Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, whole genome shotgun sequence
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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 20 of 84
Found at i:3995583 original size:226 final size:216
Alignment explanation
Indices: 3995220--3995634 Score: 591
Period size: 226 Copynumber: 1.9 Consensus size: 216
3995210 TTTTCGTCCA
* *
3995220 ATTTTCTCGTAGCTCAATCCTTAATAACAATCTTTATTTAGAACATGAGTCCAGCTCAAATAGCT
1 ATTTTCTCGTAACTCAATCCTTAATAACAATCTTTACTTAGAACATGAGTCCAGCTCAAATAGCT
* *
3995285 AGATGTAAGTGTTGTCATTTATAATCTTACCATCTAAATTATTAACATGATTCTATTGTCTTTTG
66 AGATGTAAGTGTTGTCATTTACAATCTTACCATCTAAATTATTAACATGATTCTATTATCTTTTG
* * * *
3995350 GGTCGGATTGTTAGCTTGCAATTTTTAAGTTGAAAATTTTTCACTTTA-TTTATGGAAATGTAAA
131 GGTCGGATTGTTAGCTTACAAATTTTAAGTTGAAAATTTTCCAC-TTACTTCATGGAAATGTAAA
3995414 TACTAGTTAAATTTTGTGCTCG
195 TACTAGTTAAATTTTGTGCTCG
* *
3995436 ATTTTCTCGTAACTCAATCCTTAATAACAATCTTTACTTAGAACATGATTCTAGCTCAACAACTA
1 ATTTTCTCGTAACTCAATCCTTAATAACAATCTTTACTTAGAACATGAGTCCAGCT---C-A--A
* * *
3995501 TTTGATAGCTAGACT-TAAGTGTTGTCATTTGCAATTTTATCATCTAAATTATTAACATGATTCT
60 ----ATAGCTAGA-TGTAAGTGTTGTCATTTACAATCTTACCATCTAAATTATTAACATGATTCT
3995565 ATTATCTTTTGGGTCGGATTGTTAGCTTACAAATTTTAAGTTGAAAATTTTCCACTTACTTCATG
120 ATTATCTTTTGGGTCGGATTGTTAGCTTACAAATTTTAAGTTGAAAATTTTCCACTTACTTCATG
3995630 GAAAT
185 GAAAT
3995635 ATGTTTTCTT
Statistics
Matches: 174, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
216 52 0.30
219 1 0.01
220 1 0.01
222 1 0.01
225 3 0.02
226 115 0.66
227 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (216 bp):
ATTTTCTCGTAACTCAATCCTTAATAACAATCTTTACTTAGAACATGAGTCCAGCTCAAATAGCT
AGATGTAAGTGTTGTCATTTACAATCTTACCATCTAAATTATTAACATGATTCTATTATCTTTTG
GGTCGGATTGTTAGCTTACAAATTTTAAGTTGAAAATTTTCCACTTACTTCATGGAAATGTAAAT
ACTAGTTAAATTTTGTGCTCG
Found at i:3999136 original size:23 final size:23
Alignment explanation
Indices: 3999091--3999141 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
3999081 AACTAAGGTC
*
3999091 TTTTTCTTTCTCTCTCTCTTTTT
1 TTTTTCTTTCTCTCTCTCCTTTT
*
3999114 TTTTTCTTTC-CTTTCTTCCTTTT
1 TTTTTCTTTCTCTCTC-TCCTTTT
*
3999137 ATTTT
1 TTTTT
3999142 GATTCTTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTCTTTCTCTCTCTCCTTTT
Found at i:4002779 original size:21 final size:21
Alignment explanation
Indices: 4002749--4002798 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
4002739 GCAACGGAAA
*
4002749 GCGACACTTCCCCTTAACCCT
1 GCGACCCTTCCCCTTAACCCT
*
4002770 GCGACCCTTCCCCTTAAGCCT
1 GCGACCCTTCCCCTTAACCCT
*
4002791 GCAACCCT
1 GCGACCCT
4002799 GGGTGAAGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.48, G:0.12, T:0.22
Consensus pattern (21 bp):
GCGACCCTTCCCCTTAACCCT
Found at i:4004134 original size:25 final size:25
Alignment explanation
Indices: 4004104--4004151 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
4004094 TAGAAAAAGG
*
4004104 AATAAGTAAAGGAAGATGTTATCCA
1 AATAAGTAAAGGAAGATATTATCCA
4004129 AATAAGTAAAGGAAGATATTATC
1 AATAAGTAAAGGAAGATATTATC
4004152 AATCTTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (25 bp):
AATAAGTAAAGGAAGATATTATCCA
Found at i:4038547 original size:14 final size:14
Alignment explanation
Indices: 4038524--4038562 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
4038514 CATTATTTAA
*
4038524 TTAGAATTTATAAT
1 TTAGAATTTAAAAT
*
4038538 TTAGATTTTAAAAT
1 TTAGAATTTAAAAT
*
4038552 TTAAAATTTAA
1 TTAGAATTTAA
4038563 GGCTTAAGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (14 bp):
TTAGAATTTAAAAT
Found at i:4040195 original size:33 final size:32
Alignment explanation
Indices: 4040149--4040212 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
4040139 AACATAAATC
* *
4040149 AAATAATTAAATTTCACGTATTTATTTTATATA
1 AAATAATTAAATTT-ACATATTTATGTTATATA
*
4040182 AAAT-ATTATAATTTATATATTTATGTTATAT
1 AAATAATTA-AATTTACATATTTATGTTATAT
4040213 TTTATATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 18 0.67
33 9 0.33
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (32 bp):
AAATAATTAAATTTACATATTTATGTTATATA
Found at i:4040233 original size:20 final size:20
Alignment explanation
Indices: 4040167--4040234 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
4040157 AAATTTCACG
4040167 TATTTATTTTATAT-AAAA-
1 TATTTATTTTATATAAAAAT
* ***
4040185 TATTATAATTTATATATTTAT
1 TATT-TATTTTATATAAAAAT
*
4040206 GT-TATATTTTATATAAAAAT
1 -TATTTATTTTATATAAAAAT
4040226 TATTTATTT
1 TATTTATTT
4040235 AAATTTATAT
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
18 4 0.11
19 10 0.29
20 19 0.54
21 1 0.03
22 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (20 bp):
TATTTATTTTATATAAAAAT
Found at i:4040328 original size:23 final size:23
Alignment explanation
Indices: 4040273--4040328 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
4040263 TATATTTTTT
*
4040273 TTATTTTTAAAATTTATATATAA
1 TTATTTTTAAAATTTAAATATAA
* *
4040296 TAATTATTTAAATTTTAAATCAT-A
1 TTATT-TTTAAAATTTAAAT-ATAA
4040320 TTATTTTTA
1 TTATTTTTA
4040329 TATATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 8 0.30
24 17 0.63
25 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTTTTAAAATTTAAATATAA
Found at i:4040349 original size:11 final size:11
Alignment explanation
Indices: 4040317--4040372 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
4040307 ATTTTAAATC
*
4040317 ATATTATTTTT
1 ATATTATATTT
*
4040328 ATA-TATTTTT
1 ATATTATATTT
4040338 ATATTATATTT
1 ATATTATATTT
*
4040349 ATATTGTACTATT
1 ATATTATA-T-TT
*
4040362 ATATCATATTT
1 ATATTATATTT
4040373 TTAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
10 10 0.26
11 18 0.47
12 2 0.05
13 8 0.21
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (11 bp):
ATATTATATTT
Found at i:4040353 original size:19 final size:19
Alignment explanation
Indices: 4040329--4040375 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
4040319 ATTATTTTTA
4040329 TATATTTTTA-TATTATAT
1 TATATTTTTACTATTATAT
*
4040347 T-TATATTGTACTATTATAT
1 TATAT-TTTTACTATTATAT
*
4040366 CATATTTTTA
1 TATATTTTTA
4040376 ATAATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
17 3 0.13
18 5 0.22
19 12 0.52
20 3 0.13
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TATATTTTTACTATTATAT
Found at i:4047118 original size:2 final size:2
Alignment explanation
Indices: 4047111--4047139 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4047101 GTGATTGAGC
4047111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4047140 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4047144 original size:2 final size:2
Alignment explanation
Indices: 4047139--4047168 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4047129 ATATATATAT
4047139 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4047169 CTAGCTAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4049021 original size:4 final size:4
Alignment explanation
Indices: 4049012--4049065 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
4049002 AGAAACCAAC
* *
4049012 AAAT AAAT AATT AAAAT AAAC AAAT -AAT AAAT AAAT AAAT -AAT ACAAT
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT
4049060 -AAT AAA
1 AAAT AAA
4049066 AAAACAAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 9 0.22
4 26 0.63
5 6 0.15
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:4049063 original size:15 final size:15
Alignment explanation
Indices: 4049012--4049065 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
4049002 AGAAACCAAC
4049012 AAATAAATAATTAAAAT
1 AAATAAATAA-T-AAAT
*
4049029 AAACAAATAATAAAT
1 AAATAAATAATAAAT
4049044 AAATAAATAATACAAT
1 AAATAAATAATA-AAT
4049060 -AATAAA
1 AAATAAA
4049066 AAAACAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 21 0.62
16 4 0.12
17 9 0.26
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:4052879 original size:3 final size:3
Alignment explanation
Indices: 4052871--4052899 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4052861 TTCCAATAAA
4052871 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4052900 AAATAACAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4074509 original size:14 final size:14
Alignment explanation
Indices: 4074490--4074516 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4074480 TATAATTTTA
4074490 AATTATAAATAATT
1 AATTATAAATAATT
4074504 AATTATAAATAAT
1 AATTATAAATAAT
4074517 ATCTTCCTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTATAAATAATT
Found at i:4077071 original size:27 final size:28
Alignment explanation
Indices: 4077014--4077071 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
4077004 AAATCATAAC
* **
4077014 TTTTAAAGAAATAAATTTTTTTTTTGTT
1 TTTTAAAGAAATAAATTTTTGTTTTAAT
4077042 TTTTCAAA-AAATAAA-TTTTGTTTTAAT
1 TTTT-AAAGAAATAAATTTTTGTTTTAAT
4077069 TTT
1 TTT
4077072 AATTATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 12 0.46
28 11 0.42
29 3 0.12
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTTAAAGAAATAAATTTTTGTTTTAAT
Found at i:4077071 original size:28 final size:28
Alignment explanation
Indices: 4077014--4077071 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
4077004 AAATCATAAC
* **
4077014 TTTTAAAGAAATAAATTTTTTTTTTGTT
1 TTTTAAAGAAATAAATTTTGTTTTAATT
4077042 TTTTCAAA-AAATAAATTTTGTTTTAATT
1 TTTT-AAAGAAATAAATTTTGTTTTAATT
4077070 TT
1 TT
4077072 AATTATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (28 bp):
TTTTAAAGAAATAAATTTTGTTTTAATT
Found at i:4085055 original size:16 final size:17
Alignment explanation
Indices: 4085036--4085073 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
4085026 TAATTCACAC
4085036 TTTAAAAAATT-ATAAA
1 TTTAAAAAATTCATAAA
4085052 TTT-AAAAATTCATAAA
1 TTTAAAAAATTCATAAA
*
4085068 TATAAA
1 TTTAAA
4085074 GAAAACTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 10 0.53
17 2 0.11
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTAAAAAATTCATAAA
Found at i:4085430 original size:32 final size:32
Alignment explanation
Indices: 4085378--4085441 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
4085368 TTTGGATCAT
* **
4085378 ACTTGATAAAACACCTTCATAGCATAGTTAGG
1 ACTTAATAAAACACAATCATAGCATAGTTAGG
4085410 ACTTAATAAAACACAATCATAGCATAGTTAGG
1 ACTTAATAAAACACAATCATAGCATAGTTAGG
4085442 TATCTGTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (32 bp):
ACTTAATAAAACACAATCATAGCATAGTTAGG
Found at i:4087444 original size:2 final size:2
Alignment explanation
Indices: 4087437--4087477 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
4087427 ATACATGTTG
*
4087437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4087478 TAACTTTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4090902 original size:2 final size:2
Alignment explanation
Indices: 4090895--4090921 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4090885 CGAATACTTA
4090895 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4090922 AGAGATTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4098772 original size:20 final size:20
Alignment explanation
Indices: 4098747--4098787 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4098737 TAGAGACATG
*
4098747 TAACAATCACCGCTAGGAAT
1 TAACAATCACCACTAGGAAT
* *
4098767 TAACAATTACCATTAGGAAT
1 TAACAATCACCACTAGGAAT
4098787 T
1 T
4098788 TATTGAGGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (20 bp):
TAACAATCACCACTAGGAAT
Found at i:4102031 original size:71 final size:69
Alignment explanation
Indices: 4101897--4102031 Score: 159
Period size: 70 Copynumber: 1.9 Consensus size: 69
4101887 AAAATTTTAC
* * *
4101897 CTTTTTTATTTTATTATTATTAATTTTTTTTTATTTGTTTGTTTTACTTTTTAATCTAGTTTTTC
1 CTTTTTTACTTTATTATTATTAATTTTTTTTTATTTGTTAGTTGTA-TTTTTAATCTAGTTTTTC
4101962 TTTTT
65 TTTTT
*
4101967 CTTTTTTACTTTATTATTTATTAAATATTTTTTTTAACTTT-TTAGTTGT-TTTTTAA-CTATTT
1 CTTTTTTACTTTATTA-TTATT-AAT-TTTTTTTT-A-TTTGTTAGTTGTATTTTTAATCTAGTT
4102029 TTT
61 TTT
4102032 ATTAAATAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
70 15 0.27
71 13 0.23
72 10 0.18
73 8 0.14
74 7 0.12
75 3 0.05
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.72
Consensus pattern (69 bp):
CTTTTTTACTTTATTATTATTAATTTTTTTTTATTTGTTAGTTGTATTTTTAATCTAGTTTTTCT
TTTT
Found at i:4102626 original size:25 final size:26
Alignment explanation
Indices: 4102596--4102650 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
4102586 TAATAATAAA
4102596 TTATTATAATTATGATT-GAAAAAAT
1 TTATTATAATTATGATTAGAAAAAAT
*
4102621 TTATTATAATTATGATTATAAAAAAT
1 TTATTATAATTATGATTAGAAAAAAT
4102647 TTAT
1 TTAT
4102651 ACTGATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (26 bp):
TTATTATAATTATGATTAGAAAAAAT
Found at i:4102942 original size:17 final size:17
Alignment explanation
Indices: 4102922--4102956 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4102912 TAATAATATA
*
4102922 ATTATTAAAGTGATTTT
1 ATTATTAAAATGATTTT
4102939 ATTATTAAAATGATTTT
1 ATTATTAAAATGATTTT
4102956 A
1 A
4102957 ATACTCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (17 bp):
ATTATTAAAATGATTTT
Found at i:4103786 original size:17 final size:17
Alignment explanation
Indices: 4103766--4103800 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4103756 TGATAATATA
4103766 ATTATT-AAAGTGATTTT
1 ATTATTCAAA-TGATTTT
4103783 ATTATTCAAATGATTTT
1 ATTATTCAAATGATTTT
4103800 A
1 A
4103801 ATGTTCACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (17 bp):
ATTATTCAAATGATTTT
Found at i:4104249 original size:15 final size:16
Alignment explanation
Indices: 4104231--4104264 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4104221 ATTAATTGAA
*
4104231 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
4104246 AATATAAAATAATTAT
1 AATATAAAATAATTAT
4104262 AAT
1 AAT
4104265 TTTAAGATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:4106232 original size:28 final size:28
Alignment explanation
Indices: 4106173--4106233 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
4106163 AATGACATAT
** *
4106173 TTAATATGATATTTAAAATTTAAAATTT
1 TTAATATGATATCAAAAATTTAAAATTA
*
4106201 TTAATATGATA-CAAAAATTTTAAATTAA
1 TTAATATGATATCAAAAATTTAAAATT-A
4106229 TTAAT
1 TTAAT
4106234 TAATATAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (28 bp):
TTAATATGATATCAAAAATTTAAAATTA
Found at i:4108188 original size:26 final size:25
Alignment explanation
Indices: 4108142--4108190 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4108132 AAATTAAATT
* *
4108142 AATAAATAAAAGTTAACTTAGAAAA
1 AATAAATAAAAGTAAAATTAGAAAA
*
4108167 AATAAATTAAAGTAAAAATTAGAA
1 AATAAATAAAAGT-AAAATTAGAA
4108191 TACTTAATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.24
Consensus pattern (25 bp):
AATAAATAAAAGTAAAATTAGAAAA
Found at i:4108498 original size:2 final size:2
Alignment explanation
Indices: 4108493--4108524 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4108483 AACCAAAAAA
4108493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4108525 TACTGGCAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4113821 original size:21 final size:22
Alignment explanation
Indices: 4113795--4113841 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4113785 ATATCTATTG
4113795 TTATATATTATTATTTAAAT-A
1 TTATATATTATTATTTAAATAA
*
4113816 TTATATATTATTTTTTAAATAA
1 TTATATATTATTATTTAAATAA
4113838 TTAT
1 TTAT
4113842 TAGTTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATATTATTATTTAAATAA
Found at i:4113842 original size:18 final size:20
Alignment explanation
Indices: 4113796--4113848 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
4113786 TATCTATTGT
4113796 TATATATTATTATTTAAATA
1 TATATATTATTATTTAAATA
*
4113816 TTATATATTATTTTTTAAATA
1 -TATATATTATTATTTAAATA
4113837 -AT-TATTAGTTAT
1 TATATATTA-TTAT
4113849 ATTATTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
21 19 0.66
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TATATATTATTATTTAAATA
Found at i:4114175 original size:46 final size:46
Alignment explanation
Indices: 4114108--4114202 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
4114098 AGTATATGAA
*
4114108 AAAGAACATATAATAAAGAATATAATCCAATACTTTGACGAAAGAG
1 AAAGAACATATAATAAAGAATATAATCCAATACTTTGACAAAAGAG
4114154 AAAGAACATATAATAAAGAATATAATCCAATACTTTGACAAAAGAG
1 AAAGAACATATAATAAAGAATATAATCCAATACTTTGACAAAAGAG
4114200 AAA
1 AAA
4114203 AATTAAACAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.57, C:0.11, G:0.12, T:0.21
Consensus pattern (46 bp):
AAAGAACATATAATAAAGAATATAATCCAATACTTTGACAAAAGAG
Found at i:4122455 original size:20 final size:19
Alignment explanation
Indices: 4122430--4122469 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
4122420 CTCTCTATAA
4122430 AATTAAATCAATTCTTAGAG
1 AATTAAATCAATT-TTAGAG
* *
4122450 AATTAATTTAATTTTAGAG
1 AATTAAATCAATTTTAGAG
4122469 A
1 A
4122470 GAAAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (19 bp):
AATTAAATCAATTTTAGAG
Found at i:4123348 original size:21 final size:21
Alignment explanation
Indices: 4123289--4123348 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
4123279 ATTAATTTAA
*
4123289 TTTAAAAAAAGAGA-ATGAATT
1 TTTAAAGAAAGA-ACATGAATT
* * *
4123310 TTTAGAGAGAGAATATGAATT
1 TTTAAAGAAAGAACATGAATT
*
4123331 TTTAAAGAAATAACATGA
1 TTTAAAGAAAGAACATGA
4123349 GATGAAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.52, C:0.02, G:0.17, T:0.30
Consensus pattern (21 bp):
TTTAAAGAAAGAACATGAATT
Found at i:4123757 original size:13 final size:14
Alignment explanation
Indices: 4123731--4123759 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4123721 TATATTTGTA
4123731 TAATTATAATATTT
1 TAATTATAATATTT
4123745 TAATTAT-ATATTT
1 TAATTATAATATTT
4123758 TA
1 TA
4123760 TTTGGGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:4125060 original size:11 final size:11
Alignment explanation
Indices: 4125040--4125091 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
4125030 TATAAATAAT
4125040 TTTATA-ATTA
1 TTTATATATTA
4125050 TTTATATATTA
1 TTTATATATTA
4125061 TTTATATA-TA
1 TTTATATATTA
*
4125071 TTTA-ATTTTA
1 TTTATATATTA
4125081 TATT-TATATTA
1 T-TTATATATTA
4125092 AAAATAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
9 2 0.06
10 15 0.42
11 19 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTATATATTA
Found at i:4130514 original size:16 final size:16
Alignment explanation
Indices: 4130490--4130531 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4130480 TCTCATGGTA
*
4130490 TCTTTCGTT-TTTGCTT
1 TCTTGCGTTCTTTG-TT
4130506 TCTTGCGTTCTTTGTT
1 TCTTGCGTTCTTTGTT
*
4130522 TCTTGAGTTC
1 TCTTGCGTTC
4130532 CTTTTTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.02, C:0.19, G:0.17, T:0.62
Consensus pattern (16 bp):
TCTTGCGTTCTTTGTT
Found at i:4134901 original size:119 final size:119
Alignment explanation
Indices: 4134685--4134925 Score: 437
Period size: 119 Copynumber: 2.0 Consensus size: 119
4134675 TAAAACAAGC
4134685 TTCTGCAATATGAATCACTTTTTGATCAAGGTAATAGTAATAAGAGGACTAGCAGGCTTAGTACA
1 TTCTGCAATATGAATCACTTTTTGATCAAGGTAATAGTAATAAGAGGACTAGCAGGCTTAGTACA
4134750 GTTTACAAAGGGCAAGTAGACATGTACATGTCCTTGTGAATCAAATGAAGGCGA
66 GTTTACAAAGGGCAAGTAGACATGTACATGTCCTTGTGAATCAAATGAAGGCGA
* * *
4134804 TTCTGCGATATGAGTCACTTTTTGATCAAGGTAATGGTAATAAGAGGACTAGCAGGCTTAGTACA
1 TTCTGCAATATGAATCACTTTTTGATCAAGGTAATAGTAATAAGAGGACTAGCAGGCTTAGTACA
* *
4134869 GTTTACAAAGGGCAAGTAGACATGTACGTGTCCTTGTGAATCAAATGAGGGCGA
66 GTTTACAAAGGGCAAGTAGACATGTACATGTCCTTGTGAATCAAATGAAGGCGA
4134923 TTC
1 TTC
4134926 CTTGAACAAT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 117 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (119 bp):
TTCTGCAATATGAATCACTTTTTGATCAAGGTAATAGTAATAAGAGGACTAGCAGGCTTAGTACA
GTTTACAAAGGGCAAGTAGACATGTACATGTCCTTGTGAATCAAATGAAGGCGA
Found at i:4137138 original size:2 final size:2
Alignment explanation
Indices: 4137131--4137161 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4137121 TTAATTGATG
4137131 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4137162 GTTTGATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4139240 original size:123 final size:124
Alignment explanation
Indices: 4139002--4139242 Score: 308
Period size: 123 Copynumber: 1.9 Consensus size: 124
4138992 AGAGCTGATT
* * ** *
4139002 GAATAGCGCGTGTTTGTGCATTTTCTGTTGTCTGGAATAACTTCTCACAGCACATAATTATTAAC
1 GAATAGCGCATGTTTGTGAATTTTCCATTGTCTGG-A-AACTTCTCACAACACATAATTATTAAC
* * * *
4139067 TAAGAAAACAAATAAAAACAGGGTACATGATAAACCAAGAAGATCAACAAATTATGTCATG
64 TAACAAAACAAACAAAAACAGGGTACATGACAAACAAAGAAGATCAACAAATTATGTCATG
4139128 GAATAGCGCATGTTTGTGAATTTTCCATTGTCTGG-AACTTCTCACAACACA-ATATTATTAACT
1 GAATAGCGCATGTTTGTGAATTTTCCATTGTCTGGAAACTTCTCACAACACATA-ATTATTAACT
* * * *
4139191 AACAAAACAAACAGAAATAGGTTACATGACAAACAAAGTAGATTC-ACAAATT
65 AACAAAACAAACAAAAACAGGGTACATGACAAACAAAGAAGA-TCAACAAATT
4139243 CTATCATTTC
Statistics
Matches: 100, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
122 1 0.01
123 66 0.66
124 2 0.02
126 31 0.31
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.28
Consensus pattern (124 bp):
GAATAGCGCATGTTTGTGAATTTTCCATTGTCTGGAAACTTCTCACAACACATAATTATTAACTA
ACAAAACAAACAAAAACAGGGTACATGACAAACAAAGAAGATCAACAAATTATGTCATG
Found at i:4143739 original size:9 final size:10
Alignment explanation
Indices: 4143717--4143761 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
4143707 ATAAAAAATC
4143717 AAAAATTTCA
1 AAAAATTTCA
*
4143727 AAAAATTTGA
1 AAAAATTTCA
* *
4143737 AAAACAATTCT
1 AAAA-ATTTCA
4143748 AAAAATTTCA
1 AAAAATTTCA
4143758 AAAA
1 AAAA
4143762 TAAAAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
10 21 0.75
11 7 0.25
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAAATTTCA
Found at i:4143900 original size:9 final size:9
Alignment explanation
Indices: 4143851--4143917 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
4143841 AATATATACA
4143851 AAAAAATTC
1 AAAAAATTC
4143860 AAAATAA-TC
1 AAAA-AATTC
4143869 TAAAAAATTTC
1 -AAAAAA-TTC
4143880 --AAAATT-
1 AAAAAATTC
**
4143886 TGAAAATTC
1 AAAAAATTC
4143895 AAAAAATTC
1 AAAAAATTC
*
4143904 AAAAAATTT
1 AAAAAATTC
4143913 AAAAA
1 AAAAA
4143918 TTAATAAAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
7 2 0.04
8 10 0.21
9 28 0.58
10 6 0.12
11 2 0.04
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.27
Consensus pattern (9 bp):
AAAAAATTC
Found at i:4143908 original size:34 final size:35
Alignment explanation
Indices: 4143853--4143919 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 35
4143843 TATATACAAA
*
4143853 AAAATTCAAAATAATCTAAAAAATTTCAAAATTTG
1 AAAATTCAAAATAATCTAAAAAATTTAAAAATTTG
4143888 AAAATTCAAAA-AAT-TCAAAAAATTTAAAAATT
1 AAAATTCAAAATAATCT-AAAAAATTTAAAAATT
4143920 AATAAAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 1 0.03
34 18 0.60
35 11 0.37
ACGTcount: A:0.61, C:0.07, G:0.01, T:0.30
Consensus pattern (35 bp):
AAAATTCAAAATAATCTAAAAAATTTAAAAATTTG
Found at i:4144298 original size:19 final size:19
Alignment explanation
Indices: 4144274--4144317 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4144264 TATTTATGGT
* *
4144274 AATTTTTTG-AATTTTCAG
1 AATTTTTTGAAAATTTCAC
4144292 AATTTTTTGAAAATTTCAC
1 AATTTTTTGAAAATTTCAC
4144311 AATTTTT
1 AATTTTT
4144318 AGGTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (19 bp):
AATTTTTTGAAAATTTCAC
Found at i:4144367 original size:29 final size:29
Alignment explanation
Indices: 4144325--4144380 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
4144315 TTTAGGTTTT
*
4144325 TTTTTTTAAAATTTTCATATTCTTTAGTA
1 TTTTTTTAAAATTTTCAGATTCTTTAGTA
*
4144354 TTTTTTTAAAATTTTCAGATTTTTTAG
1 TTTTTTTAAAATTTTCAGATTCTTTAG
4144381 AAAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (29 bp):
TTTTTTTAAAATTTTCAGATTCTTTAGTA
Found at i:4144388 original size:29 final size:29
Alignment explanation
Indices: 4144327--4144395 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
4144317 TAGGTTTTTT
* * **
4144327 TTTTTAAAATTTTCATATTCTTTAGTATT
1 TTTTTAAAATTTTCAGATTCTTTAGAAAA
*
4144356 TTTTTAAAATTTTCAGATTTTTTAGAAAA
1 TTTTTAAAATTTTCAGATTCTTTAGAAAA
4144385 -TTTTAAAATTT
1 TTTTTAAAATTT
4144396 CTTAAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 11 0.31
29 24 0.69
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (29 bp):
TTTTTAAAATTTTCAGATTCTTTAGAAAA
Found at i:4144553 original size:17 final size:16
Alignment explanation
Indices: 4144513--4144560 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
4144503 AAATTATTTG
4144513 ATTTTT-TTTTTGAAA
1 ATTTTTATTTTTGAAA
*
4144528 A-TTTCATTTTTGAAA
1 ATTTTTATTTTTGAAA
*
4144543 ATTTTTTATTTTTTAAA
1 A-TTTTTATTTTTGAAA
4144560 A
1 A
4144561 AATGTTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 3 0.11
15 11 0.41
17 13 0.48
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (16 bp):
ATTTTTATTTTTGAAA
Found at i:4144554 original size:16 final size:15
Alignment explanation
Indices: 4144513--4144554 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
4144503 AAATTATTTG
4144513 ATTTTTTTTTTGAAA
1 ATTTTTTTTTTGAAA
**
4144528 ATTTCATTTTTGAAA
1 ATTTTTTTTTTGAAA
4144543 ATTTTTTATTTT
1 ATTTTTT-TTTT
4144555 TTAAAAAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (15 bp):
ATTTTTTTTTTGAAA
Found at i:4144556 original size:19 final size:20
Alignment explanation
Indices: 4144534--4144585 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
4144524 GAAAATTTCA
4144534 TTTTTGAAAATTTTT--TAT
1 TTTTTGAAAATTTTTCATAT
* *
4144552 TTTTTAAAAAATGTTTCATAT
1 TTTTT-GAAAATTTTTCATAT
4144573 TTTTTG-AAATTTT
1 TTTTTGAAAATTTT
4144586 GAAATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 5 0.19
19 14 0.52
21 8 0.30
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTTGAAAATTTTTCATAT
Found at i:4144594 original size:56 final size:56
Alignment explanation
Indices: 4144533--4144641 Score: 134
Period size: 56 Copynumber: 1.9 Consensus size: 56
4144523 TGAAAATTTC
**
4144533 ATTTTTGAAAATTTTTTA-TTTTTT-AAAAAATGTTTCAT-ATTTTTTGAAATTTTGAA
1 ATTTTT-AAAATTTTAAATTTTTTTAAAAAAAT-TTTCATAATTTTTT-AAATTTTGAA
**
4144589 ATTTTTAGCATTTTAAATTTTTTTAAAAAAATTTTCATAATTTTTTAAATTTT
1 ATTTTTAAAATTTTAAATTTTTTTAAAAAAATTTTCATAATTTTTTAAATTTT
4144642 CTATCAATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
55 7 0.15
56 25 0.54
57 14 0.30
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.58
Consensus pattern (56 bp):
ATTTTTAAAATTTTAAATTTTTTTAAAAAAATTTTCATAATTTTTTAAATTTTGAA
Found at i:4151239 original size:24 final size:22
Alignment explanation
Indices: 4151197--4151252 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
4151187 ATAATAATCT
* **
4151197 AAAAATAAAATAAATAAAAGTG
1 AAAAAGAAAATAAATAAAAAAG
4151219 AAAATAGAAAATAAAATAAAAAAG
1 AAAA-AGAAAAT-AAATAAAAAAG
4151243 AAAAAGAAAA
1 AAAAAGAAAA
4151253 ACCTGTGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 12 0.41
24 13 0.45
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (22 bp):
AAAAAGAAAATAAATAAAAAAG
Found at i:4152452 original size:43 final size:43
Alignment explanation
Indices: 4152365--4152509 Score: 170
Period size: 43 Copynumber: 3.4 Consensus size: 43
4152355 GAGATTCAAC
* * ** *
4152365 AAACAAATTTAAATTAAAAAAT-GGCTCTTCTGTTCAAAAGCT
1 AAACAACTTTAAAATAGGAAATGGGCTCTTCTATTCAAAAGCT
* *
4152407 AAACAACTTTAAAATAGGGAATGGGCTCTTCTATTC-AGAGACT
1 AAACAACTTTAAAATAGGAAATGGGCTCTTCTATTCAAAAG-CT
* *
4152450 AAACAACTTTAAAATAGGAAATTGGCTCATT-TATTCAAAAGTT
1 AAACAACTTTAAAATAGGAAATGGGCTC-TTCTATTCAAAAGCT
4152493 AAACAACTTTAAAATAG
1 AAACAACTTTAAAATAG
4152510 CCTTTTAACT
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
42 20 0.23
43 63 0.72
44 5 0.06
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (43 bp):
AAACAACTTTAAAATAGGAAATGGGCTCTTCTATTCAAAAGCT
Found at i:4159934 original size:21 final size:21
Alignment explanation
Indices: 4159910--4159960 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4159900 AAATCAAAGA
*
4159910 CAATAAAATAATTAAACAAAT
1 CAATAAAATAATAAAACAAAT
**
4159931 CAATAATGTAATAAAACAAAT
1 CAATAAAATAATAAAACAAAT
*
4159952 AAATAAAAT
1 CAATAAAAT
4159961 GAGTAAATGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.24
Consensus pattern (21 bp):
CAATAAAATAATAAAACAAAT
Found at i:4161612 original size:16 final size:16
Alignment explanation
Indices: 4161591--4161655 Score: 71
Period size: 16 Copynumber: 4.2 Consensus size: 16
4161581 GATATAAGGG
4161591 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
*
4161607 TTTGGATTTT-GGG-G
1 TTTGGATTTTAGGGAT
* *
4161621 TTTGGATTTAAAGGAT
1 TTTGGATTTTAGGGAT
* *
4161637 TTCGGATTTTAGGGGT
1 TTTGGATTTTAGGGAT
4161653 TTT
1 TTT
4161656 AGAAAACGTG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
14 9 0.24
15 5 0.13
16 24 0.63
ACGTcount: A:0.17, C:0.02, G:0.32, T:0.49
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:4161622 original size:30 final size:31
Alignment explanation
Indices: 4161588--4161654 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
4161578 TTTGATATAA
* * *
4161588 GGGTTTGGATTTTAGGGATTTTGGATTTT-G
1 GGGTTTGGATTTAAAGGATTTCGGATTTTAG
4161618 GGGTTTGGATTTAAAGGATTTCGGATTTTAG
1 GGGTTTGGATTTAAAGGATTTCGGATTTTAG
4161649 GGGTTT
1 GGGTTT
4161655 TAGAAAACGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 26 0.79
31 7 0.21
ACGTcount: A:0.16, C:0.01, G:0.36, T:0.46
Consensus pattern (31 bp):
GGGTTTGGATTTAAAGGATTTCGGATTTTAG
Found at i:4162038 original size:23 final size:21
Alignment explanation
Indices: 4162012--4162055 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4162002 TTTATTATTA
4162012 TTAAAACAATTAAAAAACTTATC
1 TTAAAA-AATT-AAAAACTTATC
* *
4162035 TTAACAAATTTAAAACTTATC
1 TTAAAAAATTAAAAACTTATC
4162056 ATGCATAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAAAAAATTAAAAACTTATC
Found at i:4171274 original size:3 final size:3
Alignment explanation
Indices: 4171257--4171300 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
4171247 TTCAATTTAA
4171257 AAT AAGT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4171301 GAAAATTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4171320 original size:21 final size:21
Alignment explanation
Indices: 4171308--4171357 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
4171298 TAAGAAAATT
4171308 TGAAAATAAAATAGATAAAAA
1 TGAAAATAAAATAGATAAAAA
*
4171329 TGAAAATAAAAATAAAATAAAAA
1 TGAAAAT-AAAAT-AGATAAAAA
*
4171352 AGAAAA
1 TGAAAA
4171358 ATTTGTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
22 5 0.20
23 13 0.52
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (21 bp):
TGAAAATAAAATAGATAAAAA
Found at i:4171339 original size:12 final size:12
Alignment explanation
Indices: 4171322--4171357 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
4171312 AATAAAATAG
4171322 ATAAAAATGAAA
1 ATAAAAATGAAA
4171334 ATAAAAAT-AAA
1 ATAAAAATGAAA
*
4171345 ATAAAAAAGAAA
1 ATAAAAATGAAA
4171357 A
1 A
4171358 ATTTGTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.14
Consensus pattern (12 bp):
ATAAAAATGAAA
Found at i:4172434 original size:21 final size:20
Alignment explanation
Indices: 4172391--4172434 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4172381 TTAAGGTTCA
** *
4172391 TTTATGTTTGTTTGGGTTTG
1 TTTATGTTCATTTGGGCTTG
4172411 TTTATGTTCATTTAGGGCTTG
1 TTTATGTTCATTT-GGGCTTG
4172432 TTT
1 TTT
4172435 TTTTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.09, C:0.05, G:0.25, T:0.61
Consensus pattern (20 bp):
TTTATGTTCATTTGGGCTTG
Found at i:4172513 original size:26 final size:25
Alignment explanation
Indices: 4172466--4172517 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
4172456 GTTTGTTTAT
* *
4172466 TGTTCATGAATATGTTCATTTATATA
1 TGTTCAAGAACATGTTCATTTA-ATA
**
4172492 TGTTCAAGAACATGTTTGTTTAATA
1 TGTTCAAGAACATGTTCATTTAATA
4172517 T
1 T
4172518 TCACGAATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (25 bp):
TGTTCAAGAACATGTTCATTTAATA
Found at i:4173013 original size:8 final size:8
Alignment explanation
Indices: 4173002--4173091 Score: 67
Period size: 8 Copynumber: 10.9 Consensus size: 8
4172992 AACAAAAAGG
4173002 GAAAAAAA
1 GAAAAAAA
*
4173010 GAAAGAAA
1 GAAAAAAA
4173018 GAAAAAAA
1 GAAAAAAA
4173026 TGAAAAAAA
1 -GAAAAAAA
*
4173035 G-AGAAAA
1 GAAAAAAA
*
4173042 -AAAGAAA
1 GAAAAAAA
4173049 GAAAAAAAA
1 G-AAAAAAA
4173058 GAAAAGAATA
1 GAAAA-AA-A
* *
4173068 GGAGAAAA
1 GAAAAAAA
*
4173076 GAAGAAAGA
1 GAA-AAAAA
4173085 GAAAAAA
1 GAAAAAA
4173092 GTGAGGTTGG
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
7 9 0.14
8 25 0.40
9 25 0.40
10 4 0.06
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (8 bp):
GAAAAAAA
Found at i:4173049 original size:31 final size:34
Alignment explanation
Indices: 4173006--4173092 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 34
4172996 AAAAGGGAAA
*
4173006 AAAAGAAAGAAAGAAAAAAATGAAAA-AA-A-GAG
1 AAAA-AAAGAAAGAAAAAAAAGAAAAGAATAGGAG
4173038 AAAAAAAGAAAGAAAAAAAAGAAAAGAATAGGAG
1 AAAAAAAGAAAGAAAAAAAAGAAAAGAATAGGAG
* *
4173072 AAAAGAAGAAAGAGAAAAAAG
1 AAAAAAAGAAAGAAAAAAAAG
4173093 TGAGGTTGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 20 0.41
32 6 0.12
33 1 0.02
34 22 0.45
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (34 bp):
AAAAAAAGAAAGAAAAAAAAGAAAAGAATAGGAG
Found at i:4173073 original size:22 final size:22
Alignment explanation
Indices: 4173011--4173092 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 22
4173001 GGAAAAAAAG
*
4173011 AAAGAAAGAAAAAAA-TGAAAA
1 AAAGAAAGAAAAAAAGAGAAAA
4173032 AAAG--AGAAAAAAAGA-AAGAA
1 AAAGAAAGAAAAAAAGAGAA-AA
4173052 AAA-AAAGAAAAGAATAGGAGAAAA
1 AAAGAAAGAAAA-AA-A-GAGAAAA
*
4173076 GAAGAAAGAGAAAAAAG
1 AAAGAAAGA-AAAAAAG
4173093 TGAGGTTGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
19 11 0.22
20 5 0.10
21 10 0.20
22 2 0.04
23 2 0.04
24 7 0.14
25 9 0.18
26 3 0.06
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (22 bp):
AAAGAAAGAAAAAAAGAGAAAA
Found at i:4174307 original size:19 final size:17
Alignment explanation
Indices: 4174275--4174314 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 17
4174265 GTCAATTGAT
4174275 AAAAAAATAAAAAAGGA
1 AAAAAAATAAAAAAGGA
4174292 GAAAAAAATAAAAAAAGGA
1 -AAAAAAAT-AAAAAAGGA
4174311 AAAA
1 AAAA
4174315 TGTGGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (17 bp):
AAAAAAATAAAAAAGGA
Found at i:4175007 original size:24 final size:24
Alignment explanation
Indices: 4174942--4175040 Score: 121
Period size: 24 Copynumber: 4.2 Consensus size: 24
4174932 TATGTGTGAT
* *
4174942 TTATTAATATATTTATTTGTATGA
1 TTATTAATATATTTAATTGCATGA
* *
4174966 TTA-T-ATTTAATTTGATTGCATGA
1 TTATTAATAT-ATTTAATTGCATGA
*
4174989 TTATTAATATATTTAATTGCTTGA
1 TTATTAATATATTTAATTGCATGA
*
4175013 TTATTAATATATTTATTTGCATGA
1 TTATTAATATATTTAATTGCATGA
4175037 TTAT
1 TTAT
4175041 ATGTTTAATT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
22 3 0.05
23 15 0.24
24 42 0.67
25 3 0.05
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (24 bp):
TTATTAATATATTTAATTGCATGA
Found at i:4175047 original size:20 final size:20
Alignment explanation
Indices: 4174948--4175086 Score: 69
Period size: 24 Copynumber: 6.8 Consensus size: 20
4174938 TGATTTATTA
* *
4174948 ATATATTTATTTGTATGATT
1 ATATATTTAATTGCATGATT
*
4174968 ATATTTAATTTGATTGCATGATTATT
1 ATA--T-ATTTAATTGCATG---ATT
*
4174994 AATATATTTAATTGCTTGATTATT
1 -ATATATTTAATTGC---ATGATT
*
4175018 AATATATTTATTTGCATGATT
1 -ATATATTTAATTGCATGATT
*
4175039 ATATGTTTAATTGCATG--T
1 ATATATTTAATTGCATGATT
4175057 -T-TATTT--TT--ATGATT
1 ATATATTTAATTGCATGATT
4175071 ATATATTTAATTGCAT
1 ATATATTTAATTGCAT
4175087 ATTTTGCATG
Statistics
Matches: 91, Mismatches: 10, Indels: 36
0.66 0.07 0.26
Matches are distributed among these distances:
12 3 0.03
14 3 0.03
15 1 0.01
16 9 0.10
17 1 0.01
18 3 0.03
20 20 0.22
21 5 0.05
22 1 0.01
23 10 0.11
24 26 0.29
25 1 0.01
26 3 0.03
27 5 0.05
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (20 bp):
ATATATTTAATTGCATGATT
Found at i:4175060 original size:32 final size:32
Alignment explanation
Indices: 4175024--4175086 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
4175014 TATTAATATA
*
4175024 TTTATTTGCATGATTATATGTTTAATTGCATG
1 TTTATTTGCATGATTATATATTTAATTGCATG
**
4175056 TTTATTTTTATGATTATATATTTAATTGCAT
1 TTTATTTGCATGATTATATATTTAATTGCAT
4175087 ATTTTGCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (32 bp):
TTTATTTGCATGATTATATATTTAATTGCATG
Found at i:4175152 original size:31 final size:31
Alignment explanation
Indices: 4175090--4175153 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
4175080 ATTGCATATT
* * *
4175090 TTGCATGGTATATATATTGTTATTTATATGA
1 TTGCATGATATATATATTATTATTTACATGA
* * *
4175121 TTGCATGATTTATGTATTATTATTTGCATGA
1 TTGCATGATATATATATTATTATTTACATGA
4175152 TT
1 TT
4175154 ATATATTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.53
Consensus pattern (31 bp):
TTGCATGATATATATATTATTATTTACATGA
Found at i:4175180 original size:55 final size:55
Alignment explanation
Indices: 4175025--4175240 Score: 170
Period size: 55 Copynumber: 3.8 Consensus size: 55
4175015 ATTAATATAT
* **
4175025 TTATTTGCATGATTATATGTTTAATTGCATGTTTATTTTTATGA-TTATATATTTAA
1 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTTATATA-TT-A
* * * * * *
4175081 TTGCATATTTTGCATGGTATATATATTGTTATT-TAT-ATGA-TTGCATGATTTATGTATTA
1 -T---TA-TTTGCATGAT-TATATATT-TAATTGCATGTTTATTTGCATGATTTATATATTA
* * *
4175140 TTATTTGCATGATTATATATTTAATTGTATGTTTATTTGCATAATTTATATATTG
1 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTTATATATTA
* * * * *
4175195 TTAATTACATGATTATATATTTAATTACATGTCTATTTGTATGATT
1 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATT
4175241 ATTAATTTAT
Statistics
Matches: 126, Mismatches: 23, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
52 4 0.03
53 11 0.09
54 11 0.09
55 57 0.45
57 1 0.01
58 1 0.01
59 1 0.01
60 10 0.08
61 17 0.13
62 9 0.07
63 4 0.03
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.55
Consensus pattern (55 bp):
TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTTATATATTA
Found at i:4175218 original size:20 final size:22
Alignment explanation
Indices: 4175185--4175225 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
4175175 TTTGCATAAT
4175185 TTATATATTGTTAATTACATGA
1 TTATATATTGTTAATTACATGA
4175207 TTATATA-T-TTAATTACATG
1 TTATATATTGTTAATTACATG
4175226 TCTATTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 1 0.05
22 7 0.37
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (22 bp):
TTATATATTGTTAATTACATGA
Found at i:4175290 original size:56 final size:56
Alignment explanation
Indices: 4175228--4175500 Score: 176
Period size: 56 Copynumber: 4.8 Consensus size: 56
4175218 ATTACATGTC
*
4175228 TATTTGTATGATTATTAATTTATTTATTTTTGTGATTGTATGATTTTTAATATATT
1 TATTTGTATGATTATTAATTTATTTATTTATGTGATTGTATGATTTTTAATATATT
* * * * *
4175284 TATTTGTATGGTTATTAA-CTAATTA-TTAT-T-ATTGCATGACTGATTT-ATAT-TAT
1 TATTTGTATGATTATTAATTTATTTATTTATGTGATTGTATGA-T-TTTTAATATAT-T
* ** *
4175337 TATTTGTATTATTATATATGTAATTGTATGTTTATTTACATGA-T-TAT-ATATTTAAT-TGCAT
1 TATTTG---TATGAT-TAT-TAATT-TA--TTTATTTATGTGATTGTATGATTTTTAATAT--AT
4175398 GT
56 -T
* * *
4175400 ATATTTGCATGATTATTAATTAATTTATTTATGTGATTGTATGATTATTAATATATT
1 -TATTTGTATGATTATTAATTTATTTATTTATGTGATTGTATGATTTTTAATATATT
* * *
4175457 TATTTGTGTGGTTATTGATTTATTTA-TTAT-T-ATTGTATGATTTT
1 TATTTGTATGATTATTAATTTATTTATTTATGTGATTGTATGATTTT
4175501 ACATTTATTG
Statistics
Matches: 167, Mismatches: 26, Indels: 51
0.68 0.11 0.21
Matches are distributed among these distances:
52 9 0.05
53 25 0.15
54 7 0.04
55 9 0.05
56 53 0.32
57 5 0.03
58 9 0.05
59 12 0.07
60 11 0.07
61 7 0.04
62 4 0.02
63 7 0.04
64 8 0.05
65 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.58
Consensus pattern (56 bp):
TATTTGTATGATTATTAATTTATTTATTTATGTGATTGTATGATTTTTAATATATT
Found at i:4175383 original size:32 final size:32
Alignment explanation
Indices: 4175347--4175415 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
4175337 TATTTGTATT
* *
4175347 ATTATATATGTAATTGTATGTTTATTTACATG
1 ATTATATATGTAATTGCATGTATATTTACATG
* *
4175379 ATTATATATTTAATTGCATGTATATTTGCATG
1 ATTATATATGTAATTGCATGTATATTTACATG
4175411 ATTAT
1 ATTAT
4175416 TAATTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.04, G:0.12, T:0.52
Consensus pattern (32 bp):
ATTATATATGTAATTGCATGTATATTTACATG
Found at i:4175451 original size:28 final size:26
Alignment explanation
Indices: 4175418--4175509 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 26
4175408 ATGATTATTA
4175418 ATTAATTTATTTATGTGATTGTATGATT
1 ATTAATTTATTTAT-T-ATTGTATGATT
* * *
4175446 ATTAATATATTTA-T-TTGTGTGGTT
1 ATTAATTTATTTATTATTGTATGATT
*
4175470 ATTGATTTATTTATTATTATTGTATGATT
1 ATTAATTTA--T-TTATTATTGTATGATT
4175499 -TTACATTTATT
1 ATTA-ATTTATT
4175510 GCATGATATG
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
24 15 0.30
26 3 0.06
27 4 0.08
28 15 0.30
29 13 0.26
ACGTcount: A:0.27, C:0.01, G:0.12, T:0.60
Consensus pattern (26 bp):
ATTAATTTATTTATTATTGTATGATT
Found at i:4175480 original size:32 final size:32
Alignment explanation
Indices: 4175408--4175485 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
4175398 GTATATTTGC
*
4175408 ATGATTATTAATTAATTTATTTATGTGATTGT
1 ATGATTATTAATTAATTTATTTATGTGATTAT
* *
4175440 ATGATTATTAA-TATATTTATTTGTGTGGTTAT
1 ATGATTATTAATTA-ATTTATTTATGTGATTAT
*
4175472 -TGATTTATTTATTA
1 ATGA-TTATTAATTA
4175486 TTATTGTATG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 5 0.13
32 32 0.82
33 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (32 bp):
ATGATTATTAATTAATTTATTTATGTGATTAT
Found at i:4175678 original size:17 final size:18
Alignment explanation
Indices: 4175613--4175700 Score: 63
Period size: 19 Copynumber: 4.8 Consensus size: 18
4175603 TTAATTACTA
* **
4175613 ATATATTTATATGATTAG
1 ATATATTTACATGATTTT
* *
4175631 ATTTGATTTGCATGATTTT
1 ATAT-ATTTACATGATTTT
4175650 ATATATTTACATGATTGTT
1 ATATATTTACATGATT-TT
*
4175669 AT-TA-TTACATGATAATTA
1 ATATATTTACATGAT--TTT
*
4175687 ATATATTTGCATGA
1 ATATATTTACATGA
4175701 CATTCTTGCA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 9 0.16
18 19 0.35
19 20 0.36
20 7 0.13
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (18 bp):
ATATATTTACATGATTTT
Found at i:4182499 original size:22 final size:22
Alignment explanation
Indices: 4182457--4182499 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4182447 GAATTGAATA
*
4182457 GCATACATTGCATTCACCATAT
1 GCATACATTGCATGCACCATAT
*
4182479 GCATCACA-TGCATGCATCATA
1 GCAT-ACATTGCATGCACCATA
4182500 CTAAGAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (22 bp):
GCATACATTGCATGCACCATAT
Found at i:4182880 original size:13 final size:13
Alignment explanation
Indices: 4182862--4182886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4182852 AAAATCTTTT
4182862 CATTCATTGCATG
1 CATTCATTGCATG
4182875 CATTCATTGCAT
1 CATTCATTGCAT
4182887 ATATTTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (13 bp):
CATTCATTGCATG
Found at i:4183143 original size:68 final size:69
Alignment explanation
Indices: 4183057--4183186 Score: 199
Period size: 68 Copynumber: 1.9 Consensus size: 69
4183047 AGAATGATCT
** * * *
4183057 CATTTTATTTTTCAAAAGTTTCAAAGTCTCAGTTGTGGGGGAGCATTTTATTTTTCAAAAGTCCC
1 CATTTTATTTTTCAAAAGTTTCAAAACCTCAATTATGGGGGAGCATTATATTTTTCAAAAGTCCC
4183122 ATAG
66 ATAG
*
4183126 CATTTTA-TTTTCAAAAGTTTCAAAACCTCAATTATGGGGGTGCATTATATTTTTCAAAAGT
1 CATTTTATTTTTCAAAAGTTTCAAAACCTCAATTATGGGGGAGCATTATATTTTTCAAAAGT
4183187 TCCAAAGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
68 48 0.87
69 7 0.13
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (69 bp):
CATTTTATTTTTCAAAAGTTTCAAAACCTCAATTATGGGGGAGCATTATATTTTTCAAAAGTCCC
ATAG
Found at i:4183297 original size:85 final size:84
Alignment explanation
Indices: 4183124--4183361 Score: 291
Period size: 85 Copynumber: 2.8 Consensus size: 84
4183114 AAAGTCCCAT
* * * *
4183124 AGCATTTTA-TTTTCAAAAGTTTCAAAACCTCAATTATGGGGGTGCATTATATTTTTCAAAAGTT
1 AGCATTTTATTTTTCAAAAGTTTCAAAACCTC-AGT-TGTGGGAGCATTTTATTTTTCAAAAGTT
* ** *
4183188 CCAAAGTTTTAGTTGTGGAAG
64 TCAAAGCCTTAGTTATGGAAG
*
4183209 AGCATTTTATTTTTCAAAAGTTTCAAAACCTCAGTTGTGGAAGAGTATTTTATTTTTC-AAAGTT
1 AGCATTTTATTTTTCAAAAGTTTCAAAACCTCAGTTGTGG--GAGCATTTTATTTTTCAAAAGTT
**
4183273 TCAAAGCCTTAGTTATGGGGG
64 TCAAAGCCTTAGTTATGGAAG
* * *
4183294 AGCATTTTATTTTTTAAAAGTTTCAAAGCCTTAGTTGTAGGGAGCATTTTATTTTTCAAAAGTTT
1 AGCATTTTATTTTTCAAAAGTTTCAAAACCTCAGTTGT-GGGAGCATTTTATTTTTCAAAAGTTT
4183359 CAA
65 CAA
4183362 GTTGAAGCCT
Statistics
Matches: 133, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
84 19 0.14
85 77 0.58
86 37 0.28
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (84 bp):
AGCATTTTATTTTTCAAAAGTTTCAAAACCTCAGTTGTGGGAGCATTTTATTTTTCAAAAGTTTC
AAAGCCTTAGTTATGGAAG
Found at i:4183301 original size:42 final size:43
Alignment explanation
Indices: 4183124--4183361 Score: 284
Period size: 43 Copynumber: 5.6 Consensus size: 43
4183114 AAAGTCCCAT
* * * *
4183124 AGCATTTTA-TTTTCAAAAGTTTCAAAACCTCAATTATGGGGG
1 AGCATTTTATTTTTCAAAAGTTTCAAAGCCTTAGTTGTGGGGG
* * * ** **
4183166 TGCATTATATTTTTCAAAAGTTCCAAAGTTTTAGTTGTGGAAG
1 AGCATTTTATTTTTCAAAAGTTTCAAAGCCTTAGTTGTGGGGG
* * **
4183209 AGCATTTTATTTTTCAAAAGTTTCAAAACCTCAGTTGTGGAAG
1 AGCATTTTATTTTTCAAAAGTTTCAAAGCCTTAGTTGTGGGGG
* *
4183252 AGTATTTTATTTTTC-AAAGTTTCAAAGCCTTAGTTATGGGGG
1 AGCATTTTATTTTTCAAAAGTTTCAAAGCCTTAGTTGTGGGGG
* *
4183294 AGCATTTTATTTTTTAAAAGTTTCAAAGCCTTAGTTGT-AGGG
1 AGCATTTTATTTTTCAAAAGTTTCAAAGCCTTAGTTGTGGGGG
4183336 AGCATTTTATTTTTCAAAAGTTTCAA
1 AGCATTTTATTTTTCAAAAGTTTCAA
4183362 GTTGAAGCCT
Statistics
Matches: 165, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 70 0.42
43 95 0.58
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (43 bp):
AGCATTTTATTTTTCAAAAGTTTCAAAGCCTTAGTTGTGGGGG
Found at i:4183460 original size:37 final size:37
Alignment explanation
Indices: 4183356--4183560 Score: 188
Period size: 37 Copynumber: 5.6 Consensus size: 37
4183346 TTTTCAAAAG
* * *
4183356 TTTC-AAGTTGAAGCCTTGGTGAAGGAGTTTCTTTATTT
1 TTTCAAAGTTAAAGCCTCGGTGGAGGAG-TTCTTTA-TT
* * * * *
4183394 TTTCAAAGTTGAAGCTTCAGTGAAAGAGTTCTTTATT
1 TTTCAAAGTTAAAGCCTCGGTGGAGGAGTTCTTTATT
4183431 TTTCAAAGTTAAAGCCTCGGTGGAGGAGTTCTTTATT
1 TTTCAAAGTTAAAGCCTCGGTGGAGGAGTTCTTTATT
*
4183468 TTTC-AAGTTAAAGCCAT-GGTGGAAGAGTTCTTTATT
1 TTTCAAAGTTAAAGCC-TCGGTGGAGGAGTTCTTTATT
* * * * *
4183504 TCTCAAAGTTGCAA-CCTTGGTGGAGGAGTACTTT-TA
1 TTTCAAAGTT-AAAGCCTCGGTGGAGGAGTTCTTTATT
*
4183540 TTT-AAAGTTTTAAGCCTCGGT
1 TTTCAAAG-TTAAAGCCTCGGT
4183561 TATAGGGGAG
Statistics
Matches: 142, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
35 6 0.04
36 44 0.31
37 60 0.42
38 13 0.09
39 19 0.13
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (37 bp):
TTTCAAAGTTAAAGCCTCGGTGGAGGAGTTCTTTATT
Found at i:4183502 original size:73 final size:73
Alignment explanation
Indices: 4183356--4183542 Score: 211
Period size: 73 Copynumber: 2.5 Consensus size: 73
4183346 TTTTCAAAAG
* * *
4183356 TTTC-AAGTTGAAGCCTTGGTGAAGGAGTTTCTTTATTTTTTCAAAGTTGAAGCTTCAGTGAAAG
1 TTTCAAAGTTAAAGCCTTGGTGGAGGAG-TTCTTTA-TTTTTCAAAGTTAAAGC-TCAGTGAAAG
4183420 AGTTCTTTATT
63 AGTTCTTTATT
* *
4183431 TTTCAAAGTTAAAGCCTCGGTGGAGGAGTTCTTTATTTTTC-AAGTTAAAGC-CATGGTGGAAGA
1 TTTCAAAGTTAAAGCCTTGGTGGAGGAGTTCTTTATTTTTCAAAGTTAAAGCTCA--GTGAAAGA
4183494 GTTCTTTATT
64 GTTCTTTATT
* * *
4183504 TCTCAAAGTTGCAA-CCTTGGTGGAGGAGTACTTTTATTT
1 TTTCAAAGTT-AAAGCCTTGGTGGAGGAGTTC-TTTATTT
4183543 AAAGTTTTAA
Statistics
Matches: 98, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
71 2 0.02
73 50 0.51
74 15 0.15
75 11 0.11
76 20 0.20
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.40
Consensus pattern (73 bp):
TTTCAAAGTTAAAGCCTTGGTGGAGGAGTTCTTTATTTTTCAAAGTTAAAGCTCAGTGAAAGAGT
TCTTTATT
Found at i:4184588 original size:21 final size:21
Alignment explanation
Indices: 4184562--4184737 Score: 106
Period size: 21 Copynumber: 7.9 Consensus size: 21
4184552 ATTTATTTAC
*
4184562 TTAATATATTTGTTTGCATGA
1 TTAATATATTTATTTGCATGA
**
4184583 TTAATATATTTATTTGTGTGA
1 TTAATATATTTATTTGCATGA
* *
4184604 TTTAT-TAATATATTTGCATGATTA
1 TTAATAT-ATTTATTTGCATG---A
*
4184628 TTAATATATTTATTTGTATGA
1 TTAATATATTTATTTGCATGA
* *
4184649 TTATATTTAATTTGA-TTACATGATTA
1 TTA-ATAT-ATTT-ATTTGCATG---A
** *
4184675 TTAATATATTTAACTGCTTTATTA
1 TTAATATATTTATTTGC---ATGA
4184699 TTAATATATTTATTTGCATGA
1 TTAATATATTTATTTGCATGA
*
4184720 TT-ATATATTTAATTGCAT
1 TTAATATATTTATTTGCAT
4184738 ATTTTTCATG
Statistics
Matches: 119, Mismatches: 21, Indels: 31
0.70 0.12 0.18
Matches are distributed among these distances:
20 16 0.13
21 41 0.34
22 3 0.03
23 10 0.08
24 39 0.33
25 4 0.03
26 4 0.03
27 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (21 bp):
TTAATATATTTATTTGCATGA
Found at i:4184638 original size:45 final size:46
Alignment explanation
Indices: 4184556--4184686 Score: 158
Period size: 47 Copynumber: 2.8 Consensus size: 46
4184546 ATGATAATTT
** * *
4184556 ATTTACTTAATATATTTGTTTGCATGATTAATATATTTATTTGTGTG
1 ATTTACTTAATATATTTGCATG-ATTATTAATATATTTATTTGTATG
4184603 ATTTA-TTAATATATTTGCATGATTATTAATATATTTATTTGTATG
1 ATTTACTTAATATATTTGCATGATTATTAATATATTTATTTGTATG
* * *
4184648 ATTATATTTAATTTGA-TTACATGATTATTAATATATTTA
1 ATT-TACTTAATAT-ATTTGCATGATTATTAATATATTTA
4184687 ACTGCTTTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
45 25 0.33
46 16 0.21
47 33 0.44
48 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (46 bp):
ATTTACTTAATATATTTGCATGATTATTAATATATTTATTTGTATG
Found at i:4184643 original size:24 final size:24
Alignment explanation
Indices: 4184562--4184723 Score: 137
Period size: 24 Copynumber: 7.0 Consensus size: 24
4184552 ATTTATTTAC
*
4184562 TTAATATATTTGTTTGCATG---A
1 TTAATATATTTATTTGCATGATTA
**
4184583 TTAATATATTTATTTGTGTGATTTA
1 TTAATATATTTATTTGCATGA-TTA
4184608 TT-A-ATA--TATTTGCATGATTA
1 TTAATATATTTATTTGCATGATTA
*
4184628 TTAATATATTTATTTGTATGATTA
1 TTAATATATTTATTTGCATGATTA
* *
4184652 -T-ATTTAATTTGA-TTACATGATTA
1 TTAATAT-ATTT-ATTTGCATGATTA
** * *
4184675 TTAATATATTTAACTGCTTTATTA
1 TTAATATATTTATTTGCATGATTA
4184699 TTAATATATTTATTTGCATGATTA
1 TTAATATATTTATTTGCATGATTA
4184723 T
1 T
4184724 ATATTTAATT
Statistics
Matches: 110, Mismatches: 18, Indels: 23
0.73 0.12 0.15
Matches are distributed among these distances:
20 5 0.05
21 27 0.25
22 6 0.05
23 18 0.16
24 48 0.44
25 6 0.05
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (24 bp):
TTAATATATTTATTTGCATGATTA
Found at i:4184829 original size:32 final size:32
Alignment explanation
Indices: 4184791--4185039 Score: 108
Period size: 32 Copynumber: 8.7 Consensus size: 32
4184781 TTATGTATTA
* *
4184791 TTATTTGTATGATTATATATTTAATTACATGT
1 TTATTTGCATGATTATATATTTAATTATATGT
4184823 TTATTTGCATGATT-T-TA--T-A-TATA-G-
1 TTATTTGCATGATTATATATTTAATTATATGT
* * *
4184847 TTAATTGTATGATTATATATTTAATTGTATGT
1 TTATTTGCATGATTATATATTTAATTATATGT
* *
4184879 TTATTTGCATGATTATCA-ATTTATTTATTTGT
1 TTATTTGCATGATTAT-ATATTTAATTATATGT
* *
4184911 GTGA-TTG--T-ATGAT-TA-TTAA-TATA--T
1 -TTATTTGCATGATTATATATTTAATTATATGT
* * *
4184935 TTATTTGCATGGTTATTTATTT-ATTAT-T-A
1 TTATTTGCATGATTATATATTTAATTATATGT
* *
4184964 TTA-TTGCATGA-T-T-GATTT-A-TAT-T-A
1 TTATTTGCATGATTATATATTTAATTATATGT
* * * *
4184988 TTATCTGTATCATTATATATCTAATTATATGT
1 TTATTTGCATGATTATATATTTAATTATATGT
4185020 TTATTTGCATGATT-TATATT
1 TTATTTGCATGATTATATATT
4185040 ATTATTTACA
Statistics
Matches: 160, Mismatches: 30, Indels: 55
0.65 0.12 0.22
Matches are distributed among these distances:
23 2 0.01
24 24 0.15
25 12 0.08
26 11 0.07
27 9 0.06
28 16 0.10
29 14 0.09
30 9 0.06
31 8 0.05
32 52 0.32
33 3 0.02
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (32 bp):
TTATTTGCATGATTATATATTTAATTATATGT
Found at i:4184861 original size:56 final size:56
Alignment explanation
Indices: 4184772--4184892 Score: 183
Period size: 56 Copynumber: 2.2 Consensus size: 56
4184762 ATTTACATGA
* *
4184772 TTGCATGA-TTTATGTATTATTATTTGTATGATTATATATTTAATTACATGTTTAT
1 TTGCATGATTTTATATATTATTAATTGTATGATTATATATTTAATTACATGTTTAT
**
4184827 TTGCATGATTTTATATA-TAGTTAATTGTATGATTATATATTTAATTGTATGTTTAT
1 TTGCATGATTTTATATATTA-TTAATTGTATGATTATATATTTAATTACATGTTTAT
4184883 TTGCATGATT
1 TTGCATGATT
4184893 ATCAATTTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
55 10 0.17
56 50 0.83
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.55
Consensus pattern (56 bp):
TTGCATGATTTTATATATTATTAATTGTATGATTATATATTTAATTACATGTTTAT
Found at i:4184865 original size:20 final size:20
Alignment explanation
Indices: 4184840--4184882 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4184830 CATGATTTTA
4184840 TATATAGTTAATTGTATGAT
1 TATATAGTTAATTGTATGAT
* *
4184860 TATATATTTAATTGTATGTT
1 TATATAGTTAATTGTATGAT
4184880 TAT
1 TAT
4184883 TTGCATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (20 bp):
TATATAGTTAATTGTATGAT
Found at i:4184916 original size:56 final size:56
Alignment explanation
Indices: 4184791--4184959 Score: 191
Period size: 56 Copynumber: 3.0 Consensus size: 56
4184781 TTATGTATTA
* * *
4184791 TTATTTGTATGATTATATATTTAATTACATGTTTATTTGCATGATT-TTATATATAG
1 TTATTTGTATGATTATATATTTAATTATATGTTTATTTGCATGATTATTA-ATTTAT
* * *
4184847 TTAATTGTATGATTATATATTTAATTGTATGTTTATTTGCATGATTATCAATTTAT
1 TTATTTGTATGATTATATATTTAATTATATGTTTATTTGCATGATTATTAATTTAT
* * * * *
4184903 TTATTTGTGTGATTGTATGA-TT-ATTAATATATTTATTTGCATGGTTATTTATTTAT
1 TTATTTGTATGATTATAT-ATTTAATT-ATATGTTTATTTGCATGATTATTAATTTAT
4184959 T
1 T
4184960 ATTATTATTG
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
55 3 0.03
56 90 0.94
57 3 0.03
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (56 bp):
TTATTTGTATGATTATATATTTAATTATATGTTTATTTGCATGATTATTAATTTAT
Found at i:4185037 original size:21 final size:20
Alignment explanation
Indices: 4185012--4185103 Score: 78
Period size: 21 Copynumber: 4.4 Consensus size: 20
4185002 ATATATCTAA
4185012 TTATATGTTTATTTGCATGAT
1 TTATAT-TTTATTTGCATGAT
*
4185033 TTATATTATTATTTACATGA-
1 TTATATT-TTATTTGCATGAT
* *
4185053 TTATATATTTAATTGCATGTT
1 TTATAT-TTTATTTGCATGAT
* * *
4185074 TTACATTGTTAATTGGATGAT
1 TTATATT-TTATTTGCATGAT
4185095 TATATATTT
1 T-TATATTT
4185104 AATTACATGC
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
20 17 0.29
21 36 0.62
22 5 0.09
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.55
Consensus pattern (20 bp):
TTATATTTTATTTGCATGAT
Found at i:4185044 original size:41 final size:41
Alignment explanation
Indices: 4184999--4185112 Score: 97
Period size: 41 Copynumber: 2.8 Consensus size: 41
4184989 TATCTGTATC
* *
4184999 ATTATATATC-TAATTATATGTTTATTTGCATGATTTATATT
1 ATTATATA-CATAATTATATATTTAATTGCATGATTTATATT
* * * *
4185040 ATTATTTACATGATTATATATTTAATTGCATGTTTTACATT
1 ATTATATACATAATTATATATTTAATTGCATGATTTATATT
* ** * *
4185081 GTTA-ATTGGATGATTATATATTTAATTACATG
1 ATTATA-TACATAATTATATATTTAATTGCATG
4185113 CTATATGCAT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
40 1 0.02
41 59 0.98
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.53
Consensus pattern (41 bp):
ATTATATACATAATTATATATTTAATTGCATGATTTATATT
Found at i:4194028 original size:308 final size:309
Alignment explanation
Indices: 4193470--4194088 Score: 1222
Period size: 308 Copynumber: 2.0 Consensus size: 309
4193460 ATTTATATCT
4193470 TAAAATTAATTTTAATACATAATTAATATGAAATTTATTATTTTTTTTAAGATCATGACAACATG
1 TAAAATTAATTTTAATACATAATTAATATGAAATTTATTATTTTTTTTAAGATCATGACAACATG
4193535 GATGTGCATAACTAATAACCACATGGTCATAACCTGCCATTTTGACTGGTTTCGTTCCTTAATTT
66 GATGTGCATAACTAATAACCACATGGTCATAACCTGCCATTTTGACTGGTTTCGTTCCTTAATTT
4193600 TATGTCTTAATTTTCTCCTCGTTAGGTTACTATCTCTTTCAAATATATGAATCCAATCTTCCATT
131 TATGTCTTAATTTTCTCCTCGTTAGGTTACTATCTCTTTCAAATATATGAATCCAATCTTCCATT
4193665 GTTTATTAAGGTCTATATATTTGAGTCAAGCTAAAAGGAAGCTACTGAGTTTGTTCCAAAGGCTG
196 GTTTATTAAGGTCTATATATTTGAGTCAAGCTAAAAGGAAGCTACTGAGTTTGTTCCAAAGGCTG
4193730 TCCTTCCATATAC-GCGAAGACTTGATACAGAAGGCTGAGACTTCCATA
261 TCCTTCCATATACGGCGAAGACTTGATACAGAAGGCTGAGACTTCCATA
*
4193778 TAAAATTAATTTTAATACATAATTAATATGAAATTTATTATTTTTTTTAAGCTCATGACAACATG
1 TAAAATTAATTTTAATACATAATTAATATGAAATTTATTATTTTTTTTAAGATCATGACAACATG
4193843 GATGTGCATAACTAATAACCACATGGTCATAACCTGCCATTTTGACTGGTTTCGTTCCTTAATTT
66 GATGTGCATAACTAATAACCACATGGTCATAACCTGCCATTTTGACTGGTTTCGTTCCTTAATTT
4193908 TATGTCTTAATTTTCTCCTCGTTAGGTTACTATCTCTTTCAAATATATGAATCCAATCTTCCATT
131 TATGTCTTAATTTTCTCCTCGTTAGGTTACTATCTCTTTCAAATATATGAATCCAATCTTCCATT
4193973 GTTTATTAAGGTCTATATATTTGAGTCAAGCTAAAAGGAAGCTACTGAGTTTGTTCCAAAGGCTG
196 GTTTATTAAGGTCTATATATTTGAGTCAAGCTAAAAGGAAGCTACTGAGTTTGTTCCAAAGGCTG
4194038 TCCTTCCATATACGGCGAAGACTTGATACAGAAGGCTGAGACTTCCATA
261 TCCTTCCATATACGGCGAAGACTTGATACAGAAGGCTGAGACTTCCATA
4194087 TA
1 TA
4194089 TGGAGTAAGT
Statistics
Matches: 309, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
308 272 0.88
309 37 0.12
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (309 bp):
TAAAATTAATTTTAATACATAATTAATATGAAATTTATTATTTTTTTTAAGATCATGACAACATG
GATGTGCATAACTAATAACCACATGGTCATAACCTGCCATTTTGACTGGTTTCGTTCCTTAATTT
TATGTCTTAATTTTCTCCTCGTTAGGTTACTATCTCTTTCAAATATATGAATCCAATCTTCCATT
GTTTATTAAGGTCTATATATTTGAGTCAAGCTAAAAGGAAGCTACTGAGTTTGTTCCAAAGGCTG
TCCTTCCATATACGGCGAAGACTTGATACAGAAGGCTGAGACTTCCATA
Found at i:4196553 original size:36 final size:36
Alignment explanation
Indices: 4196443--4196553 Score: 143
Period size: 36 Copynumber: 3.1 Consensus size: 36
4196433 ATATTTTTTA
*
4196443 TATCTAAATAAATATT-TTTGAATAGAAAAACATAAC
1 TATCTAAATAAAT-TTGTTTGAATAGAAAAACATAAT
** * *
4196479 CGTCTAAATAAGTTTGTTTGAATAGAAAAACATGAT
1 TATCTAAATAAATTTGTTTGAATAGAAAAACATAAT
* *
4196515 TATCTAAATAACTTTGTTTGAATAGAAAAATATAAT
1 TATCTAAATAAATTTGTTTGAATAGAAAAACATAAT
4196551 TAT
1 TAT
4196554 ACAAATTATC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
35 2 0.03
36 62 0.97
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (36 bp):
TATCTAAATAAATTTGTTTGAATAGAAAAACATAAT
Found at i:4199138 original size:16 final size:16
Alignment explanation
Indices: 4199119--4199149 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4199109 AATGATAATG
*
4199119 ATGATTTATGATGATA
1 ATGATTTACGATGATA
4199135 ATGATTTACGATGAT
1 ATGATTTACGATGAT
4199150 TTTAATGATT
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:0.35, C:0.03, G:0.19, T:0.42
Consensus pattern (16 bp):
ATGATTTACGATGATA
Found at i:4199214 original size:29 final size:27
Alignment explanation
Indices: 4199196--4199249 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
4199186 ATTTGAATGA
4199196 TAACATATTTTGCAATGATTTATGAAG
1 TAACATATTTTGCAATGATTTATGAAG
* *
4199223 TGACATATTTTGACATTGATTTATGAA
1 TAACATATTTTG-CAATGATTTATGAA
4199250 TTTATGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (27 bp):
TAACATATTTTGCAATGATTTATGAAG
Found at i:4202192 original size:28 final size:28
Alignment explanation
Indices: 4202152--4202209 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
4202142 TAAGATTTTG
4202152 CAGTATCGTTCTATATGACTTGGTTTAC
1 CAGTATCGTTCTATATGACTTGGTTTAC
*
4202180 CAGTATTGTTCTATATGACTTGGTTTAC
1 CAGTATCGTTCTATATGACTTGGTTTAC
4202208 CA
1 CA
4202210 CAATAGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (28 bp):
CAGTATCGTTCTATATGACTTGGTTTAC
Found at i:4203781 original size:8 final size:8
Alignment explanation
Indices: 4203761--4203801 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
4203751 TATTATTTTT
4203761 TAAA-ATA
1 TAAATATA
*
4203768 TAAATATT
1 TAAATATA
4203776 TAAATATA
1 TAAATATA
*
4203784 TAATTATA
1 TAAATATA
4203792 TAAATATA
1 TAAATATA
4203800 TA
1 TA
4203802 TAAAAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAAATATA
Found at i:4203810 original size:22 final size:20
Alignment explanation
Indices: 4203785--4203832 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
4203775 TTAAATATAT
*
4203785 AATTATATAAATATATATAAAA
1 AATTAAATAAATA-AT-TAAAA
4203807 AATTAAATAAATAATTAAAA
1 AATTAAATAAATAATTAAAA
4203827 AATTAA
1 AATTAA
4203833 TTTTTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.44
21 2 0.08
22 12 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTAAATAAATAATTAAAA
Found at i:4203833 original size:12 final size:12
Alignment explanation
Indices: 4203767--4203834 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
4203757 TTTTTAAAAT
*
4203767 ATAAATATTTAA
1 ATAAATAATTAA
* *
4203779 ATATATAATTAT
1 ATAAATAATTAA
*
4203791 ATAAAT-A-TAT
1 ATAAATAATTAA
*
4203801 ATAAAAAATTAA
1 ATAAATAATTAA
4203813 ATAAATAATTAA
1 ATAAATAATTAA
4203825 A-AAATTAATT
1 ATAAA-TAATT
4203835 TTTATATAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
10 8 0.17
11 5 0.11
12 33 0.72
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAAATAATTAA
Found at i:4209148 original size:25 final size:25
Alignment explanation
Indices: 4209104--4209162 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
4209094 TATGATTCAC
**
4209104 ATTAATTTATAAGATATTATTTTTT
1 ATTAATTTATAAGATATTATGATTT
*
4209129 ATTAATTTATTTAGAT-TTATGATTT
1 ATTAATTTA-TAAGATATTATGATTT
*
4209154 ATTTATTTA
1 ATTAATTTA
4209163 ATACACAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (25 bp):
ATTAATTTATAAGATATTATGATTT
Found at i:4210696 original size:2 final size:2
Alignment explanation
Indices: 4210689--4210721 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4210679 AGAGTATAGC
4210689 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4210722 ATTTAAGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4211888 original size:35 final size:36
Alignment explanation
Indices: 4211800--4211899 Score: 121
Period size: 36 Copynumber: 2.8 Consensus size: 36
4211790 ATATTTTTTA
*
4211800 TATCTAAATAAATATGTTTGAATAGAAAAACATAAT
1 TATCTAAATAAATTTGTTTGAATAGAAAAACATAAT
* * * * *
4211836 TGTCTGAATAAGTTTGTTTTAATAGAAAAACAT-GT
1 TATCTAAATAAATTTGTTTGAATAGAAAAACATAAT
* *
4211871 TATCTAAATAACTTTGTTTGAACAGAAAA
1 TATCTAAATAAATTTGTTTGAATAGAAAA
4211900 TATGATTATA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
35 25 0.47
36 28 0.53
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (36 bp):
TATCTAAATAAATTTGTTTGAATAGAAAAACATAAT
Found at i:4225146 original size:2 final size:2
Alignment explanation
Indices: 4225139--4225164 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4225129 TGCGCACTTC
4225139 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4225165 CTTGGACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4227343 original size:7 final size:7
Alignment explanation
Indices: 4227333--4227361 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4227323 ATAAAAAATT
4227333 AAAAAA-
1 AAAAAAC
4227339 AAAAAAC
1 AAAAAAC
4227346 AAAAAAC
1 AAAAAAC
4227353 AAAAAAC
1 AAAAAAC
4227360 AA
1 AA
4227362 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:4227783 original size:24 final size:24
Alignment explanation
Indices: 4227756--4227813 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
4227746 TTTATTAATG
4227756 AAATAATATAAA-AATATAAAAATA
1 AAATAATATAAATAAT-TAAAAATA
* *
4227780 AAATAAAATAAATGATTAAAAATA
1 AAATAATATAAATAATTAAAAATA
* *
4227804 TAATTATATA
1 AAATAATATA
4227814 TGTACTCAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
AAATAATATAAATAATTAAAAATA
Found at i:4231785 original size:15 final size:15
Alignment explanation
Indices: 4231749--4231795 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
4231739 AATTAATTAG
4231749 AAAAATAAAAAATGAA
1 AAAAATAAAAAATG-A
4231765 AAAAATAAAAAATGA
1 AAAAATAAAAAATGA
*
4231780 AAAAATAGAAAA-GA
1 AAAAATAAAAAATGA
4231794 AA
1 AA
4231796 GGTGGTTGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 4 0.13
15 12 0.40
16 14 0.47
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.11
Consensus pattern (15 bp):
AAAAATAAAAAATGA
Found at i:4231790 original size:9 final size:8
Alignment explanation
Indices: 4231749--4231791 Score: 54
Period size: 7 Copynumber: 5.4 Consensus size: 8
4231739 AATTAATTAG
4231749 AAAAAT-A
1 AAAAATGA
4231756 AAAAATGAA
1 AAAAATG-A
4231765 AAAAAT-A
1 AAAAATGA
4231772 AAAAATGA
1 AAAAATGA
4231780 AAAAATAGA
1 AAAAAT-GA
4231789 AAA
1 AAA
4231792 GAAAGGTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 13 0.41
8 7 0.22
9 12 0.38
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (8 bp):
AAAAATGA
Found at i:4231791 original size:16 final size:16
Alignment explanation
Indices: 4231749--4231784 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4231739 AATTAATTAG
4231749 AAAAATAAAAAATGAA
1 AAAAATAAAAAATGAA
4231765 AAAAATAAAAAATGAA
1 AAAAATAAAAAATGAA
4231781 AAAA
1 AAAA
4231785 TAGAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAAATAAAAAATGAA
Found at i:4232862 original size:59 final size:59
Alignment explanation
Indices: 4232696--4232898 Score: 329
Period size: 60 Copynumber: 3.5 Consensus size: 59
4232686 TGATCTCTTT
** *
4232696 AAAATAAAAATTT-TTTAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
4232754 AAAATAAAAATTTCTAAAAAATATTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAATAAAAATTTCTAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
4232814 AAAATAAAAATTTTTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
4232873 AAAAT-AAAATTTCTAAAAAATATTTT
1 AAAATAAAAATTTCTAAAAAATATTTT
4232899 CAATTTAAAA
Statistics
Matches: 134, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
58 33 0.25
59 46 0.34
60 55 0.41
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (59 bp):
AAAATAAAAATTTCTAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:4243412 original size:10 final size:10
Alignment explanation
Indices: 4243390--4243443 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
4243380 ATGCTTGAAA
4243390 GGAAAAAAA-
1 GGAAAAAAAT
4243399 -GAAAAAAAT
1 GGAAAAAAAT
*
4243408 GGAAAAAATT
1 GGAAAAAAAT
*
4243418 AGAAAAAAAT
1 GGAAAAAAAT
4243428 GGAAAAAAAT
1 GGAAAAAAAT
*
4243438 AGAAAA
1 GGAAAA
4243444 TAAAAAATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
8 8 0.21
10 30 0.79
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (10 bp):
GGAAAAAAAT
Found at i:4243421 original size:20 final size:19
Alignment explanation
Indices: 4243390--4243443 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
4243380 ATGCTTGAAA
4243390 GGAAAAAA-AGAAAAAAAT
1 GGAAAAAATAGAAAAAAAT
4243408 GGAAAAAATTAGAAAAAAAT
1 GGAAAAAA-TAGAAAAAAAT
4243428 GGAAAAAAATAGAAAA
1 GG-AAAAAATAGAAAA
4243444 TAAAAAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.24
20 19 0.58
21 6 0.18
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (19 bp):
GGAAAAAATAGAAAAAAAT
Found at i:4244236 original size:33 final size:33
Alignment explanation
Indices: 4244172--4244239 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
4244162 AACCAACATT
* * *
4244172 TGCATAGCATGCATTAGATTTCTAAATGTCTAG
1 TGCATAGCATACATTAGATTTCAAAAGGTCTAG
*
4244205 TGCATAGCATACATT-GTATTTGAAAAGGTCTAG
1 TGCATAGCATACATTAG-ATTTCAAAAGGTCTAG
4244238 TG
1 TG
4244240 AAGGGATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (33 bp):
TGCATAGCATACATTAGATTTCAAAAGGTCTAG
Found at i:4244660 original size:44 final size:43
Alignment explanation
Indices: 4244486--4244933 Score: 444
Period size: 44 Copynumber: 10.4 Consensus size: 43
4244476 AAGTTACGGT
* * * *
4244486 GCCTCTGTTTAGAAGAGCTTGTTTATTTTTC-AAAGTTGTTGT
1 GCCTCTATTTAGAGGAGCTTGTTTATTTTTCAAAAGTCGTTGA
** * *
4244528 GCCTCTATTTAGAGGAG-TAATTTATATTTCTAAAGTCGTTGA
1 GCCTCTATTTAGAGGAGCTTGTTTATTTTTCAAAAGTCGTTGA
* * * * *
4244570 GCCTCTGTTTAGAGGAGCTTTTTTATTTTCCAAAAGTTGTTAA
1 GCCTCTATTTAGAGGAGCTTGTTTATTTTTCAAAAGTCGTTGA
* *
4244613 GCCTCTATTTAGAGGAGTTTTGTTTATTTTTCAAAAGTCATTGA
1 GCCTCTATTTAGAGGAG-CTTGTTTATTTTTCAAAAGTCGTTGA
* * * * * *
4244657 GCCTCTGTTTAGAGAAGCTTTGTTTGTTTTCCAAAAGTCGTGGT
1 GCCTCTATTTAGAGGAGC-TTGTTTATTTTTCAAAAGTCGTTGA
* *
4244701 GCCTCTGTTTAGAAGAGCTTGTTTATTTTTCAAAAGTCGTTGA
1 GCCTCTATTTAGAGGAGCTTGTTTATTTTTCAAAAGTCGTTGA
*
4244744 GCCTCTATTTAGAGGAGCCTTGTTTATTTTTCAAAAGTCATTGA
1 GCCTCTATTTAGAGGAG-CTTGTTTATTTTTCAAAAGTCGTTGA
* * * *
4244788 GCTTCTGTTTAAAGGAGCTTGTTTATTTTTCAAAAGGT-ATTGA
1 GCCTCTATTTAGAGGAGCTTGTTTATTTTTCAAAA-GTCGTTGA
* * *
4244831 G-C-CTAGTTTATAGGAGTCTTGTGTTTATTTTTTC-AAAGTTGTTAA
1 GCCTCTA-TTTAGAGGAG-C-T-TGTTTA-TTTTTCAAAAGTCGTTGA
* * *
4244876 GCTTTTATTTAGATGAGCCTTGTTTATTTTT-AAAAGTCGTTGA
1 GCCTCTATTTAGAGGAG-CTTGTTTATTTTTCAAAAGTCGTTGA
4244919 -CCTCTATTTAGAGGA
1 GCCTCTATTTAGAGGA
4244934 ATTTTGTTTA
Statistics
Matches: 334, Mismatches: 57, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
41 12 0.04
42 61 0.18
43 109 0.33
44 121 0.36
45 14 0.04
46 15 0.04
47 2 0.01
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.44
Consensus pattern (43 bp):
GCCTCTATTTAGAGGAGCTTGTTTATTTTTCAAAAGTCGTTGA
Found at i:4244676 original size:87 final size:86
Alignment explanation
Indices: 4244486--4244933 Score: 460
Period size: 87 Copynumber: 5.2 Consensus size: 86
4244476 AAGTTACGGT
* * * **
4244486 GCCTCTGTTTAGAAGAGCTTGTTTATTTTTC-AAAGTTGTTGTGCCTCTATTTAGAGGAG-TAAT
1 GCCTCTGTTTAGAGGAGCTTTTTTATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGGAGCTTGT
* *
4244549 TTATATTTCTAAAGTCGTTGA
66 TTATTTTTCAAAAGTCGTTGA
* * *
4244570 GCCTCTGTTTAGAGGAGCTTTTTTATTTTCCAAAAGTTGTTAAGCCTCTATTTAGAGGAGTTTTG
1 GCCTCTGTTTAGAGGAGCTTTTTTATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGGAG-CTTG
*
4244635 TTTATTTTTCAAAAGTCATTGA
65 TTTATTTTTCAAAAGTCGTTGA
* * * * * * * *
4244657 GCCTCTGTTTAGAGAAGCTTTGTTTGTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAAGAGCTTG
1 GCCTCTGTTTAGAGGAGCTTT-TTTATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGGAGCTTG
4244722 TTTATTTTTCAAAAGTCGTTGA
65 TTTATTTTTCAAAAGTCGTTGA
* * ** * * *
4244744 GCCTCTATTTAGAGGAGCCTTGTTTATTTTTCAAAAGTCATTGAGCTTCTGTTTAAAGGAGCTTG
1 GCCTCTGTTTAGAGGAG-CTTTTTTATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGGAGCTTG
*
4244809 TTTATTTTTCAAAAGGT-ATTGA
65 TTTATTTTTCAAAA-GTCGTTGA
* * * * * *
4244831 GCCT-AGTTTATAGGAGTCTTGTGTTTATTTTTTC-AAAGTTGTTAAGCTTTTATTTAGATGAGC
1 GCCTCTGTTTAGAGGAG-CTT-T-TTTA-TTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGGAG-
4244894 CTTGTTTATTTTT-AAAAGTCGTTGA
61 CTTGTTTATTTTTCAAAAGTCGTTGA
*
4244919 -CCTCTATTTAGAGGA
1 GCCTCTGTTTAGAGGA
4244934 ATTTTGTTTA
Statistics
Matches: 304, Mismatches: 48, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
84 28 0.09
85 26 0.09
86 12 0.04
87 141 0.46
88 78 0.26
89 19 0.06
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.44
Consensus pattern (86 bp):
GCCTCTGTTTAGAGGAGCTTTTTTATTTTTCAAAAGTTGTTGAGCCTCTATTTAGAGGAGCTTGT
TTATTTTTCAAAAGTCGTTGA
Found at i:4244719 original size:131 final size:130
Alignment explanation
Indices: 4244486--4244931 Score: 478
Period size: 131 Copynumber: 3.4 Consensus size: 130
4244476 AAGTTACGGT
* * ** * * * **
4244486 GCCTCTGTTTAGAAGAG-CTTGTTTATTTTTC-AAAGTTGTTGTGCCTCTATTTAGAGGAG-TAA
1 GCCTCTATTTAGAGGAGCCTTGTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGAAGCTTG
* *
4244548 TTTATATTT-CTAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTTTTATTTTCCAAAAGTTGTTA
66 TTTAT-TTTCCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTTTTATTTTTCAAAAGTTGTTA
4244612 A
130 A
**
4244613 GCCTCTATTTAGAGGAGTTTTGTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGAAGCTTT
1 GCCTCTATTTAGAGGAGCCTTGTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGAAGC-TT
* * * * * * *
4244678 GTTTGTTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAAGAGCTTGTTTATTTTTCAAAAGTCGTTG
65 GTTTATTTTCCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTTTTATTTTTCAAAAGTTGTTA
4244743 A
130 A
* * *
4244744 GCCTCTATTTAGAGGAGCCTTGTTTATTTTTCAAAAGTCATTGAGCTTCTGTTTAAAGGAGCTTG
1 GCCTCTATTTAGAGGAGCCTTGTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGAAGCTTG
* * * *
4244809 TTTATTTTTCAAAAGGT-ATTGAGCCT-AGTTTATAGGAGTCTTGTGTTTATTTTTTC-AAAGTT
66 TTTATTTTCCAAAA-GTCGTTGAGCCTCTGTTTAGAGGAG-CTT-T-TTTA-TTTTTCAAAAGTT
4244871 GTTAA
126 GTTAA
* * * * *
4244876 GCTTTTATTTAGATGAGCCTTGTTTATTTTT-AAAAGTCGTTGA-CCTCTATTTAGAG
1 GCCTCTATTTAGAGGAGCCTTGTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAG
4244932 GAATTTTGTT
Statistics
Matches: 267, Mismatches: 42, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
127 15 0.06
128 13 0.05
129 32 0.12
130 37 0.14
131 123 0.46
132 41 0.15
133 6 0.02
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (130 bp):
GCCTCTATTTAGAGGAGCCTTGTTTATTTTTCAAAAGTCATTGAGCCTCTGTTTAGAGAAGCTTG
TTTATTTTCCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTTTTATTTTTCAAAAGTTGTTAA
Found at i:4245105 original size:8 final size:9
Alignment explanation
Indices: 4245086--4245132 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
4245076 GATTATGATT
*
4245086 AATTAGAAA
1 AATTAAAAA
4245095 AA-TAAAAA
1 AATTAAAAA
4245103 AA-TAATAAA
1 AATTAA-AAA
4245112 AATTAAAAAA
1 AATT-AAAAA
4245122 AATTAAAAA
1 AATTAAAAA
4245131 AA
1 AA
4245133 ATGTGGTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
8 10 0.29
9 14 0.41
10 8 0.24
11 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (9 bp):
AATTAAAAA
Found at i:4245122 original size:10 final size:10
Alignment explanation
Indices: 4245098--4245134 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
4245088 TTAGAAAAAT
4245098 AAAAAAA-TA
1 AAAAAAATTA
*
4245107 ATAAAAATTA
1 AAAAAAATTA
4245117 AAAAAAATTA
1 AAAAAAATTA
4245127 AAAAAAAT
1 AAAAAAAT
4245135 GTGGTTGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 6 0.24
10 19 0.76
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAAAATTA
Done.