Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 30 of 38
Found at i:4588063 original size:54 final size:51
Alignment explanation
Indices: 4588005--4588135 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 51
4587995 GATTAACGGG
* * *
4588005 GTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TTTTGAAAATAAAATCGGA
*
4588059 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGTGTTTTGAAAATAAAATCGGA
*
4588110 GTTGGAATATCCCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
4588136 TTGAGAAACT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
51 36 0.53
52 4 0.06
53 10 0.15
54 18 0.26
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGTGTTTTGAAAATAAAATCGGA
Found at i:4590514 original size:13 final size:13
Alignment explanation
Indices: 4590496--4590521 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4590486 ACAAAGATCC
4590496 ATGTATCGATACA
1 ATGTATCGATACA
4590509 ATGTATCGATACA
1 ATGTATCGATACA
4590522 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4590517 original size:33 final size:33
Alignment explanation
Indices: 4590475--4590541 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4590465 AAAATTTCCA
***
4590475 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
4590508 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
4590541 A
1 A
4590542 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:4590585 original size:19 final size:18
Alignment explanation
Indices: 4590561--4590628 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
4590551 CAGTAGCTAA
4590561 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
4590580 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4590595 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
4590612 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
4590629 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4590601 original size:13 final size:13
Alignment explanation
Indices: 4590583--4590607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4590573 ACAATACTTA
4590583 TGTATCGATACAT
1 TGTATCGATACAT
4590596 TGTATCGATACA
1 TGTATCGATACA
4590608 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4590605 original size:32 final size:32
Alignment explanation
Indices: 4590564--4590626 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4590554 TAGCTAATTA
*
4590564 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4590596 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
4590627 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4590708 original size:21 final size:21
Alignment explanation
Indices: 4590684--4590740 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
4590674 CATTTGTAGG
4590684 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
4590705 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
4590726 ATGTATCGATACATT
1 ATGTATCGATACATT
4590741 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:4592739 original size:68 final size:68
Alignment explanation
Indices: 4592596--4592756 Score: 188
Period size: 68 Copynumber: 2.4 Consensus size: 68
4592586 AGCTAGAGAC
* ** * * *
4592596 ACTAAGTCACTTTCATCAAATTAAGACCTCAAAGGCATGGTCGTTCCATTGGTACAACATCCAGT
1 ACTAAGTCACTTTCATCAAATTAGGACCTCAAAGGCATAATCGTTCCATTAGCAAAACATCCAGT
4592661 AAT
66 AAT
4592664 ACTAAGTCACTTTCATCAAATTAGGACCTCAAAGGTC-TAATCG-TCACATTAGCAAAACA-CCT
1 ACTAAGTCACTTTCATCAAATTAGGACCTCAAAGG-CATAATCGTTC-CATTAGCAAAACATCC-
4592726 AGTGACAT
63 AGT-A-AT
4592734 -C-AAGTCACTTTCATCAAATTAGG
1 ACTAAGTCACTTTCATCAAATTAGG
4592757 GTTTTAAAGG
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
67 4 0.05
68 73 0.89
69 3 0.04
70 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (68 bp):
ACTAAGTCACTTTCATCAAATTAGGACCTCAAAGGCATAATCGTTCCATTAGCAAAACATCCAGT
AAT
Found at i:4595335 original size:13 final size:13
Alignment explanation
Indices: 4595317--4595342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4595307 CAATTTTTTG
4595317 TGTATCGATACAT
1 TGTATCGATACAT
4595330 TGTATCGATACAT
1 TGTATCGATACAT
4595343 ATTTAGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4595357 original size:32 final size:33
Alignment explanation
Indices: 4595297--4595360 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4595287 TACAAGCCAA
* *
4595297 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTAGTGTATCGATACAT
4595330 TGTATCGATAC-ATATTTAGTGTATCGATACA
1 TGTATCGATACAATATTTAGTGTATCGATACA
4595361 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATATTTAGTGTATCGATACAT
Found at i:4599040 original size:19 final size:19
Alignment explanation
Indices: 4599010--4599056 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
4599000 TAAAAATGTT
4599010 ATAAAA-TTTAAATTTTTA
1 ATAAAATTTTAAATTTTTA
4599028 ATAAAATTTTAAATTTTTA
1 ATAAAATTTTAAATTTTTA
4599047 A-AATAATTTT
1 ATAA-AATTTT
4599057 TTACTACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAAAATTTTAAATTTTTA
Found at i:4604166 original size:16 final size:16
Alignment explanation
Indices: 4604127--4604158 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4604117 GCAAGTTCAT
4604127 GCTCATTCGGGTTCGA
1 GCTCATTCGGGTTCGA
*
4604143 GCTTATTCGGGTTCGA
1 GCTCATTCGGGTTCGA
4604159 CTGCATTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.22, G:0.31, T:0.34
Consensus pattern (16 bp):
GCTCATTCGGGTTCGA
Found at i:4604304 original size:27 final size:29
Alignment explanation
Indices: 4604270--4604337 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
4604260 TATCTTTAAA
4604270 AAGTAAA-TTATTACATTATTAT-TTTTT
1 AAGTAAATTTATTACATTATTATATTTTT
*
4604297 AAGTAAATTTTTATTATATTATTATATTTTT
1 AAGTAAA--TTTATTACATTATTATATTTTT
*
4604328 AA-TATATTTA
1 AAGTAAATTTA
4604338 ATTATTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 7 0.20
28 4 0.11
30 17 0.49
31 7 0.20
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (29 bp):
AAGTAAATTTATTACATTATTATATTTTT
Found at i:4604343 original size:19 final size:19
Alignment explanation
Indices: 4604303--4604344 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4604293 TTTTAAGTAA
* *
4604303 ATTTTTATTATATTATTAT
1 ATTTTTAATATATTAATAT
4604322 ATTTTTAATATATTTAAT-T
1 ATTTTTAATATA-TTAATAT
4604341 ATTT
1 ATTT
4604345 ATTTACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTAATATATTAATAT
Found at i:4606825 original size:3 final size:3
Alignment explanation
Indices: 4606819--4606852 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4606809 CATTACTTAA
4606819 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4606853 TTCAAATAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4607205 original size:16 final size:17
Alignment explanation
Indices: 4607186--4607258 Score: 73
Period size: 16 Copynumber: 4.5 Consensus size: 17
4607176 TGGGTCAATC
*
4607186 TCGGGTTCGA-GTTCTC
1 TCGGGTTCGAGGTTCTT
*
4607202 TCGGGTT-TAGGTTCTT
1 TCGGGTTCGAGGTTCTT
*
4607218 TTGGGTTC-AGGTTCTT
1 TCGGGTTCGAGGTTCTT
* *
4607234 TTGGGTTC-AAGTTCTT
1 TCGGGTTCGAGGTTCTT
4607250 TCGGGTTCG
1 TCGGGTTCG
4607259 GGCTTTCTCG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.07, C:0.16, G:0.32, T:0.45
Consensus pattern (17 bp):
TCGGGTTCGAGGTTCTT
Found at i:4607232 original size:32 final size:31
Alignment explanation
Indices: 4607188--4607290 Score: 82
Period size: 32 Copynumber: 3.2 Consensus size: 31
4607178 GGTCAATCTC
4607188 GGGTTCGAGTTCTCTCGGGTTTAGGTTCTTTT
1 GGGTTCG-GTTCTCTCGGGTTTAGGTTCTTTT
* * * * *
4607220 GGGTTCAGGTTCTTTTGGGTTCAAGTTCTTTC
1 GGGTTC-GGTTCTCTCGGGTTTAGGTTCTTTT
* * * *
4607252 GGGTTCGGGCTT-TCTCGAGTTTGGGTTATCTT
1 GGGTTC-GG-TTCTCTCGGGTTTAGGTTCTTTT
4607284 GGGTTCG
1 GGGTTCG
4607291 ATCTATTTCA
Statistics
Matches: 54, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
31 1 0.02
32 50 0.93
33 3 0.06
ACGTcount: A:0.07, C:0.16, G:0.33, T:0.45
Consensus pattern (31 bp):
GGGTTCGGTTCTCTCGGGTTTAGGTTCTTTT
Found at i:4607306 original size:16 final size:15
Alignment explanation
Indices: 4607285--4607337 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
4607275 GGTTATCTTG
4607285 GGTTCGATCTATTTCA
1 GGTTCGAT-TATTTCA
*
4607301 GGTTCGGATTTTTTCA
1 GGTTC-GATTATTTCA
*
4607317 GGTTCGGATTTTTTCA
1 GGTTC-GATTATTTCA
*
4607333 AGTTC
1 GGTTC
4607338 AAGTTTTTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 31 0.91
17 3 0.09
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.47
Consensus pattern (15 bp):
GGTTCGATTATTTCA
Found at i:4608009 original size:13 final size:11
Alignment explanation
Indices: 4607988--4608190 Score: 95
Period size: 11 Copynumber: 18.5 Consensus size: 11
4607978 TAAAAAATTT
4607988 TAAATATAATA
1 TAAATATAATA
4607999 TAATTATATAATA
1 TAA--ATATAATA
*
4608012 TAAAAATATGATA
1 T--AAATATAATA
*
4608025 TAAAAATAATA
1 TAAATATAATA
*
4608036 TAATATTTAATA
1 TAA-ATATAATA
*
4608048 TAAAAATAATA
1 TAAATATAATA
*
4608059 TAAAAATAATA
1 TAAATATAATA
4608070 TAAATAT-ATA
1 TAAATATAATA
*
4608080 -AATATTTTAA-A
1 TAA-A-TATAATA
**
4608091 TTTATATAATA
1 TAAATATAATA
*
4608102 TAAATA-ATTA
1 TAAATATAATA
*
4608112 -AAATATTAAAA
1 TAAATA-TAATA
** *
4608123 TTTATATAAAA
1 TAAATATAATA
4608134 TAAATAATACAT-
1 TAAAT-ATA-ATA
4608146 TAAATATAAT-
1 TAAATATAATA
*
4608156 TATGATAT-ATA
1 TA-AATATAATA
4608167 TAAATAT-AT-
1 TAAATATAATA
*
4608176 T-AATATAAAA
1 TAAATATAATA
4608186 TAAAT
1 TAAAT
4608191 GCATAAATGG
Statistics
Matches: 147, Mismatches: 25, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
8 5 0.03
9 9 0.06
10 24 0.16
11 68 0.46
12 21 0.14
13 18 0.12
15 2 0.01
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (11 bp):
TAAATATAATA
Found at i:4608052 original size:23 final size:23
Alignment explanation
Indices: 4608022--4608086 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
4608012 TAAAAATATG
4608022 ATATAAAAATAATATAATATTTA
1 ATATAAAAATAATATAATATTTA
**
4608045 ATATAAAAATAATATAA-AAATA
1 ATATAAAAATAATATAATATTTA
*
4608067 ATATAAATAT-ATA-AATATTT
1 ATATAAAAATAATATAATATTT
4608087 TAAATTTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.06
21 5 0.14
22 12 0.33
23 17 0.47
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
ATATAAAAATAATATAATATTTA
Found at i:4608055 original size:8 final size:8
Alignment explanation
Indices: 4607996--4608187 Score: 52
Period size: 8 Copynumber: 24.1 Consensus size: 8
4607986 TTTAAATATA
*
4607996 ATATAATT
1 ATATAAAT
4608004 ATAT-AAT
1 ATATAAAT
4608011 ATA-AAA-
1 ATATAAAT
*
4608017 ATAT-GAT
1 ATATAAAT
*
4608024 ATAAAAAT
1 ATATAAAT
4608032 A-ATATAAT
1 ATATA-AAT
*
4608040 AT-TTAAT
1 ATATAAAT
*
4608047 ATAAAAAT
1 ATATAAAT
4608055 AATATAAAAAT
1 -ATAT--AAAT
4608066 AATATAAAT
1 -ATATAAAT
4608075 ATATAAAT
1 ATATAAAT
*
4608083 ATTTTAAAT
1 A-TATAAAT
* *
4608092 TTATATA-
1 ATATAAAT
4608099 ATATAAAT
1 ATATAAAT
4608107 A-ATTAAA-
1 ATA-TAAAT
4608114 ATATTAAAAT
1 ATA-T-AAAT
*
4608124 TTATATAA-
1 ATATA-AAT
4608132 A-ATAAAT
1 ATATAAAT
*
4608139 A-ATACATT
1 ATATA-AAT
*
4608147 AAATATAAT
1 ATATA-AAT
*
4608156 -TATGATAT
1 ATAT-AAAT
4608164 ATATAAAT
1 ATATAAAT
*
4608172 ATATTAAT
1 ATATAAAT
4608180 ATA-AAAT
1 ATATAAAT
4608187 A
1 A
4608188 AATGCATAAA
Statistics
Matches: 137, Mismatches: 25, Indels: 45
0.66 0.12 0.22
Matches are distributed among these distances:
6 6 0.04
7 35 0.26
8 57 0.42
9 28 0.20
10 2 0.01
11 9 0.07
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (8 bp):
ATATAAAT
Found at i:4608065 original size:34 final size:36
Alignment explanation
Indices: 4607988--4608080 Score: 136
Period size: 34 Copynumber: 2.6 Consensus size: 36
4607978 TAAAAAATTT
*
4607988 TAAATATAATATAATTATATAATATAAAAATATGATA
1 TAAAAATAATATAATTATATAATATAAAAATA-GATA
*
4608025 TAAAAATAATATAA-TATTTAATATAAAAATA-ATA
1 TAAAAATAATATAATTATATAATATAAAAATAGATA
*
4608059 TAAAAATAATATAAATATATAA
1 TAAAAATAATATAATTATATAA
4608081 ATATTTTAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
34 17 0.33
35 6 0.12
36 16 0.31
37 13 0.25
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (36 bp):
TAAAAATAATATAATTATATAATATAAAAATAGATA
Found at i:4608090 original size:17 final size:17
Alignment explanation
Indices: 4608055--4608102 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
4608045 ATATAAAAAT
* *
4608055 AATATAAAAATAATATA
1 AATATATAAATATTATA
*
4608072 AATATATAAATATTTTA
1 AATATATAAATATTATA
*
4608089 AATTTATATAATAT
1 AATATATA-AATAT
4608103 AAATAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATATAAATATTATA
Found at i:4608105 original size:32 final size:32
Alignment explanation
Indices: 4608064--4608141 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 32
4608054 TAATATAAAA
*
4608064 ATAATATAAAT-A-TATAAATATTTTAAATTTAT
1 ATAATATAAATAATTA-AAATA-TTAAAATTTAT
4608096 ATAATATAAATAATTAAAATATTAAAATTTAT
1 ATAATATAAATAATTAAAATATTAAAATTTAT
*
4608128 ATAAAATAAATAAT
1 ATAATATAAATAAT
4608142 ACATTAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 34 0.81
33 6 0.14
34 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
ATAATATAAATAATTAAAATATTAAAATTTAT
Found at i:4610170 original size:15 final size:14
Alignment explanation
Indices: 4610146--4610181 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
4610136 ATATCCTAAC
4610146 TTTAATTTATATTA
1 TTTAATTTATATTA
4610160 TTTATATTTATATTA
1 TTTA-ATTTATATTA
4610175 TTATAAT
1 TT-TAAT
4610182 GTGTCTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 14 0.70
16 2 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATTTATATTA
Found at i:4611947 original size:13 final size:13
Alignment explanation
Indices: 4611914--4611947 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4611904 AAAATAATTC
4611914 AAAAATTTTTTAA
1 AAAAATTTTTTAA
*
4611927 AAATATTTTTTAA
1 AAAAATTTTTTAA
4611940 AAAAATTT
1 AAAAATTT
4611948 AGAGTTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAAAATTTTTTAA
Found at i:4612106 original size:2 final size:2
Alignment explanation
Indices: 4612099--4612127 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4612089 TTGTGCCCTA
4612099 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
4612128 ACTTTTTGAT
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:4612857 original size:20 final size:21
Alignment explanation
Indices: 4612813--4612865 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
4612803 TTTAACAATT
4612813 TGTATCGATACAATAGGGTAA
1 TGTATCGATACAATAGGGTAA
*
4612834 TGTATCGATAC-ATA-AGTGAA
1 TGTATCGATACAATAGGGT-AA
4612854 TGTATCGATACA
1 TGTATCGATACA
4612866 GGACCATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 16 0.55
21 11 0.38
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAATAGGGTAA
Found at i:4613007 original size:52 final size:51
Alignment explanation
Indices: 4612901--4613016 Score: 135
Period size: 52 Copynumber: 2.3 Consensus size: 51
4612891 TTTGGAAAAA
* * *
4612901 AAATGTATCGATACATTTCCATTCTATCTATACATTCTGGGTTTTTGTCCT
1 AAATGTATCGATAAATTTCCATTCTATCGATACATTATGGGTTTTTGTCCT
* * * *
4612952 AAATATATCGATAAATTCTTCATTGTATCGATACATTATGGGTTTTTGAT-GT
1 AAATGTATCGATAAATT-TCCATTCTATCGATACATTATGGGTTTTTG-TCCT
*
4613004 AAATGTATTGATA
1 AAATGTATCGATA
4613017 TATGTAGGCA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
51 15 0.28
52 38 0.70
53 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (51 bp):
AAATGTATCGATAAATTTCCATTCTATCGATACATTATGGGTTTTTGTCCT
Found at i:4615341 original size:97 final size:97
Alignment explanation
Indices: 4615165--4615373 Score: 210
Period size: 97 Copynumber: 2.2 Consensus size: 97
4615155 AACCTCATAT
* * * * * ***
4615165 TTCGAGGGGACACTCCAACC-CTATTTTTAAACTTGTTAAGATTTAAATCTTATTTTTGTTTAAA
1 TTCGAAGGGATACTCTAACCTC-ATTTTTAAACTCGTCAAGATTTAAATCTTATTTTCACTTAAA
* * *
4615229 TCATCACTATTGGGGATA-TTCTAACCCTATT-C
65 TCATCACTATCGGGGACATTTC-AACCCCATTCC
*
4615261 TTCTGAAGGGATACTCTAACCTCATTTTTAAACTCGTCAAGATTTAAATCTTATTTTCACTTAAG
1 TTC-GAAGGGATACTCTAACCTCATTTTTAAACTCGTCAAGATTTAAATCTTATTTTCACTTAAA
** *
4615326 TTGTCA-TCGTCGGGGACATTTCAACCCCATTCC
65 TCATCACT-ATCGGGGACATTTCAACCCCATTCC
*
4615359 TTCGAGGGGATACTC
1 TTCGAAGGGATACTC
4615374 CAGCCTCGTC
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
96 4 0.04
97 80 0.87
98 8 0.09
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (97 bp):
TTCGAAGGGATACTCTAACCTCATTTTTAAACTCGTCAAGATTTAAATCTTATTTTCACTTAAAT
CATCACTATCGGGGACATTTCAACCCCATTCC
Found at i:4620007 original size:52 final size:52
Alignment explanation
Indices: 4619874--4620014 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
4619864 TGAAAAGTTA
4619874 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
4619926 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
4619978 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
4620015 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:4620021 original size:13 final size:13
Alignment explanation
Indices: 4620003--4620027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4619993 CAAAAATCAG
4620003 TGTATCGATACAA
1 TGTATCGATACAA
4620016 TGTATCGATACA
1 TGTATCGATACA
4620028 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4620110 original size:13 final size:13
Alignment explanation
Indices: 4620092--4620116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4620082 CAAAAAAATA
4620092 TGTATCGATACAT
1 TGTATCGATACAT
4620105 TGTATCGATACA
1 TGTATCGATACA
4620117 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4620112 original size:33 final size:33
Alignment explanation
Indices: 4620070--4620136 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4620060 AGTAGCTTAA
4620070 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
4620103 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
4620136 A
1 A
4620137 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:4620215 original size:21 final size:21
Alignment explanation
Indices: 4620174--4620215 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4620164 GTTGGGACCT
*
4620174 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
4620195 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
4620216 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:4626373 original size:166 final size:165
Alignment explanation
Indices: 4626151--4626573 Score: 492
Period size: 159 Copynumber: 2.6 Consensus size: 165
4626141 AGGATTTTTC
* * * *
4626151 TTAATTTTTAAAATTTATCAGATATTATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCAT
1 TTAATTTTTAAAATTCATCAAAT-TTATCATTTATTTTATATTAATTTAGTTTTCAAAAATTCAT
* * * *
4626216 TCATTTTCATTCATCTTTGATTTTTTTCCTTGAAATT-CTCTTTTTTTGAAATATGGTGTTTTTT
65 TCATTTTCATTAAT-TTTGATTTTTTTCCTTGAAATTCCTATTTTTTTGAAAAATGGTGTTTTCT
* * *
4626280 ATTCCGTAAATTTTTTTGAGGA-GATTTGTTTTTGGTTT
129 ATTCCGTAAATATTTTTG-GGACGATTT-TTCTTGATTT
*
4626318 TTAA-TTTTAAAATTCATCAAATGTTATCATTTATTTTATATTAATTTATTTTTCAAAAATTCAT
1 TTAATTTTTAAAATTCATCAAAT-TTATCATTTATTTTATATTAATTTAGTTTTCAAAAATTCAT
* *
4626382 TCAATTTCA-TGA----G-TTTTTTT-CTTGAAATTCCTATTTTTTTGAAAAATGGTGTTTTCTA
65 TCATTTTCATTAATTTTGATTTTTTTCCTTGAAATTCCTATTTTTTTGAAAAATGGTGTTTTCTA
4626440 TTCCGTAAATATTTTTGGGACGATTTTTCTTGATTT
130 TTCCGTAAATATTTTTGGGACGATTTTTCTTGATTT
* * * * *
4626476 TAAATTTTTAAAATTCATCAAA--CATCATTAATTGATTCATATTAATTTAGTTTTAAAAAATTA
1 TTAATTTTTAAAATTCATCAAATTTATCATTTATT--TT-ATATTAATTTAGTTTTCAAAAATTC
* *
4626539 ATTCATTTTCATAAATTTTGGATTTTTTTCTTTGA
63 ATTCATTTTCATTAATTTT-GATTTTTTTCCTTGA
4626574 TATCCTTCTT
Statistics
Matches: 218, Mismatches: 24, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
156 9 0.04
158 25 0.11
159 102 0.47
160 2 0.01
165 3 0.01
166 69 0.32
167 8 0.04
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.53
Consensus pattern (165 bp):
TTAATTTTTAAAATTCATCAAATTTATCATTTATTTTATATTAATTTAGTTTTCAAAAATTCATT
CATTTTCATTAATTTTGATTTTTTTCCTTGAAATTCCTATTTTTTTGAAAAATGGTGTTTTCTAT
TCCGTAAATATTTTTGGGACGATTTTTCTTGATTT
Found at i:4627219 original size:14 final size:14
Alignment explanation
Indices: 4627200--4627227 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4627190 ACTCCATTTT
4627200 GAAGGTTAATGGTC
1 GAAGGTTAATGGTC
4627214 GAAGGTTAATGGTC
1 GAAGGTTAATGGTC
4627228 AACTGAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.36, T:0.29
Consensus pattern (14 bp):
GAAGGTTAATGGTC
Found at i:4628618 original size:150 final size:151
Alignment explanation
Indices: 4628332--4628620 Score: 368
Period size: 150 Copynumber: 1.9 Consensus size: 151
4628322 TTCCAAAAAT
* * * *
4628332 AAATAAATATTAATCGCTTTTTATTTTTTTATATTCCTATGGGTATTCGTCGAGGTATAAAAGAT
1 AAATAAATATTAATCGCTTTTTAATCTTTTATATTCCTATGGGTATCCGTAGAGGTATAAAAGAT
* ** * * **
4628397 TTCAAAAACTTTTCGTATCTTTTCAGGTATCTATTAAGGTACGAAATGATTTTTTTAAGAAATAA
66 TTCAAAAACTTTTCGCATCTTGGCAGGTATCTATCAAGGTACAAAATGAACTTTTTAAGAAATAA
*
4628462 TTAAATTAACTCTCCCCACTA
131 TCAAATTAACTCTCCCCACTA
* *
4628483 AAATAAATATTAATCG-TTTTTAATCTTTTGTATTCCTATGGGTATCCGTAGGGGTATTAAAAGA
1 AAATAAATATTAATCGCTTTTTAATCTTTTATATTCCTATGGGTATCCGTAGAGGTA-TAAAAGA
* * * *
4628547 TTTC-AAAATTTTTCGCATCTTGGCAGGTTTCTATCAAGGTATAAAATGACACTTTTTGAGAAA-
65 TTTCAAAAACTTTTCGCATCTTGGCAGGTATCTATCAAGGTACAAAATGA-ACTTTTTAAGAAAT
*
4628610 GATCAAATTAA
129 AATCAAATTAA
4628621 ACATGTGAAA
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
150 80 0.68
151 37 0.32
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (151 bp):
AAATAAATATTAATCGCTTTTTAATCTTTTATATTCCTATGGGTATCCGTAGAGGTATAAAAGAT
TTCAAAAACTTTTCGCATCTTGGCAGGTATCTATCAAGGTACAAAATGAACTTTTTAAGAAATAA
TCAAATTAACTCTCCCCACTA
Found at i:4632033 original size:52 final size:52
Alignment explanation
Indices: 4631885--4632013 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
4631875 CGAAATATGA
4631885 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
*
4631937 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
4631989 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4632014 AAGATCGGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGAGC
Found at i:4632040 original size:13 final size:13
Alignment explanation
Indices: 4632022--4632046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4632012 CAAAGATCGG
4632022 TGTATCGATACAA
1 TGTATCGATACAA
4632035 TGTATCGATACA
1 TGTATCGATACA
4632047 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4632113 original size:19 final size:18
Alignment explanation
Indices: 4632089--4632218 Score: 92
Period size: 19 Copynumber: 7.8 Consensus size: 18
4632079 TAGCTTAAAT
4632089 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
4632108 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
4632121 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
4632140 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
4632153 TGTATCGACACAACACTTA
1 TGTATCGATACAA-ACTTA
4632172 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
4632185 TGTATCGATACAATACTTTA
1 TGTATCGATACAA-AC-TTA
*
4632205 TGTATCAATACAAA
1 TGTATCGATACAAA
4632219 TCATTGAATT
Statistics
Matches: 89, Mismatches: 3, Indels: 38
0.68 0.02 0.29
Matches are distributed among these distances:
13 32 0.36
14 3 0.03
16 6 0.07
18 2 0.02
19 34 0.38
20 12 0.13
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:4632126 original size:13 final size:13
Alignment explanation
Indices: 4632108--4632196 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 13
4632098 ACAAAACTTA
4632108 TGTATCGATACAT
1 TGTATCGATACAT
4632121 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
4632139 ATGTATCGATACAT
1 -TGTATCGATACAT
*
4632153 TGTATCGACACAACACTT
1 TGTATCG--A-TACA--T
4632171 ATGTATCGATACAT
1 -TGTATCGATACAT
4632185 TGTATCGATACA
1 TGTATCGATACA
4632197 ATACTTTATG
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
13 28 0.45
14 2 0.03
15 1 0.02
16 12 0.19
17 1 0.02
18 2 0.03
19 16 0.26
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4632128 original size:32 final size:32
Alignment explanation
Indices: 4632087--4632216 Score: 215
Period size: 32 Copynumber: 4.0 Consensus size: 32
4632077 AGTAGCTTAA
*
4632087 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
4632119 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
4632151 ATTGTATCGACACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
* *
4632183 ATTGTATCGATACAATACTTTATGTATCAATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
4632216 A
1 A
4632217 AATCATTGAA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 78 0.85
33 14 0.15
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:4632295 original size:21 final size:21
Alignment explanation
Indices: 4632254--4632295 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4632244 GTTGGGACCT
*
4632254 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
4632275 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
4632296 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:4634719 original size:82 final size:82
Alignment explanation
Indices: 4634607--4634958 Score: 580
Period size: 82 Copynumber: 4.3 Consensus size: 82
4634597 ACAATTGTGC
4634607 ATGGACATTAAGATGATGGAAATTGGATTGCTTAATTTCTTGCCACATGATCATGCATGGACACA
1 ATGGACATTAAGATGATGGAAATTGGATTGCTTAATTTCTTGCCACATGATCATGCATGGACACA
*
4634672 TGGCTAAGGGATGGCAA
66 TGGCTAAGGGATGGAAA
* * * *
4634689 ATGGACATTACGCTGATGGAAATTGAATTGCTTAATTTCTTTCCACATGATCATATGCATGGACA
1 ATGGACATTAAGATGATGGAAATTGGATTGCTTAATTTCTTGCCACATGATC--ATGCATGGACA
4634754 CATGGCTAAGGGATGGAAA
64 CATGGCTAAGGGATGGAAA
*
4634773 ATGGACATTAAGATGATGGAAATTGGATTACTTAATTTCTTGCCACATGATCATGCATGGACACA
1 ATGGACATTAAGATGATGGAAATTGGATTGCTTAATTTCTTGCCACATGATCATGCATGGACACA
*
4634838 TGGCTAAAGGATGGAAA
66 TGGCTAAGGGATGGAAA
* *
4634855 ATGGACATTAAGATGATGGAAATTTGATTGCTTAATCTCTTGCCACATGATCATGCATGGACACA
1 ATGGACATTAAGATGATGGAAATTGGATTGCTTAATTTCTTGCCACATGATCATGCATGGACACA
*
4634920 TGGCTAAGGGATAGAAA
66 TGGCTAAGGGATGGAAA
*
4634937 ATGG-CATTAAAATGATGGAAAT
1 ATGGACATTAAGATGATGGAAAT
4634959 CAGCAGCTAA
Statistics
Matches: 251, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
81 17 0.07
82 158 0.63
84 76 0.30
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (82 bp):
ATGGACATTAAGATGATGGAAATTGGATTGCTTAATTTCTTGCCACATGATCATGCATGGACACA
TGGCTAAGGGATGGAAA
Found at i:4634887 original size:166 final size:164
Alignment explanation
Indices: 4634607--4634958 Score: 582
Period size: 166 Copynumber: 2.1 Consensus size: 164
4634597 ACAATTGTGC
*
4634607 ATGGACATTAAGATGATGGAAATTGGATTGCTTAATTTCTTGCCACATGATCATGCATGGACACA
1 ATGGACATTAAGATGATGGAAATTGGATTACTTAATTTCTTGCCACATGATCATGCATGGACACA
* * * * * *
4634672 TGGCTAAGGGATGGCAAATGGACATTACGCTGATGGAAATTGAATTGCTTAATTTCTTTCCACAT
66 TGGCTAAAGGATGGAAAATGGACATTAAGATGATGGAAATTGAATTGCTTAATCTCTTGCCACAT
*
4634737 GATCATATGCATGGACACATGGCTAAGGGATGGAAA
131 GATC--ATGCATGGACACATGGCTAAGGGATAGAAA
4634773 ATGGACATTAAGATGATGGAAATTGGATTACTTAATTTCTTGCCACATGATCATGCATGGACACA
1 ATGGACATTAAGATGATGGAAATTGGATTACTTAATTTCTTGCCACATGATCATGCATGGACACA
4634838 TGGCTAAAGGATGGAAAATGGACATTAAGATGATGGAAATTTG-ATTGCTTAATCTCTTGCCACA
66 TGGCTAAAGGATGGAAAATGGACATTAAGATGATGGAAA-TTGAATTGCTTAATCTCTTGCCACA
4634902 TGATCATGCATGGACACATGGCTAAGGGATAGAAA
130 TGATCATGCATGGACACATGGCTAAGGGATAGAAA
*
4634937 ATGG-CATTAAAATGATGGAAAT
1 ATGGACATTAAGATGATGGAAAT
4634959 CAGCAGCTAA
Statistics
Matches: 176, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
163 17 0.10
164 33 0.19
166 123 0.70
167 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (164 bp):
ATGGACATTAAGATGATGGAAATTGGATTACTTAATTTCTTGCCACATGATCATGCATGGACACA
TGGCTAAAGGATGGAAAATGGACATTAAGATGATGGAAATTGAATTGCTTAATCTCTTGCCACAT
GATCATGCATGGACACATGGCTAAGGGATAGAAA
Found at i:4635874 original size:22 final size:22
Alignment explanation
Indices: 4635827--4635870 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4635817 CAAGCCAAAT
* *
4635827 AGCAGCATCAAAAGAAAAGAAC
1 AGCAGCAGCAAAAGAAAACAAC
*
4635849 AGCAGCAGCAAATG-AAACAAC
1 AGCAGCAGCAAAAGAAAACAAC
4635870 A
1 A
4635871 AGCAAAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.57, C:0.20, G:0.18, T:0.05
Consensus pattern (22 bp):
AGCAGCAGCAAAAGAAAACAAC
Found at i:4637532 original size:152 final size:151
Alignment explanation
Indices: 4637247--4637852 Score: 616
Period size: 152 Copynumber: 3.9 Consensus size: 151
4637237 CATTTTTAGT
* * * **
4637247 GTCCATTAGGGTTACCGAGATACTTTCTTGTTGAAGGTATACCCATAAGGGCATTTTTGT-ATTT
1 GTCCTTTAGGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAAGGGCATTTTCATAATTT
* ** * * *
4637311 TCTTAGAATCGAGTCCTAACTTGTCACCTGGTCCGCTTTTATGCCAAAGGTGTACATTTAGAATA
66 TC-TAAAATCGAGTCCTAGGTTATCA-CTGGTCCGCTTCTATGCCAAAGGTGTACATTTAGGATA
* *
4637376 GGTTCATCCTTTTACCTCTTTTG
129 GGTTCATCCATTTACCTCTTTTA
* *
4637399 GTCCTTTAGGGTTACCGAAATACTTTCATGTCGAAGGTATACCCTTAAGGGCATTTTCATAATTT
1 GTCCTTTAGGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAAGGGCATTTTCATAATTT
* * *
4637464 TCTAAAA-CTGAGTCCTAGGTTATCACTAAGTCCGCTTCTATACCAAAGGTAG-GCATTTAGGAT
66 TCTAAAATC-GAGTCCTAGGTTATCACT-GGTCCGCTTCTATGCCAAAGGT-GTACATTTAGGAT
*
4637527 TGGTTCATCCCATTT-CCAAAATCCTTTTTAA
128 AGGTTCAT-CCATTTACC----T-C-TTTT-A
* * * * *
4637558 GTCCTTTAGAGG-TACC-AGGATACTTTTATGTTGAAAGTAT-CCCCT-AGGGCCATTTTCAAAA
1 GTCCTTTAG-GGTTACCGA-GATACTTTCATGTCGAAGGTATACCCATAAGGG-CATTTTCATAA
* ** *
4637619 TTTTCTAAAATCGAGTCCTAGGTTATCAATGGGTCCGCTTCTATGCTGAAGGTGTATATTTAGGA
63 TTTTCTAAAATCGAGTCCTAGGTTATCACT-GGTCCGCTTCTATGCCAAAGGTGTACATTTAGGA
* *
4637684 TAGGTTCATCCCTTTACCTCTTTTT
127 TAGGTTCATCCATTTACCTCTTTTA
* *
4637709 GTCCTTTAGGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAAGGGTATTTTAATAATTT
1 GTCCTTTAGGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAAGGGCATTTTCATAA-TT
* * * * ** * *
4637774 TTCCAAAATCGAATCCTAGGTCATCATCGGGTCTACTTCTATGCCGAAGGTGTACATTTAGGAGA
65 TTCTAAAATCGAGTCCTAGGTTATCA-CTGGTCCGCTTCTATGCCAAAGGTGTACATTTAGGATA
*
4637839 GGTTCATCCCTTTA
129 GGTTCATCCATTTA
4637853 TCGTTTTAAG
Statistics
Matches: 377, Mismatches: 53, Indels: 47
0.79 0.11 0.10
Matches are distributed among these distances:
150 2 0.01
151 35 0.09
152 124 0.33
153 87 0.23
154 1 0.00
156 1 0.00
157 11 0.03
158 82 0.22
159 32 0.08
160 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (151 bp):
GTCCTTTAGGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAAGGGCATTTTCATAATTT
TCTAAAATCGAGTCCTAGGTTATCACTGGTCCGCTTCTATGCCAAAGGTGTACATTTAGGATAGG
TTCATCCATTTACCTCTTTTA
Found at i:4640392 original size:6 final size:6
Alignment explanation
Indices: 4640374--4640422 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
4640364 TCCTCTAAAT
* *
4640374 AAGAAA AA-CAA AAGAAA AAGAAA AAGAAA GAGAAA GAA-AAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA -AAGAAA AAGAAA
4640421 AA
1 AA
4640423 AGTATGACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 6 0.17
6 29 0.81
7 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:4640407 original size:18 final size:18
Alignment explanation
Indices: 4640374--4640421 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
4640364 TCCTCTAAAT
*
4640374 AAGAAAAACAAAAGAAA-
1 AAGAAAAAGAAAAGAAAG
4640391 AAGAAAAAGAAAGAGAAAG
1 AAGAAAAAGAAA-AGAAAG
4640410 AA-AAAAAGAAAA
1 AAGAAAAAGAAAA
4640422 AAGTATGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 12 0.43
18 14 0.50
19 2 0.07
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAAAGAAAG
Found at i:4642952 original size:48 final size:48
Alignment explanation
Indices: 4642667--4642952 Score: 392
Period size: 48 Copynumber: 6.0 Consensus size: 48
4642657 TTGATTGTAT
* * * * *
4642667 CTGGTTAAACTCTTTTCATCCCTCATTTGACTATATTGGTATTAGAGC
1 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
* * *
4642715 CTGGTCAAACTCTTTTCATCCCTTGATTGACTGTATTGGTGTTAAGGC
1 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
*
4642763 CTAGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
1 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
* * * *
4642811 CTGGTTAAATTCTTTTCATCCCTCGTTTGACTGTATTGATGTTAGGAC
1 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
* * **
4642859 CTGGTCAAACTCTTTTTATCCCTTGTTTGACTGTATAAGTGTTAGGGC
1 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
* * *
4642907 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTATATTAGTATTAGG
1 CTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGG
4642953 ACATAGTCAG
Statistics
Matches: 208, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 208 1.00
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.41
Consensus pattern (48 bp):
CTGGTCAAACTCTTTTCATCCCTCGTTTGACTGTATTGGTGTTAGGGC
Found at i:4643115 original size:44 final size:44
Alignment explanation
Indices: 4643011--4643488 Score: 337
Period size: 44 Copynumber: 10.8 Consensus size: 44
4643001 CGTTAGATTT
* * * *
4643011 TTTTGGTTTGACGTATGGATACCACCCTAGTCAAACTTTTTTCTCA
1 TTTTGATTTGACGTATGGTTACCACCCTGGTCAAAC--TTCTCTCA
* *
4643057 TTTTGATTTGATGTATGGTTACCACCTTGGTCAAACTTCTCTCA
1 TTTTGATTTGACGTATGGTTACCACCCTGGTCAAACTTCTCTCA
* * * * * *
4643101 TTTTGGTTTGATGTATGGTTACCACCCTAGTCAGA-TTCTTTTTA
1 TTTTGATTTGACGTATGGTTACCACCCTGGTCAAACTTC-TCTCA
* ** * *
4643145 TTTCGATTTGACGTATGGTTACCACTTTGGTCAAATCTTTTTTC-
1 TTTTGATTTGACGTATGGTTACCACCCTGGTCAAA-CTTCTCTCA
* * * *
4643189 TTCTT-ATTTGATGTATGGTTACCACCTTAGTCAAACTTTTCTCA
1 TT-TTGATTTGACGTATGGTTACCACCCTGGTCAAACTTCTCTCA
* * * * * * * *
4643233 GTTT-AGTCTAACGTATGGTTACCATCCTGGTCAGATTTTTCTTA
1 TTTTGA-TTTGACGTATGGTTACCACCCTGGTCAAACTTCTCTCA
* * * * *
4643277 TTCTAATTTGATGTATGGTTACCACCCTGGTCAAA-TCCCTTTC-
1 TTTTGATTTGACGTATGGTTACCACCCTGGTCAAACT-TCTCTCA
* * * * *
4643320 TTTTCAATTTGACGTATGGTTACCACCCTAGTTAAACTTTTCTTA
1 TTTT-GATTTGACGTATGGTTACCACCCTGGTCAAACTTCTCTCA
* * * * * * *
4643365 TTTTGGTCTGGCATATGGTTACCACCCTGTTCAGA-TTCTTTTCA
1 TTTTGATTTGACGTATGGTTACCACCCTGGTCAAACTTC-TCTCA
* * *
4643409 TTTCGATTTGACATATGCTTACCACCCTGGTCAAATCTGTCTC-C-
1 TTTTGATTTGACGTATGGTTACCACCCTGGTCAAA-CT-TCTCTCA
4643453 TTCTTG-TTTGACGTATGGTTACCACCCTGGTCAAAC
1 TT-TTGATTTGACGTATGGTTACCACCCTGGTCAAAC
4643489 CCTTCTAACC
Statistics
Matches: 338, Mismatches: 78, Indels: 35
0.75 0.17 0.08
Matches are distributed among these distances:
43 20 0.06
44 268 0.79
45 13 0.04
46 35 0.10
47 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (44 bp):
TTTTGATTTGACGTATGGTTACCACCCTGGTCAAACTTCTCTCA
Found at i:4643199 original size:88 final size:88
Alignment explanation
Indices: 4643016--4643487 Score: 390
Period size: 88 Copynumber: 5.3 Consensus size: 88
4643006 GATTTTTTTG
* * *
4643016 GTTTGACGTATGGATACCACCCTAGTCAAACTT-TTTTCTCATTTTGATTTGATGTATGGTTACC
1 GTTTGACGTATGGTTACCACCCTAGTCAAA-TTCTTTT-T-ATTTCGATTTGACGTATGGTTACC
* * *
4643080 ACCTTGGTCAAA-CTTCTCTCATT-TT
63 ACCCTGGTCAAATCTTTTTTC-TTCTT
* *
4643105 GGTTTGATGTATGGTTACCACCCTAGTCAGATTCTTTTTATTTCGATTTGACGTATGGTTACCAC
1 -GTTTGACGTATGGTTACCACCCTAGTCAAATTCTTTTTATTTCGATTTGACGTATGGTTACCAC
**
4643170 TTTGGTCAAATCTTTTTTCTTCTT
65 CCTGGTCAAATCTTTTTTCTTCTT
* * * * * *
4643194 ATTTGATGTATGGTTACCACCTTAGTCAAA--CTTTTCTCAGTTTAG-TCTAACGTATGGTTACC
1 GTTTGACGTATGGTTACCACCCTAGTCAAATTCTTTT-T-A-TTTCGATTTGACGTATGGTTACC
* * * *
4643256 ATCCTGGTCAGAT-TTTTCTTATTCTA
63 ACCCTGGTCAAATCTTTT-TTCTTCTT
* * * * * *
4643282 ATTTGATGTATGGTTACCACCCTGGTCAAATCCCTTTCT-TTTCAATTTGACGTATGGTTACCAC
1 GTTTGACGTATGGTTACCACCCTAGTCAAAT-TCTTTTTATTTCGATTTGACGTATGGTTACCAC
* * *
4643346 CCTAGTTAAA-CTTTTCTTATT-TT
65 CCTGGTCAAATCTTTT-TTCTTCTT
* * * * * * *
4643369 GGTCTGGCATATGGTTACCACCCT-GTTCAGATTCTTTTCATTTCGATTTGACATATGCTTACCA
1 -GTTTGACGTATGGTTACCACCCTAG-TCAAATTCTTTTTATTTCGATTTGACGTATGGTTACCA
* * *
4643433 CCCTGGTCAAATCTGTCTCCTTCTT
64 CCCTGGTCAAATCTTTTTTCTTCTT
*
4643458 GTTTGACGTATGGTTACCACCCTGGTCAAA
1 GTTTGACGTATGGTTACCACCCTAGTCAAA
4643488 CCCTTCTAAC
Statistics
Matches: 310, Mismatches: 54, Indels: 38
0.77 0.13 0.09
Matches are distributed among these distances:
86 5 0.02
87 14 0.05
88 234 0.75
89 21 0.07
90 32 0.10
91 4 0.01
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (88 bp):
GTTTGACGTATGGTTACCACCCTAGTCAAATTCTTTTTATTTCGATTTGACGTATGGTTACCACC
CTGGTCAAATCTTTTTTCTTCTT
Found at i:4643223 original size:132 final size:131
Alignment explanation
Indices: 4643017--4643488 Score: 522
Period size: 132 Copynumber: 3.6 Consensus size: 131
4643007 ATTTTTTTGG
* * * * *
4643017 TTTGACGTATGGATACCACCCTAGTCAAA-CTTTTTTCTCATTTTGATTTGATGTATGGTTACCA
1 TTTGACGTATGGTTACCACCCTGGTCAAATCTTTCTTCT--TCTT-ATTTGACGTATGGTTACCA
* * * * *
4643081 CCTTGGTCAAACTTCTCTCATTTTGGTTTGATGTATGGTTACCACCCTAGTCAGATTCTTTTTAT
63 CCCTAGTCAAACTTTTCTCATTTTGGTCTGACGTATGGTTACCACCCT-GTCAGATTCTTTTTAT
4643146 TTCGA
127 TTCGA
** * * *
4643151 TTTGACGTATGGTTACCACTTTGGTCAAATCTTTTTTCTTCTTATTTGATGTATGGTTACCACCT
1 TTTGACGTATGGTTACCACCCTGGTCAAATCTTTCTTCTTCTTATTTGACGTATGGTTACCACCC
* * * *
4643216 TAGTCAAACTTTTCTCAGTTTAGTCTAACGTATGGTTACCATCCTGGTCAGATT-TTTCTTA-TT
66 TAGTCAAACTTTTCTCATTTTGGTCTGACGTATGGTTACCACCCT-GTCAGATTCTTT-TTATTT
*
4643279 CTAA
129 C-GA
* *
4643283 TTTGATGTATGGTTACCACCCTGGTCAAATCCCTTTCTT-TTC-AATTTGACGTATGGTTACCAC
1 TTTGACGTATGGTTACCACCCTGGTCAAAT--CTTTCTTCTTCTTATTTGACGTATGGTTACCAC
* * * * *
4643346 CCTAGTTAAACTTTTCTTATTTTGGTCTGGCATATGGTTACCACCCTGTTCAGATTCTTTTCATT
64 CCTAGTCAAACTTTTCTCATTTTGGTCTGACGTATGGTTACCACCCTG-TCAGATTCTTTTTATT
4643411 TCGA
128 TCGA
* * * * *
4643415 TTTGACATATGCTTACCACCCTGGTCAAATCTGTCTCCTTCTTGTTTGACGTATGGTTACCACCC
1 TTTGACGTATGGTTACCACCCTGGTCAAATCTTTCTTCTTCTTATTTGACGTATGGTTACCACCC
*
4643480 TGGTCAAAC
66 TAGTCAAAC
4643489 CCTTCTAACC
Statistics
Matches: 287, Mismatches: 41, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
130 5 0.02
131 10 0.03
132 220 0.77
133 12 0.04
134 31 0.11
135 9 0.03
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (131 bp):
TTTGACGTATGGTTACCACCCTGGTCAAATCTTTCTTCTTCTTATTTGACGTATGGTTACCACCC
TAGTCAAACTTTTCTCATTTTGGTCTGACGTATGGTTACCACCCTGTCAGATTCTTTTTATTTCG
A
Found at i:4643650 original size:44 final size:44
Alignment explanation
Indices: 4643596--4643754 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 44
4643586 AATTTGCCTT
* * *
4643596 TTTTGGTTTGACGTATGGTTACCACACTGATCAAGTTCTTTTCA
1 TTTTGATTTGACGTATGGTTACCACCCTGATCAACTTCTTTTCA
* * * * * *
4643640 TTTTGATTTGATGTATAGTTACCACCCTGGTCTAATTTGCCTCT-A
1 TTTTGATTTGACGTATGGTTACCACCCTGATC-AACTT-CTTTTCA
* * * *
4643685 TTCTG-TTTAACGTATGGTTACCACCCTCGTTAAACTT-TTTTCA
1 TTTTGATTTGACGTATGGTTACCACCCT-GATCAACTTCTTTTCA
**
4643728 TTTCAATTTGACGTATGGTTACCACCC
1 TTTTGATTTGACGTATGGTTACCACCC
4643755 AAGTTAGATA
Statistics
Matches: 89, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 70 0.79
45 11 0.12
46 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (44 bp):
TTTTGATTTGACGTATGGTTACCACCCTGATCAACTTCTTTTCA
Found at i:4644109 original size:13 final size:13
Alignment explanation
Indices: 4644091--4644115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4644081 ATATTGCACA
4644091 GTATCGATACATT
1 GTATCGATACATT
4644104 GTATCGATACAT
1 GTATCGATACAT
4644116 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:4644229 original size:20 final size:19
Alignment explanation
Indices: 4644186--4644229 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4644176 CTTAACTGTT
*
4644186 TGTATTGATACACACAAGA
1 TGTATTGATACACACAAAA
*
4644205 TGTATTGATACATCCCAAAA
1 TGTATTGATACA-CACAAAA
4644225 TGTAT
1 TGTAT
4644230 CAATACATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (19 bp):
TGTATTGATACACACAAAA
Found at i:4650393 original size:13 final size:13
Alignment explanation
Indices: 4650375--4650412 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
4650365 CAGCATTCTC
*
4650375 TGTATCGATACAT
1 TGTATCGATACAG
4650388 TGTATCGATACAG
1 TGTATCGATACAG
*
4650401 TGTATTGATACA
1 TGTATCGATACA
4650413 AAGGGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:4650879 original size:19 final size:20
Alignment explanation
Indices: 4650855--4650895 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
4650845 GCAGCACTCA
4650855 CCAAGTCACGACCGGCA-CC
1 CCAAGTCACGACCGGCAGCC
*
4650874 CCAAGTCGCGACCGGCAGCC
1 CCAAGTCACGACCGGCAGCC
4650894 CC
1 CC
4650896 TACACTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.22, C:0.49, G:0.24, T:0.05
Consensus pattern (20 bp):
CCAAGTCACGACCGGCAGCC
Found at i:4653007 original size:20 final size:20
Alignment explanation
Indices: 4652964--4653015 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4652954 CTTAACTGTT
*
4652964 TGTATCGATACA-AACAACA
1 TGTATCGATACATAACAAAA
**
4652983 TGTATCGATACATCCCAAAA
1 TGTATCGATACATAACAAAA
4653003 TGTATCGATACAT
1 TGTATCGATACAT
4653016 TGGCTTGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATAACAAAA
Found at i:4653821 original size:44 final size:44
Alignment explanation
Indices: 4653687--4653873 Score: 130
Period size: 44 Copynumber: 4.2 Consensus size: 44
4653677 TGTTCAAAAT
* * * *
4653687 CCTAGTTAAATCCCTTTTCTTTCTGTTTGATGTATAGTTACCAC
1 CCTAGTCAAATCCCTTTCCTTTCTGTTTGACGTATGGTTACCAC
* * * * **
4653731 TCTAGTCAAA--CTTTTCGCATTTCAT-TTTGACATATGGTAATTAC
1 CCTAGTCAAATCCCTTTC-C-TTTC-TGTTTGACGTATGGTTACCAC
*
4653775 CCTCGTCAAATCCCTTTCCTTTCTGTTTGACGTATGGTTACCAC
1 CCTAGTCAAATCCCTTTCCTTTCTGTTTGACGTATGGTTACCAC
* * * * * * *
4653819 CCTAGTTAGATTCTTTTCATTT-TAATTTGACGTGTGGTTACCAC
1 CCTAGTCAAATCCCTTTCCTTTCT-GTTTGACGTATGGTTACCAC
* *
4653863 CTTGGTCAAAT
1 CCTAGTCAAAT
4653874 TTGCCTCTGT
Statistics
Matches: 107, Mismatches: 29, Indels: 14
0.71 0.19 0.09
Matches are distributed among these distances:
42 4 0.04
43 3 0.03
44 93 0.87
45 2 0.02
46 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.43
Consensus pattern (44 bp):
CCTAGTCAAATCCCTTTCCTTTCTGTTTGACGTATGGTTACCAC
Found at i:4653848 original size:88 final size:88
Alignment explanation
Indices: 4653694--4653965 Score: 241
Period size: 88 Copynumber: 3.1 Consensus size: 88
4653684 AATCCTAGTT
* * * * * * * *
4653694 AAATCCCTTTTCTTTCTGTTTGATGTATAGTTACCACTCTAGTCA-A-ACTTTTCGCATTTCATT
1 AAATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTTAGATTCTTTT--CATTTTAAT
* **
4653757 TTGACATATGGTAATTACCCTCGTC
64 TTGACGTATGGTAACCACCCTCGTC
4653782 AAATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTTAGATTCTTTTCATTTTAATTT
1 AAATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTTAGATTCTTTTCATTTTAATTT
* * * *
4653847 GACGTGTGGTTACCACCTTGGTC
66 GACGTATGGTAACCACCCTCGTC
* * * * *
4653870 AAAT---TTGCCTCTGTCCTGTCTAACGTATGGTTACCACCTTAGTTAGATTCTTTTCATTCTAA
1 AAATCCCTTTCCT-T-T-CTGTTTGACGTATGGTTACCACCCTAGTTAGATTCTTTTCATTTTAA
* * * *
4653932 TTTGATGTATGGTAGCCACCATTGTC
63 TTTGACGTATGGTAACCACCCTCGTC
4653958 AAA-CCCTT
1 AAATCCCTT
4653966 CTAACCTTTG
Statistics
Matches: 150, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
85 5 0.03
86 1 0.01
87 1 0.01
88 135 0.90
89 1 0.01
90 7 0.05
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (88 bp):
AAATCCCTTTCCTTTCTGTTTGACGTATGGTTACCACCCTAGTTAGATTCTTTTCATTTTAATTT
GACGTATGGTAACCACCCTCGTC
Found at i:4653942 original size:44 final size:44
Alignment explanation
Indices: 4653800--4653944 Score: 134
Period size: 44 Copynumber: 3.3 Consensus size: 44
4653790 TTCCTTTCTG
* *
4653800 TTTGACGTATGGTTACCACCCTAGTTAGATTCTTTTCATTTTAA
1 TTTGACGTATGGTTACCACCTTAGTTAGATTCTTTTCATTCTAA
* * * * ** *
4653844 TTTGACGTGTGGTTACCACCTTGGTCAAATT-TGCCTC-TGTCCT-G
1 TTTGACGTATGGTTACCACCTTAGTTAGATTCT-TTTCAT-T-CTAA
* *
4653888 TCTAACGTATGGTTACCACCTTAGTTAGATTCTTTTCATTCTAA
1 TTTGACGTATGGTTACCACCTTAGTTAGATTCTTTTCATTCTAA
*
4653932 TTTGATGTATGGT
1 TTTGACGTATGGT
4653945 AGCCACCATT
Statistics
Matches: 74, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
43 4 0.05
44 67 0.91
45 3 0.04
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.43
Consensus pattern (44 bp):
TTTGACGTATGGTTACCACCTTAGTTAGATTCTTTTCATTCTAA
Found at i:4654089 original size:101 final size:101
Alignment explanation
Indices: 4653912--4654113 Score: 268
Period size: 101 Copynumber: 2.0 Consensus size: 101
4653902 ACCACCTTAG
* *
4653912 TTAGATTCTTTTCATTCTAATTTGATGTATGGTAGCCACCATTGTCAAACCCTTCTAACCTTTGG
1 TTAGAATCTTTTCATTCTAATTTGACGTATGGTAGCCACCATTGTCAAACCCTTCTAACCTTTGG
* *
4653977 ACTAACTTTTTAACTGATTGACTTCATCGATTTTGC
66 ACTAACTTTTTAACCGATCGACTTCATCGATTTTGC
* *
4654013 TTAGAATCTTTTCATTCTAATTTGACGTATGGTTA-CCACCCTAT-TCAAACCCTTTTAACCCTT
1 TTAGAATCTTTTCATTCTAATTTGACGTATGG-TAGCCACCAT-TGTCAAACCCTTCTAA-CCTT
* *
4654076 T-GACTAAGC-TTTTAACCGATCGACTTCATTGGTTTTGC
63 TGGACTAA-CTTTTTAACCGATCGACTTCATCGATTTTGC
4654114 CTTGGTTAAC
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
101 80 0.90
102 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (101 bp):
TTAGAATCTTTTCATTCTAATTTGACGTATGGTAGCCACCATTGTCAAACCCTTCTAACCTTTGG
ACTAACTTTTTAACCGATCGACTTCATCGATTTTGC
Found at i:4654231 original size:42 final size:42
Alignment explanation
Indices: 4654172--4655090 Score: 583
Period size: 42 Copynumber: 22.1 Consensus size: 42
4654162 TACCCTTCTA
* * *
4654172 ACTTCTTTACCCTTAGTCTTCCTATCGGCTTTGACCTTGGAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
* *
4654214 ACTTCCTTATCTTTAGTCTGCCTATCGGCTTTGACCCTGGAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
** * *
4654256 ACTTCCTTACCTTTAGTCTGCCTATCAACCTTGACATTGGAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
* * * *
4654298 ACTT-CTTAACCCTTAGTCTGCCTGTCAGCTTTGACCCTGGAG
1 ACTTCCTT-ACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
*
4654340 ACTTCCTTACCTTTAGTCTACCTATCGGCTTTGACCTTGGAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
* * * * * *
4654382 ACTTCCTTACCTTTAGTTTTCTTGTCAGCTTTGATCC-TAGAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGA-CCTTGGAG
* * *
4654424 ACTTCCTTACCTTTAGTCTGCTTCTTGGCTTTGACCTTGGAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
* * * * *
4654466 ACTTCTTTACCTATAGTCTGCTTGTCGACTTTGACCTTGGAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
** * *
4654508 ACTTTTTTACCTTTAGTCTGCCTATCGACTTTGAACC-TGAAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTG-ACCTTGGAG
* * * *
4654550 ACTTCCTTACCTGTAGTCTGCCTGTCGGCTTTGACTTTGGAA
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
** * ** * * *
4654592 ACTTTTTTACCTTTAGTCTACCTATTAGCTTTGACCCTAGAA
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
* * * *
4654634 ACTTCTTTACCCTTAGTCTGCTTGTCGGCTTTGACCTTGGAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
* * * *
4654676 ACATT--TTGATCTTTAGTCTGCCTATCGGCTTTTATGC-TAGAG
1 AC-TTCCTT-ACCTTTAGTCTGCCTATCGGCTTTGA-CCTTGGAG
* * * * **
4654718 ACTT-TTTCATCTTTAGTCTACCTATCGACTTTGA-CTCTAAAG
1 ACTTCCTT-ACCTTTAGTCTGCCTATCGGCTTTGACCT-TGGAG
* * * * *
4654760 ACTTCTTTACCTTTAGTCTGCCTAT-TG-TCTG-CCGTGGTG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
* * * *
4654799 ACATCTTTATCTTTAGTCTGCCTGAT-AGCTTTGATCC-TGGAG
1 ACTTCCTTACCTTTAGTCTGCCT-ATCGGCTTTGA-CCTTGGAG
** * * ** * * * **
4654841 ACTTTTTTATCCTCTA-TTTGTTTGTTGGCTTTAATCC-TAAAG
1 ACTTCCTTA-CCTTTAGTCTGCCTATCGGCTTTGA-CCTTGGAG
* * *
4654883 ACTTCCTTACCTTTAGTCTACC-ATCGGCTTTGACCCTGGAC
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
** * * **
4654924 ACTTTTTTA-C---AGTTTGCCTGTCGGCTTTGACCTTATAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
* * * * *
4654962 ACTTCTTTATCCTTT-GTCTG-CTCGTCGACTTTGA-CTAGGGGG
1 ACTTCCTTA-CCTTTAGTCTGCCT-ATCGGCTTTGACCT-TGGAG
* * * * * * * *
4655004 ACTTCTTTATCTTTTGTCTACCCATCAGCTTTGACCCTAGAG
1 ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
* ** *
4655046 A-TATCTTTACCTTT-GTCTATCTATCAGCTTTGACCTTGGAG
1 ACT-TCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
4655087 ACTT
1 ACTT
4655091 TTTCACTTTT
Statistics
Matches: 688, Mismatches: 154, Indels: 71
0.75 0.17 0.08
Matches are distributed among these distances:
37 6 0.01
38 22 0.03
39 23 0.03
40 12 0.02
41 71 0.10
42 532 0.77
43 22 0.03
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (42 bp):
ACTTCCTTACCTTTAGTCTGCCTATCGGCTTTGACCTTGGAG
Found at i:4656735 original size:11 final size:11
Alignment explanation
Indices: 4656719--4656780 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
4656709 AAAAGACAAC
4656719 AGCAAACATCA
1 AGCAAACATCA
*
4656730 AGCAAAGAT-A
1 AGCAAACATCA
4656740 GCAGCAAACATCA
1 --AGCAAACATCA
*
4656753 AGCAAA-AACA
1 AGCAAACATCA
*
4656763 CAGCAAACAACA
1 -AGCAAACATCA
4656775 AGCAAA
1 AGCAAA
4656781 TGAAATAGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 4 0.09
11 26 0.60
12 12 0.28
13 1 0.02
ACGTcount: A:0.58, C:0.24, G:0.13, T:0.05
Consensus pattern (11 bp):
AGCAAACATCA
Found at i:4656744 original size:23 final size:22
Alignment explanation
Indices: 4656717--4656780 Score: 92
Period size: 23 Copynumber: 2.9 Consensus size: 22
4656707 AAAAAAGACA
* *
4656717 ACAGCAAACATCAAGCAAAGAT
1 ACAGCAAACATCAAGCAAAAAC
4656739 AGCAGCAAACATCAAGCAAAAAC
1 A-CAGCAAACATCAAGCAAAAAC
*
4656762 ACAGCAAACAACAAGCAAA
1 ACAGCAAACATCAAGCAAA
4656781 TGAAATAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 18 0.47
23 20 0.53
ACGTcount: A:0.58, C:0.25, G:0.12, T:0.05
Consensus pattern (22 bp):
ACAGCAAACATCAAGCAAAAAC
Found at i:4656760 original size:49 final size:45
Alignment explanation
Indices: 4656682--4656780 Score: 108
Period size: 45 Copynumber: 2.1 Consensus size: 45
4656672 ACAATAGCAT
* * * *
4656682 GCAAAGATAGTAGCAAACGGCAATAAAAAAAGACAACAGCAAACATCAA
1 GCAAAGATAGCAGCAAACAGC-A-AGAAAAA-AC-ACAGCAAACAACAA
* *
4656731 GCAAAGATAGCAGCAAACATCAAGCAAAAACACAGCAAACAACAA
1 GCAAAGATAGCAGCAAACAGCAAGAAAAAACACAGCAAACAACAA
4656776 GCAAA
1 GCAAA
4656781 TGAAATAGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
45 18 0.41
46 2 0.05
47 5 0.11
48 1 0.02
49 18 0.41
ACGTcount: A:0.58, C:0.21, G:0.15, T:0.06
Consensus pattern (45 bp):
GCAAAGATAGCAGCAAACAGCAAGAAAAAACACAGCAAACAACAA
Found at i:4660365 original size:13 final size:13
Alignment explanation
Indices: 4660347--4660373 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4660337 ACAATATTCT
4660347 TTGTATCGATACA
1 TTGTATCGATACA
4660360 TTGTATCGATACA
1 TTGTATCGATACA
4660373 T
1 T
4660374 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4660570 original size:21 final size:22
Alignment explanation
Indices: 4660541--4660596 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
4660531 CATCAAAATT
* *
4660541 ATCAACAAAAACGGT-TTTAAA
1 ATCATCAAAAACGGTATTCAAA
*
4660562 ATCATC-AAATCGGTCATTCAAA
1 ATCATCAAAAACGGT-ATTCAAA
4660584 ATCTATCAAAAAC
1 ATC-ATCAAAAAC
4660597 CATTTTCGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 7 0.26
21 5 0.19
22 8 0.30
23 3 0.11
24 4 0.15
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.25
Consensus pattern (22 bp):
ATCATCAAAAACGGTATTCAAA
Found at i:4662293 original size:15 final size:15
Alignment explanation
Indices: 4662273--4662302 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4662263 ATTATCAAGG
4662273 GGGAAAATTTTTTAA
1 GGGAAAATTTTTTAA
*
4662288 GGGAAATTTTTTTAA
1 GGGAAAATTTTTTAA
4662303 CAAGAGCCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (15 bp):
GGGAAAATTTTTTAA
Found at i:4663111 original size:72 final size:72
Alignment explanation
Indices: 4662994--4663173 Score: 279
Period size: 72 Copynumber: 2.5 Consensus size: 72
4662984 TGTATCGATA
** * *
4662994 CAATGTATTGATACATGATGAATTGTATCGATACATTGCTTCTAACGGCTATAAATGGCTATAAT
1 CAATGTAACGATACATTATGAATTGTATCGATACATTGCTTCTAACGGCTATAAACGGCTATAAT
4663059 TTCAAAT
66 TTCAAAT
* *
4663066 CAATGTAACGATATATTATGAATTGTATCGATACATTGCTTCTAACGGCTATAAACGGTTATAAT
1 CAATGTAACGATACATTATGAATTGTATCGATACATTGCTTCTAACGGCTATAAACGGCTATAAT
4663131 TTCAAAT
66 TTCAAAT
* * *
4663138 TAATGTATCGATACGTTATGAATTGTATCGATACAT
1 CAATGTAACGATACATTATGAATTGTATCGATACAT
4663174 AGCTATGGGA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 98 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (72 bp):
CAATGTAACGATACATTATGAATTGTATCGATACATTGCTTCTAACGGCTATAAACGGCTATAAT
TTCAAAT
Found at i:4669222 original size:13 final size:13
Alignment explanation
Indices: 4669204--4669229 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4669194 AAAACCCAAA
4669204 TGTATCGATACAT
1 TGTATCGATACAT
4669217 TGTATCGATACAT
1 TGTATCGATACAT
4669230 GGGTTACTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4669456 original size:19 final size:19
Alignment explanation
Indices: 4669419--4669457 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
4669409 GGTTTTAAAA
*
4669419 TCATCAAATCGGTGCTTCT
1 TCATCAAATCGGAGCTTCT
* *
4669438 TCATCAAATCTGAGGTTCT
1 TCATCAAATCGGAGCTTCT
4669457 T
1 T
4669458 GAATGAAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (19 bp):
TCATCAAATCGGAGCTTCT
Found at i:4671036 original size:13 final size:13
Alignment explanation
Indices: 4671018--4671044 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4671008 ACATTATGCT
4671018 TTGTATCGATACA
1 TTGTATCGATACA
4671031 TTGTATCGATACA
1 TTGTATCGATACA
4671044 T
1 T
4671045 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4671074 original size:20 final size:19
Alignment explanation
Indices: 4671028--4671086 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
4671018 TTGTATCGAT
*
4671028 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGA
*
4671047 TCATTGTATCGATACATGA
1 ACATTGTATCGATACATGA
4671066 ACAATTGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
4671086 A
1 A
4671087 ACTGGCAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:4671156 original size:33 final size:33
Alignment explanation
Indices: 4671114--4671178 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4671104 TACCACTGTT
* *
4671114 TGTATCGATACATGGT-ACATTGTATTGATACAA
1 TGTATCGATACATGATGA-ATTGTATCGATACAA
4671147 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGATGAATTGTATCGATACA
4671179 TTGCTTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTGTATCGATACAA
Found at i:4675445 original size:31 final size:31
Alignment explanation
Indices: 4675407--4675480 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
4675397 CCCAGACAAA
* *
4675407 AGTGCCACCAATTTGGGTGAGCTTTGACTCG
1 AGTGCCACCAATTTGGGCGAGCTTTGACTAG
* * *
4675438 AGTGCCACCAACTTGTGCGGGCTTTGACTAG
1 AGTGCCACCAATTTGGGCGAGCTTTGACTAG
* *
4675469 GGTGTCACCAAT
1 AGTGCCACCAAT
4675481 ATGTGTAGCC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.20, C:0.24, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGCCACCAATTTGGGCGAGCTTTGACTAG
Found at i:4675560 original size:20 final size:20
Alignment explanation
Indices: 4675535--4675573 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4675525 AAATGGTGCC
*
4675535 ATTGACTTGTTGGCTTTGAA
1 ATTGACTTGTGGGCTTTGAA
4675555 ATTGACTTGTGGGCTTTGA
1 ATTGACTTGTGGGCTTTGA
4675574 GAAGGTGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.28, T:0.44
Consensus pattern (20 bp):
ATTGACTTGTGGGCTTTGAA
Found at i:4675592 original size:48 final size:51
Alignment explanation
Indices: 4675521--4675646 Score: 134
Period size: 56 Copynumber: 2.4 Consensus size: 51
4675511 GCTTACAGGT
* * * *
4675521 TTTGA-AATGGTGCCATTGACTTGTTGGCTTTGA-AA-T-TGACTTGTGGGC
1 TTTGAGAA-GGTGCCACTAACTTGTAGGCTTTGAGAAGTCTAACTTGTGGGC
4675569 TTTGAGAAGGTGCCACTAACTTGTAGGCTTTGAGAAGGTGCCACTAACTTGTGGGC
1 TTTGAGAAGGTGCCACTAACTTGTAGGCTTTGAGAA-GT----CTAACTTGTGGGC
4675625 TTTGAGAAGGTGCCACTAACTT
1 TTTGAGAAGGTGCCACTAACTT
4675647 ATGGGCATTG
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
48 27 0.42
49 4 0.06
51 1 0.02
56 33 0.51
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (51 bp):
TTTGAGAAGGTGCCACTAACTTGTAGGCTTTGAGAAGTCTAACTTGTGGGC
Found at i:4675599 original size:28 final size:28
Alignment explanation
Indices: 4675559--4675943 Score: 397
Period size: 28 Copynumber: 13.7 Consensus size: 28
4675549 TTTGAAATTG
*
4675559 ACTTGTGGGCTTTGAGAAGGTGCCACTA
1 ACTTGTGGGCTTTGAAAAGGTGCCACTA
* *
4675587 ACTTGTAGGCTTTGAGAAGGTGCCACTA
1 ACTTGTGGGCTTTGAAAAGGTGCCACTA
*
4675615 ACTTGTGGGCTTTGAGAAGGTGCCACTA
1 ACTTGTGGGCTTTGAAAAGGTGCCACTA
* * *
4675643 ACTTATGGGCATTG-AAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAAGG-TGCCACTA
* *
4675671 ACTTGTGGGTTTTGAAAAAGGTACCACTA
1 ACTTGTGGGCTTTG-AAAAGGTGCCACTA
* * *
4675700 ACTTATGGGCTTTG-AAAGATACCACTA
1 ACTTGTGGGCTTTGAAAAGGTGCCACTA
* * *
4675727 ATTTATGGGCTTTG-AAAGGAAGCCACTA
1 ACTTGTGGGCTTTGAAAAGG-TGCCACTA
* * *
4675755 ACTTTTGGGCTTTGAAAAGATGCCACTG
1 ACTTGTGGGCTTTGAAAAGGTGCCACTA
* *
4675783 AGTTGTGGGCTTTAAAAAGGTGCCA-TA
1 ACTTGTGGGCTTTGAAAAGGTGCCACTA
** *
4675810 GACTTGTGGGCTTTG-AAAGGATAACACTC
1 -ACTTGTGGGCTTTGAAAAGG-TGCCACTA
*
4675839 ACTTGTGGGCTTTGAGAAA-GTGCCACTG
1 ACTTGTGGGCTTTGA-AAAGGTGCCACTA
*
4675867 ACTTGTGGGCTTT-AAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAAGG-TGCCACTA
* *
4675895 ACTTGTGGGCTTTAAAAAAGGTGGCCACTG
1 ACTTGTGGGCTTT-GAAAAGGT-GCCACTA
4675925 ACTTGTGGGCTTTGAAAAG
1 ACTTGTGGGCTTTGAAAAG
4675944 AGGTCGTATT
Statistics
Matches: 305, Mismatches: 37, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.01
27 41 0.13
28 197 0.65
29 30 0.10
30 34 0.11
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (28 bp):
ACTTGTGGGCTTTGAAAAGGTGCCACTA
Found at i:4675645 original size:56 final size:56
Alignment explanation
Indices: 4675557--4675941 Score: 447
Period size: 56 Copynumber: 6.8 Consensus size: 56
4675547 GCTTTGAAAT
* *
4675557 TGACTTGTGGGCTTTGAGAAGGTGCCACTAACTTGTAGGCTTTGAGAAGG-TGCCAC
1 TGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGA-AAGGATGCCAC
* * * *
4675613 TAACTTGTGGGCTTTGAGAAGGTGCCACTAACTTATGGGCATTGAAAGGATGCCAC
1 TGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCAC
* * * *
4675669 TGACTTGTGGGTTTTGAAAAAGGTACCACTAACTTATGGGCTTTGAAA-GATACCAC
1 TGACTTGTGGGCTTTG-AAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCAC
* * * * * *
4675725 TAATTTATGGGCTTTG-AAAGGAAGCCACTAACTTTTGGGCTTTGAAAAGATGCCAC
1 TGACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAAGGATGCCAC
* * **
4675781 TGAGTTGTGGGCTTTAAAAAGGTGCCA-TAGACTTGTGGGCTTTGAAAGGATAACAC
1 TGACTTGTGGGCTTTGAAAAGGTGCCACTA-ACTTGTGGGCTTTGAAAGGATGCCAC
* * *
4675837 TCACTTGTGGGCTTTGAGAAA-GTGCCACTGACTTGTGGGCTTTAAAAGGATGCCAC
1 TGACTTGTGGGCTTTGA-AAAGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCAC
* *
4675893 TGACTTGTGGGCTTTAAAAAAGGTGGCCACTGACTTGTGGGCTTTGAAA
1 TGACTTGTGGGCTTT-GAAAAGGT-GCCACTAACTTGTGGGCTTTGAAA
4675942 AGAGGTCGTA
Statistics
Matches: 281, Mismatches: 37, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
54 5 0.02
55 28 0.10
56 185 0.66
57 40 0.14
58 23 0.08
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (56 bp):
TGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCAC
Found at i:4675991 original size:25 final size:26
Alignment explanation
Indices: 4675960--4676024 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
4675950 TATTTACAAA
4675960 AATTTCTTGACAAAGTTTCTT-ACGA-
1 AATTTCTTGACAAAG-TTCTTGACGAT
*
4675985 ACA-TTCTCGACAAAAGTTCTTGACGAT
1 A-ATTTCTTGAC-AAAGTTCTTGACGAT
4676012 AATTTCTTGACAA
1 AATTTCTTGACAA
4676025 CCATTTCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
25 13 0.39
26 12 0.36
27 8 0.24
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (26 bp):
AATTTCTTGACAAAGTTCTTGACGAT
Found at i:4680712 original size:51 final size:50
Alignment explanation
Indices: 4680657--4680838 Score: 179
Period size: 51 Copynumber: 3.6 Consensus size: 50
4680647 TAAGTTTCTC
* * * * *
4680657 AATTTTTCATAATTGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACA-T
* * *
4680708 AATTTTCCACAATCGGGGATACTCCAACTCTGATTTTATTT-TCGAAACAT
1 AATTTTCCACAATCGGGGATACTCCAACCCTGGTTTTATTTCT-AAAACAT
* * *
4680758 CAATTTTCCACAATCGGGGATACTCCAACCCTGGATTTATTCCTAAAATATT
1 -AATTTTCCACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACA-T
* * *
4680810 GA-TTTCTCATAATGGGGGATACTCCAACC
1 AATTTTC-CACAATCGGGGATACTCCAACC
4680839 TCGTCATTTC
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
50 6 0.06
51 101 0.93
52 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (50 bp):
AATTTTCCACAATCGGGGATACTCCAACCCTGGTTTTATTTCTAAAACAT
Found at i:4680907 original size:79 final size:79
Alignment explanation
Indices: 4680773--4680999 Score: 348
Period size: 79 Copynumber: 2.9 Consensus size: 79
4680763 TTCCACAATC
* * * *
4680773 GGGGATACTCCAACCCTGGATTTATTCCTAAAATATTGATTTCTCATAATGGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCTAAC
*
4680838 CTCGTCA-TTTCTGA
66 CCCGTCATTTTC-GA
4680852 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCTAAC
*
4680917 CCCGTTATTTTCGA
66 CCCGTCATTTTCGA
* * * *
4680931 GGGGATACTCCAACCCCAGCTTTATTTCTAAAATATTGATTTCTCACAATCAGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCTAAC
4680996 CCCG
66 CCCG
4681000 GTTTTATTTC
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
79 133 0.97
80 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCTAAC
CCCGTCATTTTCGA
Found at i:4680987 original size:130 final size:130
Alignment explanation
Indices: 4680853--4681125 Score: 363
Period size: 130 Copynumber: 2.1 Consensus size: 130
4680843 CATTTCTGAG
* ** *
4680853 GGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGAT-TTCTCATAATCGGGGATACTCTAAC
1 GGGATACTCCAACCCCGGCTTTATTCCTAAAACATCAATCTT-TCATAATCGAGGATACTCTAAC
*
4680917 CCCGTTATTT-TCGAGGGGATACTCCAACCCC-AGCTTTATTTCTAAAATATTGATTTCTCACAA
65 CCCGTTATTTCT-GAGGGGATACTCCAACCCCGA-CTTTATTTCTAAAATATTAATTTCTCACAA
4680980 TCA
128 TCA
* * * *
4680983 GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCAATCTTTCATAATTGAGGATACTCTAACC
1 GGGATACTCCAACCCCGGCTTTATTCCTAAAACATCAATCTTTCATAATCGAGGATACTCTAACC
* * * * * *
4681048 CTGTTATTTCTGGGGGGATACTCTAACCCCGATTTTATTTCTAAAATATTAATTTCTCATAATCG
66 CCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTCTCACAATCA
4681113 GGGATACTCCAAC
1 GGGATACTCCAAC
4681126 TTCGTTATCT
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
130 120 0.97
131 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (130 bp):
GGGATACTCCAACCCCGGCTTTATTCCTAAAACATCAATCTTTCATAATCGAGGATACTCTAACC
CCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAATTTCTCACAATCA
Found at i:4681066 original size:79 final size:79
Alignment explanation
Indices: 4680983--4681206 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 79
4680973 CTCACAATCA
* * *
4680983 GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCAATCTTTCATAATTGAGGATACTCTAACC
1 GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCAAT-TTTCATAATCGGGGATACTCCAACC
* * *
4681048 CT-GTTATTTCTGGG
65 CTCGTTATCTCCGAG
* * *
4681062 GGGATACTCTAACCCCGATTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAA-C
1 GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCAATTT-TCATAATCGGGGATACTCCAACC
*
4681126 TTCGTTATCTCCGAG
65 CTCGTTATCTCCGAG
* * * * *
4681141 GGGATACTCCAACCCCGGTTTTATTTCCAAATCGTCGATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCTAACCCCGGTTTTATTTCTAAAACATC-AATTTTCATAATCGGGGATACTCCAACC
4681206 C
65 C
4681207 CATTATTTTC
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
78 4 0.03
79 113 0.93
80 5 0.04
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
GGGATACTCTAACCCCGGTTTTATTTCTAAAACATCAATTTTCATAATCGGGGATACTCCAACCC
TCGTTATCTCCGAG
Found at i:4681094 original size:209 final size:209
Alignment explanation
Indices: 4680762--4681207 Score: 567
Period size: 209 Copynumber: 2.1 Consensus size: 209
4680752 AAACATCAAT
* * ** *
4680762 TTTC-CACAATCGGGGATACTCCAACCCTGGATTTATTCCTAAAATATTGATTTCTCATAATGGG
1 TTTCTCACAATCGGGGATACTCCAACCCCGGATTTATTCCTAAAACATCAATTTCTCATAATGGA
* *
4680826 GGATACTCCAACCTCGTCATTTCTGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGA
66 GGATACTCCAACCTCGTCATTTCTGAGGGGATACTCCAACCCCGACTTTATTCCTAAAATATTAA
* * *
4680891 TTTCTCATAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGCTTTAT
131 TTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCAGCTTTAT
*
4680956 TTCTAAAAT-ATTGA
196 TTC-AAAATCATCGA
* * * * *
4680970 TTTCTCACAATCAGGGATACTCTAACCCCGGTTTTATTTCTAAAACATCAATCTT-TCATAATTG
1 TTTCTCACAATCGGGGATACTCCAACCCCGGATTTATTCCTAAAACATCAAT-TTCTCATAATGG
* * * * * *
4681034 AGGATACTCTAACC-CTGTTATTTCTGGGGGGATACTCTAACCCCGATTTTATTTCTAAAATATT
65 AGGATACTCCAACCTC-GTCATTTCTGAGGGGATACTCCAACCCCGACTTTATTCCTAAAATATT
** * *
4681098 AATTTCTCATAATCGGGGATACTCCAACTTCGTTATCTCCGAGGGGATACTCCAACCCCGGTTTT
129 AATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCAGCTTT
* *
4681163 ATTTCCAAATCGTCGA
194 ATTTCAAAATCATCGA
* *
4681179 TTTTTCATAATCGGGGATACTCCAACCCC
1 TTTCTCACAATCGGGGATACTCCAACCCC
4681208 ATTATTTTCA
Statistics
Matches: 202, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
208 9 0.04
209 191 0.95
210 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (209 bp):
TTTCTCACAATCGGGGATACTCCAACCCCGGATTTATTCCTAAAACATCAATTTCTCATAATGGA
GGATACTCCAACCTCGTCATTTCTGAGGGGATACTCCAACCCCGACTTTATTCCTAAAATATTAA
TTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCAGCTTTAT
TTCAAAATCATCGA
Found at i:4681222 original size:79 final size:79
Alignment explanation
Indices: 4680983--4681235 Score: 269
Period size: 79 Copynumber: 3.2 Consensus size: 79
4680973 CTCACAATCA
* * * * *
4680983 GGGATACTCTAACCCCGGTTTTATTTCTAAAA-CATCAATCTTTCATAATTGAGGATACTCTAAC
1 GGGATACTCCAACCCCGGTTTTATTTC-AAAATCATCAATTTTTCATAATCGGGGATACTCCAAC
* *
4681047 CCTGTTA-TTTCTGGG
65 CCCGTTATTTTC-GAG
* * * *
4681062 GGGATACTCTAACCCCGATTTTATTTCTAAAAT-ATTAATTTCTCATAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCGGTTTTATTTC-AAAATCATCAATTTTTCATAATCGGGGATACTCCAAC
** * *
4681126 TTCGTTATCTCCGAG
65 CCCGTTATTTTCGAG
* * *
4681141 GGGATACTCCAACCCCGGTTTTATTTCCAAATCGTCGATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCAAAATCATCAATTTTTCATAATCGGGGATACTCCAACC
* *
4681206 CCATTATTTTCAAG
66 CCGTTATTTTCGAG
*
4681220 GGGATACGCCAACCCC
1 GGGATACTCCAACCCC
4681236 ATTATTATCT
Statistics
Matches: 144, Mismatches: 27, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
78 4 0.03
79 138 0.96
80 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGGTTTTATTTCAAAATCATCAATTTTTCATAATCGGGGATACTCCAACC
CCGTTATTTTCGAG
Found at i:4693637 original size:10 final size:10
Alignment explanation
Indices: 4693622--4693665 Score: 72
Period size: 10 Copynumber: 4.4 Consensus size: 10
4693612 TTCTTTTTAA
4693622 AAAAAAAAAC
1 AAAAAAAAAC
4693632 AAAAAAAAAAC
1 -AAAAAAAAAC
4693643 AAAAAAAAAC
1 AAAAAAAAAC
4693653 -AAAAAAAAC
1 AAAAAAAAAC
4693662 AAAA
1 AAAA
4693666 CGAAGGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.28
10 13 0.41
11 10 0.31
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:4693637 original size:11 final size:11
Alignment explanation
Indices: 4693621--4693660 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
4693611 ATTCTTTTTA
4693621 AAAAAAAAAAC
1 AAAAAAAAAAC
4693632 AAAAAAAAAAC
1 AAAAAAAAAAC
4693643 -AAAAAAAAAC
1 AAAAAAAAAAC
4693653 AAAAAAAA
1 AAAAAAAA
4693661 CAAAACGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:4693676 original size:1 final size:1
Alignment explanation
Indices: 4693620--4693665 Score: 56
Period size: 1 Copynumber: 46.0 Consensus size: 1
4693610 CATTCTTTTT
* * * *
4693620 AAAAAAAAAAACAAAAAAAAAACAAAAAAAAACAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4693666 CGAAGGAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4693676 original size:19 final size:19
Alignment explanation
Indices: 4693622--4693665 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 19
4693612 TTCTTTTTAA
4693622 AAAAAAAAACAAAAAAAAAAC
1 AAAAAAAAAC--AAAAAAAAC
4693643 AAAAAAAAACAAAAAAAAC
1 AAAAAAAAACAAAAAAAAC
4693662 AAAA
1 AAAA
4693666 CGAAGGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.57
21 10 0.43
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAAACAAAAAAAAC
Found at i:4694808 original size:100 final size:100
Alignment explanation
Indices: 4694651--4695120 Score: 705
Period size: 100 Copynumber: 4.8 Consensus size: 100
4694641 TTCACTTTTC
4694651 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
4694716 CTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTT
66 CTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTT
4694751 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
* * *
4694816 CTCAAAGAGCAGGATGCTCTCTCCTTTCACCTTTT
66 CTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTT
* *
4694851 AGTCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTCGTGGCACCTTCTAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
4694910 CTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTT
66 CTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTT
** *
4694945 AGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
* * *
4695010 CTCAAAGAGCAGGATGCTCTCTCCTTTTA-CCTTT
66 CTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTT
* ** *
4695044 CAGTCCTCAAAGAGCAGGATGCC-TTT-C----AAAGCCCACACAAGTCGGTGGCATTTTTTAGT
1 -AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGT
4695103 CCTCAAAGAGCAGGACGC
65 CCTCAAAGAGCAGGACGC
4695121 CTTTCAAAGC
Statistics
Matches: 341, Mismatches: 22, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
94 133 0.39
97 1 0.00
98 1 0.00
99 8 0.02
100 198 0.58
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (100 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTC
CTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTT
Found at i:4694973 original size:194 final size:194
Alignment explanation
Indices: 4694635--4695120 Score: 778
Period size: 194 Copynumber: 2.5 Consensus size: 194
4694625 ATCTAAGCTT
*
4694635 TCTCCTTTCA-CTTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTT
1 TCTCCTTTCACCTTTT-AGTCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTT
*
4694699 GGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTTAGTCCTCAAAGAG
59 CGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTTAGTCCTCAAAGAG
**
4694764 CAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGG
124 CAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGG
4694829 ATGCTC
189 ATGCTC
4694835 TCTCCTTTCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTCGTGGCA
1 TCTCCTTTCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTCGTGGCA
4694900 CCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTTAGTCCTCAAAGAGCAGGACA
66 CCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTTAGTCCTCAAAGAGCAGGACA
*
4694965 CTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTC
131 CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTC
* * * *
4695029 TCTCCTTTTACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAG-TCGGTGGC
1 TCTCCTTTCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTC-GTGGC
** *
4695093 ATTTTTTAGTCCTCAAAGAGCAGGACGC
65 ACCTTCTAGTCCTCAAAGAGCAGGACGC
4695121 CTTTCAAAGC
Statistics
Matches: 272, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
193 2 0.01
194 236 0.87
197 1 0.00
200 28 0.10
201 5 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (194 bp):
TCTCCTTTCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTCGTGGCA
CCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCGTTCACCCTTTAGTCCTCAAAGAGCAGGACA
CCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCTC
Found at i:4695314 original size:61 final size:58
Alignment explanation
Indices: 4695045--4695409 Score: 390
Period size: 61 Copynumber: 6.3 Consensus size: 58
4695035 TTTACCTTTC
* * *
4695045 AGTCCTCAAAGAGCAGGATGC---CTTTCAAAGCCCACACAAGTCGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGATGCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTT
* * * *
4695100 AGTCCTCAAAGAGCAGGACGC---CTTTCAAAGCCCACAAAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGATGCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTT
* * *
4695155 AGTCCTCAAAGAGCAGGATGC---CTTTTAAAGCCCACACAAGCTGGTGACAC-CTTT
1 AGTCCTCAAAGAGCAGGATGCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTT
*
4695209 AGTCCTCAAAGAGTAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGATG-CTT-T-CTTTTAAAGCCCACACAAGTTGGTGGCACTTTTT
* * * * **
4695270 AGTCCTCAAAGAGCAAGATGCTTTCTTTTTGCAAAGGCCTCACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGATGCTTTC-TTTT--AAAGCCCACACAAGTTGGTGGCACTTTTT
* * **
4695331 AGTACTCAAAGGGCAGGATGCCTTTTCTTTTTAAAGCCCACATGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGATG-C-TTTC-TTTTAAAGCCCACACAAGTTGGTGGCACTTTTT
4695392 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
4695410 CACACTTTCT
Statistics
Matches: 264, Mismatches: 34, Indels: 18
0.84 0.11 0.06
Matches are distributed among these distances:
54 22 0.08
55 96 0.36
58 1 0.00
59 5 0.02
60 30 0.11
61 100 0.38
62 1 0.00
63 9 0.03
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (58 bp):
AGTCCTCAAAGAGCAGGATGCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTT
Found at i:4695461 original size:45 final size:43
Alignment explanation
Indices: 4695388--4695528 Score: 130
Period size: 43 Copynumber: 3.2 Consensus size: 43
4695378 TGGTGGCACT
*
4695388 TTTTAGTCCTCAAAGAGCAGGACACACTTTCTTCCCTTCTTTTCTC
1 TTTT-GTCCTCAAAGAGCAGGACGCACTTTCTT-CCTTCTTTT-TC
* *
4695434 TTTTGTCCTCAAAGAGCATGACGCACTTTATT--TTCCTTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTTCTTCCTT-C-TTTTTC
* * *
4695477 TTTTGTCTTCAGAGAGCAGGACGTA-TTTCGTTTCC--CTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTTC--TTCCTTCTTTTTC
4695519 TTTTGTCCTC
1 TTTTGTCCTC
4695529 GAAAAATGGG
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
42 20 0.25
43 25 0.31
44 6 0.08
45 25 0.31
46 4 0.05
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (43 bp):
TTTTGTCCTCAAAGAGCAGGACGCACTTTCTTCCTTCTTTTTC
Found at i:4695493 original size:43 final size:42
Alignment explanation
Indices: 4695388--4695528 Score: 131
Period size: 45 Copynumber: 3.2 Consensus size: 42
4695378 TGGTGGCACT
* * *
4695388 TTTTAGTCCTCAAAGAGCAGGACACACTTT-CTTCCCTTCTTTTCTC
1 TTTT-GTCCTCAAAGAGCAGGACGCA-TTTAGTTTCC-T-TTTT-TC
* *
4695434 TTTTGTCCTCAAAGAGCATGACGCACTTTATTTTCCTTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCA-TTTAGTTTCCTTTTTTC
* * * * *
4695477 TTTTGTCTTCAGAGAGCAGGACGTATTTCGTTTCCCTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCATTTAGTTTCCTTTTTTC
4695519 TTTTGTCCTC
1 TTTTGTCCTC
4695529 GAAAAATGGG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 23 0.28
43 23 0.28
44 4 0.05
45 24 0.29
46 8 0.10
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (42 bp):
TTTTGTCCTCAAAGAGCAGGACGCATTTAGTTTCCTTTTTTC
Found at i:4695524 original size:42 final size:43
Alignment explanation
Indices: 4695388--4695528 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 43
4695378 TGGTGGCACT
* * *
4695388 TTTTAGTCCTCAAAGAGCAGGACACACTTT-CTTCCCTTCTTTTCTC
1 TTTT-GTCCTCAAAGAGCAGGACGCACTTTAGTTTCC--CTTTT-TC
* * *
4695434 TTTTGTCCTCAAAGAGCATGACGCACTTTATTTTCCTTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTTAGTTTCCCTTTTTC
* * * *
4695477 TTTTGTCTTCAGAGAGCAGGACGTA-TTTCGTTTCCCTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTTAGTTTCCCTTTTTC
4695519 TTTTGTCCTC
1 TTTTGTCCTC
4695529 GAAAAATGGG
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 23 0.28
43 23 0.28
44 4 0.05
45 23 0.28
46 8 0.10
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (43 bp):
TTTTGTCCTCAAAGAGCAGGACGCACTTTAGTTTCCCTTTTTC
Found at i:4696360 original size:13 final size:13
Alignment explanation
Indices: 4696342--4696367 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4696332 CATTATTAAA
4696342 TGTATCGATACAT
1 TGTATCGATACAT
4696355 TGTATCGATACAT
1 TGTATCGATACAT
4696368 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4696431 original size:20 final size:20
Alignment explanation
Indices: 4696406--4696479 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
4696396 TTTACCCAGA
*
4696406 TGTATCGATATATTTTGCAT
1 TGTATCGATACATTTTGCAT
4696426 TGTATCGATACA--TTGCTAAT
1 TGTATCGATACATTTTGC--AT
* *
4696446 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTTGCAT
4696466 TGTATCGATACATT
1 TGTATCGATACATT
4696480 CAGGCATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 4 0.09
20 40 0.85
22 3 0.06
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTTGCAT
Found at i:4698863 original size:51 final size:51
Alignment explanation
Indices: 4698774--4698895 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
4698764 AATTTTTCAT
* *
4698774 AATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACA-CTAATTTTCTAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACATC-AATTTTCTAC
* * *
4698825 AATCGGGGATACTGCAACTCCGATTTTATTT-TCGAAACATCAATTTTCTAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACATCAATTTTCTAC
*
4698876 AATCGGGGATACTTCAACCC
1 AATCGGGGATACTCCAACCC
4698896 TATTAATCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 1 0.02
51 60 0.97
52 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCTAC
Found at i:4699000 original size:79 final size:79
Alignment explanation
Indices: 4698904--4699344 Score: 527
Period size: 79 Copynumber: 5.6 Consensus size: 79
4698894 CCTATTAATC
* * *
4698904 ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCTCGACTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAAT
4698969 ATTGATTTCTCATA
66 ATTGATTTCTCATA
* ** * * *
4698983 ATCGAGGATACTCCAACCTTGTTATTTTCGAAGGGATACTCCAACCTC-AGCTTTATTCCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGA-CTTTATTCCTAAAA
4699047 TATTGATTTCTCATA
65 TATTGATTTCTCATA
* ** * *
4699062 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGAAACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAAT
**
4699127 ATCAATCTT-TCATA
66 ATTGAT-TTCTCATA
* **
4699141 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACT-CAACCCC--TTTTATTTTTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAAT
*
4699203 ATTAATTTCTCATA
66 ATTGATTTCTCATA
* * *
4699217 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGTTACTCCAACCCCGATTTTATTTCC--AAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTA-TTCCTAAAA
* *
4699280 TCATCGATTTTTCATA
65 T-ATTGATTTCTCATA
* * * * *
4699296 ATCGGGGATACTCCAACCCCATTATTTTCAATGGGATACGCCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
4699345 TTATTATCTC
Statistics
Matches: 317, Mismatches: 36, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
75 2 0.01
76 61 0.19
77 7 0.02
78 12 0.04
79 231 0.73
80 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAAT
ATTGATTTCTCATA
Found at i:4699258 original size:155 final size:154
Alignment explanation
Indices: 4698904--4699372 Score: 582
Period size: 155 Copynumber: 3.0 Consensus size: 154
4698894 CCTATTAATC
* * * * * *
4698904 ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCTCGACTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
* * **
4698969 ATTGATTTCTCATAATCGAGGATACTCCAACCTTGTTATTTTCGAAGGGATACTCCAACCTCAGC
66 ATCGATTT-TCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACT-CAACC-C--C
* *
4699034 -TTTATTCCTAAAATATTGATTTCTCATA
126 TTTTATTTCTAAAATATTAATTTCTCATA
* *
4699062 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGAAACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
* * *
4699127 ATCAATCTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCAACCCCTTTT
66 ATCGAT-TTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCAACCCCTTTT
*
4699192 ATTTTTAAAATATTAATTTCTCATA
130 ATTTCTAAAATATTAATTTCTCATA
* * * *
4699217 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGTTACTCCAACCCCGATTTTATTTCCAAATC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
* *
4699282 ATCGATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTC-AATGGGATACGCCAACCCCGT
66 ATCGA-TTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAA-GGGATAC-TCAACCCC-T
* *
4699346 TATTATCTCCAAAATATTAAATTTCTC
127 T-TTATTTCTAAAATATT-AATTTCTC
4699373 GTCGAGAAAT
Statistics
Matches: 271, Mismatches: 32, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
154 2 0.01
155 129 0.48
156 9 0.03
157 7 0.03
158 114 0.42
159 10 0.04
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (154 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAC
ATCGATTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCAACCCCTTTTA
TTTCTAAAATATTAATTTCTCATA
Found at i:4699342 original size:234 final size:235
Alignment explanation
Indices: 4698904--4699344 Score: 595
Period size: 234 Copynumber: 1.9 Consensus size: 235
4698894 CCTATTAATC
*
4698904 ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCTCGACTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCTC-ACTTTATTCCTAAAAT
* ** * * *
4698969 ATTGATTTCTCATAATCGAGGATACTCCAACCTTGTTATTTTCGAAGGGATACTCCAACCTCAGC
65 ATTAATTTCTCATAATCGAGGATACTCCAACCCCGTTATCTCCGAAGGGATACTCCAACCCCAGC
* * *
4699034 TTTATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGAA
130 TTTATTCC-AAAATATCGATTTCTCATAATCGGGGATACTCCAACCCCATTATTTCCAAGGGGAA
*
4699099 ACTCCAACCCCGGTTTTATTTCTAAAACATCAATCTTTCATA
194 ACGCCAACCCCGGTTTTATTTCTAAAACATCAATCTTTCATA
* **
4699141 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACT-CAACC-C-CTTTTATTTTTAAAAT
1 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCTCAC-TTTATTCCTAAAAT
* * *
4699203 ATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGTTACTCCAACCCC-GA
65 ATTAATTTCTCATAATCGAGGATACTCCAACCCCGTTATCTCCGAAGGGATACTCCAACCCCAG-
* * * *
4699267 TTTTATTTCC-AAATCATCGATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTCAATGGG
129 CTTTA-TTCCAAAAT-ATCGATTTCTCATAATCGGGGATACTCCAACCCCATTATTTCCAAGGGG
*
4699331 ATACGCCAACCCCG
192 AAACGCCAACCCCG
4699345 TTATTATCTC
Statistics
Matches: 178, Mismatches: 22, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
233 6 0.03
234 124 0.70
235 5 0.03
236 5 0.03
237 38 0.21
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (235 bp):
ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCTCACTTTATTCCTAAAATA
TTAATTTCTCATAATCGAGGATACTCCAACCCCGTTATCTCCGAAGGGATACTCCAACCCCAGCT
TTATTCCAAAATATCGATTTCTCATAATCGGGGATACTCCAACCCCATTATTTCCAAGGGGAAAC
GCCAACCCCGGTTTTATTTCTAAAACATCAATCTTTCATA
Found at i:4701884 original size:7 final size:7
Alignment explanation
Indices: 4701874--4701902 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
4701864 AAAAATAAAA
4701874 AAAAATC
1 AAAAATC
4701881 AAAAATC
1 AAAAATC
4701888 AAAAATC
1 AAAAATC
4701895 -AAAATC
1 AAAAATC
4701901 AA
1 AA
4701903 GCAAAGAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATC
Found at i:4701891 original size:18 final size:18
Alignment explanation
Indices: 4701864--4701981 Score: 71
Period size: 18 Copynumber: 5.9 Consensus size: 18
4701854 CTATGTCAGA
4701864 AAAAAT-AAAAAAAAATC
1 AAAAATCAAAAAAAAATC
4701881 AAAAATCAAAAATCAAAATCAAGC
1 AAAAATCAAAAA--AAAAT----C
4701905 AAAGAATCAATAAAAAAAGT-
1 AAA-AATCAA-AAAAAAA-TC
**
4701925 AAAAAAAATAAAAAAAATC
1 AAAAATCA-AAAAAAAATC
4701944 -AAAATCAATAAAAAAATC
1 AAAAATCAA-AAAAAAATC
4701962 AATCAAATCAAATAAAAAAT
1 AA--AAATCAAA-AAAAAAT
4701982 GAATAAAAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 30
0.70 0.04 0.26
Matches are distributed among these distances:
17 7 0.09
18 20 0.25
19 11 0.14
20 10 0.12
21 14 0.17
24 8 0.10
25 7 0.09
26 3 0.04
ACGTcount: A:0.74, C:0.09, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAAATCAAAAAAAAATC
Found at i:4701929 original size:9 final size:9
Alignment explanation
Indices: 4701913--4701959 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
4701903 GCAAAGAATC
4701913 AATAAAAAA
1 AATAAAAAA
*
4701922 AGTAAAAAA
1 AATAAAAAA
4701931 AATAAAAAA
1 AATAAAAAA
**
4701940 AATCAAAATC
1 AAT-AAAAAA
4701950 AATAAAAAA
1 AATAAAAAA
4701959 A
1 A
4701960 TCAATCAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
9 24 0.77
10 7 0.23
ACGTcount: A:0.81, C:0.04, G:0.02, T:0.13
Consensus pattern (9 bp):
AATAAAAAA
Found at i:4701958 original size:21 final size:22
Alignment explanation
Indices: 4701934--4701980 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4701924 TAAAAAAAAT
4701934 AAAAA-AAATCAAAATC-AATAA
1 AAAAATAAATC-AAATCAAATAA
*
4701955 AAAAATCAATCAAATCAAATAA
1 AAAAATAAATCAAATCAAATAA
4701977 AAAA
1 AAAA
4701981 TGAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (22 bp):
AAAAATAAATCAAATCAAATAA
Found at i:4701962 original size:49 final size:51
Alignment explanation
Indices: 4701888--4701991 Score: 133
Period size: 49 Copynumber: 2.1 Consensus size: 51
4701878 ATCAAAAATC
* *
4701888 AAAAATCAAAATCAAGCAAAGAATCAAT-AAA-AAAAGTAAAAAA-AATAAA
1 AAAAATCAAAATCAAGAAAAAAATCAATCAAATAAAA-TAAAAAAGAATAAA
* *
4701937 AAAAATCAAAATCAATAAAAAAATCAATCAAATCAAATAAAAAATGAATAAA
1 AAAAATCAAAATCAAGAAAAAAATCAATCAAATAAAATAAAAAA-GAATAAA
4701989 AAA
1 AAA
4701992 GGTTCGGATG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
49 25 0.53
50 10 0.21
51 3 0.06
52 9 0.19
ACGTcount: A:0.73, C:0.09, G:0.04, T:0.14
Consensus pattern (51 bp):
AAAAATCAAAATCAAGAAAAAAATCAATCAAATAAAATAAAAAAGAATAAA
Found at i:4701981 original size:21 final size:21
Alignment explanation
Indices: 4701866--4701990 Score: 68
Period size: 21 Copynumber: 5.9 Consensus size: 21
4701856 ATGTCAGAAA
*
4701866 AAATAAAAAAAAATCAAAAATC
1 AAATAAAAAATAATC-AAAATC
*
4701888 AAA-AATCAAAATCAAGCAAAGAATC
1 AAATAA--AAAAT-AATC-AA-AATC
* *
4701913 -AATAAAAAA-AGT-AAAA-A
1 AAATAAAAAATAATCAAAATC
4701930 AAATAAAAAA-AATCAAAATC
1 AAATAAAAAATAATCAAAATC
4701950 -AATAAAAAAATCAATC-AAATC
1 AAAT-AAAAAAT-AATCAAAATC
*
4701971 AAATAAAAAATGAATAAAAA
1 AAATAAAAAAT-AATCAAAA
4701991 AGGTTCGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
18 13 0.16
19 9 0.11
20 6 0.07
21 18 0.22
22 13 0.16
23 8 0.10
24 8 0.10
25 6 0.07
ACGTcount: A:0.74, C:0.09, G:0.03, T:0.14
Consensus pattern (21 bp):
AAATAAAAAATAATCAAAATC
Found at i:4703553 original size:58 final size:58
Alignment explanation
Indices: 4703481--4703763 Score: 245
Period size: 58 Copynumber: 4.9 Consensus size: 58
4703471 CGTGACACTT
* * *
4703481 TTTCAAAGCCCACAAGTTAGTGGCACCCT-TTGAAAGCCCATAAGTTAGTGGTATCCCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCCTCTT-AAAGCCCACAAGTCAGTGGCATCCCC
** **
4703539 TTTCAAAGTTCACAAGTTAGTGGCACCCTCTTAAAGCCCACAAGTCAGTGGCATCCTT
1 TTTCAAAGCCCACAAGTTAGTGGCACCCTCTTAAAGCCCACAAGTCAGTGGCATCCCC
* * * ** *
4703597 TTTCAAAGCCCACAGGTGACTTCCACCCT-TTCAAAGCCCACAAAATCAGTGGCA--CCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCCTCTT-AAAGCCCAC-AAGTCAGTGGCATCCCC
* * * * *
4703654 TCTCAAAGCCCACAAGTTAGTGGCATCCCCTCTCAAAGCCCATAATTCGGTGGCAT--CC
1 TTTCAAAGCCCACAAGTTAGTGGCA--CCCTCTTAAAGCCCACAAGTCAGTGGCATCCCC
* * * * * *
4703712 TCTCAATGTCCACAAGTTAGTGGCATCCCCTTTTAAAACACACAAGTCAGTG
1 TTTCAAAGCCCACAAGTTAGTGGCA--CCCTCTTAAAGCCCACAAGTCAGTG
4703764 ACATTTTCTT
Statistics
Matches: 182, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
57 22 0.12
58 134 0.74
59 25 0.14
60 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (58 bp):
TTTCAAAGCCCACAAGTTAGTGGCACCCTCTTAAAGCCCACAAGTCAGTGGCATCCCC
Found at i:4703556 original size:30 final size:28
Alignment explanation
Indices: 4703481--4703911 Score: 235
Period size: 28 Copynumber: 14.9 Consensus size: 28
4703471 CGTGACACTT
4703481 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* * *
4703509 TTTGAAAGCCCATAAGTTAGTGGTATCCCC
1 TTTCAAAGCCCACAAGTTAGTGGCA--CCC
**
4703539 TTTCAAAGTTCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* *
4703567 TCTT-AAAGCCCACAAGTCAGTGGCATCCTT
1 T-TTCAAAGCCCACAAGTTAGTGGCA-CC-C
* * * **
4703597 TTTCAAAGCCCACAGGTGACTTCCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* *
4703625 TTTCAAAGCCCACAAAATCAGTGGCACCC
1 TTTCAAAGCCCAC-AAGTTAGTGGCACCC
*
4703654 TCTCAAAGCCCACAAGTTAGTGGCATCCCC
1 TTTCAAAGCCCACAAGTTAGTGGCA--CCC
* * * *
4703684 TCTCAAAGCCCATAA-TTCGGTGGCATCC
1 TTTCAAAGCCCACAAGTT-AGTGGCACCC
* * *
4703712 TCTCAATGTCCACAAGTTAGTGGCATCCCC
1 TTTCAAAGCCCACAAGTTAGTGGCA--CCC
* * * * **
4703742 TTTTAAAACACACAAGTCAGT-G-ACAT
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* * *
4703768 TTTCTTAAAGCTCACAAG-TCGATGGCATCCAT
1 TTTC--AAAGCCCACAAGTTAG-TGGCA-CC-C
* * * *
4703800 TTTTAAAGCCTACAAGTCAATGGCA-CC
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* * *
4703827 TTCACAAAGCCCACAAGTCAGTGGCATCCGT
1 TT-TCAAAGCCCACAAGTTAGTGGCA-CC-C
* * * * *
4703858 TTTCAAAGCTCGCAGGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTTAGTGGCACCC
* **
4703886 TTTTAAAGCCCATGAGTTAGTGGCAC
1 TTTCAAAGCCCACAAGTTAGTGGCAC
4703912 TTTTTAAAGC
Statistics
Matches: 305, Mismatches: 73, Indels: 50
0.71 0.17 0.12
Matches are distributed among these distances:
26 4 0.01
27 3 0.01
28 139 0.46
29 37 0.12
30 115 0.38
31 3 0.01
32 4 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTTAGTGGCACCC
Found at i:4703725 original size:87 final size:86
Alignment explanation
Indices: 4703483--4703726 Score: 233
Period size: 87 Copynumber: 2.8 Consensus size: 86
4703473 TGACACTTTT
* * *
4703483 TCAAAGCCCACAAGTTAGTGGCA--CCCTTTGAAAGCCCATAAGTTAGTGGTATCCCCTTTCAAA
1 TCAAAGCCCACAAGTTAGTGGCATCCCCTTTCAAAGCCCATAA-TTGGTGGCAT--CCTTTCAAA
* * *
4703546 GTTCAC-AAGTTAGTGGCACCCTC
63 GTCCACAAAATCAGTGGCACCCTC
* * ** * ** * ** * *
4703569 TTAAAGCCCACAAGTCAGTGGCATCCTTTTTCAAAGCCCACAGGTGACTTCCACCCTTTCAAAGC
1 TCAAAGCCCACAAGTTAGTGGCATCCCCTTTCAAAGCCCATAATTG-GTGGCATCCTTTCAAAGT
4703634 CCACAAAATCAGTGGCACCCTC
65 CCACAAAATCAGTGGCACCCTC
* * *
4703656 TCAAAGCCCACAAGTTAGTGGCATCCCCTCTCAAAGCCCATAATTCGGTGGCATCCTCTCAATGT
1 TCAAAGCCCACAAGTTAGTGGCATCCCCTTTCAAAGCCCATAATT-GGTGGCATCCTTTCAAAGT
4703721 CCACAA
65 CCACAA
4703727 GTTAGTGGCA
Statistics
Matches: 120, Mismatches: 33, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
86 34 0.28
87 70 0.58
88 16 0.13
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.23
Consensus pattern (86 bp):
TCAAAGCCCACAAGTTAGTGGCATCCCCTTTCAAAGCCCATAATTGGTGGCATCCTTTCAAAGTC
CACAAAATCAGTGGCACCCTC
Found at i:4703894 original size:58 final size:58
Alignment explanation
Indices: 4703769--4703897 Score: 145
Period size: 58 Copynumber: 2.2 Consensus size: 58
4703759 CAGTGACATT
* *
4703769 TTCTTAAAGCTCACAAGTCGATGGCATCCATTTTTAAAGCCTACAAGTCAATGGCACC
1 TTCTTAAAGCCCACAAGTCGATGGCATCCATTTTCAAAGCCTACAAGTCAATGGCACC
** * * * *
4703827 TTCACAAAGCCCACAAGTC-AGTGGCATCCGTTTTCAAAG-CTCGCAGGTCAGTGGCACC
1 TTCTTAAAGCCCACAAGTCGA-TGGCATCCATTTTCAAAGCCT-ACAAGTCAATGGCACC
*
4703885 TTTTTAAAGCCCA
1 TTCTTAAAGCCCA
4703898 TGAGTTAGTG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
57 3 0.05
58 55 0.95
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (58 bp):
TTCTTAAAGCCCACAAGTCGATGGCATCCATTTTCAAAGCCTACAAGTCAATGGCACC
Found at i:4706023 original size:31 final size:32
Alignment explanation
Indices: 4705965--4706026 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
4705955 ACACACCCAG
*
4705965 ATGTATCGATACATATTGCTTAGTATCGATAA
1 ATGTATCGATACATATTGCATAGTATCGATAA
*
4705997 ATGTATCGATACATGTT-CATAGTATCGATA
1 ATGTATCGATACATATTGCATAGTATCGATA
4706027 CACCTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
ATGTATCGATACATATTGCATAGTATCGATAA
Found at i:4707152 original size:13 final size:13
Alignment explanation
Indices: 4707134--4707159 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4707124 CAATTTTTTG
4707134 TGTATCGATACAT
1 TGTATCGATACAT
4707147 TGTATCGATACAT
1 TGTATCGATACAT
4707160 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4707920 original size:21 final size:20
Alignment explanation
Indices: 4707878--4707916 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4707868 TATTAATAAA
4707878 TCTCCCCCTTAATCAAGTAT
1 TCTCCCCCTTAATCAAGTAT
4707898 TCTCCCCCTTAATCAAGTA
1 TCTCCCCCTTAATCAAGTA
4707917 ATTCATATCA
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:0.26, C:0.36, G:0.05, T:0.33
Consensus pattern (20 bp):
TCTCCCCCTTAATCAAGTAT
Found at i:4708093 original size:21 final size:20
Alignment explanation
Indices: 4708069--4708115 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
4708059 AATAGATTAA
4708069 AAAT-CAAAGTACAATGCAAAT
1 AAATACAAAGT-CAA-GCAAAT
*
4708090 AAATACAAGGTCAAGCAAAT
1 AAATACAAAGTCAAGCAAAT
4708110 ACAATA
1 A-AATA
4708116 AACACTAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.57, C:0.15, G:0.11, T:0.17
Consensus pattern (20 bp):
AAATACAAAGTCAAGCAAAT
Found at i:4711836 original size:15 final size:15
Alignment explanation
Indices: 4711800--4711837 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
4711790 TTCATCAATT
* *
4711800 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
4711815 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
4711830 TCATTTTG
1 TCATTTTG
4711838 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Done.