0.58
18 13 0.39
19 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (17 bp):
TATATATTTATGTAAAT
Found at i:34835065 original size:96 final size:96
Alignment explanation
Indices: 34834960--34835162 Score: 291
Period size: 96 Copynumber: 2.1 Consensus size: 96
34834950 ATTATGTAAG
* * *
34834960 TTATGTAAGTTATGATATGATATATATTTATGTAAATTATAT-ATTTATCTAAGTTATGTAAGTT
1 TTATGTAAGTTATG-TAAGATATATATTTATCTAAATTATATAAGTTATCTAAGTTATGTAAGTT
*
34835024 ATGTAAATTATGATATAAAATATATTTAAGTA
65 ATATAAATTATGATATAAAATATATTTAAGTA
* * * * *
34835056 TTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTACGTTTTGTAAGTTA
1 TTATGTAAGTTATGTAAGATATATATTTATCTAAATTATATAAGTTATCTAAGTTATGTAAGTTA
* *
34835121 TATAAATTATGATATCAAATATATTTATGTA
66 TATAAATTATGATATAAAATATATTTAAGTA
34835152 TTATGTAAGTT
1 TTATGTAAGTT
34835163 TTTTATTTCA
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 23 0.24
96 72 0.76
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (96 bp):
TTATGTAAGTTATGTAAGATATATATTTATCTAAATTATATAAGTTATCTAAGTTATGTAAGTTA
TATAAATTATGATATAAAATATATTTAAGTA
Found at i:34835090 original size:17 final size:17
Alignment explanation
Indices: 34835065--34835097 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34835055 ATTATGTAAG
*
34835065 TTATGTAAGTTATATAT
1 TTATCTAAGTTATATAT
34835082 TTATCTAAGTTATATA
1 TTATCTAAGTTATATA
34835098 AGTTATGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
TTATCTAAGTTATATAT
Found at i:34835256 original size:15 final size:15
Alignment explanation
Indices: 34835236--34835265 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34835226 AAGTAGCAGG
34835236 ATTAAATAATATTTA
1 ATTAAATAATATTTA
34835251 ATTAAATAATATTTA
1 ATTAAATAATATTTA
34835266 TAAAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:34835516 original size:71 final size:72
Alignment explanation
Indices: 34835393--34835556 Score: 294
Period size: 72 Copynumber: 2.3 Consensus size: 72
34835383 AAGTACATAT
*
34835393 TAATATAAAAAAAGAAGCGT-AATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
1 TAATATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
34835457 AATATAA
66 AATATAA
**
34835464 TAATATAAAAAAAGAATCGTAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
1 TAATATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
34835529 AATATAA
66 AATATAA
34835536 TAATATAAAAAAAGAATCGTA
1 TAATATAAAAAAAGAATCGTA
34835557 GTTTAATTTT
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 19 0.21
72 70 0.79
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (72 bp):
TAATATAAAAAAAGAATCGTAAATAAAAAAATCAAACATTATTAATATAAAAAAATAGTAATTTG
AATATAA
Found at i:34835980 original size:273 final size:275
Alignment explanation
Indices: 34835483--34836034 Score: 1090
Period size: 273 Copynumber: 2.0 Consensus size: 275
34835473 AAAAGAATCG
34835483 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
34835548 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
34835613 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
34835678 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
34835743 AATCTTTAAAATATT
261 AATCTTTAAAATATT
34835758 TAAATATT-AAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATAT-AAAAA
1 TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
34835821 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
66 AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
34835886 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
131 GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
34835951 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
196 AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
34836016 AATCTTTAAAATATT
261 AATCTTTAAAATATT
34836031 TAAA
1 TAAA
34836035 ATAAGGTTGG
Statistics
Matches: 277, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
273 219 0.79
274 50 0.18
275 8 0.03
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (275 bp):
TAAATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATAAAAAA
AGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATATTCAATAGTAAATGAGCTCGATA
GAACTATTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGG
AGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTG
AATCTTTAAAATATT
Found at i:34836316 original size:15 final size:15
Alignment explanation
Indices: 34836296--34836324 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34836286 AGAATTTTGA
34836296 AATAAAACGTACCTT
1 AATAAAACGTACCTT
34836311 AATAAAACGTACCT
1 AATAAAACGTACCT
34836325 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:34836833 original size:183 final size:183
Alignment explanation
Indices: 34836525--34837076 Score: 1023
Period size: 183 Copynumber: 3.0 Consensus size: 183
34836515 CCTAGAACAG
*
34836525 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATCTAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
34836590 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
*
34836655 AGCAGGAATCAATAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
*
34836708 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTCAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
34836773 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
34836838 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
* *
34836891 ATGTAAGACTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATGAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
34836956 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
* * * *
34837021 AGCAGGAAGCAGTAACTGAAACATATACAACATTAATTCACTAATATAGACAC
131 AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
34837074 ATG
1 ATG
34837077 GAACTATATC
Statistics
Matches: 359, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 359 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAATCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:34839907 original size:15 final size:15
Alignment explanation
Indices: 34839887--34839935 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
34839877 GGTAAAAATT
34839887 TTGGGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
*
34839902 TT-GGGG-G-A-AAT
1 TTGGGGGAGAAGAAG
*
34839913 TTGAGGGAGAAGAAG
1 TTGGGGGAGAAGAAG
34839928 TTGGGGGA
1 TTGGGGGA
34839936 AATCGGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
11 4 0.15
12 4 0.15
13 2 0.08
14 5 0.19
15 11 0.42
ACGTcount: A:0.31, C:0.00, G:0.51, T:0.18
Consensus pattern (15 bp):
TTGGGGGAGAAGAAG
Found at i:34839920 original size:26 final size:26
Alignment explanation
Indices: 34839886--34839938 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
34839876 GGGTAAAAAT
*
34839886 TTTGGGGGAGAAGAAGTTGGGGGAAA
1 TTTGAGGGAGAAGAAGTTGGGGGAAA
34839912 TTTGAGGGAGAAGAAGTTGGGGGAAA
1 TTTGAGGGAGAAGAAGTTGGGGGAAA
34839938 T
1 T
34839939 CGGGGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.47, T:0.21
Consensus pattern (26 bp):
TTTGAGGGAGAAGAAGTTGGGGGAAA
Found at i:34840248 original size:28 final size:28
Alignment explanation
Indices: 34840216--34840273 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
34840206 AATCAAAACT
*
34840216 CTAT-ACCTTAAACCATTAAACTATATCC
1 CTATAACCTTAAACC-CTAAACTATATCC
* *
34840244 CTATAACCTTAATCCCTAAAGTATATCC
1 CTATAACCTTAAACCCTAAACTATATCC
34840272 CT
1 CT
34840274 TAAACCCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (28 bp):
CTATAACCTTAAACCCTAAACTATATCC
Found at i:34840274 original size:21 final size:21
Alignment explanation
Indices: 34840250--34840293 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
34840240 ATCCCTATAA
* *
34840250 CCTTAATCCCTAAAGTATATC
1 CCTTAAACCCTAAACTATATC
34840271 CCTTAAACCCTAAACTATATC
1 CCTTAAACCCTAAACTATATC
34840292 CC
1 CC
34840294 CTAACCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
CCTTAAACCCTAAACTATATC
Found at i:34840690 original size:41 final size:41
Alignment explanation
Indices: 34840633--34840869 Score: 429
Period size: 41 Copynumber: 5.8 Consensus size: 41
34840623 AATCCTAAAC
34840633 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
**
34840674 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
* **
34840715 TTTTTAGCGGCATTTTACCAAAAGCGCCGCTAATGCTCCGA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
34840756 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
34840797 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
34840838 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTA
1 TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTA
34840870 TTACTCTGCT
Statistics
Matches: 190, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 190 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTTA
Found at i:34841412 original size:21 final size:22
Alignment explanation
Indices: 34841380--34841432 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
34841370 CAACTTTCAG
34841380 ACACCATAAATTGT-AGCATTTA
1 ACACC-TAAATTGTCAGCATTTA
*
34841402 ACACCTAAATTTTCAGCATTTA
1 ACACCTAAATTGTCAGCATTTA
*
34841424 ACACATAAA
1 ACACCTAAA
34841433 ATGGTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (22 bp):
ACACCTAAATTGTCAGCATTTA
Found at i:34841867 original size:23 final size:23
Alignment explanation
Indices: 34841837--34842328 Score: 379
Period size: 23 Copynumber: 21.5 Consensus size: 23
34841827 GCTGCACTTT
34841837 AACACTTCAATTTACAGCATTTA
1 AACACTTCAATTTACAGCATTTA
*
34841860 AACACTTCAATTTGCAGCACTTT-
1 AACACTTCAATTTACAGCA-TTTA
* *
34841883 AACA-TCTCAATTAACAACATTTA
1 AACACT-TCAATTTACAGCATTTA
* *
34841906 TACACCTT-AA-TTACAGCGA-TAA
1 AACA-CTTCAATTTACAGC-ATTTA
* **
34841928 AACA-TCTCAATTTCCAGCAACTA
1 AACACT-TCAATTTACAGCATTTA
* * *
34841951 AACACTTCAATTTGCAGTACTTA
1 AACACTTCAATTTACAGCATTTA
*
34841974 AACACTCCAATTTACAGCACTCTT-
1 AACACTTCAATTTACAGCA-T-TTA
*
34841998 AACACTTCAATTTGCAGCACTTT-
1 AACACTTCAATTTACAGCA-TTTA
34842021 AACACTTCAATTTACAGCATTTA
1 AACACTTCAATTTACAGCATTTA
**
34842044 AACACTTCAATTTGTAGCACTTT-
1 AACACTTCAATTTACAGCA-TTTA
* *
34842067 AACA-TCTCAATTAACAACATTTA
1 AACACT-TCAATTTACAGCATTTA
* * * *
34842090 TACACCTCAA-GTACAGCGA-TAA
1 AACACTTCAATTTACAGC-ATTTA
* * **
34842112 AACA-TCTCAATTTCCAACAACTA
1 AACACT-TCAATTTACAGCATTTA
* * *
34842135 AACACTTCAATTTGCAGTACTTA
1 AACACTTCAATTTACAGCATTTA
*
34842158 AACACTTCAATTTACAACATTTA
1 AACACTTCAATTTACAGCATTTA
*
34842181 AGCACTTCAATTTACAGCATTTA
1 AACACTTCAATTTACAGCATTTA
* *
34842204 TACACTTCAATTTATAGCATTT-
1 AACACTTCAATTTACAGCATTTA
*
34842226 AACACTTCAATTTGCAGCACTTT-
1 AACACTTCAATTTACAGCA-TTTA
34842249 AACACTTCAATTTACAGCATTTA
1 AACACTTCAATTTACAGCATTTA
* *
34842272 AACACTTCAATTTGCTGCACTTT-
1 AACACTTCAATTTACAGCA-TTTA
* *
34842295 AACA-TCTCAATTAACAACATTTA
1 AACACT-TCAATTTACAGCATTTA
* *
34842318 TACACCTCAAT
1 AACACTTCAAT
34842329 CAACATCTCA
Statistics
Matches: 372, Mismatches: 68, Indels: 58
0.75 0.14 0.12
Matches are distributed among these distances:
20 1 0.00
21 1 0.00
22 61 0.16
23 275 0.74
24 31 0.08
25 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (23 bp):
AACACTTCAATTTACAGCATTTA
Found at i:34841893 original size:46 final size:45
Alignment explanation
Indices: 34841821--34842328 Score: 476
Period size: 46 Copynumber: 11.1 Consensus size: 45
34841811 CATAATTTGC
*
34841821 TCAA-TTGCTGCACTTTAACACTTCAATTTACAGCATTTAAACACT
1 TCAATTTGCAGCACTTTAACAC-TCAATTTACAGCATTTAAACACT
* * *
34841866 TCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCT
1 TCAATTTGCAGCACTTTAACA-CTCAATTTACAGCATTTAAACA-CT
* ** * **
34841913 T-AA-TTACAGCGA-TAAAACATCTCAATTTCCAGCAACTAAACACT
1 TCAATTTGCAGC-ACTTTAACA-CTCAATTTACAGCATTTAAACACT
* *
34841957 TCAATTTGCAGTACTTAAACACTCCAATTTACAGCACTCTT-AACACT
1 TCAATTTGCAGCACTTTAACACT-CAATTTACAGCA-T-TTAAACACT
34842004 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACT
1 TCAATTTGCAGCACTTTAACAC-TCAATTTACAGCATTTAAACACT
* * * * *
34842050 TCAATTTGTAGCACTTTAACATCTCAATTAACAACATTTATACACC
1 TCAATTTGCAGCACTTTAACA-CTCAATTTACAGCATTTAAACACT
* * ** * * **
34842096 TCAA-GTACAGCGA-TAAAACATCTCAATTTCCAACAACTAAACACT
1 TCAATTTGCAGC-ACTTTAACA-CTCAATTTACAGCATTTAAACACT
* * * *
34842141 TCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAGCACT
1 TCAATTTGCAGCACTTTAACAC-TCAATTTACAGCATTTAAACACT
* *
34842187 TCAATTTACAGCA-TTTATACACTTCAATTTATAGCATTT-AACACT
1 TCAATTTGCAGCACTTTA-ACAC-TCAATTTACAGCATTTAAACACT
34842232 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACT
1 TCAATTTGCAGCACTTTAACAC-TCAATTTACAGCATTTAAACACT
* * * * *
34842278 TCAATTTGCTGCACTTTAACATCTCAATTAACAACATTTATACACC
1 TCAATTTGCAGCACTTTAACA-CTCAATTTACAGCATTTAAACACT
34842324 TCAAT
1 TCAAT
34842329 CAACATCTCA
Statistics
Matches: 384, Mismatches: 58, Indels: 41
0.80 0.12 0.08
Matches are distributed among these distances:
44 3 0.01
45 113 0.29
46 222 0.58
47 44 0.11
48 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (45 bp):
TCAATTTGCAGCACTTTAACACTCAATTTACAGCATTTAAACACT
Found at i:34842139 original size:184 final size:183
Alignment explanation
Indices: 34841821--34842281 Score: 734
Period size: 184 Copynumber: 2.5 Consensus size: 183
34841811 CATAATTTGC
*
34841821 TCAA-TTGCTGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA
1 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA
* * *
34841885 CATCTCAATTAACAACATTTATACACCTTAATTACAGCGATAAAACATCTCAATTTCCAGCAACT
66 CATCTCAATTAACAACATTTATACACCTCAAGTACAGCGATAAAACATCTCAATTTCCAACAACT
*
34841950 AAACACTTCAATTTGCAGTACTTAAACACTCCAATTTACAGCACTCTTAA-CACT
131 AAACACTTCAATTTGCAGTACTTAAACACTCCAATTTACAACA-T-TTAAGCACT
*
34842004 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAA
1 TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA
34842069 CATCTCAATTAACAACATTTATACACCTCAAGTACAGCGATAAAACATCTCAATTTCCAACAACT
66 CATCTCAATTAACAACATTTATACACCTCAAGTACAGCGATAAAACATCTCAATTTCCAACAACT
*
34842134 AAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAGCACT
131 AAACACTTCAATTTGCAGTACTTAAACACTCCAATTTACAACATTTAAGCACT
* *
34842187 TCAATTTACAGCA-TTTATACACTTCAATTTATAGCATTT-AACACTTCAATTTGCAGCACTTTA
1 TCAATTTGCAGCACTTTA-ACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTA
* * * *
34842250 ACA-CTTCAATTTACAGCATTTAAACACTTCAA
65 ACATC-TCAATTAACAACATTTATACACCTCAA
34842282 TTTGCTGCAC
Statistics
Matches: 260, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
181 1 0.00
182 57 0.22
183 41 0.16
184 161 0.62
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (183 bp):
TCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA
CATCTCAATTAACAACATTTATACACCTCAAGTACAGCGATAAAACATCTCAATTTCCAACAACT
AAACACTTCAATTTGCAGTACTTAAACACTCCAATTTACAACATTTAAGCACT
Found at i:34842159 original size:114 final size:114
Alignment explanation
Indices: 34841998--34842328 Score: 395
Period size: 114 Copynumber: 2.9 Consensus size: 114
34841988 CAGCACTCTT
* * *
34841998 AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCA
1 AACACTTCAATTTCCAACACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCA
34842063 CTTTAACATCTCAATTAACAACATTTATACACCTCAA-GTACAGCGATAA
66 CTTTAACATCTCAATTAACAACATTTATACACCTCAATGTACAGC-ATAA
* * * ** *
34842112 AACA-TCTCAATTTCCAACAAC-TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAA
1 AACACT-TCAATTTCCAAC-ACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAG
* * * * * **
34842175 CA-TTTAAGCA-CTTCAATTTACAGCATTTATACACTTCAATTTATAGCATTT
64 CACTTTAA-CATC-TCAATTAACAACATTTATACACCTCAATGTACAGCATAA
* * *
34842226 AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCT-GC
1 AACACTTCAATTTCCAACACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTG-TAGC
34842290 ACTTTAACATCTCAATTAACAACATTTATACACCTCAAT
65 ACTTTAACATCTCAATTAACAACATTTATACACCTCAAT
34842329 CAACATCTCA
Statistics
Matches: 179, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
113 9 0.05
114 156 0.87
115 14 0.08
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (114 bp):
AACACTTCAATTTCCAACACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCA
CTTTAACATCTCAATTAACAACATTTATACACCTCAATGTACAGCATAA
Found at i:34842284 original size:91 final size:91
Alignment explanation
Indices: 34841834--34842328 Score: 465
Period size: 91 Copynumber: 5.4 Consensus size: 91
34841824 ATTGCTGCAC
*
34841834 TTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAAC
1 TTTAACACTTCAATTTACAGCATTT-AACACTTCAATTTGCAGCACTTTAACACT-TCAATTTAC
*
34841898 AACATTTATACACCTT-AA-TTACAGCGA
64 AACATTTAAACA-CTTCAATTTACAGCGA
** * * * * * *
34841925 TAAAACA-TCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACTTAAACACTCCAATTTAC
1 TTTAACACT-TCAATTTACAGC-ATTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTAC
* *
34841989 AGCACTCTT-AACACTTCAATTTGCAGC-A
64 AACA-T-TTAAACACTTCAATTTACAGCGA
* *
34842017 CTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTAGCACTTTAACA-TCTCAATTAA
1 -TTTAACACTTCAATTTACAGCATTT-AACACTTCAATTTGCAGCACTTTAACACT-TCAATTTA
* * *
34842081 CAACATTTATACACCTCAA-GTACAGCGA
63 CAACATTTAAACACTTCAATTTACAGCGA
** * * * * * *
34842109 TAAAACA-TCTCAATTTCCAACAACTAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTAC
1 TTTAACACT-TCAATTTACAGC-ATTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTAC
*
34842173 AACATTTAAGCACTTCAATTTACAGC-A
64 AACATTTAAACACTTCAATTTACAGCGA
*
34842200 TTTATACACTTCAATTTATAGCATTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
1 TTTA-ACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
* * *
34842265 GCATTTAAACACTTCAATTTGCTGC-A
65 ACATTTAAACACTTCAATTTACAGCGA
* * *
34842291 CTTTAACA-TCTCAATTAACAACATTTATACACCTCAAT
1 -TTTAACACT-TCAATTTACAGCATTTA-ACACTTCAAT
34842329 CAACATCTCA
Statistics
Matches: 324, Mismatches: 58, Indels: 43
0.76 0.14 0.10
Matches are distributed among these distances:
90 3 0.01
91 204 0.63
92 57 0.18
93 59 0.18
94 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (91 bp):
TTTAACACTTCAATTTACAGCATTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAA
CATTTAAACACTTCAATTTACAGCGA
Found at i:34843510 original size:12 final size:12
Alignment explanation
Indices: 34843495--34843544 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
34843485 ACATACACAT
34843495 ATTAACATCTCA
1 ATTAACATCTCA
*
34843507 ATTAACA--ACA
1 ATTAACATCTCA
* *
34843517 TTTATACACCTCA
1 ATTA-ACATCTCA
34843530 ATTAACATCTCA
1 ATTAACATCTCA
34843542 ATT
1 ATT
34843545 TCCAGCAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 5 0.17
11 3 0.10
12 17 0.57
13 5 0.17
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (12 bp):
ATTAACATCTCA
Found at i:34845662 original size:6 final size:7
Alignment explanation
Indices: 34845645--34845672 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
34845635 AATATTAATT
34845645 TTTTTTA
1 TTTTTTA
34845652 TTTTTTA
1 TTTTTTA
34845659 TTTTTTA
1 TTTTTTA
34845666 TTTTTTA
1 TTTTTTA
34845673 AATTTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:34845997 original size:45 final size:45
Alignment explanation
Indices: 34845940--34846029 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 45
34845930 TTCATTCCCT
* * *
34845940 TAACCCTAAAACCCCTAACACC-TAAATCCTAAACTCTAAACCATA
1 TAACCCTAAAACCCATAAC-CCTTAAACCCTAAACCCTAAACCATA
* *
34845985 TAACCCGT-AAACCCATAACCCTTAACCCCTAAACCCTAAGCCATA
1 TAACCC-TAAAACCCATAACCCTTAAACCCTAAACCCTAAACCATA
34846030 AAACATAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
44 2 0.05
45 35 0.92
46 1 0.03
ACGTcount: A:0.41, C:0.38, G:0.02, T:0.19
Consensus pattern (45 bp):
TAACCCTAAAACCCATAACCCTTAAACCCTAAACCCTAAACCATA
Found at i:34846021 original size:15 final size:15
Alignment explanation
Indices: 34845902--34846020 Score: 50
Period size: 15 Copynumber: 8.1 Consensus size: 15
34845892 ACACTAATTA
34845902 CCCTAAACCCTTAAC
1 CCCTAAACCCTTAAC
34845917 CCCT-AACCCTTAA-
1 CCCTAAACCCTTAAC
** **
34845930 TTC-ATTCCCTTAA-
1 CCCTAAACCCTTAAC
*
34845943 CCCTAAAACCCCTAAC
1 CCCT-AAACCCTTAAC
* * *
34845959 ACCTAAATCC-TAAA
1 CCCTAAACCCTTAAC
* *
34845973 CTCTAAACCATATAAC
1 CCCTAAACCCT-TAAC
* *
34845989 CCGTAAACCCATAAC
1 CCCTAAACCCTTAAC
* * *
34846004 CCTTAACCCCTAAAC
1 CCCTAAACCCTTAAC
34846019 CC
1 CC
34846021 TAAGCCATAA
Statistics
Matches: 73, Mismatches: 25, Indels: 12
0.66 0.23 0.11
Matches are distributed among these distances:
13 9 0.12
14 18 0.25
15 33 0.45
16 13 0.18
ACGTcount: A:0.36, C:0.41, G:0.01, T:0.22
Consensus pattern (15 bp):
CCCTAAACCCTTAAC
Found at i:34846045 original size:7 final size:7
Alignment explanation
Indices: 34845936--34846046 Score: 64
Period size: 7 Copynumber: 15.1 Consensus size: 7
34845926 TTAATTCATT
*
34845936 CCCTTAA
1 CCCTAAA
34845943 CCCTAAAA
1 CCCT-AAA
34845951 CCCCT-AA
1 -CCCTAAA
34845958 CACCTAAA
1 C-CCTAAA
*
34845966 TCCTAAA
1 CCCTAAA
*
34845973 CTCTAAA
1 CCCTAAA
*
34845980 CCATATAA
1 CCCTA-AA
34845988 CCCGTAAA
1 CCC-TAAA
34845996 CCC-ATAA
1 CCCTA-AA
*
34846003 CCCTTAAC
1 CCC-TAAA
34846011 CCCTAAA
1 CCCTAAA
*
34846018 CCCTAAG
1 CCCTAAA
*
34846025 CCATAAA
1 CCCTAAA
* *
34846032 ACATAAA
1 CCCTAAA
34846039 CCCTAAA
1 CCCTAAA
34846046 C
1 C
34846047 TTCTACCCCT
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
6 2 0.03
7 54 0.68
8 17 0.21
9 7 0.09
ACGTcount: A:0.42, C:0.38, G:0.02, T:0.18
Consensus pattern (7 bp):
CCCTAAA
Found at i:34846371 original size:7 final size:7
Alignment explanation
Indices: 34846359--34846415 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
34846349 CCAATGGCCA
34846359 TTAAACC
1 TTAAACC
34846366 TTAAACC
1 TTAAACC
*
34846373 ATAAAACC
1 -TTAAACC
* *
34846381 CTAGACC
1 TTAAACC
* *
34846388 ATAGACC
1 TTAAACC
34846395 TTAAACC
1 TTAAACC
34846402 TTAAACC
1 TTAAACC
*
34846409 CTAAACC
1 TTAAACC
34846416 CAAAAGTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 35 0.85
8 6 0.15
ACGTcount: A:0.44, C:0.32, G:0.04, T:0.21
Consensus pattern (7 bp):
TTAAACC
Found at i:34846379 original size:15 final size:15
Alignment explanation
Indices: 34846356--34846415 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 15
34846346 ATACCAATGG
*
34846356 CCATTAAACCTTAAA
1 CCATTAAACCCTAAA
* *
34846371 CCATAAAACCCTAGA
1 CCATTAAACCCTAAA
* *
34846386 CCA-TAGACCTTAAA
1 CCATTAAACCCTAAA
34846400 CC-TTAAACCCTAAA
1 CCATTAAACCCTAAA
34846414 CC
1 CC
34846416 CAAAAGTAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
14 20 0.57
15 15 0.43
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
CCATTAAACCCTAAA
Found at i:34846644 original size:41 final size:40
Alignment explanation
Indices: 34846600--34846678 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
34846590 TTACCTCTGT
* * *
34846600 TTTTTAGCTGCGTTTTACCAAAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGCTTTACCAAAAACGCCGCTAATGCTCTA
* *
34846640 TTTTTAGCGGCGCTTTACTAAAAACGCCGCTATTGCTCT
1 TTTTTAGCGGCGCTTTACCAAAAACGCCGCTAATGCTCT
34846679 GTGTTTTACA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (40 bp):
TTTTTAGCGGCGCTTTACCAAAAACGCCGCTAATGCTCTA
Found at i:34859103 original size:41 final size:40
Alignment explanation
Indices: 34859026--34859112 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
34859016 TCAAATACAT
*
34859026 TTAAAATAAATATTAAAATAAGAAACAAATAAAAAATTATA
1 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAA-TATA
* * * **
34859067 TTAAAACAATTATTAAAATAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATATA
*
34859107 ATAAAA
1 TTAAAA
34859113 AGTGATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 9 0.23
41 30 0.77
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (40 bp):
TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATATA
Found at i:34859137 original size:28 final size:29
Alignment explanation
Indices: 34859106--34859168 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
34859096 TTGAAAATAT
* * *
34859106 AATAAAAAGTGATTAT-ATTAAAATTAAA
1 AATAAAAAGTAAATATGATTAAAAATAAA
*
34859134 AATAAAATGTAAATATGATTAAAAATAAA
1 AATAAAAAGTAAATATGATTAAAAATAAA
34859163 AA-AAAA
1 AATAAAA
34859169 TATATATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (29 bp):
AATAAAAAGTAAATATGATTAAAAATAAA
Found at i:34871003 original size:24 final size:24
Alignment explanation
Indices: 34870970--34871016 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
34870960 CATAGAGAAT
* *
34870970 TTTGTGTTTACGTTTTGAGGGTTC
1 TTTGTGTTTAAGTTTTCAGGGTTC
*
34870994 TTTGTTTTTAAGTTTTCAGGGTT
1 TTTGTGTTTAAGTTTTCAGGGTT
34871017 TAGTTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.06, G:0.26, T:0.57
Consensus pattern (24 bp):
TTTGTGTTTAAGTTTTCAGGGTTC
Found at i:34872730 original size:18 final size:18
Alignment explanation
Indices: 34872709--34872753 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
34872699 GTATCCTGAA
*
34872709 CCATAACCAGACCCACT-T
1 CCATAACCAGAACCA-TGT
*
34872727 CCATACCCAGAACCATGT
1 CCATAACCAGAACCATGT
34872745 CCATAACCA
1 CCATAACCA
34872754 TTGTCACCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.36, C:0.42, G:0.07, T:0.16
Consensus pattern (18 bp):
CCATAACCAGAACCATGT
Found at i:34872786 original size:15 final size:15
Alignment explanation
Indices: 34872766--34872806 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
34872756 GTCACCGCCG
* *
34872766 CCACCACCTCCTCCT
1 CCACCACCACCACCT
34872781 CCACCACCACCACCT
1 CCACCACCACCACCT
*
34872796 CCACCTCCACC
1 CCACCACCACC
34872807 TCCACCTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.20, C:0.68, G:0.00, T:0.12
Consensus pattern (15 bp):
CCACCACCACCACCT
Found at i:34872790 original size:6 final size:6
Alignment explanation
Indices: 34872784--34872813 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
34872774 TCCTCCTCCA
*
34872784 CCACCA CCACCT CCACCT CCACCT CCACCT
1 CCACCT CCACCT CCACCT CCACCT CCACCT
34872814 TTACCTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.67, G:0.00, T:0.13
Consensus pattern (6 bp):
CCACCT
Found at i:34872792 original size:21 final size:21
Alignment explanation
Indices: 34872766--34872812 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
34872756 GTCACCGCCG
*
34872766 CCACCACCTCCTCCTCCACCA
1 CCACCACCTCCACCTCCACCA
*
34872787 CCACCACCTCCACCTCCACCT
1 CCACCACCTCCACCTCCACCA
34872808 CCACC
1 CCACC
34872813 TTTACCTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.19, C:0.68, G:0.00, T:0.13
Consensus pattern (21 bp):
CCACCACCTCCACCTCCACCA
Found at i:34872820 original size:18 final size:18
Alignment explanation
Indices: 34872766--34872813 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
34872756 GTCACCGCCG
* * *
34872766 CCACCACCTCCTCCTCCA
1 CCACCACCACCTCCACCT
34872784 CCACCACCACCTCCACCT
1 CCACCACCACCTCCACCT
*
34872802 CCACCTCCACCT
1 CCACCACCACCT
34872814 TTACCTCTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.19, C:0.67, G:0.00, T:0.15
Consensus pattern (18 bp):
CCACCACCACCTCCACCT
Found at i:34872976 original size:12 final size:12
Alignment explanation
Indices: 34872945--34872986 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
34872935 CTACACCATT
*
34872945 CCCATACCCAGA
1 CCCATATCCAGA
* *
34872957 CCCGTATCCGGA
1 CCCATATCCAGA
34872969 CCCATATCCAGA
1 CCCATATCCAGA
34872981 CCCATA
1 CCCATA
34872987 CCCTTGGCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.29, C:0.45, G:0.12, T:0.14
Consensus pattern (12 bp):
CCCATATCCAGA
Found at i:34873130 original size:24 final size:24
Alignment explanation
Indices: 34873086--34873132 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
34873076 CGGAACCCCT
**
34873086 TCCAGAACCATACCCTGAACCATA
1 TCCAGAACCATACCCCAAACCATA
34873110 TCCAGAACC-TGACCCCAAACCAT
1 TCCAGAACCAT-ACCCCAAACCAT
34873133 TAGCACCACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.36, C:0.40, G:0.09, T:0.15
Consensus pattern (24 bp):
TCCAGAACCATACCCCAAACCATA
Found at i:34873188 original size:15 final size:15
Alignment explanation
Indices: 34873136--34873184 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
34873126 AAACCATTAG
34873136 CACCACCTCCACCTC
1 CACCACCTCCACCTC
* *
34873151 CACCACTTCCTCCTC
1 CACCACCTCCACCTC
* * *
34873166 CTCCTCCTCCACCAC
1 CACCACCTCCACCTC
34873181 CACC
1 CACC
34873185 TCCTTTTCCT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.16, C:0.65, G:0.00, T:0.18
Consensus pattern (15 bp):
CACCACCTCCACCTC
Found at i:34873194 original size:24 final size:24
Alignment explanation
Indices: 34873141--34873188 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
34873131 ATTAGCACCA
* **
34873141 CCTCCACCTCCACCACTTCCTCCT
1 CCTCCTCCTCCACCACCACCTCCT
34873165 CCTCCTCCTCCACCACCACCTCCT
1 CCTCCTCCTCCACCACCACCTCCT
34873189 TTTCCTACAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.12, C:0.65, G:0.00, T:0.23
Consensus pattern (24 bp):
CCTCCTCCTCCACCACCACCTCCT
Found at i:34873444 original size:5 final size:6
Alignment explanation
Indices: 34873429--34873454 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
34873419 GCATTGCCAA
34873429 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
34873455 GGTTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:34875931 original size:2 final size:2
Alignment explanation
Indices: 34875924--34875949 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34875914 AAATTCCCCA
34875924 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
34875950 CTTAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34879383 original size:16 final size:16
Alignment explanation
Indices: 34879358--34879390 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
34879348 TTTATTTACT
34879358 TCAGAAAAAAATAAAA
1 TCAGAAAAAAATAAAA
*
34879374 TCAGATAAAAATAAAA
1 TCAGAAAAAAATAAAA
34879390 T
1 T
34879391 TTCTACCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (16 bp):
TCAGAAAAAAATAAAA
Found at i:34880446 original size:44 final size:44
Alignment explanation
Indices: 34880257--34880658 Score: 286
Period size: 44 Copynumber: 9.1 Consensus size: 44
34880247 GTAATTTATA
* * * ** * *
34880257 ATTTGTAGTTTTAATCTGTTCCACTATAACTTTAGGGATATAAG
1 ATTTCTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * * *
34880301 ATTTGTGGCATAAATCTACTCTACTGCAACTTCAGAGAGATAAG
1 ATTTCTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * ** *
34880345 ATTTGCTATCTTTGATCTACTCGTCTGCAACTTCAGAGAGATAAG
1 ATTT-CTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
34880390 ATCTGTAACTTTAATCTTCTCCACTGTAACTTCAGGGAGATAATG
1 ATTTCTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA-G
* * * * **
34880435 -TTTATAGCTTTAATCTAC-CCTACTGCAAATTTAGAAAGATAAG
1 ATTTCTAGCTTTAATCTGCTCC-ACTGCAACTTCAGGGAGATAAG
* * *
34880478 ATTTGCTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAG
1 ATTT-CTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
34880523 ACTTGTGGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATGAG
1 ATTTCTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
34880567 ATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAG
1 ATT-TCTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
34880612 ACTTGTGGCTTTAATCTGCTCTACTGTAACTTCAGGGAAATAAG
1 ATTTCTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
34880656 ATT
1 ATT
34880659 CGTTACGATG
Statistics
Matches: 272, Mismatches: 79, Indels: 14
0.75 0.22 0.04
Matches are distributed among these distances:
43 3 0.01
44 167 0.61
45 100 0.37
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
ATTTCTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:34880509 original size:133 final size:133
Alignment explanation
Indices: 34880266--34880560 Score: 335
Period size: 133 Copynumber: 2.2 Consensus size: 133
34880256 AATTTGTAGT
** * * * * * * *
34880266 TTTAATCTGTTCCACTATAACTTTAGGGATATAA-GATTTGTGGCATAAATCTACTCTACTGCAA
1 TTTAATCTGTTCCACTGCAACTTCAGGGAGATAATG-TTTATAGCTTTAATCTACCCTACTGCAA
* * * ** ** *
34880330 CTTCAGAGAGATAAGATTTGCTATCTTTGATCTACTCGTCTGCAACTTCAGAGAGATAAGA-TCT
65 ATTCAGAAAGATAAGATTTGCTAACTTCAATCTACTCCACTACAACTTCAGAGAGATAAGACT-T
34880394 GTAAC
129 GTAAC
*
34880399 TTTAATCT-TCTCCACTGTAACTTCAGGGAGATAATGTTTATAGCTTTAATCTACCCTACTGCAA
1 TTTAATCTGT-TCCACTGCAACTTCAGGGAGATAATGTTTATAGCTTTAATCTACCCTACTGCAA
* * *
34880463 ATTTAGAAAGATAAGATTTGCTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTG
65 ATTCAGAAAGATAAGATTTGCTAACTTCAATCTACTCCACTACAACTTCAGAGAGATAAGACTTG
**
34880528 TGGC
130 TAAC
34880532 TTTAATCTGTTCCACTGCAACTTCAGGGA
1 TTTAATCTGTTCCACTGCAACTTCAGGGA
34880561 AATGAGATTC
Statistics
Matches: 136, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
132 1 0.01
133 132 0.97
134 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (133 bp):
TTTAATCTGTTCCACTGCAACTTCAGGGAGATAATGTTTATAGCTTTAATCTACCCTACTGCAAA
TTCAGAAAGATAAGATTTGCTAACTTCAATCTACTCCACTACAACTTCAGAGAGATAAGACTTGT
AAC
Found at i:34880534 original size:89 final size:89
Alignment explanation
Indices: 34880313--34880646 Score: 318
Period size: 89 Copynumber: 3.8 Consensus size: 89
34880303 TTGTGGCATA
* * * * * * *
34880313 AATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTTGATCTACTCGT-CTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TAGCTTTAATCTAC-CCTACTGCAACT
* * *
34880377 TCAGAGAGATAAGATCTG-TAACTTT
64 TCAGAAAGATAAGATTTGCTAACTTC
* * * * *
34880402 AATCTTCTCCACTGTAACTTCAGGGAGATAATG-TTTATAGCTTTAATCTACCCTACTGCAAATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA-GACTTGTAGCTTTAATCTACCCTACTGCAACTT
*
34880466 TAGAAAGATAAGATTTGCTAACTTC
65 CAGAAAGATAAGATTTGCTAACTTC
* * **
34880491 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTGGCTTTAATCTGTTCC-ACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCT-ACCCTACTGCAACTT
* * * *
34880555 CAGGGAA-ATGAGATTCGCTATCTTC
65 CA-GAAAGATAAGATTTGCTAACTTC
* * * * * *
34880580 AGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTGGCTTTAATCTGCTCTACTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTACCCTACTGCAACTTC
34880645 AG
66 AG
34880647 GGAAATAAGA
Statistics
Matches: 204, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
87 2 0.01
88 37 0.18
89 159 0.78
90 6 0.03
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (89 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTTAATCTACCCTACTGCAACTTC
AGAAAGATAAGATTTGCTAACTTC
Found at i:34892417 original size:17 final size:17
Alignment explanation
Indices: 34892395--34892427 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34892385 GTGATATTAA
*
34892395 TAATAAAATAAATAAAG
1 TAATAAAAGAAATAAAG
34892412 TAATAAAAGAAATAAA
1 TAATAAAAGAAATAAA
34892428 ATGCGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAATAAAAGAAATAAAG
Found at i:34893141 original size:13 final size:13
Alignment explanation
Indices: 34893123--34893149 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34893113 TATTTAAGTC
34893123 AAAAAAATTTCAA
1 AAAAAAATTTCAA
34893136 AAAAAAATTTCAA
1 AAAAAAATTTCAA
34893149 A
1 A
34893150 CCTCATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAAAATTTCAA
Found at i:34895738 original size:20 final size:20
Alignment explanation
Indices: 34895693--34895813 Score: 80
Period size: 20 Copynumber: 6.3 Consensus size: 20
34895683 TCCCGTTCAA
* *
34895693 ATTTTTATGATT-TTTTTAAC
1 ATTTTTAT-ATTAATTTTAAT
*
34895713 AATTTTATATTAATTTTAAT
1 ATTTTTATATTAATTTTAAT
*
34895733 ATTTTTAT-TT--TTTATGAT
1 ATTTTTATATTAATTT-TAAT
*
34895751 -TTTTTATA-AAATTTTAAT
1 ATTTTTATATTAATTTTAAT
*
34895769 ATGTTTT-TATAAATTTTAAAT
1 AT-TTTTATATTAATTTT-AAT
*
34895790 ATGTTT-TATTAATTTT-AT
1 ATTTTTATATTAATTTTAAT
34895808 ATTTTT
1 ATTTTT
34895814 TTATAACTTA
Statistics
Matches: 82, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
17 10 0.12
18 13 0.16
19 11 0.13
20 43 0.52
21 5 0.06
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTTATATTAATTTTAAT
Found at i:34895775 original size:21 final size:20
Alignment explanation
Indices: 34895751--34895819 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
34895741 TTTTTATGAT
34895751 TTTTTATAAAATTTTAATATG
1 TTTTTAT-AAATTTTAATATG
34895772 TTTTTATAAATTTTAAATATG
1 TTTTTATAAATTTT-AATATG
* *
34895793 -TTTTATTAATTTT-ATATT
1 TTTTTATAAATTTTAATATG
34895811 TTTTTATAA
1 TTTTTATAA
34895820 CTTATTAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
18 4 0.09
19 7 0.16
20 19 0.44
21 13 0.30
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTTATAAATTTTAATATG
Found at i:34895832 original size:26 final size:27
Alignment explanation
Indices: 34895795--34895846 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
34895785 TAAATATGTT
*
34895795 TTATTAATTTTA-TATTTTTTTATAAC
1 TTATTAATTTTATTATATTTTTATAAC
34895821 TTATTAGA-TTTATTATATTTTTATAA
1 TTATTA-ATTTTATTATATTTTTATAA
34895847 GGTCATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
TTATTAATTTTATTATATTTTTATAAC
Found at i:34895934 original size:22 final size:22
Alignment explanation
Indices: 34895891--34895936 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
34895881 TAAATTTATA
* *
34895891 TTTTGGTAATTTTTTATGATTT
1 TTTTGATAATTTTTTATAATTT
34895913 TTTTGATAATTTTTCTA-AATTT
1 TTTTGATAATTTTT-TATAATTT
34895935 TT
1 TT
34895937 AATCATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (22 bp):
TTTTGATAATTTTTTATAATTT
Found at i:34904195 original size:44 final size:44
Alignment explanation
Indices: 34904141--34904423 Score: 187
Period size: 44 Copynumber: 6.5 Consensus size: 44
34904131 GACAGCGAGC
* **
34904141 CTTAACTCCCTAAGCAGTAAAGTAACAAGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGAT
* * * *
34904185 CTTATCTCCCTAAGCAGTAGTGG-AGCATATC-GAAGACAGTA-AG-C
1 CTTATCTCCCTAAGCAGTAG-GGTAACA-AGCTGAA-A-ATTACAGAT
*
34904229 CTTAAC-CCCTTAAGCAGTAGGGTAAC-AGACTGAAAATTACAGAT
1 CTTATCTCCC-TAAGCAGTAGGGTAACAAG-CTGAAAATTACAGAT
* * * * *
34904273 CTTATTTCCCTAAGCAGTA--GTAGAGC-AGATCGAAAACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAGGGTA-A-CAAGCT-GAAAA--TTACAGAT
* * * *
34904317 CTTATC-CCTTTAAGCAGTGGGGAAACAAGCTG-AAATTACAAAT
1 CTTATCTCC-CTAAGCAGTAGGGTAACAAGCTGAAAATTACAGAT
* * *
34904360 CTTACCTTCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGAT
34904404 CTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTAAGCAGTAG
34904424 CGGAGCAGAT
Statistics
Matches: 181, Mismatches: 34, Indels: 48
0.69 0.13 0.18
Matches are distributed among these distances:
41 1 0.01
42 8 0.04
43 42 0.23
44 109 0.60
45 15 0.08
46 6 0.03
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGAT
Found at i:34904217 original size:88 final size:89
Alignment explanation
Indices: 34904099--34904379 Score: 349
Period size: 88 Copynumber: 3.2 Consensus size: 89
34904089 AGAAATACTG
* * * **
34904099 ATCTCCCTTAAACAATAGTGGAGCAGATCGAAGACAGCGAGCCTTAACTCCC-TAAGCAGTAAAG
1 ATCTCCC-TAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACTCCCTTAAGCAGTAGGG
34904163 TAACAAGCTGAAAATTACAGATCTT
65 TAACAAGCTGAAAATTACAGATCTT
* *
34904188 ATCTCCCTAAGCAGTAGTGGAGCATATCGAAGACAGTAAGCCTTAAC-CCCTTAAGCAGTAGGGT
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACTCCCTTAAGCAGTAGGGT
34904252 AAC-AGACTGAAAATTACAGATCTT
66 AACAAG-CTGAAAATTACAGATCTT
* * * * *
34904276 ATTTCCCTAAGCAGTAGTAGAGCAGATCGAAAACGGTGAGCCTT-A-TCCCTTTAAGCAGTGGGG
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACTCCC-TTAAGCAGTAGGG
* *
34904339 AAACAAGCTG-AAATTACAAATCTT
65 TAACAAGCTGAAAATTACAGATCTT
* *
34904363 ACCTTCCTAAGCAGTAG
1 ATCTCCCTAAGCAGTAG
34904380 GGAAACAAGC
Statistics
Matches: 168, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
87 36 0.21
88 123 0.73
89 9 0.05
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (89 bp):
ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACTCCCTTAAGCAGTAGGGT
AACAAGCTGAAAATTACAGATCTT
Found at i:34904480 original size:131 final size:132
Alignment explanation
Indices: 34904239--34904530 Score: 342
Period size: 131 Copynumber: 2.2 Consensus size: 132
34904229 CTTAACCCCT
* * *
34904239 TAAGCAGTAGGGTAACAGACTGAAAATTACAGATCTTATTTCCCTAAGCAGTAGTAGAGCAGATC
1 TAAGCAGTAGGGAAACAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
* * *
34904304 GAAAACGGTGAGCCTTATCCCTTTAAGCAGTGGGGAAACAAGCTG-AAATTACAAATCTTACCTT
66 GAAAACGGTGAGCCTTATCCCTCTAAGCAATGGGGAAACAAGCTGAAAATTACAAATCTTACCTC
34904368 CC
131 CC
*
34904370 TAAGCAGTAGGGAAACA-AGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGAT
1 TAAGCAGTAGGGAAACAGA-CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGAT
* * * * * ** * * *
34904434 TGGAAACGGTGAGCCTTATCTCC-CTGAGTAATAGTGG-AGTAGGCTGAAAATTACAGATGTTAC
65 CGAAAACGGTGAGCCTTATC-CCTCTAAGCAAT-GGGGAAACAAGCTGAAAATTACAAATCTTAC
34904497 CTCCC
128 CTCCC
* *
34904502 TAAGCAGTAGTGG-AGCAGACTGAAGATTA
1 TAAGCAGTAG-GGAAACAGACTGAAAATTA
34904531 ATAGATTTTA
Statistics
Matches: 136, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
130 1 0.01
131 87 0.64
132 45 0.33
133 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (132 bp):
TAAGCAGTAGGGAAACAGACTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
GAAAACGGTGAGCCTTATCCCTCTAAGCAATGGGGAAACAAGCTGAAAATTACAAATCTTACCTC
CC
Found at i:34905575 original size:15 final size:14
Alignment explanation
Indices: 34905549--34905619 Score: 63
Period size: 15 Copynumber: 4.9 Consensus size: 14
34905539 TATTCTAATA
*
34905549 CTATTATTATTTAT
1 CTATTTTTATTTAT
34905563 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
34905578 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
34905592 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
34905607 CTATTTTTTATTT
1 CTA-TTTTTATTT
34905620 CTATTTATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.36
15 28 0.60
16 2 0.04
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.66
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:34905588 original size:14 final size:15
Alignment explanation
Indices: 34905556--34905589 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
34905546 ATACTATTAT
*
34905556 TATTTATCTAATTTT
1 TATTTATCTAATTTA
34905571 TATTTATCT-ATTTA
1 TATTTATCTAATTTA
34905585 TATTT
1 TATTT
34905590 CTACTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATCTAATTTA
Found at i:34905615 original size:44 final size:42
Alignment explanation
Indices: 34905547--34905629 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 42
34905537 GTTATTCTAA
34905547 TACTATTATTATTTATCTAATTTTTATTTATCTATTTATATTTC
1 TACTATTATTATTTATCTAATTTTTA-TT-TCTATTTATATTTC
*
34905591 TACTATTATTATATT-TCTATTTTTTATTTCTATTTATAT
1 TACTATTATTAT-TTATCTAATTTTTATTTCTATTTATAT
34905630 ACTAATATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 11 0.30
43 2 0.05
44 22 0.59
45 2 0.05
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (42 bp):
TACTATTATTATTTATCTAATTTTTATTTCTATTTATATTTC
Found at i:34905656 original size:42 final size:44
Alignment explanation
Indices: 34905550--34905641 Score: 120
Period size: 44 Copynumber: 2.2 Consensus size: 44
34905540 ATTCTAATAC
* * *
34905550 TATTATTAT-TTATCTAATTTTTATTTATCTATTTATATTTCTAC
1 TATTATTATATT-TCTATTTTTTATTTATCTATTTATATTACTAA
34905594 TATTATTATATTTCTATTTTTTA-TT-TCTATTTATA-TACTAA
1 TATTATTATATTTCTATTTTTTATTTATCTATTTATATTACTAA
34905635 TATTATT
1 TATTATT
34905642 TTCATTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
41 11 0.25
42 10 0.23
43 2 0.05
44 19 0.43
45 2 0.05
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (44 bp):
TATTATTATATTTCTATTTTTTATTTATCTATTTATATTACTAA
Found at i:34906163 original size:127 final size:126
Alignment explanation
Indices: 34906009--34906249 Score: 304
Period size: 127 Copynumber: 1.9 Consensus size: 126
34905999 GTTCGAGGAA
* * * * * * * *
34906009 TCGTGCCCTATCATGCTAGGTTTCGATTTTTCGTTCAATTAAAATGC-GAAATATCCTTTTGAGA
1 TCGTGCCCAATCATGCTAGGCTTCGATTTTCCATTCAACTAAAATACAG-AACATCCTTTTGAAA
* * *
34906073 TTTCATCCATGTTTTTTTAAAATTAAAACGAGGCAATATTTTGTGTTTGGAGGGTTTGGGAGG
65 TTTCATCCATG-TTTTCTAAAATTAAAACGAGGCAATATTTCGTATTTGGAGGGTTTGGGAGG
* * *
34906136 TCGTGCCCAATCGTGCTGGGCTTCGATTTTCCATTCGACTAAAATACAGAACATCCTTTTGAAAT
1 TCGTGCCCAATCATGCTAGGCTTCGATTTTCCATTCAACTAAAATACAGAACATCCTTTTGAAAT
* * *
34906201 TTCATCCATGTTTTCTCAAATTAAAATGAGGCAATGTTTCGTATTTGGA
66 TTCATCCATGTTTTCTAAAATTAAAACGAGGCAATATTTCGTATTTGGA
34906250 AATTCGATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
126 33 0.34
127 62 0.65
128 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (126 bp):
TCGTGCCCAATCATGCTAGGCTTCGATTTTCCATTCAACTAAAATACAGAACATCCTTTTGAAAT
TTCATCCATGTTTTCTAAAATTAAAACGAGGCAATATTTCGTATTTGGAGGGTTTGGGAGG
Found at i:34909944 original size:16 final size:16
Alignment explanation
Indices: 34909923--34909954 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34909913 ATGTTAACAA
34909923 GTAGATACTGTTAGCT
1 GTAGATACTGTTAGCT
*
34909939 GTAGATGCTGTTAGCT
1 GTAGATACTGTTAGCT
34909955 ATATGTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (16 bp):
GTAGATACTGTTAGCT
Found at i:34916636 original size:21 final size:22
Alignment explanation
Indices: 34916600--34916641 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
34916590 TTAAATATTC
*
34916600 AAATTTGTTTAATATTCTCTTG
1 AAATTTGTTCAATATTCTCTTG
34916622 AAATTT-TTCAATATTCTCTT
1 AAATTTGTTCAATATTCTCTT
34916642 TTTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.55
Consensus pattern (22 bp):
AAATTTGTTCAATATTCTCTTG
Found at i:34917539 original size:48 final size:44
Alignment explanation
Indices: 34917466--34917560 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 44
34917456 ACGTTCAAAC
*
34917466 AAACAAAAGTATAAGATTGTGCTTGGTTAG-TTGGAAAATTGAAG
1 AAACAAAAGTATAAGATTGTGCTTGGTT-GTTTGGAAAAGTGAAG
*
34917510 AAACAAAAGTATAAGATTATACTTGCTTGGTTGTTTGGAAAAGTGAAG
1 AAACAAAAGTATAAGA-T-T--GTGCTTGGTTGTTTGGAAAAGTGAAG
34917558 AAA
1 AAA
34917561 TGGAAGAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
44 16 0.36
45 1 0.02
46 1 0.02
47 1 0.02
48 25 0.57
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.29
Consensus pattern (44 bp):
AAACAAAAGTATAAGATTGTGCTTGGTTGTTTGGAAAAGTGAAG
Found at i:34922277 original size:17 final size:18
Alignment explanation
Indices: 34922246--34922288 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
34922236 GAAAATGTAC
*
34922246 ATAATAAAATGAAAATAT
1 ATAATAAAATAAAAATAT
34922264 ATAA-AAAATAAAAATA-
1 ATAATAAAATAAAAATAT
*
34922280 AAAATAAAA
1 ATAATAAAA
34922289 GTTTAGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
ATAATAAAATAAAAATAT
Found at i:34932631 original size:3 final size:3
Alignment explanation
Indices: 34932625--34932654 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
34932615 TTGTTGCGGA
34932625 TGG TGG TGG TGG TGG T-G TGG TGG TGG TGG T
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG T
34932655 TGTTGTCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (3 bp):
TGG
Found at i:34932646 original size:14 final size:14
Alignment explanation
Indices: 34932627--34932654 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34932617 GTTGCGGATG
34932627 GTGGTGGTGGTGGT
1 GTGGTGGTGGTGGT
34932641 GTGGTGGTGGTGGT
1 GTGGTGGTGGTGGT
34932655 TGTTGTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.64, T:0.36
Consensus pattern (14 bp):
GTGGTGGTGGTGGT
Found at i:34932716 original size:24 final size:24
Alignment explanation
Indices: 34932687--34932736 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
34932677 TCTTGAGTCA
34932687 TTCTAGTTGAATTCTCGGTAACAT
1 TTCTAGTTGAATTCTCGGTAACAT
34932711 TTCTAGTTGAATTCTCGGTAACAT
1 TTCTAGTTGAATTCTCGGTAACAT
34932735 TT
1 TT
34932737 GCATGGTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (24 bp):
TTCTAGTTGAATTCTCGGTAACAT
Found at i:34935529 original size:6 final size:6
Alignment explanation
Indices: 34935518--34935563 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
34935508 CAGTCTTTGC
**
34935518 CGCCGT CGCCGT CATCGT CGCCGT CGCCGT CGCCGT CGCCGT CGCC
1 CGCCGT CGCCGT CGCCGT CGCCGT CGCCGT CGCCGT CGCCGT CGCC
34935564 ACCGCGGTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.02, C:0.50, G:0.30, T:0.17
Consensus pattern (6 bp):
CGCCGT
Found at i:34935573 original size:18 final size:18
Alignment explanation
Indices: 34935533--34935573 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
34935523 TCGCCGTCAT
**
34935533 CGTCGCCGTCGCCGTCGC
1 CGTCGCCGTCGCCACCGC
34935551 CGTCGCCGTCGCCACCGC
1 CGTCGCCGTCGCCACCGC
*
34935569 GGTCG
1 CGTCG
34935574 GTCCTGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.49, G:0.34, T:0.15
Consensus pattern (18 bp):
CGTCGCCGTCGCCACCGC
Found at i:34937830 original size:31 final size:31
Alignment explanation
Indices: 34937794--34937867 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
34937784 TACATAAAAC
*
34937794 AATATAAAAATACAAACATCTCAAAATCTAT
1 AATATAAAAATACAAACATATCAAAATCTAT
* * * *
34937825 AATAT-AAATTATAAACCTATCAAAATTTAT
1 AATATAAAAATACAAACATATCAAAATCTAT
*
34937855 ATAAATAAAAATA
1 A-ATATAAAAATA
34937868 ATATAACAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
30 21 0.62
31 8 0.24
32 5 0.15
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (31 bp):
AATATAAAAATACAAACATATCAAAATCTAT
Found at i:34939492 original size:24 final size:23
Alignment explanation
Indices: 34939461--34939507 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
34939451 TTTAATAATT
34939461 ATTTTTA-TTTCTTAAATTTTTAAA
1 ATTTTTATTTTC-T-AATTTTTAAA
34939485 ATTTTTATTTTCTAATTTTTAAA
1 ATTTTTATTTTCTAATTTTTAAA
34939508 GTCAAGATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 8 0.36
25 4 0.18
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTTATTTTCTAATTTTTAAA
Found at i:34940859 original size:35 final size:35
Alignment explanation
Indices: 34940818--34940888 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
34940808 AGGAAATGAG
*
34940818 AAGTCACAAGAGAATGAAACACATTGATCGGAAGT
1 AAGTCACAAGAGAACGAAACACATTGATCGGAAGT
34940853 AAGTCACAAGAGAACGAAACACATTGATCGGAAGT
1 AAGTCACAAGAGAACGAAACACATTGATCGGAAGT
34940888 A
1 A
34940889 TCACTTGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (35 bp):
AAGTCACAAGAGAACGAAACACATTGATCGGAAGT
Found at i:34946541 original size:20 final size:20
Alignment explanation
Indices: 34946500--34946541 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
34946490 AGCTCATGTA
* *
34946500 TTTCATAAAATTTAGAATTT
1 TTTCATAAAATTTACAACTT
34946520 TTTCAT-AAATGTTACAACTT
1 TTTCATAAAAT-TTACAACTT
34946540 TT
1 TT
34946542 CAATTTAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTCATAAAATTTACAACTT
Found at i:34946719 original size:19 final size:19
Alignment explanation
Indices: 34946695--34946733 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34946685 CAAATTAATC
34946695 CTGGAAATGATTTACTTTT
1 CTGGAAATGATTTACTTTT
34946714 CTGGAAATGATTTACTTTT
1 CTGGAAATGATTTACTTTT
34946733 C
1 C
34946734 CGGTGTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (19 bp):
CTGGAAATGATTTACTTTT
Found at i:34949800 original size:18 final size:18
Alignment explanation
Indices: 34949762--34949801 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34949752 TGAATGCGTT
* *
34949762 GGAAGAAGAAGAAACAGA
1 GGAAAAAGAAGAAACAAA
*
34949780 GGAAAAAGAAGAAGCAAA
1 GGAAAAAGAAGAAACAAA
34949798 GGAA
1 GGAA
34949802 TTAGCCGACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.33, T:0.00
Consensus pattern (18 bp):
GGAAAAAGAAGAAACAAA
Found at i:34950508 original size:9 final size:10
Alignment explanation
Indices: 34950485--34950519 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
34950475 GACATTAAAA
34950485 AATAAAAATT
1 AATAAAAATT
*
34950495 AATAAAAGTT
1 AATAAAAATT
34950505 -ATAAAAATT
1 AATAAAAATT
34950514 AATAAA
1 AATAAA
34950520 TTTCAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (10 bp):
AATAAAAATT
Found at i:34952654 original size:36 final size:35
Alignment explanation
Indices: 34952571--34952656 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 35
34952561 ACAAAACGAG
*
34952571 GTTT-AGGATTTAATTGTAGAATAAGAAAATCTGT
1 GTTTAAGGATTAAATTGTAGAATAAGAAAATCTGT
* *
34952605 GTTTGAGGAATTAAATTGTAGAAT-AGTAAAATTTG-
1 GTTTAAGG-ATTAAATTGTAGAATAAG-AAAATCTGT
34952640 GATTTCAAGGATTAAAT
1 G-TTT-AAGGATTAAAT
34952657 CGTAAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
34 4 0.09
35 6 0.14
36 31 0.70
37 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (35 bp):
GTTTAAGGATTAAATTGTAGAATAAGAAAATCTGT
Found at i:34962589 original size:22 final size:23
Alignment explanation
Indices: 34962540--34962594 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 23
34962530 TCGCCCCTAA
* *
34962540 AATGA-AAAATTTTCCATTTAAT
1 AATGATAAAATTTTCAAATTAAT
34962562 -AT-ATAAAATTTT-AAATTAAT
1 AATGATAAAATTTTCAAATTAAT
34962582 AATGATAAAATTT
1 AATGATAAAATTT
34962595 ATTTTGATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (23 bp):
AATGATAAAATTTTCAAATTAAT
Found at i:34963936 original size:31 final size:31
Alignment explanation
Indices: 34963867--34963927 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
34963857 TTTGCCAAGG
*
34963867 TCAAATTTCAATTTTAATCTCTATGCTACAA
1 TCAAATTTCAATTTTAATCCCTATGCTACAA
* *
34963898 TCAAATTTCAATTTTGATCCCTCTGCTACA
1 TCAAATTTCAATTTTAATCCCTATGCTACA
34963928 GTTGAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (31 bp):
TCAAATTTCAATTTTAATCCCTATGCTACAA
Found at i:34964840 original size:22 final size:22
Alignment explanation
Indices: 34964815--34964861 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
34964805 CGAATTTTGC
* *
34964815 TGGTAAAATATGAAAATAATTA
1 TGGTAAAATAAGAAAACAATTA
*
34964837 TGGTAAAATAAGACAACAATTA
1 TGGTAAAATAAGAAAACAATTA
34964859 TGG
1 TGG
34964862 ATTAAAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.04, G:0.17, T:0.28
Consensus pattern (22 bp):
TGGTAAAATAAGAAAACAATTA
Found at i:34966548 original size:15 final size:15
Alignment explanation
Indices: 34966528--34966557 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34966518 AAACCTCTAA
34966528 GCCTCCGCCCCCACC
1 GCCTCCGCCCCCACC
*
34966543 GCCTCCGCCTCCACC
1 GCCTCCGCCCCCACC
34966558 TCTGCCTCTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.70, G:0.13, T:0.10
Consensus pattern (15 bp):
GCCTCCGCCCCCACC
Found at i:34966552 original size:6 final size:6
Alignment explanation
Indices: 34966541--34966605 Score: 85
Period size: 6 Copynumber: 10.8 Consensus size: 6
34966531 TCCGCCCCCA
* * * * *
34966541 CCGCCT CCGCCT CCACCT CTGCCT CTGTCT CCGTCT CCGCCT CCGCCT
1 CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT CCGCCT
34966589 CCGCCT CCGCCT CCGCC
1 CCGCCT CCGCCT CCGCC
34966606 ATCATTTGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.02, C:0.62, G:0.15, T:0.22
Consensus pattern (6 bp):
CCGCCT
Found at i:34970442 original size:27 final size:28
Alignment explanation
Indices: 34970367--34970430 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
34970357 AATATTCAAC
*
34970367 ATAAA-TAAAATATAAA-C-AATTTGAA
1 ATAAAGTAATATATAAAGCAAATTTGAA
*
34970392 ATAAAGTAATATATAAAGCAAATTTTAA
1 ATAAAGTAATATATAAAGCAAATTTGAA
34970420 ATAAA-TAATAT
1 ATAAAGTAATAT
34970431 GTTAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 5 0.15
26 10 0.29
27 7 0.21
28 12 0.35
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (28 bp):
ATAAAGTAATATATAAAGCAAATTTGAA
Found at i:34971024 original size:29 final size:27
Alignment explanation
Indices: 34970979--34971041 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
34970969 TATATATGAA
* *
34970979 AAATAAAAGTAATATTAATATATAAATAT
1 AAATAGAAGTAATATTAAT-GA-AAATAT
34971008 AAATAGAAGT-ATAATTAATGAAAATAT
1 AAATAGAAGTAAT-ATTAATGAAAATAT
34971035 -AATAGAA
1 AAATAGAA
34971042 ACATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 7 0.23
27 6 0.19
28 3 0.10
29 15 0.48
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATAGAAGTAATATTAATGAAAATAT
Found at i:34971058 original size:27 final size:27
Alignment explanation
Indices: 34971002--34971058 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
34970992 ATTAATATAT
** * *
34971002 AAATATAAATAGAAGTATAATTAATGA
1 AAATATAAATAGAAACATAATAAATAA
34971029 AAATAT-AATAGAAACATAAATAAATAA
1 AAATATAAATAGAAACAT-AATAAATAA
34971056 AAA
1 AAA
34971059 AAATTAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (27 bp):
AAATATAAATAGAAACATAATAAATAA
Found at i:34972064 original size:16 final size:16
Alignment explanation
Indices: 34972032--34972077 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
34972022 ATCGATTTGA
34972032 AAAGAAAAGA-AAGAAAG
1 AAAGAAAA-ATAA-AAAG
34972049 TAAA-AAAAATAAAAAG
1 -AAAGAAAAATAAAAAG
34972065 AAAGAAAAATAAA
1 AAAGAAAAATAAA
34972078 TAAATAGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.12
16 14 0.54
17 6 0.23
18 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAGAAAAATAAAAAG
Found at i:34972064 original size:20 final size:20
Alignment explanation
Indices: 34972041--34972081 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
34972031 AAAAGAAAAG
34972041 AAAGAAAGTAAAAA-AAATAA
1 AAAGAAAG-AAAAATAAATAA
34972061 AAAGAAAGAAAAATAAATAA
1 AAAGAAAGAAAAATAAATAA
34972081 A
1 A
34972082 TAGCGGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAGAAAGAAAAATAAATAA
Found at i:34973619 original size:26 final size:27
Alignment explanation
Indices: 34973569--34973620 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
34973559 AGGAGAAACA
* *
34973569 CAGATCAAGCTAGAACAACCTAACATT
1 CAGACCAAGCTAGAACAACCCAACATT
34973596 CAGACCAAGCTAG-ACAACCCAACAT
1 CAGACCAAGCTAGAACAACCCAACAT
34973621 CCGACCTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.13
Consensus pattern (27 bp):
CAGACCAAGCTAGAACAACCCAACATT
Found at i:34975957 original size:32 final size:32
Alignment explanation
Indices: 34975893--34975991 Score: 119
Period size: 32 Copynumber: 3.1 Consensus size: 32
34975883 ACAATGGGCT
** *
34975893 CACACGCCCATAT-GGCCCGCACGTGTGGGTC
1 CACACGCCCATATAGGCCTACACATGTGGGTC
* * *
34975924 CACATGCCCATATGGGCTTACACATGTGGGTC
1 CACACGCCCATATAGGCCTACACATGTGGGTC
* *
34975956 CACACGCCCATGTAGGCCTGCACATGTGGGTC
1 CACACGCCCATATAGGCCTACACATGTGGGTC
34975988 CACA
1 CACA
34975992 AGCTGATGTG
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 12 0.21
32 45 0.79
ACGTcount: A:0.20, C:0.34, G:0.26, T:0.19
Consensus pattern (32 bp):
CACACGCCCATATAGGCCTACACATGTGGGTC
Found at i:34978228 original size:35 final size:35
Alignment explanation
Indices: 34978069--34978230 Score: 184
Period size: 35 Copynumber: 4.7 Consensus size: 35
34978059 TTCCTCATTG
* * *
34978069 TAATACCATACCTACATTTTACAACTCGGTATAGGA
1 TAATACCATACCTACGTTTCACAACTCAGTAT-GGA
* ** *
34978105 -AATGCCATACCTACGTTTCTTAACTCAGTATAGA
1 TAATACCATACCTACGTTTCACAACTCAGTATGGA
* *
34978139 TAATACCATACCTACGTATCACAACTCAGTATGGT
1 TAATACCATACCTACGTTTCACAACTCAGTATGGA
* * *
34978174 TAATA-CATACCTACATTTCACAACGCAGCATGGA
1 TAATACCATACCTACGTTTCACAACTCAGTATGGA
*
34978208 TGATACCATACCTACGTTTCACA
1 TAATACCATACCTACGTTTCACA
34978231 GCTTTGCCAT
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
34 30 0.29
35 74 0.71
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (35 bp):
TAATACCATACCTACGTTTCACAACTCAGTATGGA
Found at i:34982117 original size:21 final size:21
Alignment explanation
Indices: 34982093--34982138 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
34982083 ACACACGTCT
*
34982093 GTGTGGCCAAGGGACACGCCC
1 GTGTGGCCAAGGGACACACCC
**
34982114 GTGTGGCCTTGGGACACACCC
1 GTGTGGCCAAGGGACACACCC
34982135 GTGT
1 GTGT
34982139 CTCAAGCCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.30, G:0.37, T:0.17
Consensus pattern (21 bp):
GTGTGGCCAAGGGACACACCC
Found at i:34982132 original size:23 final size:23
Alignment explanation
Indices: 34982080--34982132 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
34982070 CTAGGTGTAG
* *
34982080 GGGACACACGTCTGTGTGGCCAA
1 GGGACACACGCCCGTGTGGCCAA
**
34982103 GGG--ACACGCCCGTGTGGCCTT
1 GGGACACACGCCCGTGTGGCCAA
34982124 GGGACACAC
1 GGGACACAC
34982133 CCGTGTCTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 17 0.71
23 7 0.29
ACGTcount: A:0.19, C:0.30, G:0.36, T:0.15
Consensus pattern (23 bp):
GGGACACACGCCCGTGTGGCCAA
Found at i:34987553 original size:300 final size:305
Alignment explanation
Indices: 34987143--34987700 Score: 756
Period size: 300 Copynumber: 1.8 Consensus size: 305
34987133 CTTAAATAAT
* * *
34987143 AGTATAGATATACAATTGATATAGGTAATAAAATGTGCATAATAAAATTAATTTTTTTTAAAAAA
1 AGTATAGATATACAATTGAGAGAGGTAATAAAATGTGCATAATAAAATTAATATTTTTT-AAAAA
*
34987208 TATCAAAATAAAGCTTTAGTTGAATGGTAAGTTAAAAGTTTTATTAATGCAATTAATGT-AGGTT
65 TATCAAAATAAAGCTTTAGTTGAATGGTAAATTAAAAGTTTTATTAATGCAATTAATGTGA-GTT
** ** * ** *
34987272 CAAATTCCATTTTATGCATATTTTTA-TTATT-ATTTTA-AAGTAAAA-TATTAAAATACCCTCG
129 CAAATTCCATAATAAACATATTTTTATTTATTCATTTTATAA-TAAAAGAACAAAAATACACTCG
* *
34987333 AATAATATAACTTGTTTTAATTATGAAAGGACATTTTAATAATTTTTCTAACCAAGTTGGTGACC
193 AATAATATAACTTGTTTTAATTACGAAAAGACATTTTAATAATTTTTCTAACCAAGTTGGTGACC
34987398 GCTTGACTTGTGACACCAACTTTGTCAAGGCATAAATAATAATATAGA
258 GCTTGACTTGTGACACCAACTTTGTCAAGGCATAAATAATAATATAGA
* *
34987446 AGTATAGTTATACAATTGAGGGAGGTAA-AAAAGTGTGCATAATAAAA-TAATATTTTTT-AAAA
1 AGTATAGATATACAATTGAGAGAGGTAATAAAA-TGTGCATAATAAAATTAATATTTTTTAAAAA
* *
34987508 TATCAAAATAAAGCTTTAGTTGAGTGGTAAATT-AAAGATTTTATTAATGCAATTGATGTGAGTT
65 TATCAAAATAAAGCTTTAGTTGAATGGTAAATTAAAAG-TTTTATTAATGCAATTAATGTGAGTT
*
34987572 CAAATTCCATAATAAACATATTTTTATTTATTCTTTTTATTTTAATAAAAGAACAAAAATACACT
129 CAAATTCCATAATAAACATATTTTTATTTATTCATTTTA---TAATAAAAGAACAAAAATACACT
*** ** *
34987637 CGAATAATATAACTTGTTTTAATTACGAAAATTTATTTTCGTAATTTTTCTAACCGAGTTGGTG
191 CGAATAATATAACTTGTTTTAATTACGAAAAGACATTTTAATAATTTTTCTAACCAAGTTGGTG
34987701 CCTAATTGAC
Statistics
Matches: 220, Mismatches: 25, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
299 4 0.02
300 80 0.36
301 6 0.03
302 19 0.09
303 38 0.17
305 5 0.02
306 68 0.31
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (305 bp):
AGTATAGATATACAATTGAGAGAGGTAATAAAATGTGCATAATAAAATTAATATTTTTTAAAAAT
ATCAAAATAAAGCTTTAGTTGAATGGTAAATTAAAAGTTTTATTAATGCAATTAATGTGAGTTCA
AATTCCATAATAAACATATTTTTATTTATTCATTTTATAATAAAAGAACAAAAATACACTCGAAT
AATATAACTTGTTTTAATTACGAAAAGACATTTTAATAATTTTTCTAACCAAGTTGGTGACCGCT
TGACTTGTGACACCAACTTTGTCAAGGCATAAATAATAATATAGA
Found at i:34987827 original size:23 final size:21
Alignment explanation
Indices: 34987785--34987832 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
34987775 GTCACTCAAC
* * *
34987785 TATTAATTTTTTTGATTTAAT
1 TATTAATTTTTTTAAATTAAA
34987806 TATTAATTTTTTTCTAAATTAAA
1 TATTAA-TTTTTT-TAAATTAAA
34987829 TATT
1 TATT
34987833 TTAATCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 6 0.27
22 6 0.27
23 10 0.45
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTAATTTTTTTAAATTAAA
Found at i:34989951 original size:5 final size:5
Alignment explanation
Indices: 34989941--34989969 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
34989931 AAATTTTGAA
34989941 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
34989970 ACAATCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:34991198 original size:17 final size:17
Alignment explanation
Indices: 34991176--34991213 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
34991166 GTTATTAACT
*
34991176 ACATAATATATAAA-AAA
1 ACATAACATA-AAATAAA
34991193 ACATAACATAAAATAAA
1 ACATAACATAAAATAAA
34991210 ACAT
1 ACAT
34991214 TACAAACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (17 bp):
ACATAACATAAAATAAA
Found at i:34994534 original size:37 final size:37
Alignment explanation
Indices: 34994429--34994781 Score: 300
Period size: 37 Copynumber: 9.5 Consensus size: 37
34994419 AAAAATGGAA
* * * * *
34994429 TACTGAATATACTGAACGTGCTCAAAAGAGTAATGTC
1 TACTGATTATACTGAATGTGCTCAAACGAGCAATATC
* * *
34994466 TACTGATTATACTAAAAGTTACTCAAACGAGCAATATCC
1 TACTGATTATACTGAATG-TGCTCAAACGAGCAATAT-C
* *
34994505 T-CTGATTATACTGAATGGGCTCAAACGAGCAATGTC
1 TACTGATTATACTGAATGTGCTCAAACGAGCAATATC
* *
34994541 TAATGATTATACTGAATGTACTCAAACGAGCAATATC
1 TACTGATTATACTGAATGTGCTCAAACGAGCAATATC
* * * * *
34994578 TACTAAATCTACTGAACGTGCTCGAAA-GAGCAATGTC
1 TACTGATTATACTGAATGTGCTC-AAACGAGCAATATC
* **
34994615 TATTGATTATACTGAAAAT-TAATCAAACGAGCAATATC
1 TACTGATTATACTG--AATGTGCTCAAACGAGCAATATC
* ** *
34994653 CACCAATTATACCGAATG-GACTCAAACGAGCAATATC
1 TACTGATTATACTGAATGTG-CTCAAACGAGCAATATC
* * * * ** *
34994690 TACTGAATATAGTAAACGTGCTCAAAAAAGCAATGTC
1 TACTGATTATACTGAATGTGCTCAAACGAGCAATATC
* *
34994727 TACTGATTATACTGAAATTTGCTCAAACGAGCGATATC
1 TACTGATTATACTG-AATGTGCTCAAACGAGCAATATC
* *
34994765 CACTGATTATACGGAAT
1 TACTGATTATACTGAAT
34994782 TCATGCTCAA
Statistics
Matches: 245, Mismatches: 60, Indels: 22
0.75 0.18 0.07
Matches are distributed among these distances:
36 5 0.02
37 154 0.63
38 82 0.33
39 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (37 bp):
TACTGATTATACTGAATGTGCTCAAACGAGCAATATC
Done.