Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 112 of 221
Found at i:34389436 original size:14 final size:15
Alignment explanation
Indices: 34389417--34389454 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
34389407 CAAAAAAAGT
34389417 AAATCATTTTCCA-A
1 AAATCATTTTCCAGA
34389431 AAATCATTTTCCAGA
1 AAATCATTTTCCAGA
34389446 AAA-CATTTT
1 AAATCATTTT
34389455 ACTGGCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (15 bp):
AAATCATTTTCCAGA
Found at i:34389726 original size:15 final size:17
Alignment explanation
Indices: 34389688--34389726 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
34389678 GGTACAAACT
34389688 AAATTGTAAAATGGAGA
1 AAATTGTAAAATGGAGA
34389705 AAA--GTAAAA-GG-GA
1 AAATTGTAAAATGGAGA
34389718 AAATTGTAA
1 AAATTGTAA
34389727 TATTCAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.25
14 2 0.10
15 10 0.50
17 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (17 bp):
AAATTGTAAAATGGAGA
Found at i:34390367 original size:31 final size:31
Alignment explanation
Indices: 34390316--34390404 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
34390306 CCTCAAAAAG
* * *
34390316 TTTAAGTACCAACTTAAGGAAAAATTGTCAAA
1 TTTAAATACCAAATT-AGGAAAAAGTGTCAAA
* * *
34390348 TTTAAATATCAAATTAGGAAAAAGTGTGAAG
1 TTTAAATACCAAATTAGGAAAAAGTGTCAAA
* *
34390379 TTTAAGTACCAAATTAAAGAAAAAGT
1 TTTAAATACCAAATT-AGGAAAAAGT
34390405 TAAATACCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
31 26 0.55
32 21 0.45
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (31 bp):
TTTAAATACCAAATTAGGAAAAAGTGTCAAA
Found at i:34390426 original size:24 final size:24
Alignment explanation
Indices: 34390380--34390425 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
34390370 AGTGTGAAGT
*
34390380 TTAAGTACCAAATTAAAGAAAAAG
1 TTAAATACCAAATTAAAGAAAAAG
34390404 TTAAATACCAAATT-AAGAAAAA
1 TTAAATACCAAATTAAAGAAAAA
34390426 ATGTGTTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.22
Consensus pattern (24 bp):
TTAAATACCAAATTAAAGAAAAAG
Found at i:34392503 original size:17 final size:17
Alignment explanation
Indices: 34392481--34392514 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34392471 ATTAAGTTAA
* *
34392481 TTTTAAAGTTTTTTATT
1 TTTTAAAATATTTTATT
34392498 TTTTAAAATATTTTATT
1 TTTTAAAATATTTTATT
34392515 CTGTTGATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTAAAATATTTTATT
Found at i:34397062 original size:21 final size:22
Alignment explanation
Indices: 34397038--34397088 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
34397028 AATTTTTTAA
34397038 AATTTTAAAAATATTTAA-AAT
1 AATTTTAAAAATATTTAATAAT
** * *
34397059 AATTTTTTATATTTTTAATAAT
1 AATTTTAAAAATATTTAATAAT
34397081 AATTTTAA
1 AATTTTAA
34397089 TGATTTTTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTTTAAAAATATTTAATAAT
Found at i:34397081 original size:22 final size:22
Alignment explanation
Indices: 34397051--34397099 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
34397041 TTTAAAAATA
*
34397051 TTTAA-AATAATTTTTTAT-ATT
1 TTTAATAATAA-TTTTAATGATT
34397072 TTTAATAATAATTTTAATGATT
1 TTTAATAATAATTTTAATGATT
34397094 TTTAAT
1 TTTAAT
34397100 TTTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTAATAATAATTTTAATGATT
Found at i:34397095 original size:31 final size:29
Alignment explanation
Indices: 34397021--34397117 Score: 90
Period size: 31 Copynumber: 3.2 Consensus size: 29
34397011 CATGTCAACA
*
34397021 TTTAATTAATTTTTTAAAATTTTAAAA-ATAT
1 TTTAA-TAATTTTTT-AATTTTTAAAATA-AT
*
34397052 TTAAAATAATTTTTTATATTTTTAATAATAAT
1 TT-TAATAATTTTTTA-ATTTTTAA-AATAAT
*
34397084 TTTAATGA-TTTTTAATTTTTAAAATAAGT
1 TTTAATAATTTTTTAATTTTTAAAATAA-T
34397113 TTTAA
1 TTTAA
34397118 ATTTTAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
28 5 0.09
29 14 0.25
30 7 0.12
31 22 0.39
32 8 0.14
33 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
TTTAATAATTTTTTAATTTTTAAAATAAT
Found at i:34410026 original size:20 final size:20
Alignment explanation
Indices: 34409997--34410050 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
34409987 TTAAACTAGC
*
34409997 AAAT-AAATCAATTTGATTA
1 AAATCAAATCAATTTAATTA
* *
34410016 AAATCAAATCAAATTAATTG
1 AAATCAAATCAATTTAATTA
*
34410036 GAATCAAAT-AATTTA
1 AAATCAAATCAATTTA
34410051 GGATATATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (20 bp):
AAATCAAATCAATTTAATTA
Found at i:34421332 original size:3 final size:3
Alignment explanation
Indices: 34421324--34421361 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
34421314 AATATATAGA
34421324 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34421362 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34423032 original size:44 final size:44
Alignment explanation
Indices: 34422983--34423066 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
34422973 TTTGCTATTT
* * *
34422983 TCAGTCTGC-CTCATAGTAACTTCAGGGGGATAAGACTTGTTTTC
1 TCAGTCTGCTCT-ATAGCAACCTCAGGGAGATAAGACTTGTTTTC
* *
34423027 TCAGTCTGCTCTATTGCAACCTCAGGGAGATAAGATTTGT
1 TCAGTCTGCTCTATAGCAACCTCAGGGAGATAAGACTTGT
34423067 CATCTTCGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.94
45 2 0.06
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (44 bp):
TCAGTCTGCTCTATAGCAACCTCAGGGAGATAAGACTTGTTTTC
Found at i:34423187 original size:44 final size:44
Alignment explanation
Indices: 34423139--34423407 Score: 133
Period size: 44 Copynumber: 6.2 Consensus size: 44
34423129 TAACTTTAGA
* *
34423139 GAGATAAGATCTA-TTACTTTAATCCACTCCACTGTAATCTCAGG
1 GAGATAAGAT-TACTGACTTCAATCCACTCCACTGTAATCTCAGG
* * ** *
34423183 GAGATATGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGG
1 GAGATAAGATTACTGACTTCAATCCACTCCACTGTAATCTCAGG
** * * *** *
34423227 GAGATAAGATTTGTCATCTTCGAT-TTGTCCCACTGTGA-CTTCAAGG
1 GAGATAAGATTACTGA-CTTCAATCCACT-CCACTGTAATC-TC-AGG
* * * ** *
34423273 G-GATAAGACT--TGA-TGCGATCCACTCTGCTGTAA-CTTCAGA
1 GAGATAAGATTACTGACTTCAATCCACTCCACTGTAATC-TCAGG
* * * *
34423313 GAGATAAGATCTA-TTACTTTAATCCGCTCCACTCTAATCTCAGG
1 GAGATAAGAT-TACTGACTTCAATCCACTCCACTGTAATCTCAGG
* * ** * *
34423357 GAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAAG
1 GAGATAAGATTACTGACTTCAATCCACTCCACTGTAATCTCAGG
34423401 GAGATAA
1 GAGATAA
34423408 TATTTGAATC
Statistics
Matches: 167, Mismatches: 46, Indels: 24
0.70 0.19 0.10
Matches are distributed among these distances:
40 3 0.02
41 22 0.13
42 2 0.01
43 8 0.05
44 104 0.62
45 24 0.14
46 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
GAGATAAGATTACTGACTTCAATCCACTCCACTGTAATCTCAGG
Found at i:34423321 original size:174 final size:174
Alignment explanation
Indices: 34423047--34423456 Score: 660
Period size: 174 Copynumber: 2.4 Consensus size: 174
34423037 CTATTGCAAC
34423047 CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAGGGGGATAAGACTTGA
1 CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAGGGGGATAAGACTTGA
* * *
34423112 TGTGATCCACTCTACTATAACTTTAGAGAGATAAGATCTATTACTTTAATCCACTCCACTGTAAT
66 TGCGATCCACTCTACTATAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTCTAAT
*
34423177 CTCAGGGAGATATGATTACTGGCTTCAATCTGCTCCGCTGTAAT
131 CTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAAT
*
34423221 CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAAGGGGATAAGACTTGA
1 CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAGGGGGATAAGACTTGA
* * *
34423286 TGCGATCCACTCTGCTGTAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTCCACTCTAAT
66 TGCGATCCACTCTACTATAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTCTAAT
34423351 CTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAAT
131 CTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAAT
* * * * ** *
34423395 CTCAAGGAGATAATATTTGAATC-TCTTCGATCTGCCCCACTGCAACTTTAGGGGGATAAGAC
1 CTCAGGGAGATAAGATTTG--TCATCTTCGATTTGTCCCACTGTGACTTCAGGGGGATAAGAC
34423457 CTGCTTGCTC
Statistics
Matches: 218, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
174 183 0.84
175 33 0.15
176 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (174 bp):
CTCAGGGAGATAAGATTTGTCATCTTCGATTTGTCCCACTGTGACTTCAGGGGGATAAGACTTGA
TGCGATCCACTCTACTATAACTTCAGAGAGATAAGATCTATTACTTTAATCCACTCCACTCTAAT
CTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAAT
Found at i:34423517 original size:219 final size:219
Alignment explanation
Indices: 34423264--34423717 Score: 723
Period size: 219 Copynumber: 2.1 Consensus size: 219
34423254 TCCCACTGTG
*
34423264 ACTTCAAGGG-GATAAGACTTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATAAGATCTATT
1 ACTTC-AGGGAGATAAGACCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATAAGATCTATT
*
34423328 ACTTTAATCCGCTCCACTCTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTA
65 ACTTTAATCCGCTCCACTCTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGTA
* * *
34423393 ATCTCAAGGAGATAATATTTGAATCTCTTCGATCTGCCCCACTGCAACTTTAGGGGGATAAGACC
130 ATATCAAGGAGATAAGATTTGAATCTCTTCGATCTGCCCCACTGCAACTTCAGGGGGATAAGACC
* *
34423458 TGCTTGCTCAATCTGCTCCGCTGTA
195 TGCTTGCTCAATCTACTCCGCTGCA
*
34423483 ACTTTAGGGAGATAAGACCTGAT-CTGATCCACTCTGCTGTAACTTCAGAGAGATAAGATCTATT
1 ACTTCAGGGAGATAAGACCTGATGC-GATCCACTCTGCTGTAACTTCAGAGAGATAAGATCTATT
* * * * *
34423547 ACTTTAATCTGCTCCACTGTAATCTCCGGGAGATAGGATTACTGGCTTCAATCTGCTGCATTGTA
65 ACTTTAATCCGCTCCACTCTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGTA
* *
34423612 ATATCAGGGAGATAAGATTTGAATCTCTTCGATCTGTCCCACTGCAACTTCAGGGGGATAAGACC
130 ATATCAAGGAGATAAGATTTGAATCTCTTCGATCTGCCCCACTGCAACTTCAGGGGGATAAGACC
* *
34423677 TGCTTTCTCAGTCTACTCCGCTGCA
195 TGCTTGCTCAATCTACTCCGCTGCA
34423702 ACTTCAGGGAGATAAG
1 ACTTCAGGGAGATAAG
34423718 GCTCGGTGCC
Statistics
Matches: 215, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
218 5 0.02
219 210 0.98
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (219 bp):
ACTTCAGGGAGATAAGACCTGATGCGATCCACTCTGCTGTAACTTCAGAGAGATAAGATCTATTA
CTTTAATCCGCTCCACTCTAATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGTAA
TATCAAGGAGATAAGATTTGAATCTCTTCGATCTGCCCCACTGCAACTTCAGGGGGATAAGACCT
GCTTGCTCAATCTACTCCGCTGCA
Found at i:34423580 original size:44 final size:44
Alignment explanation
Indices: 34423519--34423630 Score: 111
Period size: 44 Copynumber: 2.5 Consensus size: 44
34423509 ATCCACTCTG
* * *
34423519 CTGTAACT-TCAGAGAGATAAGATCTA-TTACTTTAATCTGCTCCA
1 CTGTAA-TATCAGGGAGATAAGAT-TACTGACTTCAATCTGCTCCA
* * * * *
34423563 CTGTAATCTCCGGGAGATAGGATTACTGGCTTCAATCTGCTGCA
1 CTGTAATATCAGGGAGATAAGATTACTGACTTCAATCTGCTCCA
*
34423607 TTGTAATATCAGGGAGATAAGATT
1 CTGTAATATCAGGGAGATAAGATT
34423631 TGAATCTCTT
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
43 3 0.05
44 52 0.95
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (44 bp):
CTGTAATATCAGGGAGATAAGATTACTGACTTCAATCTGCTCCA
Found at i:34423803 original size:44 final size:44
Alignment explanation
Indices: 34423755--34423939 Score: 124
Period size: 44 Copynumber: 4.2 Consensus size: 44
34423745 TATCTTGGAA
*
34423755 AGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
34423799 AGATAAGATCTACAATCTTTAACCTGCTCCGCTGCTGCTCAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* ** * **** * * *
34423843 AGACAAGGCTCGGTGGCCTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCATCTTTAATCTGC-T-CCACTACTGCTTAGG-G
** *
34423887 AGATAAGATTTGCCATCTTCGATCTGCTCCACTATTGCTTAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
34423931 AGATAAGAT
1 AGATAAGAT
34423940 CTGTAGTATT
Statistics
Matches: 98, Mismatches: 37, Indels: 12
0.67 0.25 0.08
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
44 80 0.82
45 4 0.04
46 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
Found at i:34425160 original size:6 final size:7
Alignment explanation
Indices: 34425144--34425177 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
34425134 CCGTCATTAC
34425144 TTTTCAT
1 TTTTCAT
34425151 TTTTCA-
1 TTTTCAT
34425157 TTTTCAT
1 TTTTCAT
34425164 TTTTCAT
1 TTTTCAT
34425171 TTTTCAT
1 TTTTCAT
34425178 CCTCCATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:34425162 original size:13 final size:13
Alignment explanation
Indices: 34425144--34425173 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
34425134 CCGTCATTAC
34425144 TTTTCATTTTTCA
1 TTTTCATTTTTCA
34425157 TTTTCATTTTTCA
1 TTTTCATTTTTCA
34425170 TTTT
1 TTTT
34425174 TCATCCTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:34426055 original size:30 final size:26
Alignment explanation
Indices: 34426021--34426080 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 26
34426011 CATATCTTTA
34426021 TTTTGACTTTAATTGATTTCTCTTTTTTGC
1 TTTTGACTTTAATT--TTT-TCTTTTTT-C
*
34426051 TTTTGACTTTGATTTTTTCTTTTTTC
1 TTTTGACTTTAATTTTTTCTTTTTTC
34426077 TTTT
1 TTTT
34426081 TTAATTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.17
27 8 0.28
28 3 0.10
30 13 0.45
ACGTcount: A:0.10, C:0.12, G:0.08, T:0.70
Consensus pattern (26 bp):
TTTTGACTTTAATTTTTTCTTTTTTC
Found at i:34435077 original size:82 final size:84
Alignment explanation
Indices: 34434969--34435204 Score: 239
Period size: 82 Copynumber: 2.8 Consensus size: 84
34434959 TTAAGTCTTC
* * *
34434969 ATTTGGAAACAAAATCAAGATCGAATAAAATCTGTCAAACTGCGGGAATAAATCCCGAAACAGA-
1 ATTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACTGAGGGAATAAATCCCGAAACAGAT
34435033 TTACTCAATTCAATTT-TA
66 TTACTCAATTCAATTTCTA
* *
34435051 ATTTGGAAACAAAATCAAAA-CTGAATAAAATCTGTTAAA-TGAATGGAATAAATCCCGAAATAG
1 ATTTGGAAACAAAATCAAAATC-GAATAAAATCTGTTAAACTG-AGGGAATAAATCCCGAAACAG
* * * *
34435114 ATTTTATTTAATTTAATTTCTT
64 A-TTTACTCAATTCAATTTCTA
* ** * * *
34435136 GTTTGGAAACTAAATAAAAAAATGGAATAAAATCTGTTGAAC-GGGCGGAATAAATCCCGAAACA
1 ATTTGGAAAC-AAA-ATCAAAATCGAATAAAATCTGTTAAACTGAG-GGAATAAATCCCGAAACA
*
34435200 TATTT
63 GATTT
34435205 TATTTGATTT
Statistics
Matches: 126, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
81 3 0.02
82 54 0.43
84 13 0.10
85 10 0.08
86 6 0.05
87 40 0.32
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (84 bp):
ATTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACTGAGGGAATAAATCCCGAAACAGAT
TTACTCAATTCAATTTCTA
Found at i:34435188 original size:87 final size:86
Alignment explanation
Indices: 34434991--34435302 Score: 316
Period size: 88 Copynumber: 3.6 Consensus size: 86
34434981 AATCAAGATC
* * * * * *
34434991 GAATAAAATCTGTCAAACTGCGGGAATAAATCCCGAAACAGA--TTACTCAATTCAATTT-TAAT
1 GAATAAAATCTGTTAAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCT-TT
* * *
34435053 TTGGAAACAAAAT-CAAAACT-
65 TTGGAAACTAAATAAAAAAATG
* *** *
34435073 GAATAAAATCTGTTAAATGAATGGAATAAATCCCGAAATAGATTTTATTTAATTTAATTTCTTGT
1 GAATAAAATCTGTTAAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTT-T
34435138 TTGGAAACTAAATAAAAAAATG
65 TTGGAAACTAAATAAAAAAATG
* * * **
34435160 GAATAAAATCTGTTGAACGG-GCGGAATAAATCCCGAAACATATTTTATTTGATTTTAACACTCG
1 GAATAAAATCTGTTAAACGGCG-GGAATAAATCCCGAAACAGATTTTATTT-AATTTAA-TTTC-
34435224 TTTTTGGAAA-TAAA-ATAAAAAATG
62 TTTTTGGAAACTAAATA-AAAAAATG
* *
34435248 GAATAAAATCTGTTGAACGGCGGGAATAAATCCTGAAACAGATTTTATTTAATTT
1 GAATAAAATCTGTTAAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTT
34435303 TAACACTCGC
Statistics
Matches: 192, Mismatches: 26, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
82 35 0.18
84 13 0.07
85 14 0.07
86 5 0.03
87 48 0.25
88 64 0.33
89 11 0.06
90 2 0.01
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (86 bp):
GAATAAAATCTGTTAAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTTTT
TGGAAACTAAATAAAAAAATG
Found at i:34435351 original size:87 final size:86
Alignment explanation
Indices: 34434991--34435365 Score: 365
Period size: 87 Copynumber: 4.4 Consensus size: 86
34434981 AATCAAGATC
** * * *
34434991 GAATAAAATCTGTCAAACTGCGGGAATAAATCCCGAAACAGATTACTCAATTCAATTTT-A-A--
1 GAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAGATT--T-TATTTAATTTTAACACT
* * *
34435052 --TTTGGAAACAAAATCAAAACT-
63 CGTTTGGAAATAAAATAAAAAATG
* * *** * ** *
34435073 GAATAAAATCTGTTAAATGAATGGAATAAATCCCGAAATAGATTTTATTTAA-TTTAATTTCTTG
1 GAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAA-CACTCG
34435137 TTTGGAAACT-AAATAAAAAAATG
65 TTTGGAAA-TAAAAT-AAAAAATG
* *
34435160 GAATAAAATCTGTTGAACGG-GCGGAATAAATCCCGAAACATATTTTATTTGATTTTAACACTCG
1 GAATAAAATCTGTTGAACGGCG-GGAATAAATCCCGAAACAGATTTTATTTAATTTTAACACTCG
34435224 TTTTTGGAAATAAAATAAAAAATG
65 --TTTGGAAATAAAATAAAAAATG
*
34435248 GAATAAAATCTGTTGAACGGCGGGAATAAATCCTGAAACAGATTTTATTTAATTTTAACACTCGC
1 GAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAACACTCG-
* * *
34435313 TTTGGAAATAAAATTAAAATTT
65 TTTGGAAATAAAATAAAAAATG
* *
34435335 GAATAAAATCTATTGAACGACGGGAATAAAT
1 GAATAAAATCTGTTGAACGGCGGGAATAAAT
34435366 AATAAATCCT
Statistics
Matches: 245, Mismatches: 32, Indels: 27
0.81 0.11 0.09
Matches are distributed among these distances:
78 3 0.01
79 6 0.02
80 1 0.00
82 37 0.15
85 12 0.05
86 5 0.02
87 95 0.39
88 73 0.30
89 13 0.05
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (86 bp):
GAATAAAATCTGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTAATTTTAACACTCGT
TTGGAAATAAAATAAAAAATG
Found at i:34435627 original size:20 final size:21
Alignment explanation
Indices: 34435602--34435642 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
34435592 GTTAGCAAAC
*
34435602 AAATATATGTAT-AAATAAAA
1 AAATATATATATAAAATAAAA
*
34435622 AAATATTTATATAAAATAAAA
1 AAATATATATATAAAATAAAA
34435643 TAAAATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AAATATATATATAAAATAAAA
Found at i:34435689 original size:20 final size:20
Alignment explanation
Indices: 34435666--34435715 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 20
34435656 TTGAATTTAA
34435666 AATATCAAGCATGA-AAAACC
1 AATATCAAG-ATGAGAAAACC
34435686 AATAAAT-AAGATGAGAAAACC
1 AAT--ATCAAGATGAGAAAACC
34435707 AGATATCAA
1 A-ATATCAA
34435716 ATAAATAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
20 9 0.36
21 12 0.48
22 4 0.16
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (20 bp):
AATATCAAGATGAGAAAACC
Found at i:34436146 original size:502 final size:501
Alignment explanation
Indices: 34435499--34436494 Score: 1704
Period size: 502 Copynumber: 2.0 Consensus size: 501
34435489 AATAAAAACT
* * * *
34435499 TTTTTCTTTCTTTTGCCTTGGTGTCTCATTCGTCTCGGATTAGAGAATTGCAAAATAATAAAATT
1 TTTTTCTTTCTTTCGCCTTAGTGTCTCATTCGTCTCGAATTAGAGAATTGCAAAATAATAAAATC
* *
34435564 TATCTTAAGATTGTTGGACAAATAACACGTTAGCAAACAAATATATGTATAAATAAAAAAATATT
66 TATCTTAAGATTGTTAGACAAATAACACGTTAGCAAACAAATATATGTACAAATAAAAAAATATT
**
34435629 TATATAAAATAAAATAAAATAAGTAATTTGAATTTAAAATATCAAGCATGAAAAACCAATAAATA
131 TATATAAAATAAAATAAAATAAAAAATTTGAATTTAAAATATCAAGCATGAAAAACCAATAAATA
*
34435694 AGATGAGAAAACCAGATATCAAATAAATAATCGAATTTTACTAGATGTTGAGGCTTATTTTACAC
196 AGATGAGAAAACCAGATATCAAATAAAGAATCGAATTTTACTAGATGTTGAGGCTTA-TTTACAC
* * *
34435759 ATTTTCTTTAAGACAAATTTGGCCGCTCCTACGGTACTTGGAGAAACGTTGGTCGATTGTCTCCC
260 AGTTTCTTTAAGACAAATTTGGCCACTCCTACGGTACTTGGAGAAACGTTGGTCGACTGTCTCCC
* * *
34435824 AGGATACAACAACACGATGATCGAAGCAGCAGCACCTTTGCAGAGATTAATGAACAAACCTTGCC
325 AGGATACAACAACACGATGATCGAAGCAGCAGCAACTCTGCAAAGATTAATGAACAAACCTTGCC
* * * **
34435889 TTTTTCTATCACTGGAACATTGGAAAATATTGAGAGAAAAAGAGAAGAATTTTTTAGAGCAAAAT
390 TTTTTCTATCACCGAAACATTGAAAAATATTGAGAGAAAAAGAGAAGAATTTTCGAGAGCAAAAT
34435954 AAACTCGGTTTTAGAGAGTCTCTCAGTGTAAAAAATTCTGTCTTGGA
455 AAACTCGGTTTTAGAGAGTCTCTCAGTGTAAAAAATTCTGTCTTGGA
*
34436001 TTTTTCTTTCTTTCGCCTTAGTGTCTCGTTCGTCTCGAATTAGAGAATTGCAAAATAATAAAATC
1 TTTTTCTTTCTTTCGCCTTAGTGTCTCATTCGTCTCGAATTAGAGAATTGCAAAATAATAAAATC
* *
34436066 TGTCTTAAGATTGTTAGACAAATAACACGTTAGCAAACAAATATATGTACAAATAAAAAACTATT
66 TATCTTAAGATTGTTAGACAAATAACACGTTAGCAAACAAATATATGTACAAATAAAAAAATATT
* *
34436131 TATATAAAATAAAATAAAATAAAAAATTTGTATTTAAAATATCAAGTATGAAAAACCAATAAATA
131 TATATAAAATAAAATAAAATAAAAAATTTGAATTTAAAATATCAAGCATGAAAAACCAATAAATA
*
34436196 AGATTAGAAAACCAGATATCAAATAAAGAATCGAATTTTACTAGATGTTGAGGCTTATTTACACA
196 AGATGAGAAAACCAGATATCAAATAAAGAATCGAATTTTACTAGATGTTGAGGCTTATTTACACA
* * *
34436261 GTTTCTTTAAGATAGATTTGGCCACTCCTATGGTACTTGGAGAAACGTTGGTCGACTGTCTCCCA
261 GTTTCTTTAAGACAAATTTGGCCACTCCTACGGTACTTGGAGAAACGTTGGTCGACTGTCTCCCA
*
34436326 GGATACAACAACACGATGATCGAAGCAGTAGCAACTCTGCAAAGATTAATGAACAAACCTTGCCT
326 GGATACAACAACACGATGATCGAAGCAGCAGCAACTCTGCAAAGATTAATGAACAAACCTTGCCT
34436391 TTTTCTATCACCGAAACATTGAAAAATATTGAGAGAAAAAGAGAAGAATTTTCGAGAGCAAAATA
391 TTTTCTATCACCGAAACATTGAAAAATATTGAGAGAAAAAGAGAAGAATTTTCGAGAGCAAAATA
*
34436456 AACTCGGTTTTAGAGAGTCTCTCAGTGTAAAATATTCTG
456 AACTCGGTTTTAGAGAGTCTCTCAGTGTAAAAAATTCTG
34436495 AAGAATTCTT
Statistics
Matches: 463, Mismatches: 31, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
501 226 0.49
502 237 0.51
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (501 bp):
TTTTTCTTTCTTTCGCCTTAGTGTCTCATTCGTCTCGAATTAGAGAATTGCAAAATAATAAAATC
TATCTTAAGATTGTTAGACAAATAACACGTTAGCAAACAAATATATGTACAAATAAAAAAATATT
TATATAAAATAAAATAAAATAAAAAATTTGAATTTAAAATATCAAGCATGAAAAACCAATAAATA
AGATGAGAAAACCAGATATCAAATAAAGAATCGAATTTTACTAGATGTTGAGGCTTATTTACACA
GTTTCTTTAAGACAAATTTGGCCACTCCTACGGTACTTGGAGAAACGTTGGTCGACTGTCTCCCA
GGATACAACAACACGATGATCGAAGCAGCAGCAACTCTGCAAAGATTAATGAACAAACCTTGCCT
TTTTCTATCACCGAAACATTGAAAAATATTGAGAGAAAAAGAGAAGAATTTTCGAGAGCAAAATA
AACTCGGTTTTAGAGAGTCTCTCAGTGTAAAAAATTCTGTCTTGGA
Found at i:34444566 original size:68 final size:68
Alignment explanation
Indices: 34444467--34444700 Score: 315
Period size: 68 Copynumber: 3.4 Consensus size: 68
34444457 CTATAATACG
* *
34444467 AGCTGGGAACGTAGGCCCGTGAGCTGTTTTGGAGGTCGTGATATTAAACTGGCGAGCCTTTAGGA
1 AGCTGGGAA-GTAGGCCCGTGAGCTATTTTGGAGGTCGTGATATTAAATTGGCGAGCCTTTAGGA
34444532 TATC
65 TATC
* * ** * *
34444536 AGCTGGGAAGTAGGCCCGTGAGCTGTTTTGGAGATCACGATATTAAATTGGTGAGCCTTTAGAAT
1 AGCTGGGAAGTAGGCCCGTGAGCTATTTTGGAGGTCGTGATATTAAATTGGCGAGCCTTTAGGAT
34444601 ATC
66 ATC
* * * * * *
34444604 AACTGGGAAATATGTCCGCGAGCTATTTTGGAGGTCGTAATATTAAATTGGCGAGCCTTTAGGAT
1 AGCTGGGAAGTAGGCCCGTGAGCTATTTTGGAGGTCGTGATATTAAATTGGCGAGCCTTTAGGAT
*
34444669 ATT
66 ATC
*
34444672 GGCTGGGAAGTAGGCCCGTGAGCTATTTT
1 AGCTGGGAAGTAGGCCCGTGAGCTATTTT
34444701 ATACTTGGGC
Statistics
Matches: 140, Mismatches: 25, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
68 131 0.94
69 9 0.06
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.29
Consensus pattern (68 bp):
AGCTGGGAAGTAGGCCCGTGAGCTATTTTGGAGGTCGTGATATTAAATTGGCGAGCCTTTAGGAT
ATC
Found at i:34444849 original size:71 final size:71
Alignment explanation
Indices: 34444765--34445204 Score: 357
Period size: 71 Copynumber: 6.2 Consensus size: 71
34444755 GTGGCATTGG
*
34444765 ACCTGCGAGCCTTAAGT-TGATAGCTGGGAGCTTT-TAACTCTTGCTAACTGTGTTGGAGGCTGC
1 ACCTGCGAGCCTTAA-TATGATAGCTGGGAG-TTTGTAACTCTCGCTAACTGTGTTGGAGGCTGC
34444828 GGTTTTGA
64 GGTTTTGA
* * * * ** * * * *
34444836 ACCTGCTAGCCTTAGTTTGGTAGCTAAGAGCTTT-TAACTTTCACTAACTGTGTTAGAGGCTGTG
1 ACCTGCGAGCCTTAATATGATAGCTGGGAG-TTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCG
*
34444900 GTTTTAA
65 GTTTTGA
** * * * * * * * * * * * *
34444907 ACCTAAGATCCTTAGTTTAACAACGGGGAGTTTTTAACTCTCGTTAACTGTGTTTGAGGATGTGG
1 ACCTGCGAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGG
34444972 TTTTGA
66 TTTTGA
* ** * * * **
34444978 TCCTATGAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTTGCTAATTGTGTTGGAGGCTGTAG
1 ACCTGCGAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGG
34445043 TTTT-A
66 TTTTGA
* * ** *
34445048 ATCCTGCAAGCCTTAATATGACATTTGGGAGTTTGTAACTCTCGCTAACTATGTTGGAGGCTGCG
1 A-CCTGCGAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCG
** *
34445113 ACTTTGG
65 GTTTTGA
* * * * * * *
34445120 TCCCGCGAGCCTTAATGTGATAGATGGGAGTTTGCAACTCTCGCTAATTGTGTTGGAGGCTACGG
1 ACCTGCGAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGG
34445185 TTTTGA
66 TTTTGA
* *
34445191 TCCTACGAGCCTTA
1 ACCTGCGAGCCTTA
34445205 TAGCTTGTTT
Statistics
Matches: 290, Mismatches: 75, Indels: 8
0.78 0.20 0.02
Matches are distributed among these distances:
70 5 0.02
71 285 0.98
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (71 bp):
ACCTGCGAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGG
TTTTGA
Found at i:34447112 original size:10 final size:10
Alignment explanation
Indices: 34447097--34447121 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34447087 GTTGATTGGC
34447097 TGATTGACTG
1 TGATTGACTG
34447107 TGATTGACTG
1 TGATTGACTG
34447117 TGATT
1 TGATT
34447122 CCTTTGTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (10 bp):
TGATTGACTG
Found at i:34447390 original size:18 final size:19
Alignment explanation
Indices: 34447367--34447407 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
34447357 TAATGGACTT
34447367 TATAGGATAA-TTTATTGG
1 TATAGGATAATTTTATTGG
34447385 TATAGGATAATTTTTATTGG
1 TATAGGATAA-TTTTATTGG
34447405 TAT
1 TAT
34447408 TTTTATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (19 bp):
TATAGGATAATTTTATTGG
Found at i:34449966 original size:49 final size:49
Alignment explanation
Indices: 34449909--34450012 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 49
34449899 TCATGTGTTA
* * * *
34449909 TAATTTTATACAGTGTTGA-GTTTGTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTT-TGATTCATGATATTAAACTCAATTT
*
34449958 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
34450007 TAATTT
1 TAATTT
34450013 GTTTTTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 46 0.94
50 3 0.06
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:34451494 original size:109 final size:116
Alignment explanation
Indices: 34451347--34451606 Score: 329
Period size: 109 Copynumber: 2.2 Consensus size: 116
34451337 AATAGATTAC
*
34451347 AAATTATAATTTAATAATAATTA-GTTAAATTATATTTTATATTATTATATATTATGA-TT-TTA
1 AAATTAT-ATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTATTA
*
34451409 GTAAATTCATA-TAAGAATA-A-GA-ATTTTATTAAATTATATATCATTATT
65 GTAAATTCATATTAAGAATATATAACATTTTATTAAATTATATATCATTATT
* *
34451457 -AATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTGTTATATATTATGATTTTATTA
1 AAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGA-TTTATTA
**
34451521 GTAAATTCATATTTAAGAATATTTATTAATCATTTTATTAAATTATATATTTTTATT
65 GTAAATTCATA-TTAAGAATA--TA-TAA-CATTTTATTAAATTATATATCATTATT
* *
34451578 AAATTATATTTTATAAAAATTATGTTAAA
1 AAATTATATTTAATAATAATTATGTTAAA
34451607 ATATGATTAA
Statistics
Matches: 127, Mismatches: 9, Indels: 16
0.84 0.06 0.11
Matches are distributed among these distances:
108 15 0.12
109 37 0.29
111 2 0.02
112 14 0.11
114 8 0.06
117 1 0.01
119 1 0.01
121 24 0.19
122 25 0.20
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (116 bp):
AAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATTTATTAG
TAAATTCATATTAAGAATATATAACATTTTATTAAATTATATATCATTATT
Found at i:34451779 original size:39 final size:41
Alignment explanation
Indices: 34451734--34451839 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 41
34451724 TTTCCTTATG
* *
34451734 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
34451774 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
34451819 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
34451840 ACGCATCTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 19 0.33
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:34451814 original size:44 final size:46
Alignment explanation
Indices: 34451751--34451841 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
34451741 ACCTCTATTC
*
34451751 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
34451795 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
34451841 C
1 C
34451842 GCATCTATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:34451842 original size:16 final size:16
Alignment explanation
Indices: 34451821--34451889 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
34451811 AGAATTACCT
34451821 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
34451837 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
34451853 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
34451869 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
34451885 ATTAC
1 ATTAC
34451890 AGCGAACCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:34452027 original size:71 final size:71
Alignment explanation
Indices: 34451914--34452077 Score: 220
Period size: 71 Copynumber: 2.3 Consensus size: 71
34451904 GGTGTTAATG
*
34451914 TAACAACTAGGAGTTTGCAACTCTCGCTAACTATGTTAGAGGCTACAGTTTTGATCTTGCGAGCC
1 TAACAACTAGGAGTTTGCAACTCTCGCTAACTATGTTAGAGGCTACAGTTTTGATCCTGCGAGCC
*
34451979 TTAATA
66 TGAATA
* * * * * ***
34451985 TGACAACTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGTGGTTTTGATCCTGCGAGCC
1 TAACAACTAGGAGTTTGCAACTCTCGCTAACTATGTTAGAGGCTACAGTTTTGATCCTGCGAGCC
*
34452050 TGAATG
66 TGAATA
*
34452056 TAACAACTAAGAGTTTGCAACT
1 TAACAACTAGGAGTTTGCAACT
34452078 GTTTTAGAGG
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 79 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (71 bp):
TAACAACTAGGAGTTTGCAACTCTCGCTAACTATGTTAGAGGCTACAGTTTTGATCCTGCGAGCC
TGAATA
Found at i:34452132 original size:21 final size:21
Alignment explanation
Indices: 34452106--34452150 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
34452096 TTAATCCTGT
*
34452106 GAGCCTTAATATGACAATTGG
1 GAGCCTTAATATGACAACTGG
34452127 GAGCCTTAATATGACAACTGG
1 GAGCCTTAATATGACAACTGG
34452148 GAG
1 GAG
34452151 TTTGTATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (21 bp):
GAGCCTTAATATGACAACTGG
Found at i:34452262 original size:71 final size:71
Alignment explanation
Indices: 34452127--34452701 Score: 572
Period size: 71 Copynumber: 8.2 Consensus size: 71
34452117 TGACAATTGG
* ** * * * * *
34452127 GAGCCTTAATATGACAACTGGGAGTTTGTATCTCTTGCTAACTCTATTGGAGGCTACGATTTTAA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
34452192 TCCTGC
66 TCCTGC
* * * * * * *
34452198 AAGCTTTATTATGATAGTTGGGAGTTTGTAACTCTCGCTAACTATTTTAGAGGTTGCGGA-TTTA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGC-GATTTTA
34452262 ATCCTGC
65 ATCCTGC
* * *
34452269 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGATGCGATTTTGA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
34452334 TCCTGC
66 TCCTGC
* * * *
34452340 GAGCCTTAATATGATAGTTGGGAGTTTGTAAGTCTTGCTAATTATGTTGGAGGCTGCGATTTTAA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
**
34452405 TCCTAT
66 TCCTGC
* * * * *
34452411 GAGCCATAATATGATAGTTGGGAGTTTGTAAATTTTGCTAACTGTGTTGGAGGCTGCGATTTTGA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
*
34452476 TCCTGT
66 TCCTGC
* * * ** ** * * * * * *
34452482 GAGCCTTAATGTGACAGTTGGGAATTTACAACAATCGCTAGCTGTGTTAGAGGTTGTGGTTTTGA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
**
34452547 TCCCAC
66 TCCTGC
* *
34452553 GAGCCTTAATATGATAGCTGGGAGTTTGTAACTGTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
*
34452618 -ACT--
66 TCCTGC
* * * * * * *
34452621 ----CTTAATATGACACTTGGGAGTTTGTAGCTCTCTCTAACTGTGTTAGAGGTTGCGGTTTTAA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
*
34452682 TACTGC
66 TCCTGC
*
34452688 AAGCCTTAATATGA
1 GAGCCTTAATATGA
34452702 CAATTGAGAG
Statistics
Matches: 416, Mismatches: 79, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
64 52 0.12
65 3 0.01
70 3 0.01
71 356 0.86
72 2 0.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (71 bp):
GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGGAGGCTGCGATTTTAA
TCCTGC
Found at i:34452658 original size:64 final size:64
Alignment explanation
Indices: 34452557--34452681 Score: 171
Period size: 64 Copynumber: 2.0 Consensus size: 64
34452547 TCCCACGAGC
* * *
34452557 CTTAATATGATAGCTGGGAGTTTGTAACTGTCGCTAACTGTGTTGGAGGCTGCGATTTTAAACT
1 CTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCGATTTTAAACT
* * * *
34452621 CTTAATATGACA-CTTGGGAGTTTGTAGCTCTCTCTAACTGTGTTAGAGGTTGCGGTTTTAA
1 CTTAATATGACAGC-TGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCGATTTTAA
34452682 TACTGCAAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 1 0.02
64 52 0.98
ACGTcount: A:0.22, C:0.14, G:0.26, T:0.38
Consensus pattern (64 bp):
CTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCGATTTTAAACT
Found at i:34452785 original size:92 final size:92
Alignment explanation
Indices: 34452621--34452800 Score: 229
Period size: 92 Copynumber: 2.0 Consensus size: 92
34452611 ATTTTAAACT
* * * *
34452621 CTTAATATGACACTTGGGAGTTTGTAGCTCTCTCTAACTGTGTTAGAGGTTGCGGTTTTAATACT
1 CTTAATATGACACTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTAATACT
*
34452686 GCAAGCCTTAATATGACAATTGAGAGC
66 ACAAGCCTTAATATGACAATTGAGAGC
* * *
34452713 CTTAATATGATAGC-TGGGAGTTTGTAACTCTCGCTAATTGTGTT-GAAGGCTGCAGTTTTAATC
1 CTTAATATGACA-CTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAG-AGGCTGCAGTTTTAATA
* * *
34452776 CTACGAGCCTTAATGTGACAGTTGA
64 CTACAAGCCTTAATATGACAATTGA
34452801 AAGTTTGTCA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
91 1 0.01
92 73 0.97
93 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (92 bp):
CTTAATATGACACTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTAATACT
ACAAGCCTTAATATGACAATTGAGAGC
Found at i:34453069 original size:142 final size:141
Alignment explanation
Indices: 34452709--34453070 Score: 413
Period size: 142 Copynumber: 2.5 Consensus size: 141
34452699 TGACAATTGA
* * * *
34452709 GAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAATTGTGTTGAAGGCTGCAGTTTTAA
1 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTGTTG-AGGCTGCGGTTTTGA
* * * * * *
34452774 TCCTACGAGCCTTAATGTGACAGTTGAAAGTTTGTCACTCTCGCTAACTGTGTTGGAGTCAATGA
65 TCCTGCGAGCCTTAATGTGACACTAGAAAGTTTGTAACTCTCACTAACTGTGTTGGAGGCAATGA
* *
34452839 TTTTGATCTTAC
130 TTTTAATCATAC
* * * *
34452851 GAGCCTTAATGTGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTATTGGAGGCTACGATTTTGA
1 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTGTT-GAGGCTGCGGTTTTGA
* * **
34452916 TCCTGCAAGCCTTAATGTGACAACTAG-AAGTTTGTAACTCTCACTAATTGTGTTGGAGGCTGTG
65 TCCTGCGAGCCTTAATGTGAC-ACTAGAAAGTTTGTAACTCTCACTAACTGTGTTGGAGGCAATG
* *
34452980 GTTTTAATCATCC
129 ATTTTAATCATAC
* * * * *
34452993 GAGCCTTAATATGACATTTAGGAGTTTGTAACTCTCGCTAACTATGTTAGAGGCTGCGGTATTGG
1 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTGTT-GAGGCTGCGGT-TTTG
*
34453058 A-CTTGCGAGCCTT
64 ATCCTGCGAGCCTT
34453071 TGTAATATTA
Statistics
Matches: 183, Mismatches: 34, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
142 175 0.96
143 8 0.04
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (141 bp):
GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTGTTGAGGCTGCGGTTTTGAT
CCTGCGAGCCTTAATGTGACACTAGAAAGTTTGTAACTCTCACTAACTGTGTTGGAGGCAATGAT
TTTAATCATAC
Found at i:34453070 original size:71 final size:71
Alignment explanation
Indices: 34452709--34453052 Score: 357
Period size: 71 Copynumber: 4.8 Consensus size: 71
34452699 TGACAATTGA
* * * * * * *
34452709 GAGCCTTAATATGATAGCTGGGAGTTTGTAACTCTCGCTAATTGTGTTGAAGGCTGCAGTTTTAA
1 GAGCCTTAATGTGACAGTTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGTTTTGA
34452774 TCCTAC
66 TCCTAC
* * * * *** *
34452780 GAGCCTTAATGTGACAGTT-GAAAGTTTGTCACTCTCGCTAACTGTGTTGGAGTCAATGATTTTG
1 GAGCCTTAATGTGACAGTTAG-GAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGTTTTG
*
34452844 ATCTTAC
65 ATCCTAC
* * * *
34452851 GAGCCTTAATGTGACAGTTGGGAGTTTGTAACTCTCGCTAATTGTATTGGAGGCTACGATTTTGA
1 GAGCCTTAATGTGACAGTTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGTTTTGA
*
34452916 TCCTGC
66 TCCTAC
* ** * * * *
34452922 AAGCCTTAATGTGACAACTAGAAGTTTGTAACTCTCACTAATTGTGTTGGAGGCTGTGGTTTTAA
1 GAGCCTTAATGTGACAGTTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGTTTTGA
* *
34452987 TCATCC
66 TCCTAC
* * * * *
34452993 GAGCCTTAATATGACATTTAGGAGTTTGTAACTCTCGCTAACTATGTTAGAGGCTGCGGT
1 GAGCCTTAATGTGACAGTTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGT
34453053 ATTGGACTTG
Statistics
Matches: 224, Mismatches: 47, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
70 1 0.00
71 222 0.99
72 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (71 bp):
GAGCCTTAATGTGACAGTTAGGAGTTTGTAACTCTCGCTAATTGTGTTGGAGGCTGCGGTTTTGA
TCCTAC
Found at i:34454964 original size:16 final size:16
Alignment explanation
Indices: 34454945--34455000 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
34454935 TAAAAAAATG
*
34454945 AAAAAAATTCAAAGTA
1 AAAAAAATTAAAAGTA
**
34454961 AAAAAAATTTGAAGTCCA
1 AAAAAAATTAAAAGT--A
*
34454979 AAAAAAATTAAAATTA
1 AAAAAAATTAAAAGTA
34454995 AAAAAA
1 AAAAAA
34455001 TTGATTCATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 20 0.61
18 13 0.39
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAAAAATTAAAAGTA
Found at i:34456066 original size:12 final size:12
Alignment explanation
Indices: 34456046--34456077 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
34456036 AAAGTGTGAT
34456046 AAAAGAAAAATA
1 AAAAGAAAAATA
*
34456058 AAAATAAAAATA
1 AAAAGAAAAATA
34456070 AAAAGAAA
1 AAAAGAAA
34456078 TTGAAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.09
Consensus pattern (12 bp):
AAAAGAAAAATA
Found at i:34459353 original size:38 final size:38
Alignment explanation
Indices: 34459302--34459379 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
34459292 TAAGAACAAG
34459302 TCGATGATGACTTGAAAAACATCAAGATGACTATTCCT
1 TCGATGATGACTTGAAAAACATCAAGATGACTATTCCT
*
34459340 TCGATGATGACTTGGAAAACATCAAGATGACTATTCCT
1 TCGATGATGACTTGAAAAACATCAAGATGACTATTCCT
34459378 TC
1 TC
34459380 TTTCCAAGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (38 bp):
TCGATGATGACTTGAAAAACATCAAGATGACTATTCCT
Found at i:34461129 original size:24 final size:24
Alignment explanation
Indices: 34461097--34461162 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
34461087 AAAGTCGAGA
*
34461097 GAAAAAGAACAAGAGAA-AAAGAAT
1 GAAAAAGAAAAAGAGAAGAAA-AAT
* *
34461121 GAAAAAGAATAAGATAAGAAAAAT
1 GAAAAAGAAAAAGAGAAGAAAAAT
34461145 GAAAAAGAAAAAGA-AAGA
1 GAAAAAGAAAAAGAGAAGA
34461163 GTTCAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.11
24 31 0.82
25 3 0.08
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.06
Consensus pattern (24 bp):
GAAAAAGAAAAAGAGAAGAAAAAT
Found at i:34461150 original size:7 final size:6
Alignment explanation
Indices: 34461096--34461160 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
34461086 AAAAGTCGAG
* * *
34461096 AGAAAA AGAACAA GAGAAAA AG--AA TGAAAA AGAATA AG-ATA AGAAAA
1 AGAAAA AGAA-AA -AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
34461143 ATGAAAA AGAAAA AGAAA
1 A-GAAAA AGAAAA AGAAA
34461161 GAGTTCAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
4 3 0.06
5 5 0.10
6 27 0.55
7 10 0.20
8 4 0.08
ACGTcount: A:0.74, C:0.02, G:0.18, T:0.06
Consensus pattern (6 bp):
AGAAAA
Found at i:34465958 original size:75 final size:75
Alignment explanation
Indices: 34465835--34465993 Score: 196
Period size: 75 Copynumber: 2.1 Consensus size: 75
34465825 GTTTTGCATT
* * * * *
34465835 ATTAAGTGTTTTGTCGGATAAATGCATCTTTGATTAATGTCTTACATTAATACATTTGCAT-CTT
1 ATTAAGTGTCTTGTCGCATAAATGCATCATTGATTAATGTCTTACATTAATACACTAGCATCCTT
34465899 TAGAAACTTGC
66 TA-AAACTTGC
* * *
34465910 ATTAAGTGTCTTGT-GCATTAAATGCATCATTGTTTAATGTTTTGCATTAATACACTAGCATCCT
1 ATTAAGTGTCTTGTCGCA-TAAATGCATCATTGATTAATGTCTTACATTAATACACTAGCATCCT
*
34465974 TTAATACTTGC
65 TTAAAACTTGC
*
34465985 ATTATGTGT
1 ATTAAGTGT
34465994 TCTTCATATT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
74 2 0.03
75 65 0.90
76 5 0.07
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.43
Consensus pattern (75 bp):
ATTAAGTGTCTTGTCGCATAAATGCATCATTGATTAATGTCTTACATTAATACACTAGCATCCTT
TAAAACTTGC
Found at i:34473959 original size:22 final size:20
Alignment explanation
Indices: 34473863--34473949 Score: 90
Period size: 20 Copynumber: 4.3 Consensus size: 20
34473853 GGAGCAATTC
* *
34473863 TGACTTGTTTGAAAATCTTTT
1 TGACTTGGTT-AAAATCATTT
34473884 TGA--TGTGTTAAAA-CGATTT
1 TGACTTG-GTTAAAATC-ATTT
* *
34473903 TAACTTGGTTGAAATCATTT
1 TGACTTGGTTAAAATCATTT
34473923 TGACTTGGTTAAAATCATTT
1 TGACTTGGTTAAAATCATTT
34473943 TGACTTG
1 TGACTTG
34473950 ATTTTAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
18 1 0.02
19 11 0.20
20 37 0.67
21 6 0.11
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (20 bp):
TGACTTGGTTAAAATCATTT
Found at i:34477586 original size:41 final size:41
Alignment explanation
Indices: 34477529--34477651 Score: 237
Period size: 41 Copynumber: 3.0 Consensus size: 41
34477519 AGAACCAAAA
34477529 ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
1 ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
*
34477570 ATAATATCATCAACATATATTTGAATTATTAATAAATCTTT
1 ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
34477611 ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
1 ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
34477652 GTCTTTTCTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (41 bp):
ATAATATCATCAACATAAATTTGAATTATTAATAAATCTTT
Found at i:34488529 original size:21 final size:22
Alignment explanation
Indices: 34488503--34488552 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
34488493 AAAAAAGAAT
*
34488503 AAGAAACAATATTGT-AGGAAA
1 AAGAAACAATAATGTGAGGAAA
*
34488524 AAGAAA-AATAATGTGGGGAAA
1 AAGAAACAATAATGTGAGGAAA
34488545 AA-AAACAA
1 AAGAAACAA
34488553 AAGTAAACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.62, C:0.04, G:0.20, T:0.14
Consensus pattern (22 bp):
AAGAAACAATAATGTGAGGAAA
Found at i:34489128 original size:413 final size:407
Alignment explanation
Indices: 34488361--34489182 Score: 1310
Period size: 413 Copynumber: 2.0 Consensus size: 407
34488351 AAGCAAAATT
*
34488361 CCAACACAAGATAAGGAGACAAAACCTACACAATCGAACACCACTGTCGCACTTCAATAACAAGG
1 CCAACACAAGATAAGGAGACAAAACCTACACAATCGAACACCACTATCGCACTTCAATAACAAGG
* *
34488426 ACAACGAAAGTAATGCACTAAAGATCAAAAATCCAAAAGAACATTTTTTGCTACCCATCTCACAT
66 ACAACAAAAGTAATGCACTAAAGATCAAAAATCCAAAAGAACAATTTTTGCTACCCATCTCACAT
* *
34488491 AAAAAAAAGAATAAGAAACAATATTGTAGGAAAAAGAAAAATAATGTGGGGAAAAAAAACAAAAG
131 AAAAAAAAGAAGAAGAAACAATATTGTAGG-AAAAGAAAAATAATATGGGGAAAAAAAACAAAAG
34488556 TAAACGTGCAAAAAGGGAGGGATTTTGGTATATTAACTCCCTTTTTTTTCAAACAAAAGAAATAA
195 TAAACGTGCAAAAAGGGAGGGATTTTGGTATATTAACTCCCTTTTTTTTCAAACAAAAGAAATAA
34488621 TAGAATAACAAAAAAAATAGTAAAAACAAATCCTAACCAACCACTACCCACTAACTCCCATCTTT
260 TAGAATAACAAAAAAAATAGTAAAAACAAATCCTAACCAACCACTACCCACTAACTCCCATCTTT
**
34488686 ATCCCATCACTTCCTATAGTTTTAAACAAACCCAACTTCCTCTACAGCATTGTCCAACAAGACTA
325 ATCCCATCACTTCCTATAGTTTTAAACAAACCCAACTTCCTCTACAGCACAGTCCAAC-A-A-T-
*
34488751 CTAACAAAATAATATAATCCAAG
386 -TAACAAAATAAAATAATCCAAG
* * * ** *
34488774 CCAACACAAGATAATGAGACAAAACTTACACAATCGAACATCACTATCGTGCTTGAATAACAAGG
1 CCAACACAAGATAAGGAGACAAAACCTACACAATCGAACACCACTATCGCACTTCAATAACAAGG
* * *
34488839 ACAACAAAAGTAATGCACTAAAGATCAAAAATCTAAAAGAACAATTTTTGTTACCCATCTCACGT
66 ACAACAAAAGTAATGCACTAAAGATCAAAAATCCAAAAGAACAATTTTTGCTACCCATCTCACAT
* *
34488904 AAAAAAAAAGAAGCAGAAACAATATTGT-GG-GAA-AAAAATAATATGGGG-AAAAAAACAAAAG
131 -AAAAAAAAGAAGAAGAAACAATATTGTAGGAAAAGAAAAATAATATGGGGAAAAAAAACAAAAG
* * *
34488965 TAAATGTGCAAAAGGGGAGGGATTTTGGTATATTAACTCTCTTTTTTTTCAAACAAAAGAAATAA
195 TAAACGTGCAAAAAGGGAGGGATTTTGGTATATTAACTCCCTTTTTTTTCAAACAAAAGAAATAA
*
34489030 TAGAATAACAAAAAAATAAAATAGTAAAAACAAATCCTAACCAATCACTACCCACTAACTCCCAT
260 TAGAATAAC---AAAA-AAAATAGTAAAAACAAATCCTAACCAACCACTACCCACTAACTCCCAT
34489095 CTTTATCCCATCACTTCCTATAGTTTTAAACAAACCCAACTTCCTCTACAGCACAGTCCAACAAT
321 CTTTATCCCATCACTTCCTATAGTTTTAAACAAACCCAACTTCCTCTACAGCACAGTCCAACAAT
34489160 TAACAAAATAAAATAATCCAAG
386 TAACAAAATAAAATAATCCAAG
34489182 C
1 C
34489183 TACTCATACT
Statistics
Matches: 381, Mismatches: 23, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
408 22 0.06
409 84 0.22
410 15 0.04
411 3 0.01
412 5 0.01
413 227 0.60
414 25 0.07
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (407 bp):
CCAACACAAGATAAGGAGACAAAACCTACACAATCGAACACCACTATCGCACTTCAATAACAAGG
ACAACAAAAGTAATGCACTAAAGATCAAAAATCCAAAAGAACAATTTTTGCTACCCATCTCACAT
AAAAAAAAGAAGAAGAAACAATATTGTAGGAAAAGAAAAATAATATGGGGAAAAAAAACAAAAGT
AAACGTGCAAAAAGGGAGGGATTTTGGTATATTAACTCCCTTTTTTTTCAAACAAAAGAAATAAT
AGAATAACAAAAAAAATAGTAAAAACAAATCCTAACCAACCACTACCCACTAACTCCCATCTTTA
TCCCATCACTTCCTATAGTTTTAAACAAACCCAACTTCCTCTACAGCACAGTCCAACAATTAACA
AAATAAAATAATCCAAG
Found at i:34491729 original size:40 final size:40
Alignment explanation
Indices: 34491685--34491781 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 40
34491675 AGAGCAATTC
*
34491685 TAACTTGTTTGAAAATCATTTTGA-TGAGTTAAAATGATTT
1 TAACTTGTTTGAAAATCATTTTAACTG-GTTAAAATGATTT
* *
34491725 TAACTTGGTTG-AAATCATTTTAACTTGGTTAAAATTATTT
1 TAACTTGTTTGAAAATCATTTTAAC-TGGTTAAAATGATTT
*
34491765 TAACTTGATTTTAAAAT
1 TAACTTG-TTTGAAAAT
34491782 TGTTTCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
39 11 0.23
40 29 0.60
41 4 0.08
42 4 0.08
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (40 bp):
TAACTTGTTTGAAAATCATTTTAACTGGTTAAAATGATTT
Found at i:34491744 original size:20 final size:20
Alignment explanation
Indices: 34491685--34491771 Score: 97
Period size: 20 Copynumber: 4.3 Consensus size: 20
34491675 AGAGCAATTC
*
34491685 TAACTTGTTTGAAAATCATTT
1 TAACTTGGTT-AAAATCATTT
* *
34491706 TGA--TGAGTTAAAATGATTT
1 TAACTTG-GTTAAAATCATTT
*
34491725 TAACTTGGTTGAAATCATTT
1 TAACTTGGTTAAAATCATTT
*
34491745 TAACTTGGTTAAAATTATTT
1 TAACTTGGTTAAAATCATTT
34491765 TAACTTG
1 TAACTTG
34491772 ATTTTAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
19 13 0.24
20 38 0.69
21 4 0.07
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.46
Consensus pattern (20 bp):
TAACTTGGTTAAAATCATTT
Found at i:34499576 original size:185 final size:185
Alignment explanation
Indices: 34499264--34499637 Score: 604
Period size: 185 Copynumber: 2.0 Consensus size: 185
34499254 AAATGGAAAA
* *
34499264 TGAATATAGAATAAACACAGGAGGTTCCTGGGAAGTTTAATTAACCAAAAAAAATAAACTACCAC
1 TGAATATAGAATAAAAACAGGAGGTTCCTAGGAAGTTTAATTAACCAAAAAAAATAAACTACCAC
* * * * * *
34499329 ACAAAGCAATTCAAAATAAAACGTTTCCTTATTGCTTTCATAGGGATTCAAATACCAAACCAAAG
66 ACAAAACAATTCAAAATAAAACATTTCCCTATTACTTTCATAAGGATTCAAACACCAAACCAAAG
* *
34499394 AGTACATAAAAGCTTAATCATTGAACCATTAGGCTCATTGTTGTCATTAATTGAT
131 AGTACATAAAAGCTTAATCATTGAACCACTAGGCTCATTGCTGTCATTAATTGAT
* *
34499449 TGAATATGGAATAAAAATAGGAGGTTCCTAGGAAGTTTAATTAACCAAAAAAAATAAACTACCAC
1 TGAATATAGAATAAAAACAGGAGGTTCCTAGGAAGTTTAATTAACCAAAAAAAATAAACTACCAC
**
34499514 ACAAAACAATTCAAAATAAAACATTTCCCTATTACTTTCATAAGGATTTGAACACCAAACCAAAG
66 ACAAAACAATTCAAAATAAAACATTTCCCTATTACTTTCATAAGGATTCAAACACCAAACCAAAG
* *
34499579 AGTACATAGAAGCTTAATCATTGAACCACTAGGCTCATTGCTGTTATTAATTGAT
131 AGTACATAAAAGCTTAATCATTGAACCACTAGGCTCATTGCTGTCATTAATTGAT
34499634 TGAA
1 TGAA
34499638 ATTAACTTAT
Statistics
Matches: 173, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
185 173 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (185 bp):
TGAATATAGAATAAAAACAGGAGGTTCCTAGGAAGTTTAATTAACCAAAAAAAATAAACTACCAC
ACAAAACAATTCAAAATAAAACATTTCCCTATTACTTTCATAAGGATTCAAACACCAAACCAAAG
AGTACATAAAAGCTTAATCATTGAACCACTAGGCTCATTGCTGTCATTAATTGAT
Found at i:34500144 original size:130 final size:131
Alignment explanation
Indices: 34500006--34500264 Score: 375
Period size: 132 Copynumber: 2.0 Consensus size: 131
34499996 ATATATTGTC
* **
34500006 ACAAAAAGTAATTAATTCAAGA-TTATTTTAAATATT-ATTTTTT-TTCTTAACTTATATTGGTG
1 ACAAAAAGTAATTAATTCAA-ATTTATTTTAAAGATTAATTTTTTATTCTTAACTTATATTAATG
* * *
34500068 ATAATA-TAAGGTATAAATATTTTTAAAA-TTAAATATTTATTTTATTTTATTTTTACTTTCTCA
65 ATAATACT-AGGTATAAAGA-TTTTAAAATTTAAA-ATTTATATTATTTTATTTTCACTTTCTCA
34500131 ATCAT
127 ATCAT
34500136 ACAAAAAGTAATTAATTCAAATTTATTTTAAAGATTAATTTTTTATTCTTAACTTATATTAATGA
1 ACAAAAAGTAATTAATTCAAATTTATTTTAAAGATTAATTTTTTATTCTTAACTTATATTAATGA
*
34500201 TAATACTAGGTATAAAGATTTTAAAATTTTAAAATTTATATTATTTTGTTTTCACTTTCTCAAT
66 TAATACTAGGTATAAAGATTTTAAAA-TTTAAAATTTATATTATTTTATTTTCACTTTCTCAAT
34500265 TATAGTATTT
Statistics
Matches: 116, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
129 1 0.01
130 33 0.28
131 15 0.13
132 61 0.53
133 6 0.05
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (131 bp):
ACAAAAAGTAATTAATTCAAATTTATTTTAAAGATTAATTTTTTATTCTTAACTTATATTAATGA
TAATACTAGGTATAAAGATTTTAAAATTTAAAATTTATATTATTTTATTTTCACTTTCTCAATCA
T
Found at i:34500769 original size:26 final size:26
Alignment explanation
Indices: 34500740--34500800 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
34500730 AACACCACTA
34500740 AAAATAATAATAAATAAATAAAATT-T
1 AAAATAATAATAAAT-AATAAAATTAT
*
34500766 AAAACT-ATAATATATAATAAAATTAT
1 AAAA-TAATAATAAATAATAAAATTAT
34500792 ATAAATAAT
1 A-AAATAAT
34500801 TTAATATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 9 0.30
26 15 0.50
27 6 0.20
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATAATAATAAATAATAAAATTAT
Found at i:34506216 original size:16 final size:16
Alignment explanation
Indices: 34506192--34506256 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
34506182 ATATATTTGT
*
34506192 GAGTTGGTATTTTTAA
1 GAGTGGGTATTTTTAA
* *
34506208 GAGTGGGTATTTATAT
1 GAGTGGGTATTTTTAA
* *
34506224 TAGTGGGTTGTTTTCTAA
1 GAGTGGG-TATTTT-TAA
34506242 GAGTGGGTAGTTTTT
1 GAGTGGGTA-TTTTT
34506257 TCAGGAGTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
16 19 0.51
17 6 0.16
18 12 0.32
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.48
Consensus pattern (16 bp):
GAGTGGGTATTTTTAA
Found at i:34506922 original size:28 final size:29
Alignment explanation
Indices: 34506858--34506922 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
34506848 AAATAAAGAT
*
34506858 AAATAAAAAATTGAATATTAACAATTTTA
1 AAATAAAAAATTGAATATTAACAATTATA
* *
34506887 ATATTAAAAAATT-TAT-TTAACAATATATA
1 A-AATAAAAAATTGAATATTAACAAT-TATA
34506916 AAATAAA
1 AAATAAA
34506923 TAACTTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 13 0.43
29 7 0.23
30 10 0.33
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (29 bp):
AAATAAAAAATTGAATATTAACAATTATA
Found at i:34507029 original size:16 final size:16
Alignment explanation
Indices: 34507008--34507038 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34506998 TGTTGTATTA
*
34507008 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
34507024 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
34507039 GCATTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:34507483 original size:13 final size:13
Alignment explanation
Indices: 34507465--34507490 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34507455 AGAGAGTTTT
34507465 AGAAAGCTTTAAG
1 AGAAAGCTTTAAG
34507478 AGAAAGCTTTAAG
1 AGAAAGCTTTAAG
34507491 GATTGTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
AGAAAGCTTTAAG
Found at i:34510121 original size:19 final size:19
Alignment explanation
Indices: 34510088--34510135 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
34510078 TAAACAATTC
34510088 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
34510105 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
34510124 AATAATATAAAT
1 AATAATATAAAT
34510136 AATAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:34510146 original size:13 final size:12
Alignment explanation
Indices: 34510088--34510150 Score: 51
Period size: 13 Copynumber: 5.2 Consensus size: 12
34510078 TAAACAATTC
34510088 AATAATATAAAT
1 AATAATATAAAT
34510100 AAT-ATA-AAAT
1 AATAATATAAAT
* *
34510110 -ATGAAATTTAATTT
1 AAT--AATATAA-AT
34510124 AATAATATAAAT
1 AATAATATAAAT
34510136 AATAGATATAAAT
1 AATA-ATATAAAT
34510149 AA
1 AA
34510151 AATTATTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
9 2 0.05
10 4 0.10
11 3 0.08
12 10 0.25
13 18 0.45
14 1 0.03
15 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:34510403 original size:30 final size:31
Alignment explanation
Indices: 34510357--34510417 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
34510347 GGGAGGTGGG
*
34510357 ATGGGAAGGGAATAAAAGTTTTAGGGGAAAA
1 ATGGGAAGGGAATAAAAATTTTAGGGGAAAA
*
34510388 ATGGG-AGGGAGTAAAAATTTTAGGGGAAAA
1 ATGGGAAGGGAATAAAAATTTTAGGGGAAAA
34510418 TAAAAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (31 bp):
ATGGGAAGGGAATAAAAATTTTAGGGGAAAA
Found at i:34515177 original size:20 final size:19
Alignment explanation
Indices: 34515154--34515192 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
34515144 ATTTATGATT
34515154 AATATTATAAATAATTTTAA
1 AATATTATAAAT-ATTTTAA
* *
34515174 AATATTTTATATATTTTAA
1 AATATTATAAATATTTTAA
34515193 TTTAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATTATAAATATTTTAA
Found at i:34520455 original size:43 final size:43
Alignment explanation
Indices: 34520406--34520628 Score: 259
Period size: 43 Copynumber: 5.2 Consensus size: 43
34520396 ACACCACTAT
* * * **
34520406 AGAACATAACCTTTAGCGGCGCTTTCCCCACAAATGTCGATTG
1 AGAACATAACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA
* * * *
34520449 AGAACATAACTTTTAGTGGCGCTTTTCCCACAAACGCTGCTAA
1 AGAACATAACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA
* * *
34520492 AGAACA-AGACCTTTAGCGGCGCTTTCCTCATAAACTCCGCTAA
1 AGAACATA-ACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA
* * *
34520535 AGAACATGACCTTTAGCGGCGCTTTTCCCACGAACGCCGCTAA
1 AGAACATAACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA
* * * *
34520578 AGAACATAACCTTTAGTGGTGCTTTCCCCACGAAGGCCGCTAA
1 AGAACATAACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA
34520621 AGAACATA
1 AGAACATA
34520629 CCTCAAAACA
Statistics
Matches: 151, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 150 0.99
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
AGAACATAACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA
Found at i:34523534 original size:82 final size:78
Alignment explanation
Indices: 34523272--34523553 Score: 467
Period size: 78 Copynumber: 3.6 Consensus size: 78
34523262 AACTAATAGT
* *
34523272 GGATAATATATGTATATACATGTATAAGTTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
1 GGAT-ATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTA
34523337 TATATATAAAGTTC
65 TATATATAAAGTTC
34523351 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
*
34523416 ATATATAAAGTTT
66 ATATATAAAGTTC
34523429 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATA--T-T
34523494 ATATATATATAAAGTTC
63 -TATATATATAAAGTTC
* *
34523511 GGATATATGTGTATATACATGAATAAGTT-TTGAATTTAGTTAA
1 GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAA
34523554 TGTTGAATGT
Statistics
Matches: 193, Mismatches: 6, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
78 131 0.68
79 4 0.02
80 1 0.01
81 15 0.08
82 42 0.22
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (78 bp):
GGATATATATGTATATACATGAATAAATTCTTGAATTTAGTTAAAAGTATGTATGTTATATTTAT
ATATATAAAGTTC
Found at i:34523891 original size:78 final size:78
Alignment explanation
Indices: 34523723--34523903 Score: 199
Period size: 78 Copynumber: 2.3 Consensus size: 78
34523713 TTATATTGAG
* * *
34523723 TATAAGTATGAAATTATATATG--TATATGTTAAATTTGAAAATGTATGTGTATACAAGTATAAG
1 TATAAGTATGAAATTATATATGTATATATGGTAAATTTGAAAATGTATATATATACAAGTATAAG
34523786 TACTTGTTTCGAA
66 TACTTGTTTCGAA
* * * * * *
34523799 TGTAAGTATAAAATTATATATGTATATATGGTAGATTTGAATATGTATATATGTACATGTATAAG
1 TATAAGTATGAAATTATATATGTATATATGGTAAATTTGAAAATGTATATATATACAAGTATAAG
* *
34523864 T-TTTGTTATTGAA
66 TACTTGTT-TCGAA
* *
34523877 -ATAGGGTATGAAATTATATAGGTATAT
1 TATA-AGTATGAAATTATATATGTATAT
34523904 GTGACATTCG
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
76 20 0.23
77 7 0.08
78 59 0.69
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.42
Consensus pattern (78 bp):
TATAAGTATGAAATTATATATGTATATATGGTAAATTTGAAAATGTATATATATACAAGTATAAG
TACTTGTTTCGAA
Found at i:34524365 original size:41 final size:41
Alignment explanation
Indices: 34524301--34524608 Score: 465
Period size: 41 Copynumber: 7.5 Consensus size: 41
34524291 GGTTTTAAAA
* ** *
34524301 CCTAACAGGCTAAGTGTCAGTGATCTGAACCAGGTTATAAG
1 CCTAGCAGGCTAAGTACCGGTGATCTGAACCAGGTTATAAG
*
34524342 CCTAGCAGGCTAACTACCGGTGATCTGAACCAGGTTATAAG
1 CCTAGCAGGCTAAGTACCGGTGATCTGAACCAGGTTATAAG
* *
34524383 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAG
1 CCTAGCAGGCTAAGTACCGGTGATCTGAACCAGGTTATAAG
34524424 CCTAGCAGGCTAAGTACCGGTGATCTGAACCAGGTTATAAG
1 CCTAGCAGGCTAAGTACCGGTGATCTGAACCAGGTTATAAG
* *
34524465 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAG
1 CCTAGCAGGCTAAGTACCGGTGATCTGAACCAGGTTATAAG
*
34524506 CCTAGCAGGCTAAGTACCGGTGATCTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTACCGGTGATCTGAACCAGGTTATAAG
** *
34524547 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTT-TAAG
1 CCTAGCAGGCTAAGTACCGGTGATCTGAACCAGG-TTATAAG
* *
34524588 CCTAACAGGCTAAGTGCCGGT
1 CCTAGCAGGCTAAGTACCGGT
34524609 CAATCTGTTT
Statistics
Matches: 247, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 245 0.99
42 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTACCGGTGATCTGAACCAGGTTATAAG
Found at i:34524412 original size:82 final size:82
Alignment explanation
Indices: 34524301--34524608 Score: 517
Period size: 82 Copynumber: 3.8 Consensus size: 82
34524291 GGTTTTAAAA
* * * * *
34524301 CCTAACAGGCTAAGTGTCAGTGATCTGAACCAGGTTATAAGCCTAGCAGGCTAACTACCGGTGAT
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAGCCTAGCAGGCTAAGTACCGGTGAT
34524366 CTGAACCAGGTTATAAG
66 CTGAACCAGGTTATAAG
34524383 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAGCCTAGCAGGCTAAGTACCGGTGAT
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAGCCTAGCAGGCTAAGTACCGGTGAT
34524448 CTGAACCAGGTTATAAG
66 CTGAACCAGGTTATAAG
34524465 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAGCCTAGCAGGCTAAGTACCGGTGAT
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAGCCTAGCAGGCTAAGTACCGGTGAT
*
34524530 CTGAATCAGGTTATAAG
66 CTGAACCAGGTTATAAG
* * * * *
34524547 CCTAGCAGGCTAAGTGTCGGTGATCTGAATCAGGCTTTAAGCCTAACAGGCTAAGTGCCGGT
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAGCCTAGCAGGCTAAGTACCGGT
34524609 CAATCTGTTT
Statistics
Matches: 215, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 215 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (82 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGCTATAAGCCTAGCAGGCTAAGTACCGGTGAT
CTGAACCAGGTTATAAG
Found at i:34530222 original size:24 final size:25
Alignment explanation
Indices: 34530191--34530240 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
34530181 TATCATAAAT
*
34530191 AATATATTATAAT-AAGAAAT-TATA
1 AATATATTA-AATCAAAAAATATATA
34530215 AATATATTAAATCAAAAAATATATA
1 AATATATTAAATCAAAAAATATATA
34530240 A
1 A
34530241 TAACCTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 3 0.13
24 15 0.65
25 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
AATATATTAAATCAAAAAATATATA
Found at i:34530293 original size:13 final size:12
Alignment explanation
Indices: 34530277--34530315 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
34530267 AGATAATTAA
34530277 ATTTTTTTAATAT
1 ATTTTTTTAAT-T
*
34530290 ATTTTATTAATT
1 ATTTTTTTAATT
34530302 ATTTATTTTAATT
1 ATTT-TTTTAATT
34530315 A
1 A
34530316 ATACATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTTTTTAATT
Found at i:34531109 original size:38 final size:37
Alignment explanation
Indices: 34531046--34531124 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
34531036 CAAAATTTAC
* * *
34531046 ATTAATTTATATAATAAATCATATAAAAATTAAAATT
1 ATTAATTAATATAATAAATAATATAAAAATTAAAATG
*
34531083 ATTAATTAAATATAA-AAATAATTATAAAATTTAAAATG
1 ATTAATT-AATATAATAAATAA-TATAAAAATTAAAATG
34531121 ATTA
1 ATTA
34531125 TTTTAGTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 12 0.33
38 24 0.67
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (37 bp):
ATTAATTAATATAATAAATAATATAAAAATTAAAATG
Found at i:34531112 original size:19 final size:19
Alignment explanation
Indices: 34531054--34531118 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
34531044 ACATTAATTT
*
34531054 ATATAATAAATCA-TATAAA
1 ATATAA-AAATAATTATAAA
* * *
34531073 A-ATTAAAATTATTAATTAA
1 ATATAAAAATAATT-ATAAA
34531092 ATATAAAAATAATTATAAA
1 ATATAAAAATAATTATAAA
*
34531111 ATTTAAAA
1 ATATAAAA
34531119 TGATTATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 5 0.14
18 4 0.11
19 17 0.47
20 10 0.28
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATAAAAATAATTATAAA
Found at i:34531118 original size:18 final size:18
Alignment explanation
Indices: 34531067--34531125 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
34531057 TAATAAATCA
* *
34531067 TATAAAAATTAAAATTAT
1 TATAAAATTTAAAATAAT
* *
34531085 TAATTAAATATAAAAATAAT
1 T-ATAAAAT-TTAAAATAAT
*
34531105 TATAAAATTTAAAATGAT
1 TATAAAATTTAAAATAAT
34531123 TAT
1 TAT
34531126 TTTAGTAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
18 12 0.38
19 11 0.34
20 9 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TATAAAATTTAAAATAAT
Found at i:34531220 original size:12 final size:11
Alignment explanation
Indices: 34531187--34531225 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
34531177 TTTTTTTTTT
34531187 GAAAAAAATAAA
1 GAAAAAAA-AAA
*
34531199 AAAAAAAAAAA
1 GAAAAAAAAAA
34531210 GAAAAAGAAAAA
1 GAAAAA-AAAAA
34531222 GAAA
1 GAAA
34531226 TCACGGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:34533315 original size:20 final size:21
Alignment explanation
Indices: 34533292--34533350 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
34533282 AAAATTTAAA
34533292 AATATTTTTTATACTTTTT-T
1 AATATTTTTTATACTTTTTAT
* **
34533312 AATAATTTAAATACTATTTTAT
1 AATATTTTTTATACT-TTTTAT
*
34533334 AA-ATTTTTTAAACTTTT
1 AATATTTTTTATACTTTT
34533351 AAAATTTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 15 0.50
21 12 0.40
22 3 0.10
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
AATATTTTTTATACTTTTTAT
Found at i:34533319 original size:31 final size:30
Alignment explanation
Indices: 34533276--34533345 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
34533266 ATTAATTAAT
* *
34533276 TTTTTTAAAATTTAAA-AATATTTTTTATAC
1 TTTTTTAAAATTTAAATAATATTTTATA-AA
*
34533306 TTTTTTAATAATTTAAATACTATTTTATAAA
1 TTTTTTAA-AATTTAAATAATATTTTATAAA
34533337 TTTTTTAAA
1 TTTTTTAAA
34533346 CTTTTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.26
31 17 0.49
32 9 0.26
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTTTTAAAATTTAAATAATATTTTATAAA
Found at i:34553821 original size:21 final size:21
Alignment explanation
Indices: 34553797--34553836 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34553787 GAAGCAGAAG
34553797 TAAAAGAAAAAAAAAGAAAGT
1 TAAAAGAAAAAAAAAGAAAGT
* *
34553818 TAAAAGAACATAAAAGAAA
1 TAAAAGAAAAAAAAAGAAA
34553837 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (21 bp):
TAAAAGAAAAAAAAAGAAAGT
Found at i:34554002 original size:30 final size:29
Alignment explanation
Indices: 34553968--34554040 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
34553958 TTAACGACTC
34553968 AGTGACTAAAATGTTACAACATGTT-AACAT-
1 AGTGACTAAAATGTTA-AA-AT-TTAAACATA
*
34553998 AGTGACTAAAACG-TAAAATTTCAAACATA
1 AGTGACTAAAATGTTAAAATTT-AAACATA
34554027 AGTGACTAAAATGT
1 AGTGACTAAAATGT
34554041 AACTTGAGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 7 0.19
29 14 0.38
30 12 0.32
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (29 bp):
AGTGACTAAAATGTTAAAATTTAAACATA
Found at i:34554130 original size:14 final size:14
Alignment explanation
Indices: 34554111--34554142 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
34554101 GTGTCATTAG
34554111 TTTTTCTTCTTTTC
1 TTTTTCTTCTTTTC
*
34554125 TTTTTCTTTTTTTC
1 TTTTTCTTCTTTTC
34554139 TTTT
1 TTTT
34554143 CTACCGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:34555473 original size:21 final size:21
Alignment explanation
Indices: 34555439--34555478 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34555429 CCTTAAATAA
*
34555439 TTTGTAATTAAATTCTAACTC
1 TTTGTAATTAAATTATAACTC
34555460 TTTGTATATT-AATTATAAC
1 TTTGTA-ATTAAATTATAAC
34555479 ATTATTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTGTAATTAAATTATAACTC
Found at i:34560957 original size:23 final size:23
Alignment explanation
Indices: 34560931--34560974 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
34560921 TTGCCAGTAT
34560931 CAATCGCACCAAAGTGCCAATCA
1 CAATCGCACCAAAGTGCCAATCA
* *
34560954 CAATCGCACGAAAGTGTCAAT
1 CAATCGCACCAAAGTGCCAAT
34560975 AAGCTCCCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.30, G:0.16, T:0.16
Consensus pattern (23 bp):
CAATCGCACCAAAGTGCCAATCA
Found at i:34562089 original size:12 final size:12
Alignment explanation
Indices: 34562074--34562101 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34562064 ATGTACGTAC
34562074 GTATGTATATAT
1 GTATGTATATAT
34562086 GTATGTATATAT
1 GTATGTATATAT
34562098 GTAT
1 GTAT
34562102 TAGTCATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
GTATGTATATAT
Found at i:34571919 original size:20 final size:20
Alignment explanation
Indices: 34571894--34571932 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34571884 TAAAAGAAAT
34571894 GTTTAATTAATGCAATAATG
1 GTTTAATTAATGCAATAATG
34571914 GTTTAATTAATGCAATAAT
1 GTTTAATTAATGCAATAAT
34571933 TATTAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (20 bp):
GTTTAATTAATGCAATAATG
Found at i:34574918 original size:20 final size:19
Alignment explanation
Indices: 34574890--34574949 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
34574880 ATTAAAAGTC
34574890 AAAAATATATATATTTAAT
1 AAAAATATATATATTTAAT
* *
34574909 AAAAAGTATATTTGA-TTAAA
1 AAAAA-TATATAT-ATTTAAT
*
34574929 AATAAAAATATATATTTAAT
1 AA-AAATATATATATTTAAT
34574949 A
1 A
34574950 TATAATTCGG
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 6 0.19
20 22 0.69
21 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATATATATATTTAAT
Found at i:34575311 original size:9 final size:9
Alignment explanation
Indices: 34575297--34575372 Score: 98
Period size: 9 Copynumber: 8.4 Consensus size: 9
34575287 TTTGGTTAAA
*
34575297 AATTAATCG
1 AATTAACCG
34575306 AATTAACCG
1 AATTAACCG
*
34575315 AATTAACTG
1 AATTAACCG
*
34575324 AATTACCCG
1 AATTAACCG
34575333 AATTAACCG
1 AATTAACCG
* *
34575342 AATTATCCA
1 AATTAACCG
*
34575351 AATTACCCG
1 AATTAACCG
34575360 AATTAACCG
1 AATTAACCG
34575369 AATT
1 AATT
34575373 GAATCACTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:34575328 original size:27 final size:27
Alignment explanation
Indices: 34575304--34575372 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
34575294 AAAAATTAAT
**
34575304 CGAATTAACCGAATTAACTGAATTACC
1 CGAATTAACCGAATTAACCAAATTACC
*
34575331 CGAATTAACCGAATTATCCAAATTACC
1 CGAATTAACCGAATTAACCAAATTACC
34575358 CGAATTAACCGAATT
1 CGAATTAACCGAATT
34575373 GAATCACTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (27 bp):
CGAATTAACCGAATTAACCAAATTACC
Found at i:34577519 original size:21 final size:23
Alignment explanation
Indices: 34577493--34577534 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
34577483 ATATTTTAAG
*
34577493 GTGTAATGAT-GATGG-GTAAAA
1 GTGTAAAGATGGATGGTGTAAAA
34577514 GTGTAAAGATGGATGGTGTAA
1 GTGTAAAGATGGATGGTGTAA
34577535 CACCCCTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.29
Consensus pattern (23 bp):
GTGTAAAGATGGATGGTGTAAAA
Found at i:34579794 original size:21 final size:21
Alignment explanation
Indices: 34579768--34579808 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34579758 CGAACACGCC
* *
34579768 AACAGAAGCTCCTAAGAGCTG
1 AACAGAAGCTCATAAAAGCTG
34579789 AACAGAAGCTCATAAAAGCT
1 AACAGAAGCTCATAAAAGCT
34579809 AATGCACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCATAAAAGCTG
Found at i:34582314 original size:28 final size:27
Alignment explanation
Indices: 34582229--34582318 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 27
34582219 AAATTAGAGC
* *
34582229 GCTTATCGTATTATTTCGCACTTCGGT
1 GCTTATCTTATTATTTTGCACTTCGGT
** * *
34582256 GCTTATCGTTGTAAAACTTTGCACTTTGGT
1 GCTTATC--T-TATTATTTTGCACTTCGGT
34582286 GCTTATCATTATTATTTTGCACTTCGGT
1 GCTTATC-TTATTATTTTGCACTTCGGT
34582314 GCTTA
1 GCTTA
34582319 ACGTTATTTA
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
27 7 0.14
28 20 0.41
29 1 0.02
30 21 0.43
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.46
Consensus pattern (27 bp):
GCTTATCTTATTATTTTGCACTTCGGT
Found at i:34582325 original size:28 final size:28
Alignment explanation
Indices: 34582229--34582326 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
34582219 AAATTAGAGC
*
34582229 GCTTATCG-TATTATTTCGCACTTCGGT
1 GCTTATCGTTATTATTTTGCACTTCGGT
** * *
34582256 GCTTATCGTTGTAAAACTTTGCACTTTGGT
1 GCTTATCG-T-TATTATTTTGCACTTCGGT
*
34582286 GCTTATCATTATTATTTTGCACTTCGGT
1 GCTTATCGTTATTATTTTGCACTTCGGT
*
34582314 GCTTAACGTTATT
1 GCTTATCGTTATT
34582327 TACACTTTGT
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
27 8 0.14
28 26 0.46
29 1 0.02
30 21 0.38
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (28 bp):
GCTTATCGTTATTATTTTGCACTTCGGT
Found at i:34582594 original size:77 final size:77
Alignment explanation
Indices: 34582478--34582622 Score: 272
Period size: 77 Copynumber: 1.9 Consensus size: 77
34582468 AATGGAATGT
*
34582478 ACAATTTTATAAAATTGTTGAACTCTAGGGACTAATTTGATATGAATGATATGTCTATAAAATGG
1 ACAATTTTAGAAAATTGTTGAACTCTAGGGACTAATTTGATATGAATGATATGTCTATAAAATGG
34582543 ATAATGGAAATA
66 ATAATGGAAATA
*
34582555 ACAATTTTAGAAAATTGTTGAACTCTAGGGACTAATTTGATATGAATTATATGTCTATAAAATGG
1 ACAATTTTAGAAAATTGTTGAACTCTAGGGACTAATTTGATATGAATGATATGTCTATAAAATGG
34582620 ATA
66 ATA
34582623 TAATTTTATT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.36
Consensus pattern (77 bp):
ACAATTTTAGAAAATTGTTGAACTCTAGGGACTAATTTGATATGAATGATATGTCTATAAAATGG
ATAATGGAAATA
Found at i:34593598 original size:31 final size:31
Alignment explanation
Indices: 34593563--34593625 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
34593553 TGGTTGTGTA
34593563 ATTCAAAGAAGGAACCATAAGTGTGAAGCTT
1 ATTCAAAGAAGGAACCATAAGTGTGAAGCTT
34593594 ATTCAAAGAAGGAACCATAAGTGTGAAGCTT
1 ATTCAAAGAAGGAACCATAAGTGTGAAGCTT
34593625 A
1 A
34593626 GGTTATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (31 bp):
ATTCAAAGAAGGAACCATAAGTGTGAAGCTT
Found at i:34596488 original size:22 final size:23
Alignment explanation
Indices: 34596461--34596505 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
34596451 AGGTATCTAC
34596461 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
34596483 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
34596506 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:34596510 original size:22 final size:22
Alignment explanation
Indices: 34596458--34596515 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
34596448 AAAAGGTATC
*
34596458 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
34596479 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
34596502 TACATATCATATCT
1 TACAAATCATATCT
34596516 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:34596518 original size:19 final size:20
Alignment explanation
Indices: 34596471--34596528 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
34596461 AAATCAAATC
*
34596471 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
34596494 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
*
34596513 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
34596529 CTCAAAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
22 7 0.21
23 11 0.33
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:34596745 original size:5 final size:5
Alignment explanation
Indices: 34596737--34596772 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
34596727 GAGATGGAAT
**
34596737 TCGAA TCGAA TAAAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
34596773 ATATTTGTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (5 bp):
TCGAA
Found at i:34597700 original size:9 final size:9
Alignment explanation
Indices: 34597686--34597722 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
34597676 TATAGTTTGA
34597686 TATTCGAAT
1 TATTCGAAT
34597695 TATTCGAAT
1 TATTCGAAT
*
34597704 TATTCGAGT
1 TATTCGAAT
34597713 TATTCGAAT
1 TATTCGAAT
34597722 T
1 T
34597723 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:34607347 original size:36 final size:35
Alignment explanation
Indices: 34607307--34607435 Score: 168
Period size: 36 Copynumber: 3.6 Consensus size: 35
34607297 GTACATCGAC
*
34607307 AATCCAACCAAAACACACCAGATGCTCATAAGAGCT
1 AATCCAACCGAAACACACCA-ATGCTCATAAGAGCT
*
34607343 AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
1 AATCCAACCGAAACACACC-AATGCTCATAAGAGCT
* * **
34607379 AATCCATCTGAAACACACCAATGGCTCCGAAGAGCT
1 AATCCAACCGAAACACACCAAT-GCTCATAAGAGCT
*
34607415 AATCCAACTGAAACACACCAA
1 AATCCAACCGAAACACACCAA
34607436 AACAGAGAGT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
35 3 0.04
36 81 0.95
37 1 0.01
ACGTcount: A:0.43, C:0.31, G:0.12, T:0.15
Consensus pattern (35 bp):
AATCCAACCGAAACACACCAATGCTCATAAGAGCT
Found at i:34610987 original size:37 final size:38
Alignment explanation
Indices: 34610932--34611014 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 38
34610922 TAGTATATTT
* *
34610932 GTAG-ATTTTACTCGTTTGAGCTCCATTCAGCATAACA
1 GTAGAATTTTACTCATTTGAGCTCCACTCAGCATAACA
* *
34610969 GTAGAATTTT-CTCATTTGAGCTTCACTCAGTATAACA
1 GTAGAATTTTACTCATTTGAGCTCCACTCAGCATAACA
* *
34611006 ATAAAATTT
1 GTAGAATTT
34611015 AGTAGTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 34 0.87
38 5 0.13
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (38 bp):
GTAGAATTTTACTCATTTGAGCTCCACTCAGCATAACA
Found at i:34611892 original size:22 final size:23
Alignment explanation
Indices: 34611864--34611918 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
34611854 TTCAACTTTT
* *
34611864 TTAATTAAGCTTTAA-TAAATC-A
1 TTAATTAAGC-CTAATTAAACCAA
34611886 TTAATTAAGCCTAATTAAACCAA
1 TTAATTAAGCCTAATTAAACCAA
34611909 TTAATTAAGC
1 TTAATTAAGC
34611919 ATAACCTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 3 0.10
22 15 0.52
23 11 0.38
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.36
Consensus pattern (23 bp):
TTAATTAAGCCTAATTAAACCAA
Found at i:34614407 original size:41 final size:41
Alignment explanation
Indices: 34614349--34614466 Score: 191
Period size: 41 Copynumber: 2.9 Consensus size: 41
34614339 CTTACCTTTC
* * *
34614349 GGGGCTTTAGCGTCGTTTTTAAAAAAGCGCCGCTAATGCTG
1 GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTG
34614390 GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTG
1 GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTG
* *
34614431 GGGGCTTTAGAGGCGTTTTTCGAAAAGCGTCGCTAA
1 GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAA
34614467 AAACATTTTA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (41 bp):
GGGGCTTTAGCGGCGTTTTTCAAAAAGCGTCGCTAATGCTG
Found at i:34615198 original size:202 final size:200
Alignment explanation
Indices: 34614853--34615244 Score: 576
Period size: 201 Copynumber: 1.9 Consensus size: 200
34614843 GGGATTATGG
* * * * *
34614853 TTTAAGGGTTGAGAATTAATGTTTAGGGATTAGAGGGTTTGGGGTTTGGGGGTTAAAAGTTAGGG
1 TTTAAGGGTTGAGAATTAAGGTTTAGGGATTAAAGGGTTAGAGGTTTAGGGGTTAAAAGTTAGGG
* *
34614918 ATTTAAGGTTTAGGGATTCAAGGGTCGAGTTAGGATTTTGGGCGTTTAGATTAATTTTTTTTAAT
66 ATTAAAAGTTTAGGGATTCAAGGGTCGAGTTAGGATTTTGGGCGTTTAGATTAATTTTTTTTAAT
*
34614983 TTATATTTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTATAT
131 TTATATTTTAAATATGTTCTTATAT-ATCGTAAAAGAGATAATAATAAATTTGTTTAGGGTATAT
34615048 GATTTA
195 GATTTA
* * *
34615054 TTTAAGGGTTGGGATTTAAGGTTTAAGGG-TTAAAGGGTTAGAGGTTTAGGGGTTAGACACGTTA
1 TTTAAGGGTTGAGAATTAAGGTTT-AGGGATTAAAGGGTTAGAGGTTTAGGGGTTA-A-AAGTTA
* * *
34615118 GGGGTTAAAAG-TTAGGGATTCAGGGGTCGAGTTAGGGTTTT-GG-GTTTAGATTAATTATTTTT
63 GGGATTAAAAGTTTAGGGATTCAAGGGTCGAGTTAGGATTTTGGGCGTTTAGATTAATT-TTTTT
34615180 GTAATTTATATTTTAAATATGTTCTTATATATCGTAAAAGAGATAATAATAAATTTGTTTAGGGT
127 -TAATTTATATTTTAAATATGTTCTTATATATCGTAAAAGAGATAATAATAAATTTGTTTAGGGT
34615245 TTTTAGTTTA
Statistics
Matches: 172, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
200 13 0.08
201 84 0.49
202 62 0.36
203 13 0.08
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.41
Consensus pattern (200 bp):
TTTAAGGGTTGAGAATTAAGGTTTAGGGATTAAAGGGTTAGAGGTTTAGGGGTTAAAAGTTAGGG
ATTAAAAGTTTAGGGATTCAAGGGTCGAGTTAGGATTTTGGGCGTTTAGATTAATTTTTTTTAAT
TTATATTTTAAATATGTTCTTATATATCGTAAAAGAGATAATAATAAATTTGTTTAGGGTATATG
ATTTA
Found at i:34615392 original size:14 final size:14
Alignment explanation
Indices: 34615375--34615408 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
34615365 GGTTAGGGGT
34615375 TTAGGGGTT-AGACG
1 TTAGGGGTTAAGA-G
34615389 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
34615403 TTAGGG
1 TTAGGG
34615409 ATTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.24, C:0.03, G:0.44, T:0.29
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:34615957 original size:73 final size:71
Alignment explanation
Indices: 34615794--34615944 Score: 250
Period size: 73 Copynumber: 2.1 Consensus size: 71
34615784 AGCGCTGCAA
*
34615794 AAATAAATCAATTTAT-AAAAAACAAAATAAATTTTTTAGCATAGTAAAACGGCGTCATTTTGTT
1 AAAT-AATCAATTTATAAAAAAACAAAATAAAATTTTTAGCATAGTAAAACGGCGTCATTTTGTT
34615858 CAAAATG
65 CAAAATG
*
34615865 AAATAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGCATAGTAAAACGGCGTCATTTTTT
1 AAATAATCAATTTATAAAAAAACAAAAT--AAAATTTTTAGCATAGTAAAACGGCGTCATTTTGT
34615930 TCAAAATG
64 TCAAAATG
34615938 AAATAAT
1 AAATAAT
34615945 TTTTTAATAA
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
70 11 0.15
71 16 0.21
73 48 0.64
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (71 bp):
AAATAATCAATTTATAAAAAAACAAAATAAAATTTTTAGCATAGTAAAACGGCGTCATTTTGTTC
AAAATG
Found at i:34618839 original size:86 final size:86
Alignment explanation
Indices: 34618714--34618881 Score: 219
Period size: 86 Copynumber: 2.0 Consensus size: 86
34618704 AACTCTTACT
* * * * * *
34618714 TTACAAAATTTGAAAAATTGGTCCGGTTTTTGGTGAATACATGCACCTGAACAATTGATTTTTGC
1 TTACAAAAATTGAAAAATTAGTCCGGCTTTTGGTAAATACATGAACCTGAACAATTGATTTGTGC
34618779 TAATTTGTTGCATATAATTTA
66 TAATTTGTTGCATATAATTTA
* * * ** *
34618800 TTACAAAAATTGAAAATTTAGTTCGGCTTTTGGTAAATACATGAACTTGAACCGTTGATTTGTGT
1 TTACAAAAATTGAAAAATTAGTCCGGCTTTTGGTAAATACATGAACCTGAACAATTGATTTGTGC
*
34618865 TAATTTGTTGTATATAA
66 TAATTTGTTGCATATAA
34618882 ATTGGTAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (86 bp):
TTACAAAAATTGAAAAATTAGTCCGGCTTTTGGTAAATACATGAACCTGAACAATTGATTTGTGC
TAATTTGTTGCATATAATTTA
Found at i:34618908 original size:349 final size:338
Alignment explanation
Indices: 34618282--34619015 Score: 751
Period size: 349 Copynumber: 2.1 Consensus size: 338
34618272 TGATCTCTGA
* *
34618282 TAGTTTAAAACTCTTATTTACTTAATGGTGTAAGTCTGAATTTCATTGGAAACTTTAATTTGTTA
1 TAGTTTAAAACTCTTATTTACTTAATGGTCTAATTCTGAATTTCATTGGAAACTTTAATTTGTTA
* * * * * * * *
34618347 GACTTCCATCCTCTTATTTTATAAAAATTGAAAATTTAGTCTGGTTTTTGGTGAATATATGAACT
66 GAATTCCATACTCTTACTTTACAAAAATTGAAAAATTAGTCCGGTTTTTGGTGAATACATGAACC
*** * * * * * * *
34618412 TGAATTGTTTATTTGTGCTAATTTGTTGCATTTAAAATGTTATAAAAATTTACAAGTTGGTCCGA
131 TGAACAATTGATTTGTGCTAATTTGTTGCATATAAAATATTACAAAAATTGAAAAGTTAGTCCGA
* * ***
34618477 TTTTTGGTAAATACATTATACATGAAATTGAACTGTTAATTTTTGCTAATTTTTTGCATGTAAAT
196 CTTTTGGTAAATACATGATACATGAAATTGAACTGTTAATTTTTGCTAATAAATTG-A-GTAAAT
* * ** * *
34618542 TGTTGAAATGATGATTTTTTTATATCTCCTTACATATTAAATATTGAAATGTTCTACTAATGTTA
259 TATTGAAATGATGA--TTTTCATA-CT-AGTA-AT-TT-AACA--GAAAGGTT-TACTAATGTTA
*
34618607 CCCAAAATGGGGTT-TTGATCTGAGG
314 CCCAAAAT-GGGTTCTTGATCCGAGG
* *
34618632 TTGTTTAAAACTCTCATTTACTTAATGGTCTAATTCTGAATTTCATTGGAAACTTTAATTTGTTA
1 TAGTTTAAAACTCTTATTTACTTAATGGTCTAATTCTGAATTTCATTGGAAACTTTAATTTGTTA
** * * *
34618697 GAATTTGA-ACTCTTACTTTACAAAATTTGAAAAATTGGTCCGGTTTTTGGTGAATACATGCACC
66 GAATTCCATACTCTTACTTTACAAAAATTGAAAAATTAGTCCGGTTTTTGGTGAATACATGAACC
* ** * * *
34618761 TGAACAATTGATTTTTGCTAATTTGTTGCATATAATTTATTACAAAAATTGAAAATTTAGTTCGG
131 TGAACAATTGATTTGTGCTAATTTGTTGCATATAAAATATTACAAAAATTGAAAAGTTAGTCCGA
* * **
34618826 CTTTTGGTAAATACATGA-ACTTGAACCGTTGATTTGTGTTAATTTGTTG-TATATAAATTG-GT
196 CTTTTGGTAAATACATGATACATGAA--ATTGA--ACTGTTAATTT-TTGCTA-ATAAATTGAGT
* * *
34618888 AAA-TATTGAAATGTTGATTTTCGTACTAGTAATTTAACAGTAAGGTTTACTAATGTTACCCAAA
255 AAATTATTGAAATGATGATTTTCATACTAGTAATTTAACAGAAAGGTTTACTAATGTTACCCAAA
34618952 ATGGGTTCTTGATCCGAGG
320 ATGGGTTCTTGATCCGAGG
* * *
34618971 TAGTTTAAAACTCCTTATTTTCTTAATGGTCTAATCCTCAATTTC
1 TAGTTTAAAACT-CTTATTTACTTAATGGTCTAATTCTGAATTTC
34619016 GTCACTATGA
Statistics
Matches: 319, Mismatches: 57, Indels: 26
0.79 0.14 0.06
Matches are distributed among these distances:
338 5 0.02
339 40 0.13
340 34 0.11
342 3 0.01
343 2 0.01
344 2 0.01
345 2 0.01
346 2 0.01
347 6 0.02
348 6 0.02
349 123 0.39
350 75 0.24
352 11 0.03
353 8 0.03
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (338 bp):
TAGTTTAAAACTCTTATTTACTTAATGGTCTAATTCTGAATTTCATTGGAAACTTTAATTTGTTA
GAATTCCATACTCTTACTTTACAAAAATTGAAAAATTAGTCCGGTTTTTGGTGAATACATGAACC
TGAACAATTGATTTGTGCTAATTTGTTGCATATAAAATATTACAAAAATTGAAAAGTTAGTCCGA
CTTTTGGTAAATACATGATACATGAAATTGAACTGTTAATTTTTGCTAATAAATTGAGTAAATTA
TTGAAATGATGATTTTCATACTAGTAATTTAACAGAAAGGTTTACTAATGTTACCCAAAATGGGT
TCTTGATCCGAGG
Found at i:34619197 original size:86 final size:85
Alignment explanation
Indices: 34619085--34619343 Score: 347
Period size: 86 Copynumber: 3.0 Consensus size: 85
34619075 TCTACTTTAT
* * * * ** *
34619085 TAAAGTTGAAAATTTGGTTTGGTTGTTGATGAATGCATGAACTTGAACTGTTGATTTTTTCTAAT
1 TAAAGTTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTGATTTTTGCTAAT
*
34619150 TTGTTGCACATAAGTTGTTA
66 TTGTTGCATATAAGTTGTTA
*
34619170 TCAAAGTTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTTATTTTTGCTAA
1 T-AAAGTTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTGATTTTTGCTAA
34619235 TTTGTTGCATATAAGTTGTTA
65 TTTGTTGCATATAAGTTGTTA
* * * * * *
34619256 TAAATATTGAAAAATTAGTCTGATTTTTGGTAAATACATGAACTTGAGCCATTGATTTTTGCTAA
1 TAAA-GTTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTGATTTTTGCTAA
* *
34619321 TTTGTTGCATATAAATCGTTA
65 TTTGTTGCATATAAGTTGTTA
34619342 TA
1 TA
34619344 TAAATCGTTA
Statistics
Matches: 154, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
85 4 0.03
86 150 0.97
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.43
Consensus pattern (85 bp):
TAAAGTTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTGATTTTTGCTAAT
TTGTTGCATATAAGTTGTTA
Found at i:34619355 original size:10 final size:12
Alignment explanation
Indices: 34619329--34619361 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
34619319 AATTTGTTGC
34619329 ATATAAATCGTT
1 ATATAAATCGTT
34619341 ATATAAATCGTT
1 ATATAAATCGTT
*
34619353 ATAGAAATC
1 ATATAAATC
34619362 TTAGTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (12 bp):
ATATAAATCGTT
Found at i:34620126 original size:21 final size:20
Alignment explanation
Indices: 34620088--34620127 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
34620078 CATTTATAAC
*
34620088 TTATATTGTATGTATTTGAA
1 TTATATTATATGTATTTGAA
*
34620108 TTATATATATATGTCTTTGA
1 TTATAT-TATATGTATTTGA
34620128 TTGTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (20 bp):
TTATATTATATGTATTTGAA
Found at i:34622309 original size:17 final size:17
Alignment explanation
Indices: 34622281--34622328 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
34622271 ACTTTGTTCT
* *
34622281 TTTTTTTTTATTTCT-A
1 TTTTTATTTATTTATGA
34622297 TTTCTTATTTATTTATGA
1 TTT-TTATTTATTTATGA
34622315 TTTTTATTT-TTTAT
1 TTTTTATTTATTTAT
34622329 TCTCAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 8 0.29
17 16 0.57
18 4 0.14
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTTATTTATTTATGA
Found at i:34622392 original size:37 final size:37
Alignment explanation
Indices: 34622301--34622392 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 37
34622291 TTTCTATTTC
* *
34622301 TTATTTATTTATGATTTT-TATTTTTTATTCTCAAAT
1 TTATTTATTTCTTATTTTCTATTTTTTATTCTCAAAT
34622337 TTATTCT-TTTAC-TATTTTCTATTTTTTATTACT-AAAT
1 TTATT-TATTT-CTTATTTTCTATTTTTTATT-CTCAAAT
*
34622374 TTATTTATTTCTTCTTTTC
1 TTATTTATTTCTTATTTTC
34622393 AGATCATATC
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
36 15 0.32
37 30 0.64
38 2 0.04
ACGTcount: A:0.22, C:0.10, G:0.01, T:0.67
Consensus pattern (37 bp):
TTATTTATTTCTTATTTTCTATTTTTTATTCTCAAAT
Found at i:34625496 original size:19 final size:20
Alignment explanation
Indices: 34625458--34625507 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
34625448 GTACTTTACT
*
34625458 TAATATTAGATACTTGATATA
1 TAATCTTAGATAC-TGATATA
*
34625479 TAATCTTAGATA-TGATATG
1 TAATCTTAGATACTGATATA
*
34625498 CAATCTTAGA
1 TAATCTTAGA
34625508 AGATATGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 15 0.58
21 11 0.42
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (20 bp):
TAATCTTAGATACTGATATA
Found at i:34625514 original size:22 final size:23
Alignment explanation
Indices: 34625486--34625530 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34625476 ATATAATCTT
34625486 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
34625508 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
34625531 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:34625533 original size:22 final size:21
Alignment explanation
Indices: 34625472--34625533 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
34625462 ATTAGATACT
*
34625472 TGATATATAATCTT--AGATA
1 TGATATGTAATCTTAGAGATA
*
34625491 TGATATGCAATCTTAGAAGATA
1 TGATATGTAATCTTAG-AGATA
*
34625513 TGATTTTGTAATCTTAGAGAT
1 TGA-TATGTAATCTTAGAGAT
34625534 TTAATTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.34
22 12 0.34
23 11 0.31
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.40
Consensus pattern (21 bp):
TGATATGTAATCTTAGAGATA
Found at i:34632544 original size:132 final size:132
Alignment explanation
Indices: 34632369--34633262 Score: 1506
Period size: 132 Copynumber: 6.8 Consensus size: 132
34632359 TTAACAGCGA
* * *
34632369 AGCAGATCGAAGATGACAGATTTTACCT-CCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
34632433 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
34632498 GG
131 GG
*
34632500 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
34632565 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
34632630 GG
131 GG
34632632 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
34632697 TCTACTTCCCTGGACAACAGTAGAATAGATTGAAGGTTTCAGGTCTTATCTCCCTAAGTAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
34632762 GG
131 GG
*
34632764 AGCAGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
34632829 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
34632894 GG
131 GG
* *
34632896 AGCAAATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
34632961 TCTACTTCCTTGGACCACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGTAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
34633026 GG
131 GG
*
34633028 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
34633093 TCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTTAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
34633158 GG
131 GG
** * *
34633160 AAAATATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
34633224 TCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
34633263 ATAAGTCCTA
Statistics
Matches: 722, Mismatches: 38, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
131 29 0.04
132 693 0.96
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
GG
Found at i:34633612 original size:19 final size:19
Alignment explanation
Indices: 34633588--34633698 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
34633578 AATCTTCAGG
34633588 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34633607 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
34633626 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34633645 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
** *
34633664 GATATATAATCTAAGATAT
1 GATATGCAATCTTAGATAT
34633683 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
34633699 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34633638 original size:38 final size:38
Alignment explanation
Indices: 34633595--34633698 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
34633585 AGGGATATGC
34633595 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
34633633 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
34633671 AATCTAAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
34633699 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:34633857 original size:15 final size:16
Alignment explanation
Indices: 34633839--34633868 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34633829 AAAAGAAAAA
34633839 AGGAA-AAAAAAGAGG
1 AGGAATAAAAAAGAGG
34633854 AGGAATAAAAAAGAG
1 AGGAATAAAAAAGAG
34633869 AACGATTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (16 bp):
AGGAATAAAAAAGAGG
Found at i:34636644 original size:26 final size:26
Alignment explanation
Indices: 34636614--34636668 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
34636604 AAAGGAAAAT
34636614 ATTTATGTCTACTATTTAATTATTGA
1 ATTTATGTCTACTATTTAATTATTGA
* *
34636640 ATTTATTTCTATTATTTAATTATTGA
1 ATTTATGTCTACTATTTAATTATTGA
34636666 ATT
1 ATT
34636669 AAATTTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (26 bp):
ATTTATGTCTACTATTTAATTATTGA
Done.