Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 199 of 214
Found at i:58275810 original size:30 final size:31
Alignment explanation
Indices: 58275776--58275835 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
58275766 AAACCTTTTA
*
58275776 TTTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
* *
58275806 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCA
58275836 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:58275948 original size:16 final size:17
Alignment explanation
Indices: 58275927--58275958 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
58275917 ACTTTCCCTC
58275927 AAACTTTT-ATTTTCCA
1 AAACTTTTAATTTTCCA
58275943 AAACTTTTAATTTTCC
1 AAACTTTTAATTTTCC
58275959 CCTAAACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (17 bp):
AAACTTTTAATTTTCCA
Found at i:58276593 original size:10 final size:10
Alignment explanation
Indices: 58276580--58276605 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
58276570 CTCGAAAATT
58276580 TTCGATTCAA
1 TTCGATTCAA
58276590 TTCGATTCAA
1 TTCGATTCAA
58276600 TTCGAT
1 TTCGAT
58276606 CGAATGCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (10 bp):
TTCGATTCAA
Found at i:58279105 original size:15 final size:17
Alignment explanation
Indices: 58279076--58279109 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
58279066 AAATAATTAT
58279076 ATTATATATACTAAAAA
1 ATTATATATACTAAAAA
58279093 ATTATAT-TA-TAAAAA
1 ATTATATATACTAAAAA
58279108 AT
1 AT
58279110 AAATTATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 2 0.12
17 7 0.41
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTATATATACTAAAAA
Found at i:58279112 original size:22 final size:23
Alignment explanation
Indices: 58279065--58279112 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
58279055 ATTACGGAAA
* * *
58279065 AAAATAATTATATTATATATACT
1 AAAATAATTATATTATAAAAAAT
58279088 AAAA-AATTATATTATAAAAAAT
1 AAAATAATTATATTATAAAAAAT
58279110 AAA
1 AAA
58279113 TTATGTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAATTATATTATAAAAAAT
Found at i:58281148 original size:6 final size:6
Alignment explanation
Indices: 58281137--58281171 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
58281127 ACATGTTATG
58281137 GATGGT GATGGT GATGGT GATGGT GATGGT GATGG
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGG
58281172 GGGGGGATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.31
Consensus pattern (6 bp):
GATGGT
Found at i:58284389 original size:3 final size:3
Alignment explanation
Indices: 58284381--58284421 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
58284371 CTTACTCCTT
58284381 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
58284422 TCTCTCAGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:58286086 original size:18 final size:18
Alignment explanation
Indices: 58286059--58286117 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
58286049 TATATTATAA
*
58286059 TAATAGTTATATATGTAT
1 TAATAATTATATATGTAT
58286077 TAATAATTATATAT-TA-
1 TAATAATTATATATGTAT
*
58286093 TAAT-ATTATTTTATGTAT
1 TAATAATTA-TATATGTAT
58286111 TAATAAT
1 TAATAAT
58286118 ATACTAATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 4 0.11
16 8 0.23
17 4 0.11
18 17 0.49
19 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
TAATAATTATATATGTAT
Found at i:58286108 original size:34 final size:37
Alignment explanation
Indices: 58286049--58286117 Score: 108
Period size: 34 Copynumber: 1.9 Consensus size: 37
58286039 TATTATAATC
58286049 TATATTATAATAATAGTTATATATGTATTAATAATTA
1 TATATTATAATAATAGTTATATATGTATTAATAATTA
*
58286086 TATATTATAATATTA-TT-T-TATGTATTAATAAT
1 TATATTATAATAATAGTTATATATGTATTAATAAT
58286118 ATACTAATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
34 14 0.45
35 1 0.03
36 2 0.06
37 14 0.45
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (37 bp):
TATATTATAATAATAGTTATATATGTATTAATAATTA
Found at i:58286276 original size:8 final size:8
Alignment explanation
Indices: 58286231--58286280 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
58286221 ATATATTTTA
58286231 ATAATTA-
1 ATAATTAT
58286238 ATAATTAT
1 ATAATTAT
*
58286246 ATATTTATT
1 ATAATTA-T
58286255 ATACA-TATT
1 ATA-ATTA-T
58286264 ATAATTAT
1 ATAATTAT
58286272 ATAATTAT
1 ATAATTAT
58286280 A
1 A
58286281 GTATCAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
7 7 0.19
8 17 0.46
9 13 0.35
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (8 bp):
ATAATTAT
Found at i:58289386 original size:21 final size:21
Alignment explanation
Indices: 58289362--58289433 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
58289352 TTAATAACCT
* *
58289362 TGGTCAAAATAGTTGTGGTGA
1 TGGTCAAAATTGTTATGGTGA
*
58289383 TGGTCAAAATTGTTATGGTGC
1 TGGTCAAAATTGTTATGGTGA
*
58289404 TGGTCAAAATTGTTATGATGA
1 TGGTCAAAATTGTTATGGTGA
58289425 TGGTCAAAA
1 TGGTCAAAA
58289434 GTGAGGTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.35
Consensus pattern (21 bp):
TGGTCAAAATTGTTATGGTGA
Found at i:58298603 original size:14 final size:14
Alignment explanation
Indices: 58298584--58298610 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58298574 ATTTAATCTT
58298584 TAAATATTTTTTTA
1 TAAATATTTTTTTA
58298598 TAAATATTTTTTT
1 TAAATATTTTTTT
58298611 CACCCGAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TAAATATTTTTTTA
Found at i:58307826 original size:31 final size:30
Alignment explanation
Indices: 58307782--58307895 Score: 101
Period size: 31 Copynumber: 3.8 Consensus size: 30
58307772 AAAAATGTAT
58307782 CAAATTAGAAAAAAGAGTCAAGTTTAGGTAC
1 CAAATTAG-AAAAAGAGTCAAGTTTAGGTAC
** * *
58307813 CAAATTAAGAAAAATTGTCAAATTTGGGTAC
1 CAAATT-AGAAAAAGAGTCAAGTTTAGGTAC
*
58307844 CAAATTGGACCAAAA-A---AAGTTTAGGTAC
1 CAAATTAGA--AAAAGAGTCAAGTTTAGGTAC
*
58307872 CAAATTAAGAAAAAGTGTCAAGTT
1 CAAATT-AGAAAAAGAGTCAAGTT
58307896 CAAGTACCGA
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
27 4 0.06
28 16 0.25
29 2 0.03
30 2 0.03
31 35 0.54
32 6 0.09
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.25
Consensus pattern (30 bp):
CAAATTAGAAAAAGAGTCAAGTTTAGGTAC
Found at i:58321656 original size:25 final size:25
Alignment explanation
Indices: 58321628--58321720 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 25
58321618 TTTCTGTTAT
58321628 TTGGCTCTCACGAGCTTCTCGATAA
1 TTGGCTCTCACGAGCTTCTCGATAA
* * *
58321653 TTGGCCCTCATGAGCTTCCCGATTAA
1 TTGGCTCTCACGAGCTTCTCGA-TAA
*
58321679 -TGGCTCTC-CGGAGCTTCTTGAT-A
1 TTGGCTCTCAC-GAGCTTCTCGATAA
* *
58321702 TATGGCTCGCAAGAGCTTC
1 T-TGGCTCTCACGAGCTTC
58321721 CCAATATACG
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 49 0.91
26 3 0.06
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (25 bp):
TTGGCTCTCACGAGCTTCTCGATAA
Found at i:58321796 original size:25 final size:25
Alignment explanation
Indices: 58321700--58321797 Score: 74
Period size: 25 Copynumber: 3.9 Consensus size: 25
58321690 AGCTTCTTGA
*
58321700 TATATGGCTCGCAAGAGCTTCCCAA
1 TATATGGCTCGCAAGAGCTTCCCAT
* *
58321725 TATACGGCTCG-AATGAGCTTCCCGT
1 TATATGGCTCGCAA-GAGCTTCCCAT
** * * * *
58321750 TAT-TCAACTCACATGAGTTTCCCCT
1 TATAT-GGCTCGCAAGAGCTTCCCAT
*
58321775 TATATGGCTCGGAAGAGCTTCCC
1 TATATGGCTCGCAAGAGCTTCCC
58321798 GTTTACATGT
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
24 2 0.04
25 49 0.92
26 2 0.04
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (25 bp):
TATATGGCTCGCAAGAGCTTCCCAT
Found at i:58322820 original size:11 final size:11
Alignment explanation
Indices: 58322806--58322844 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
58322796 TTAAAAAATA
58322806 TATAAATTAAT
1 TATAAATTAAT
*
58322817 TATAAAGTATAT
1 TATAAATTA-AT
58322829 TATTAAATTAAT
1 TA-TAAATTAAT
58322841 TATA
1 TATA
58322845 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:58322856 original size:14 final size:17
Alignment explanation
Indices: 58322824--58322861 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
58322814 AATTATAAAG
58322824 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
58322841 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
58322855 TATATTA
1 TATATTA
58322862 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:58326234 original size:25 final size:25
Alignment explanation
Indices: 58326200--58326327 Score: 160
Period size: 25 Copynumber: 5.3 Consensus size: 25
58326190 TACATCAATA
58326200 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
58326225 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
58326248 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
58326273 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
58326296 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
58326321 ATTAAAA
1 ATTAAAA
58326328 ATCACGAAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 16
0.78 0.07 0.14
Matches are distributed among these distances:
23 38 0.44
24 4 0.05
25 45 0.52
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:58326249 original size:48 final size:48
Alignment explanation
Indices: 58326193--58326327 Score: 270
Period size: 48 Copynumber: 2.8 Consensus size: 48
58326183 TAAAAATTAC
58326193 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
58326241 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
58326289 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
58326328 ATCACGAAAT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.50, C:0.06, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:58326251 original size:23 final size:23
Alignment explanation
Indices: 58326193--58326310 Score: 132
Period size: 23 Copynumber: 5.0 Consensus size: 23
58326183 TAAAAATTAC
58326193 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
58326218 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
58326241 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
58326266 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
58326289 ATCAATAATTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
58326311 TTAATATTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
23 39 0.49
24 4 0.05
25 36 0.46
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (23 bp):
ATCAATAATTAAAATAAGGACTA
Found at i:58326684 original size:16 final size:16
Alignment explanation
Indices: 58326663--58326698 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
58326653 ATTGATAGTG
58326663 TGTTCTAATTTTAATA
1 TGTTCTAATTTTAATA
58326679 TGTTCTAATTTTAATA
1 TGTTCTAATTTTAATA
58326695 TGTT
1 TGTT
58326699 GCAGTAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (16 bp):
TGTTCTAATTTTAATA
Found at i:58329720 original size:92 final size:91
Alignment explanation
Indices: 58329563--58329771 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
58329553 TTGATTTTAG
* * * *
58329563 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTGTTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
58329628 ATTTAA-TATTAATTATTTTAAATTGTA
65 ATATAATTATT-ATTATTTTAAATTATA
*
58329655 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
58329719 TATATAATTATTATTATTTTAAATTATA
64 TATATAATTATTATTATTTTAAATTATA
* * * *
58329747 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
58329772 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 69 0.67
93 4 0.04
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TATAATTATTATTATTTTAAATTATA
Found at i:58329925 original size:120 final size:120
Alignment explanation
Indices: 58329787--58330319 Score: 946
Period size: 120 Copynumber: 4.4 Consensus size: 120
58329777 AATTATTTTA
* * * * *
58329787 AATTTTATTAAATCATATATTTTAAATAAAATAGATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
58329849 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
58329907 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
58329972 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
58330027 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
58330092 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
58330147 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
58330212 ACAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
58330267 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
58330320 TAAAAATGAT
Statistics
Matches: 401, Mismatches: 9, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
119 6 0.01
120 393 0.98
121 2 0.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:58329947 original size:15 final size:15
Alignment explanation
Indices: 58329912--58329963 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
58329902 TTAAGAATTT
*
58329912 TATTAAATTAT-ATA
1 TATTTAATTATAATA
58329926 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
58329940 TATTTAATAATAAT-
1 TATTTAATTATAATA
58329954 TATGTTAATT
1 TAT-TTAATT
58329964 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:58330067 original size:15 final size:15
Alignment explanation
Indices: 58330032--58330083 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
58330022 TTAAGAATTT
*
58330032 TATTAAATTAT-ATA
1 TATTTAATTATAATA
58330046 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
58330060 TATTTAATAATAAT-
1 TATTTAATTATAATA
58330074 TATGTTAATT
1 TAT-TTAATT
58330084 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:58330302 original size:16 final size:16
Alignment explanation
Indices: 58330281--58330322 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
58330271 TTATTAAATT
*
58330281 ATATATTTTAATTATA
1 ATATATTTTAATAATA
58330297 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
58330312 AT-TATGTTTAA
1 ATATAT-TTTAA
58330323 AAATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:58330307 original size:15 final size:15
Alignment explanation
Indices: 58330272--58330313 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
58330262 TTAAGAATTT
*
58330272 TATTAAATTAT-ATA
1 TATTTAATTATAATA
58330286 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
58330300 TATTTAATAATAAT
1 TATTTAATTATAAT
58330314 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:58330415 original size:240 final size:237
Alignment explanation
Indices: 58329787--58330402 Score: 694
Period size: 240 Copynumber: 2.6 Consensus size: 237
58329777 AATTATTTTA
* * * * * **
58329787 AATTTTATTAAATCATATATTTTAAATAAAATAGATTTAATATTAATTAT-TTCAA-ATTTTCAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATA-AAT-A-
* * * * * * *
58329850 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTAT
62 TTACAG-ATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATCAATAACAATATTAC
* ** *
58329915 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
126 CAAAACAAATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATC
58329980 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
191 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
58330027 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAA--TAAATATT
* * * * * **
58330092 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
64 ACAG-ATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATCAATAACAATATTACCA
** * *
58330157 AATTATATATTTTAATTATAATATATTTAATAATTATTATGTTAATTTATATTTTACAGTATCAT
128 AAACAAATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
*
58330222 ATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAG
193 ATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
58330267 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAA-AAATGATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAATAAAT-ATT
* * *
58330331 A-A-ATTATTTATTATTGATATT-AAT-AA-TCTTATTAA-AAT-TTAAATAACAATAACAATAA
64 ACAGATCATATATTA-TGAT-TTGAATAAATTCATA-TAAGAATATT-AAT--CAATAACAAT-A
58330389 TTACCAAAACAAAT
122 TTACCAAAACAAAT
58330403 TTCTGCTAAT
Statistics
Matches: 338, Mismatches: 25, Indels: 28
0.86 0.06 0.07
Matches are distributed among these distances:
234 2 0.01
235 10 0.03
236 14 0.04
237 13 0.04
238 15 0.04
239 3 0.01
240 272 0.80
241 6 0.02
242 2 0.01
243 1 0.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (237 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATAAATATTAC
AGATCATATATTATGATTTGAATAAATTCATATAAGAATATTAATCAATAACAATATTACCAAAA
CAAATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATA
TTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:58330485 original size:152 final size:156
Alignment explanation
Indices: 58330256--58330567 Score: 506
Period size: 152 Copynumber: 2.0 Consensus size: 156
58330246 ATAAGAATAT
* * *
58330256 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
* *
58330321 AAAAATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAAAATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
58330386 T-A-A-TTACCAAAACAAATTTCTGC
131 TAACATTTACCAAAACAAATTTATGC
* *
58330409 TAATTATTAAGAATTTTATGAAATTATATATTTTAA-TAAAATGGGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
*
58330473 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAAAATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
58330538 TAATCATTTACCAAAACAAATTTATGC
131 TAA-CATTTACCAAAACAAATTTATGC
58330565 TAA
1 TAA
58330568 GGGTATTTTA
Statistics
Matches: 146, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
152 87 0.60
153 36 0.25
155 1 0.01
156 22 0.15
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
AAAAATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAACATTTACCAAAACAAATTTATGC
Found at i:58330711 original size:16 final size:16
Alignment explanation
Indices: 58330690--58330725 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
58330680 GATTTGCTAT
58330690 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58330706 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58330722 TACA
1 TACA
58330726 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58341915 original size:2 final size:2
Alignment explanation
Indices: 58341908--58341936 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
58341898 ATACCTCCAC
58341908 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
58341937 AATTAAAAAA
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:58342548 original size:24 final size:24
Alignment explanation
Indices: 58342520--58342572 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
58342510 TTTCTAGAAG
*
58342520 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
* *
58342544 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAATAT
58342568 ATTTA
1 ATTTA
58342573 ACTTACTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:58346220 original size:18 final size:18
Alignment explanation
Indices: 58346197--58346242 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
58346187 AATATAAATC
58346197 TTAAATAAATAATAG-AAA
1 TTAAATAAA-AATAGAAAA
58346215 TTAAATAAAAAT-GAAAA
1 TTAAATAAAAATAGAAAA
*
58346232 TGAAATAAAAA
1 TTAAATAAAAA
58346243 ATAAGTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 1 0.04
17 16 0.62
18 9 0.35
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.24
Consensus pattern (18 bp):
TTAAATAAAAATAGAAAA
Found at i:58351213 original size:35 final size:36
Alignment explanation
Indices: 58351165--58351233 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
58351155 ATTTGTTAGA
58351165 TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
*
58351201 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAA
58351234 ATGATTGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
Found at i:58352595 original size:20 final size:20
Alignment explanation
Indices: 58352570--58352609 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
58352560 AATATTTTCC
*
58352570 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
58352590 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
58352610 TCAGTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:58352618 original size:34 final size:35
Alignment explanation
Indices: 58352558--58352624 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
58352548 CAAACACCAG
* * *
58352558 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCAGTTTACAAAAAAGT
58352593 AAAACATTTTCCAG-AAATCAGTTTACAAAAAA
1 AAAACATTTTCCAGTAAATCAGTTTACAAAAAA
58352625 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.30
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCAGTTTACAAAAAAGT
Found at i:58353828 original size:114 final size:110
Alignment explanation
Indices: 58353533--58354024 Score: 628
Period size: 114 Copynumber: 4.4 Consensus size: 110
58353523 GATATACGAA
58353533 AAAAAAAATAAAAAAAAAA--TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
1 AAAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
* * *
58353596 C--AAAAATTTTTTTTTGT-GTGTCAGAGTCAGATTTAAAAATACG
66 CAAAAAAATTTTTTTTTTTCGTGTCAGAATCAGA-TAAAAAATACG
**
58353639 -AAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
1 AAAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
*
58353703 GAAGAAAAAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAA-ACG
66 -----CAAAAAAATTT-TTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
**
58353753 AAAAAAAATAAAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCTAGCACCCAGTGTACAGT
1 AAAAAAAAT-AAAAAAAAAA-TTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGT
58353818 ACCAAAAAAAAATTTTATTTTTTTCGTGTCAGAATCAGATAAAAAATACG
64 ACC--AAAAAAATTTT-TTTTTTTCGTGTCAGAATCAGATAAAAAATACG
*
58353868 -AAAAAAAT--AAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTGTACAGTAC
1 AAAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
** * * *
58353929 CAAAAATTTTTATTTTTTTTTTCATGTCAAAATCATATAAAAAAATACG
66 CAAAAA--AAT-TTTTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
58353978 AAAAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCC
1 -AAAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCC
58354025 ATTCAGTGGA
Statistics
Matches: 339, Mismatches: 20, Indels: 45
0.84 0.05 0.11
Matches are distributed among these distances:
105 18 0.05
107 47 0.14
109 64 0.19
110 13 0.04
111 8 0.02
112 8 0.02
113 1 0.00
114 66 0.19
115 49 0.14
116 23 0.07
117 42 0.12
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (110 bp):
AAAAAAAATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
CAAAAAAATTTTTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
Found at i:58353950 original size:224 final size:223
Alignment explanation
Indices: 58353526--58354025 Score: 669
Period size: 224 Copynumber: 2.2 Consensus size: 223
58353516 AAATACGGAT
* *
58353526 ATACGAAAAAAAA-AATAAAAAAAAA-ATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGT
1 ATACGAAAAAAAATAA-AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTGT
* *
58353589 ACAGTACCAAAAATTTTTTTTTGTGTGTCAGAGTCAGATTTAAAAATACGAAAAAAATAAAAAAA
65 ACAGTACCAAAAATTTTTTTTTGTGTGTCAGAATCAGATTAAAAAATACGAAAAAAAT-AAAAAA
*
58353654 AAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAGAAAAAAAAATTT
129 AAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACCAAGAAAAAAAAA-TT
* *
58353719 ATTTTTTTTCGTGTCAGAATCAGAT-AAAAA
193 ATTTTTTTTCATGTCAAAATCAGATAAAAAA
*
58353749 A-ACGAAAAAAAATAAAAAAAAAAATTTTTTGGGTGCTGGCCTGTCAATGGCTAGCACCCAGTGT
1 ATACGAAAAAAAATAAAAAAAAAAA-TTTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTGT
*
58353813 ACAGTACCAAAAAAAAATTTTATTTTTTTCGTGTCAGAATCAGA-TAAAAAATACGAAAAAAAT-
65 ACAGTACC----AAAAATTTT-TTTTTGT-GTGTCAGAATCAGATTAAAAAATACGAAAAAAATA
* ** ****
58353876 AAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTGTACAGTACCAA-AAATTTT
124 AAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACCAAGAAAAAAA
* *
58353939 TATT-TTTTTTTTCATGTCAAAATCATATAAAAAA
189 AATTATTTTTTTTCATGTCAAAATCAGATAAAAAA
58353973 ATACGAAAAAAAA-ATAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCA
1 ATACGAAAAAAAATA-AAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCA
58354026 TTCAGTGGAT
Statistics
Matches: 246, Mismatches: 19, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
222 20 0.08
223 24 0.10
224 79 0.32
225 25 0.10
226 44 0.18
227 8 0.03
228 9 0.04
229 24 0.10
230 13 0.05
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.27
Consensus pattern (223 bp):
ATACGAAAAAAAATAAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTGTA
CAGTACCAAAAATTTTTTTTTGTGTGTCAGAATCAGATTAAAAAATACGAAAAAAATAAAAAAAA
ATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACCAAGAAAAAAAAATTATT
TTTTTTCATGTCAAAATCAGATAAAAAA
Found at i:58354133 original size:12 final size:12
Alignment explanation
Indices: 58354116--58354140 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58354106 AACTCAGTTA
58354116 TTGGAAAGTAAT
1 TTGGAAAGTAAT
58354128 TTGGAAAGTAAT
1 TTGGAAAGTAAT
58354140 T
1 T
58354141 GACAGGCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TTGGAAAGTAAT
Found at i:58354471 original size:115 final size:115
Alignment explanation
Indices: 58354166--58354765 Score: 662
Period size: 108 Copynumber: 5.2 Consensus size: 115
58354156 TGCCAGCACC
*
58354166 AAATTTTTTTTT-TTTTTTTTCGTATTTTTTATCTGATTCTAACACGAAAAAAAAACAAAAATTT
1 AAATTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAA-AAAAA--T
* *
58354230 TTTTTTTGGTATTCTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
63 TTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
* **
58354283 AAA-----ATTTA-TTTTTTTCGTA-TTTTTATCTGATTCTGACACGAAAAAAAACAAAAAA-AA
1 AAATTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAA-AAAAAATTT
**
58354340 AATTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
65 TTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
* * *
58354391 AAATTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTTTGACACGAAAAAAAAATAAATTTTT
1 AAATTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAAAAAAATTTT
58354456 TTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCC--AA
66 TTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
* * *
58354504 AAA-------TT-TTTTTTTTCATATTTTTTTATCTAATTCTGACACGAAAAAAAATAAAAAAAA
1 AAATTTTTTTTTATTTTTTTTCGTA-TTTTTTATCTGATTCTGACACG-AAAAAAA-AAAAAAAT
* * * ** *
58354561 ATTTCTTCGTACTGTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAAA
63 TTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
* * *
58354614 AAATTTTTTTTTTAATTTTTTTTTCGTATTTTTAAATCTGACTCTGACACAAAAAAAATAAAATA
1 AAA-TTTTTTTTT-A-TTTTTTTTCGTATTTTT-TATCTGATTCTGACAC---GAAAA-AAAA-A
* * *
58354679 AAAAATTTTTTTTGGTATTGTACACAGGGTGCCGGCCATTGACAGGCTAGCACCCAAAA
57 AAAAATTTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
*
58354738 AAATTTTTTTGTTTTTTTTCTTTCGTAT
1 AAATTTTTTT-TTATTTTT-TTTCGTAT
58354766 ATCCGTATTT
Statistics
Matches: 405, Mismatches: 44, Indels: 62
0.79 0.09 0.12
Matches are distributed among these distances:
105 11 0.03
106 22 0.05
107 7 0.02
108 98 0.24
110 5 0.01
111 33 0.08
112 15 0.04
113 9 0.02
114 15 0.04
115 73 0.18
117 3 0.01
118 2 0.00
120 5 0.01
121 24 0.06
122 5 0.01
123 20 0.05
124 58 0.14
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (115 bp):
AAATTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAAAAAAATTTT
TTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
Found at i:58354561 original size:223 final size:219
Alignment explanation
Indices: 58354166--58354747 Score: 781
Period size: 223 Copynumber: 2.6 Consensus size: 219
58354156 TGCCAGCACC
* *
58354166 AAATTTTTTTTT-TTTTTTTTCGTATTTTTTATCTGATTCTAACACGAAAAAAAAACAAAAATTT
1 AAATTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACG-AAAAAAAA-ATAAA-TT
*
58354230 TTTTTTTGGTATTCTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAAATTTATTTT
63 TTTTTTTGGTATTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCC---AAAAATTT-TTTT
* * *
58354295 TTTCGTATTTTTATCTGATTCTGACACGAAAAAAAACAAAAAAAAAAT-TTGGTACTGTACACTG
124 TTTCATATTTTTATCTAATTCTGACACGAAAAAAAA-AAAAAAAAAATCTTCGTACTGTACACTG
*
58354359 GGTGCCGGCCATTGACAGGCCAGCACCCAAAA
188 GGTGCCAGCCATTGACAGGCCAGCACCCAAAA
*
58354391 AAATTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTTTGACACGAAAAAAAAATAAATTTTT
1 AAATTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAATAAATTTTT
*
58354456 TTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTCATA
66 TTTTGGTATTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTCATA
* **
58354521 TTTTTTTATCTAATTCTGACACGAAAAAAAATAAAAAAAAATTTCTTCGTACTGTGTACTGGGTG
131 --TTTTTATCTAATTCTGACACGAAAAAAAA-AAAAAAAAA-ATCTTCGTACTGTACACTGGGTG
58354586 CCAGCCATTGACAGGCCAGCACCCAAAA
192 CCAGCCATTGACAGGCCAGCACCCAAAA
* * *
58354614 AAATTTTTTTTTTAATTTTTTTTTCGTATTTTTAAATCTGACTCTGACACAAAAAAAATAAAATA
1 AAA-TTTTTTTTT-A-TTTTTTTTCGTATTTTT-TATCTGATTCTGACAC--GAAAAA-AAAAT-
* * * **
58354679 AAAAATTTTTTTTGGTATTGTACACAGGGTGCCGGCCATTGACAGGCTAGCACCCAAAAAAATTT
58 -AAATTTTTTTTTGGTATTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTT
58354744 TTTT
122 TTTT
58354748 GTTTTTTTTC
Statistics
Matches: 320, Mismatches: 23, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
219 10 0.03
220 8 0.03
221 37 0.12
222 1 0.00
223 96 0.30
224 13 0.04
225 21 0.07
226 49 0.15
227 13 0.04
229 5 0.02
230 5 0.02
232 62 0.19
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (219 bp):
AAATTTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAATAAATTTTT
TTTTGGTATTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTCATA
TTTTTATCTAATTCTGACACGAAAAAAAAAAAAAAAAAATCTTCGTACTGTACACTGGGTGCCAG
CCATTGACAGGCCAGCACCCAAAA
Found at i:58365376 original size:29 final size:30
Alignment explanation
Indices: 58365343--58365403 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
58365333 AATCTATTTC
58365343 CATACATCATTAAAATTTTA-ATAGTTTTG
1 CATACATCATTAAAATTTTAGATAGTTTTG
* ** *
58365372 CATACATTATTACTATTTTAGATATTTTTG
1 CATACATCATTAAAATTTTAGATAGTTTTG
58365402 CA
1 CA
58365404 GGGAATCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (30 bp):
CATACATCATTAAAATTTTAGATAGTTTTG
Found at i:58371668 original size:6 final size:6
Alignment explanation
Indices: 58371659--58371722 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
58371649 TAAGTCTAAG
**
58371659 AAAATA AAAATAA AGAAACTAA AAAATA AAAATA AAAATA AAGCT- AAAATA
1 AAAATA AAAAT-A A-AAA-T-A AAAATA AAAATA AAAATA AAAATA AAAATA
*
58371710 AAAAGA AAAATA A
1 AAAATA AAAATA A
58371723 TAAAAAGAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 3 0.06
6 32 0.67
7 3 0.06
8 6 0.12
9 4 0.08
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:58371690 original size:28 final size:29
Alignment explanation
Indices: 58371659--58371753 Score: 108
Period size: 28 Copynumber: 3.3 Consensus size: 29
58371649 TAAGTCTAAG
*
58371659 AAAATAAAAATAAAG-AAACTAAAAAATA
1 AAAATAAAAATAAAGAAAACTAAAAAAGA
58371687 AAAATAAAAATAAAGCTAAAA-T-AAAAAGA
1 AAAATAAAAATAAAG--AAAACTAAAAAAGA
* *
58371716 AAAATAATAA-AAAGAAAACTAAAAACGA
1 AAAATAAAAATAAAGAAAACTAAAAAAGA
*
58371744 AAAAGAAAAA
1 AAAATAAAAA
58371754 AAAACTCAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.07
27 1 0.02
28 33 0.58
29 15 0.26
30 1 0.02
31 3 0.05
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (29 bp):
AAAATAAAAATAAAGAAAACTAAAAAAGA
Found at i:58371818 original size:12 final size:12
Alignment explanation
Indices: 58371784--58371824 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
58371774 AAATTAAAGG
*
58371784 TAATAGTAAGAA
1 TAATAGTAAAAA
*
58371796 TAATACTAAAAA
1 TAATAGTAAAAA
58371808 -AATAGTAAAAA
1 TAATAGTAAAAA
58371819 TAATAG
1 TAATAG
58371825 AAATAGCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.24
Consensus pattern (12 bp):
TAATAGTAAAAA
Found at i:58376535 original size:273 final size:274
Alignment explanation
Indices: 58376047--58376586 Score: 938
Period size: 273 Copynumber: 2.0 Consensus size: 274
58376037 TTAGAATGTG
*
58376047 GCTCCTTTATGATCTCTCATGGGATTTCTTGCAGAGAAGGTTGAGCCACATGGTCACTACCATTA
1 GCTCCTTTATGATCTCTCATGGGATTTCTTGCAAAGAAGGTTGAGCCACATGGTCACTACCATTA
* *
58376112 ACAGAAGATTTAAAATCATCTTGATCACTAGATGTTATAACAGAATCACGAGCTTGTAGAGTAAT
66 ACAGAAGATTTAAAATCATCTTAATCACTAGATGTTATAACAGAATCACGAGCTTGAAGAGTAAT
*
58376177 CGATTCGTCACCTACACGAAGTATTAACTCACCCGTACCAACATCAATTATGGTTCTAGTAGTTG
131 CGATTCGTCACCTACACGAAGTATTAACTCACCCGTACCAACATCAATTATGGTTCTAGCAGTTG
58376242 CTAAAAAGGGCCACCCTAAAATT-AGGTACCTCACTGTCCTCATCCATGTCTAAAACAACAAAGT
196 CTAAAAAGGGCCACCCTAAAATTAAGGTACCTCACTGTCCTCATCCATGTCTAAAACAACAAAGT
58376306 CAACAGAATCACGA
261 CAACAGAATCACGA
*
58376320 GCTCCTTTATGATCTCTCGTGGGATTTCTTGCAAAGAAGGTTGAGCCACATGGTCACTACCATTA
1 GCTCCTTTATGATCTCTCATGGGATTTCTTGCAAAGAAGGTTGAGCCACATGGTCACTACCATTA
* *
58376385 ACAGAAGATTTAAAATCATCTTAATCATTAGATGTTATAACAGAATCATGAGCTTGAAGAGTAAT
66 ACAGAAGATTTAAAATCATCTTAATCACTAGATGTTATAACAGAATCACGAGCTTGAAGAGTAAT
* *
58376450 TGATTCGTCACCTACACGAAGTATTAACTCACCCGTACCAACATCAGTTATGGTTCTAGCAGTTG
131 CGATTCGTCACCTACACGAAGTATTAACTCACCCGTACCAACATCAATTATGGTTCTAGCAGTTG
* ** **
58376515 CTAAAAAGGGTCGTCCTAAAATTAAAGGTACCTCGTTGTCCTCATCCATGTCTAAAACAACAAAG
196 CTAAAAAGGGCCACCCTAAAATT-AAGGTACCTCACTGTCCTCATCCATGTCTAAAACAACAAAG
58376580 TCAACAG
260 TCAACAG
58376587 GGAATATGAA
Statistics
Matches: 251, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
273 206 0.82
275 45 0.18
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (274 bp):
GCTCCTTTATGATCTCTCATGGGATTTCTTGCAAAGAAGGTTGAGCCACATGGTCACTACCATTA
ACAGAAGATTTAAAATCATCTTAATCACTAGATGTTATAACAGAATCACGAGCTTGAAGAGTAAT
CGATTCGTCACCTACACGAAGTATTAACTCACCCGTACCAACATCAATTATGGTTCTAGCAGTTG
CTAAAAAGGGCCACCCTAAAATTAAGGTACCTCACTGTCCTCATCCATGTCTAAAACAACAAAGT
CAACAGAATCACGA
Found at i:58378614 original size:20 final size:20
Alignment explanation
Indices: 58378589--58378626 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58378579 AAATATAATG
58378589 TAAAAATTA-AACTAAAAAAA
1 TAAAAATTATAA-TAAAAAAA
58378609 TAAAAATTATAATAAAAA
1 TAAAAATTATAATAAAAA
58378627 TGGCTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAATTATAATAAAAAAA
Found at i:58380263 original size:18 final size:18
Alignment explanation
Indices: 58380240--58380275 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58380230 TAAATTATTG
58380240 TTATAACTTTATAAAATA
1 TTATAACTTTATAAAATA
58380258 TTATAACTTTATAAAATA
1 TTATAACTTTATAAAATA
58380276 AACATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
TTATAACTTTATAAAATA
Found at i:58384612 original size:23 final size:26
Alignment explanation
Indices: 58384565--58384613 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
58384555 TCAATCACAA
58384565 TTTCTCACATTTTCAATTCAATAATT
1 TTTCTCACATTTTCAATTCAATAATT
58384591 TTTC-CAC-TTTTCAA-TCAATAATT
1 TTTCTCACATTTTCAATTCAATAATT
58384614 AATCCGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.39
24 7 0.30
25 3 0.13
26 4 0.17
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTCTCACATTTTCAATTCAATAATT
Found at i:58384779 original size:6 final size:6
Alignment explanation
Indices: 58384768--58384823 Score: 67
Period size: 6 Copynumber: 9.3 Consensus size: 6
58384758 CTCATCTTAG
* * * *
58384768 TAATAA TAATAA TACTAA TAATAA TACTAA TAATAA TACTAA TACTAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
*
58384816 TATTAA TA
1 TAATAA TA
58384824 CTTACCTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (6 bp):
TAATAA
Found at i:58384825 original size:12 final size:12
Alignment explanation
Indices: 58384771--58384823 Score: 88
Period size: 12 Copynumber: 4.4 Consensus size: 12
58384761 ATCTTAGTAA
58384771 TAATAATAATAC
1 TAATAATAATAC
58384783 TAATAATAATAC
1 TAATAATAATAC
58384795 TAATAATAATAC
1 TAATAATAATAC
* *
58384807 TAATACTAATAT
1 TAATAATAATAC
58384819 TAATA
1 TAATA
58384824 CTTACCTCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:58384825 original size:18 final size:18
Alignment explanation
Indices: 58384768--58384823 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
58384758 CTCATCTTAG
*
58384768 TAATAATAATAATACTAA
1 TAATAATACTAATACTAA
*
58384786 TAATAATACTAATAATAA
1 TAATAATACTAATACTAA
* *
58384804 TACTAATACTAATATTAA
1 TAATAATACTAATACTAA
58384822 TA
1 TA
58384824 CTTACCTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATAATACTAATACTAA
Found at i:58385496 original size:11 final size:11
Alignment explanation
Indices: 58385480--58385505 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58385470 TCTTTCTTTC
58385480 TTTCTCCCCTG
1 TTTCTCCCCTG
58385491 TTTCTCCCCTG
1 TTTCTCCCCTG
58385502 TTTC
1 TTTC
58385506 GTTTCGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:58385585 original size:16 final size:16
Alignment explanation
Indices: 58385561--58385602 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
58385551 TGTTTTATGT
*
58385561 ATATAATAATAATATA
1 ATATAATAACAATATA
*
58385577 ATATTATAACAATATA
1 ATATAATAACAATATA
58385593 ATATAATAAC
1 ATATAATAAC
58385603 TTACTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAATAACAATATA
Found at i:58387854 original size:50 final size:50
Alignment explanation
Indices: 58387787--58387942 Score: 240
Period size: 50 Copynumber: 3.1 Consensus size: 50
58387777 GAGGTACATG
*
58387787 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCT
1 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCA
* *
58387837 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGACA
1 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCA
** * * *
58387887 TTGGCACCGAGATGAGAACTCCCATGTAAGATCATATTTGGGATATGGCA
1 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCA
58387937 TTGGCA
1 TTGGCA
58387943 GTACAAAAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 96 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCA
Found at i:58387977 original size:48 final size:49
Alignment explanation
Indices: 58387806--58387988 Score: 165
Period size: 50 Copynumber: 3.7 Consensus size: 49
58387796 AGATGAGAGG
* * * * * **
58387806 TCCCATGTAAGACCATATCTGGGACATGGCTTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATAAAAAC
* * * *
58387856 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATAAAAAC
* * * *
58387906 TCCCATGTAAGATCATATTTGGGATATGGCATTGGCA-GTACA-AAAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACATAAAAAC
*
58387954 AT-CCATGTAAGACCATGTCTGGGACATGGCTTTGG
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
58387989 TATGTTATTA
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
48 33 0.29
49 3 0.03
50 77 0.68
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACATAAAAAC
Found at i:58390259 original size:11 final size:11
Alignment explanation
Indices: 58390243--58390286 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
58390233 TTATATACTA
58390243 AATAAAATATT
1 AATAAAATATT
58390254 AATAAAATATATT
1 AAT-AAA-ATATT
*
58390267 ATTAAAATATT
1 AATAAAATATT
58390278 AATAAAATA
1 AATAAAATA
58390287 ATATTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAAAATATT
Found at i:58390267 original size:13 final size:13
Alignment explanation
Indices: 58390249--58390291 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
58390239 ACTAAATAAA
58390249 ATATTAATAAAAT
1 ATATTAATAAAAT
*
58390262 ATATT-ATTAAA-
1 ATATTAATAAAAT
58390273 ATATTAATAAAAT
1 ATATTAATAAAAT
58390286 AATATT
1 -ATATT
58390292 TTTCTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 5 0.20
12 10 0.40
13 5 0.20
14 5 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATTAATAAAAT
Found at i:58390273 original size:24 final size:25
Alignment explanation
Indices: 58390245--58390291 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
58390235 ATATACTAAA
58390245 TAAAATATTAATAAAAT-ATATTAT
1 TAAAATATTAATAAAATAATATTAT
58390269 TAAAATATTAATAAAATAATATT
1 TAAAATATTAATAAAATAATATT
58390292 TTTCTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TAAAATATTAATAAAATAATATTAT
Found at i:58398616 original size:21 final size:21
Alignment explanation
Indices: 58398578--58398618 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
58398568 TTACCTAGGG
* *
58398578 TGTGAATTGGATGGAATTGAA
1 TGTGAATTGCATGAAATTGAA
*
58398599 TGTGAATTGCATTAAATTGA
1 TGTGAATTGCATGAAATTGA
58398619 GTTAAATTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (21 bp):
TGTGAATTGCATGAAATTGAA
Found at i:58399237 original size:23 final size:24
Alignment explanation
Indices: 58399212--58399308 Score: 83
Period size: 23 Copynumber: 4.1 Consensus size: 24
58399202 AGTTACTTGT
*
58399212 TAAGCTC-AATGAGCTTCCTGTTT
1 TAAGCTCGAATGAGCTTCCTGTTA
* ** *
58399235 TAAACTCTTATGAGTTTCCTGTTA
1 TAAGCTCGAATGAGCTTCCTGTTA
*
58399259 T-AGCTCGGATGAGCTTCCTGTTA
1 TAAGCTCGAATGAGCTTCCTGTTA
* *
58399282 CATGGCTC-ACATGAGCTTCCTGTTA
1 TA-AGCTCGA-ATGAGCTTCCTGTTA
58399307 TA
1 TA
58399309 TGGCTCGAGA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
23 24 0.41
24 14 0.24
25 20 0.34
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (24 bp):
TAAGCTCGAATGAGCTTCCTGTTA
Found at i:58399241 original size:45 final size:47
Alignment explanation
Indices: 58399192--58399280 Score: 119
Period size: 45 Copynumber: 1.9 Consensus size: 47
58399182 CCCTGATAAT
* *
58399192 AACTCTTCGGAGTTACTTGTTA-AGCTC-AATGAGCTTCCTGTTTTA
1 AACTCTTAGGAGTTACCTGTTATAGCTCGAATGAGCTTCCTGTTTTA
* * *
58399237 AACTCTTATGAGTTTCCTGTTATAGCTCGGATGAGCTTCCTGTT
1 AACTCTTAGGAGTTACCTGTTATAGCTCGAATGAGCTTCCTGTT
58399281 ACATGGCTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 18 0.49
46 5 0.14
47 14 0.38
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.40
Consensus pattern (47 bp):
AACTCTTAGGAGTTACCTGTTATAGCTCGAATGAGCTTCCTGTTTTA
Found at i:58399247 original size:24 final size:23
Alignment explanation
Indices: 58399220--58399308 Score: 70
Period size: 25 Copynumber: 3.7 Consensus size: 23
58399210 GTTAAGCTCA
* **
58399220 ATGAGCTTCCTGTTTTAAACTCTT
1 ATGAGCTTCCTGTTAT-AACTCGG
* *
58399244 ATGAGTTTCCTGTTATAGCTCGG
1 ATGAGCTTCCTGTTATAACTCGG
** **
58399267 ATGAGCTTCCTGTTACATGGCTCAC
1 ATGAGCTTCCTGTT--ATAACTCGG
58399292 ATGAGCTTCCTGTTATA
1 ATGAGCTTCCTGTTATA
58399309 TGGCTCGAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
23 19 0.36
24 14 0.26
25 20 0.38
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.39
Consensus pattern (23 bp):
ATGAGCTTCCTGTTATAACTCGG
Found at i:58399295 original size:25 final size:25
Alignment explanation
Indices: 58399267--58399314 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
58399257 TATAGCTCGG
58399267 ATGAGCTTCCTGTTACATGGCTCAC
1 ATGAGCTTCCTGTTACATGGCTCAC
*
58399292 ATGAGCTTCCTGTTATATGGCTC
1 ATGAGCTTCCTGTTACATGGCTC
58399315 GAGAGAGTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCTGTTACATGGCTCAC
Found at i:58401735 original size:15 final size:15
Alignment explanation
Indices: 58401715--58401759 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
58401705 TTACTTCAAG
58401715 TTATATTTTAATTAT
1 TTATATTTTAATTAT
* *
58401730 TTATATTTAAAATA-
1 TTATATTTTAATTAT
*
58401744 TTATATTTTAGTTAT
1 TTATATTTTAATTAT
58401759 T
1 T
58401760 CGCGTTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:58401759 original size:14 final size:14
Alignment explanation
Indices: 58401715--58401759 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
58401705 TTACTTCAAG
58401715 TTATATTTTAATTA
1 TTATATTTTAATTA
* *
58401729 TTTATATTTAAAATA
1 -TTATATTTTAATTA
*
58401744 TTATATTTTAGTTA
1 TTATATTTTAATTA
58401758 TT
1 TT
58401760 CGCGTTATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
TTATATTTTAATTA
Found at i:58415391 original size:40 final size:39
Alignment explanation
Indices: 58415346--58415423 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 39
58415336 ATTTTTTTTC
*
58415346 AAAAAAATTATAAAAACTA-TTTTTAAGATTTAAAAAAATAT
1 AAAAAAAGTA-AAAAA-TATTTTTTAA-ATTTAAAAAAATAT
*
58415387 AAAAAAAGTAAAAAATATTTTTTAAATTTTAAAAAAT
1 AAAAAAAGTAAAAAATATTTTTTAAATTTAAAAAAAT
58415424 TAATTAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 13 0.38
40 12 0.35
41 9 0.26
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (39 bp):
AAAAAAAGTAAAAAATATTTTTTAAATTTAAAAAAATAT
Found at i:58421463 original size:2 final size:2
Alignment explanation
Indices: 58421458--58421485 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
58421448 AGAGAGCTCC
58421458 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
58421486 AACAGACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:58422040 original size:29 final size:29
Alignment explanation
Indices: 58421998--58422057 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
58421988 ATCTAATCTT
58421998 ACTTTTATCACTATTTTTATTAAGTGTAA
1 ACTTTTATCACTATTTTTATTAAGTGTAA
58422027 ACTTTTATCACTATTTTTATTAAGTGTAA
1 ACTTTTATCACTATTTTTATTAAGTGTAA
58422056 AC
1 AC
58422058 GCACGTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.50
Consensus pattern (29 bp):
ACTTTTATCACTATTTTTATTAAGTGTAA
Found at i:58422105 original size:12 final size:12
Alignment explanation
Indices: 58422088--58422112 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58422078 CCTTAATCTC
58422088 TTTGTTCTGTCA
1 TTTGTTCTGTCA
58422100 TTTGTTCTGTCA
1 TTTGTTCTGTCA
58422112 T
1 T
58422113 GTACTCCGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (12 bp):
TTTGTTCTGTCA
Found at i:58424575 original size:21 final size:22
Alignment explanation
Indices: 58424536--58424577 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
58424526 ATTTCTTTTA
* *
58424536 TTTTTTTAACAAAATTTTAAGG
1 TTTTTTGAACAAAAATTTAAGG
58424558 TTTTTTGAA-AAAAATTTAAG
1 TTTTTTGAACAAAAATTTAAG
58424578 AATGATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (22 bp):
TTTTTTGAACAAAAATTTAAGG
Found at i:58434590 original size:26 final size:26
Alignment explanation
Indices: 58434533--58434583 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
58434523 CTTGTTATAT
*
58434533 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCAATTAAA
* *
58434559 GGCTCTTTGTGAGCTTCCTAATTAA
1 GGCTCTTCGTGAGCTTCCCAATTAA
58434584 TAGCTCTCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCAATTAAA
Found at i:58439299 original size:19 final size:19
Alignment explanation
Indices: 58439275--58439311 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
58439265 CACGTCAGTG
*
58439275 CTCTCTGATTACTAGCACA
1 CTCTCTGATCACTAGCACA
58439294 CTCTCTGATCACTAGCAC
1 CTCTCTGATCACTAGCAC
58439312 GTTAGTGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.30
Consensus pattern (19 bp):
CTCTCTGATCACTAGCACA
Found at i:58439332 original size:22 final size:22
Alignment explanation
Indices: 58439306--58439351 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
58439296 CTCTGATCAC
*
58439306 TAGCACGTTAGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCCGTT
* *
58439328 TAGCACATTTGTGCTCTCTGTT
1 TAGCACATTAGTGCTCTCCGTT
58439350 TA
1 TA
58439352 ATAGTGCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCCGTT
Found at i:58449209 original size:50 final size:50
Alignment explanation
Indices: 58449150--58449316 Score: 138
Period size: 50 Copynumber: 3.2 Consensus size: 50
58449140 TATCCCGGAT
* ** * *
58449150 ATGGTCTTACATGAAAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACAGGAAACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* ** *
58449200 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACAGGAAACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * * * *
58449250 ATGGTCTTATATGG-GACCTTTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACA-GGAAACCTCTCAT-A--TC---GGTGCCAACGCCATGTCCCAGAC
58449306 ATGGTCTTACA
1 ATGGTCTTACA
58449317 TTGGATCTCA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
50 59 0.63
51 2 0.02
53 2 0.02
56 31 0.33
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACAGGAAACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
Found at i:58463278 original size:6 final size:6
Alignment explanation
Indices: 58463253--58463301 Score: 80
Period size: 6 Copynumber: 7.8 Consensus size: 6
58463243 CCAAACACTC
58463253 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
58463302 TTCAACACAC
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
6 30 0.73
7 11 0.27
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:58463331 original size:45 final size:45
Alignment explanation
Indices: 58463279--58463463 Score: 257
Period size: 45 Copynumber: 4.1 Consensus size: 45
58463269 GTAACAGTAA
* * *
58463279 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAC
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * *
58463324 CTGTAACAGTAACTGTAACAGTATTCGACACACAAAGTGCCGAGT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
*
58463369 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCAAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * *
58463414 CAGTAACAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG-AT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAAT
58463458 CAGTAA
1 CAGTAA
58463464 GCCGGCAAAT
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
44 15 0.12
45 110 0.88
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:58465456 original size:46 final size:45
Alignment explanation
Indices: 58465345--58465654 Score: 354
Period size: 46 Copynumber: 7.2 Consensus size: 45
58465335 TACGTATAAT
*
58465345 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
** * *
58465388 GTCTTATCACTTTTTCACTTGATCAGATAAATGTAGCTAAGGGTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
58465434 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
58465480 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
58465526 GACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
58465562 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
58465598 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
58465644 CACTTATCACT
1 CACTTATCACT
58465655 CCATCTCTTG
Statistics
Matches: 238, Mismatches: 16, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
36 64 0.27
38 3 0.01
40 2 0.01
41 2 0.01
42 2 0.01
43 8 0.03
44 7 0.03
45 20 0.08
46 130 0.55
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:58465568 original size:36 final size:36
Alignment explanation
Indices: 58465527--58465634 Score: 198
Period size: 36 Copynumber: 3.0 Consensus size: 36
58465517 TAAAGCTACG
*
58465527 ACTTATCACTTTGTCACTTGATCAGATAAGTATAGC
1 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
58465563 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
1 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
*
58465599 ACTTATCACTTTTTCACTTGATCAGATAAGTGTAGC
1 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
58465635 TAAAGCTACC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 70 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (36 bp):
ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
Found at i:58469927 original size:15 final size:16
Alignment explanation
Indices: 58469907--58469939 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
58469897 TGATTCTGTC
58469907 ATAAAAAGG-GTAGTG
1 ATAAAAAGGAGTAGTG
58469922 ATAAAAAGGAGTAGTG
1 ATAAAAAGGAGTAGTG
58469938 AT
1 AT
58469940 GGGAGCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (16 bp):
ATAAAAAGGAGTAGTG
Found at i:58472027 original size:6 final size:6
Alignment explanation
Indices: 58472027--58472064 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
58472017 GATTTTTATT
*
58472027 TTTTTA TTTTTA TTTTTA CTTTTA TTTTT- TTATTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TT
58472065 CTCATTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 2 0.07
6 24 0.86
7 2 0.07
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:58472041 original size:20 final size:20
Alignment explanation
Indices: 58472018--58472061 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
58472008 ATATACATAG
*
58472018 ATTTTTATTTTTTTATTTTT
1 ATTTTTACTTTTTTATTTTT
58472038 ATTTTTACTTTTATT-TTTTT
1 ATTTTTACTTTT-TTATTTTT
58472058 ATTT
1 ATTT
58472062 ATTCTCATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (20 bp):
ATTTTTACTTTTTTATTTTT
Found at i:58472472 original size:109 final size:108
Alignment explanation
Indices: 58472269--58472608 Score: 493
Period size: 109 Copynumber: 3.1 Consensus size: 108
58472259 TACGCATATT
* * * *
58472269 AATATCCTTTTAAAAAAATTCAAAGTAAGACAATGTTTTGCATTTGAAAATTCGAGAAAACGTGC
1 AATATCCTTTT-AAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGC
* *
58472334 CCTAATGCGCTGGGTTTCCATTTTTCTCGTTCGACCAAATAGCCA
65 CCTAATGTGCTGGGTTTCGA-TTTTCTCGTTCGACCAAATAGCCA
* *
58472379 AATAACCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
*
58472444 CTAATGTGCTGAGTTTCGATTTTACTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTT-CTCGTTCGACCAAATAGCCA
* * * *
58472488 AATATCCTTTTAGAAATATCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
* * *
58472553 CTAATGTGTTGGGTTTCGA-TTTCTCGTTGGACCAAATAGGCA
66 CTAATGTGCTGGGTTTCGATTTTCTCGTTCGACCAAATAGCCA
*
58472595 AATATCCTCTTAAA
1 AATATCCTTTTAAA
58472609 TCTTAATCCA
Statistics
Matches: 208, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
107 30 0.14
108 7 0.03
109 161 0.77
110 10 0.05
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (108 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTCTCGTTCGACCAAATAGCCA
Found at i:58479134 original size:12 final size:12
Alignment explanation
Indices: 58479119--58479143 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58479109 TCAATTCCAT
58479119 ATTCAAAGAAGA
1 ATTCAAAGAAGA
58479131 ATTCAAAGAAGA
1 ATTCAAAGAAGA
58479143 A
1 A
58479144 AGTATATCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (12 bp):
ATTCAAAGAAGA
Found at i:58484273 original size:99 final size:99
Alignment explanation
Indices: 58484101--58484701 Score: 819
Period size: 99 Copynumber: 6.1 Consensus size: 99
58484091 TTACCCATGC
** * *
58484101 CCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCTGACATTACAAT
1 CCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAAT
*
58484166 TAAAAGATTAAGGCCACAACGGCAAATCTTACTT
66 TAAAAGATTAAGGCCACAACGGCGAATCTTACTT
* * *
58484200 CCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGATGAATCTTACTTCCCCGACATTGCAAT
1 CCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAAT
* * * *
58484265 TAATAGATTAGGGCCACAACGGTGAATCTTATTT
66 TAAAAGATTAAGGCCACAACGGCGAATCTTACTT
* * *
58484299 CCCTGGCGGTGCAGTGGAATAGATTGAAGCTACAACGACGCATCTTGCTTCCCCGACATTGCAGT
1 CCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAAT
*
58484364 TAAAAGATTGAGGCCACAACGGCGAATCTTA-TT
66 TAAAAGATTAAGGCCACAACGGCGAATCTTACTT
* * * *
58484397 TCCTAGGTGGTGCACTGGAATAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAA
1 CCCT-GGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAA
* *
58484462 TTAAAAGATTGAGGCCACAATGGCGAATCTTACTT
65 TTAAAAGATTAAGGCCACAACGGCGAATCTTACTT
* * * * *
58484497 CCCTAGAGGTGCAGTGGAACAGATTGAAGCTAAAACGGCAAATCTTGCTTCCCCGACATTGCAAT
1 CCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAAT
* ** *
58484562 TAAAAGATTGAGGCCACAAATGCAAATCTTACTT
66 TAAAAGATTAAGGCCACAACGGCGAATCTTACTT
* * *
58484596 CCTTGGCGGTGCAGTGGAACAAATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAAT
1 CCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAAT
* * * *
58484661 TAAATAGATTGAA-GCTACAACAGTGAATTTTACTT
66 TAAA-AGATT-AAGGCCACAACGGCGAATCTTACTT
58484696 CCCTGG
1 CCCTGG
58484702 TGAATAGATT
Statistics
Matches: 447, Mismatches: 51, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
98 5 0.01
99 410 0.92
100 31 0.07
101 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (99 bp):
CCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCCCCGACATTGCAAT
TAAAAGATTAAGGCCACAACGGCGAATCTTACTT
Found at i:58486885 original size:109 final size:108
Alignment explanation
Indices: 58486685--58486996 Score: 495
Period size: 109 Copynumber: 2.9 Consensus size: 108
58486675 TTTAAAAAAA
* * **
58486685 TCAAAGTAAGGCAATGTTTTGCGGTTGGAAATTCGAGAAAAC-TGCCCTAATGCACTGGGTTTCG
1 TCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
*
58486749 ATTTTTCTCGTTTGACCAAATAGCCAAATATCATTTTCA-AAATT
66 A-TTTTCTCGTTCGACCAAATAGCCAAATATCATTTT-AGAAATT
58486793 TCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
1 TCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
*
58486858 ATTTTACTCGTTCGACCAAATAGCCAAATATCCTTTTAGAAATT
66 ATTTT-CTCGTTCGACCAAATAGCCAAATATCATTTTAGAAATT
* *
58486902 TCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTTTCG
1 TCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
*
58486967 A-TTTCTCGTTGGACCAAATAGCCAAATATC
66 ATTTTCTCGTTCGACCAAATAGCCAAATATC
58486997 CTCTTAAATC
Statistics
Matches: 192, Mismatches: 9, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
107 25 0.13
108 48 0.25
109 119 0.62
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (108 bp):
TCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
ATTTTCTCGTTCGACCAAATAGCCAAATATCATTTTAGAAATT
Found at i:58488717 original size:35 final size:35
Alignment explanation
Indices: 58488646--58488718 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
58488636 AAGAAAATGA
**
58488646 ATAAAATTATAAAAATATAAAAGATATATATGTGT
1 ATAAAATTATAAAAATATAAAAGATATATACATGT
**
58488681 ATAAAATTATGGAAATATGAAAA-ATATATACATGT
1 ATAAAATTATAAAAATAT-AAAAGATATATACATGT
58488716 ATA
1 ATA
58488719 CATATTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.33
Consensus pattern (35 bp):
ATAAAATTATAAAAATATAAAAGATATATACATGT
Found at i:58488906 original size:12 final size:12
Alignment explanation
Indices: 58488889--58488916 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
58488879 ATGAAAAATA
58488889 TATAGATATGTG
1 TATAGATATGTG
58488901 TATAGATATGTG
1 TATAGATATGTG
58488913 TATA
1 TATA
58488917 AATTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (12 bp):
TATAGATATGTG
Found at i:58490753 original size:31 final size:31
Alignment explanation
Indices: 58490715--58490778 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
58490705 TCTGCTTTGC
58490715 TGCAAACTATGGTGTCTTTGATCTACTTCGT
1 TGCAAACTATGGTGTCTTTGATCTACTTCGT
*
58490746 TGCAAACTATGGTGTCTTTGATCTGCTTCGT
1 TGCAAACTATGGTGTCTTTGATCTACTTCGT
58490777 TG
1 TG
58490779 TCAATACAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (31 bp):
TGCAAACTATGGTGTCTTTGATCTACTTCGT
Found at i:58491031 original size:89 final size:88
Alignment explanation
Indices: 58490766--58491388 Score: 524
Period size: 89 Copynumber: 7.0 Consensus size: 88
58490756 GGTGTCTTTG
* * * * * * *
58490766 ATCTGCTTCGTTGTCAATACAGAAAGGCAAGATCTGCTATCTTCCG-TCTGCTCCGCTGTCAGTA
1 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTT-CGATCTGCTTCGCTGTCAGTA
* * *
58490830 CAGGAAGGCAAG-GCTGGTGTCTTC
64 CAGGAAGGCAAGATCTGCTATCTTC
* ** ** * * **
58490854 GAACTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTTCTATCTTC-AGTCTGCTCCATTGTCAGT
1 -ATCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGT
* * * *
58490918 ACAGGAAGGTAAG-GCTGGTGTCTTC
63 ACAGGAAGGCAAGATCTGCTATCTTC
* * * *
58490943 GATCTGTTTCGCTGTCAGTACAAGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTGC
1 -ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTAC
* * * *
58491008 AGGAATGTAAGATTTGTTATCTTC
65 AGGAAGGCAAGATCTGCTATCTTC
* * * * * * * *
58491032 AATCTTC-TCTGTTGTTAGTATAAGAAGGGAAGGCGGGTGTCTTCGATCTACTTCGCTGTCAGTA
1 -ATCTGCTTC-GCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
* *
58491096 C-GAGAATGCAAGATCTGTTATCTTC
64 CAG-GAAGGCAAGATCTGCTATCTTC
* *
58491121 AGTCTG-TTCTGCTGTCA-TAACAGGAAGGGAAGGCTGGTGTCTTCGATTTGCTTCGCTGTCAGT
1 A-TCTGCTTC-GCTGTCAGT-ACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGT
*
58491184 ACAGGAAGGCAAAATCTGCTATCTTC
63 ACAGGAAGGCAAGATCTGCTATCTTC
* * * * *
58491210 AGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGTTGGTGTCTTCGATCTACTTTGTTGTCAGTAC
1 A-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTAC
* * *
58491275 ATGAAGGCAAGATATGCTATCTTTA
65 AGGAAGGCAAGATCTGCTATC-TTC
* * * * * *
58491300 ATCTACTCCACTGTCAGTACAGGAAAGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCAGTGCA
1 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACA
* *
58491365 GGAAGACAAGATCTACTATCTTC
66 GGAAGGCAAGATCTGCTATCTTC
58491388 A
1 A
58491389 ATGATCTGTT
Statistics
Matches: 445, Mismatches: 76, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
88 40 0.09
89 398 0.89
90 7 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (88 bp):
ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACA
GGAAGGCAAGATCTGCTATCTTC
Found at i:58491367 original size:133 final size:133
Alignment explanation
Indices: 58490777--58491374 Score: 544
Period size: 133 Copynumber: 4.5 Consensus size: 133
58490767 TCTGCTTCGT
* * * * * *
58490777 TGTCAATACAGAAAGGCAAGATCTGCTATCTTCCG-TCTGCTCCGCTGTCAGTACAGGAAGGCAA
1 TGTCAGTACAGGAAGGCAAG-GCTGGTGTCTT-CGATCTGCTTCGCTGTCAGTACAGGAAGGCAA
* * *
58490841 GGCTGGTGTCTTCGAACTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTTCTATCTTCAGTCTGC
64 GGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTGCTATCTTCAATCTGC
*
58490906 TCCAT
129 TCCAC
* * *
58490911 TGTCAGTACAGGAAGGTAAGGCTGGTGTCTTCGATCTGTTTCGCTGTCAGTACAAGAAGGCAAGG
1 TGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGG
* * * * * *
58490976 CTGGTGTCTTCGATCTGCTTCGCTGTTAGTGCAGGAATGTAAGATTTGTTATCTTCAATCTTCTC
66 CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTGCTATCTTCAATCTGCTC
***
58491041 TGT
131 CAC
* * * * * * *
58491044 TGTTAGTATAAGAAGGGAAGGCGGGTGTCTTCGATCTACTTCGCTGTCAGTAC-GAGAATGCAAG
1 TGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAG-GAAGGCAAG
* * * * ** * * * *
58491108 ATCTGTTATCTTC-AGTCTG-TTCTGCTGTCA-TAACAGGAAGGGAAG-GCTGGTGTCTTCGATT
65 -GCTGGTGTCTTCGA-TCTGCTTC-GCTGTCAGT-ACAGGAAGGCAAGATTTGCTATCTTCAATC
* *
58491169 TGCTTCGC
126 TGCTCCAC
** * * *
58491177 TGTCAGTACAGGAAGGCAAAATCTGCTATCTTC-AGTCTGCTCCGCTGTCAGTACAGGAAGGCAA
1 TGTCAGTACAGGAAGGC-AAGGCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAA
* * * * * * * *
58491241 GGTTGGTGTCTTCGATCTACTTTGTTGTCAGTACATGAAGGCAAGATATGCTATCTTTAATCTAC
64 GGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTGCTATCTTCAATCTGC
58491306 TCCAC
129 TCCAC
* * * *
58491311 TGTCAGTACAGGAAAGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCAGTGCAGGAAGACAAG
1 TGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAG
58491375 ATCTACTATC
Statistics
Matches: 364, Mismatches: 86, Indels: 29
0.76 0.18 0.06
Matches are distributed among these distances:
132 2 0.01
133 245 0.67
134 116 0.32
135 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (133 bp):
TGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGG
CTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATTTGCTATCTTCAATCTGCTC
CAC
Found at i:58498180 original size:37 final size:37
Alignment explanation
Indices: 58498139--58498210 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
58498129 AAGAAAATGA
*
58498139 ATAAAATTATAAAAATAT-AAAAGATATATATATGTGT
1 ATAAAATTATAAAAATATGAAAA-ATATATACATGTGT
**
58498176 ATAAAATTATGGAAATATGAAAAATATATACATGT
1 ATAAAATTATAAAAATATGAAAAATATATACATGT
58498211 ATACATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 27 0.87
38 4 0.13
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.33
Consensus pattern (37 bp):
ATAAAATTATAAAAATATGAAAAATATATACATGTGT
Found at i:58501289 original size:10 final size:10
Alignment explanation
Indices: 58501274--58501310 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
58501264 GGTGCTGCTG
58501274 GAAAAAGAGA
1 GAAAAAGAGA
58501284 GAAAAAGAGA
1 GAAAAAGAGA
*
58501294 GAAAGAGAAGA
1 GAAAAAG-AGA
58501305 GAAAAA
1 GAAAAA
58501311 AAGGTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAAGAGA
Found at i:58501545 original size:40 final size:41
Alignment explanation
Indices: 58501471--58501570 Score: 123
Period size: 40 Copynumber: 2.4 Consensus size: 41
58501461 TAGATGTTAC
* *
58501471 TTAGTATTATTGTTAGTAAAAAACTAGTATTATTA-TTATGG
1 TTAGTATTATTTTTAGTAAAAAACTAG-ATTATTATTTATAG
* *
58501512 TTAGTTATTATTTTTAGTAAAACACTA-ATTATTATTTTTAG
1 TTAG-TATTATTTTTAGTAAAAAACTAGATTATTATTTATAG
*
58501553 TTAGTATTATTTTGAGTA
1 TTAGTATTATTTTTAGTA
58501571 TAAATCTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 20 0.38
41 12 0.23
42 20 0.38
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (41 bp):
TTAGTATTATTTTTAGTAAAAAACTAGATTATTATTTATAG
Found at i:58507827 original size:317 final size:317
Alignment explanation
Indices: 58507030--58507989 Score: 1525
Period size: 319 Copynumber: 3.0 Consensus size: 317
58507020 TCAAAATAAA
* * *
58507030 TTTTTAAA--AATTTAGTGTAAAAATAAACTCTTATTCCCACCCTTTGCTCGTATAATTTTCCCG
1 TTTTTAAATTAATTTAGTGTAAAAAAAAACTCTTATTCCTACCCTTTGCTCGTATTATTTTCCCG
* * * * *
58507093 AATTTTATTACTTTCAATAAAAATATAATCTTTTCGTATTTTATTATTTTATATTATTTCAGCAT
66 AATTTTATTACTTTC-ATTAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTAC
*
58507158 ATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAGGACTCTTA
130 ATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAAGACTCTTA
*
58507223 CTTCGGCCCTTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTA
195 CTTCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTT-AAAAATATCATAATTTCTA
* *
58507288 ATTTTATAATTTTACATTTTTTCAGTATATTATGTTTGAAATTTATTAATTTAGTGTGT
259 ATTTTATAATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAGTGTGT
* * * * *
58507347 TTTTTAAATTAATGTAGTGTAAAAAAAAACCCTTATTCCTGCCTTTTGCTCGTATTATTTTCTCG
1 TTTTTAAATTAATTTAGTGTAAAAAAAAACTCTTATTCCTACCCTTTGCTCGTATTATTTTCCCG
* *
58507412 AATTTTATTACTTTCAATGAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTAC
66 AATTTTATTACTTTC-ATTAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTAC
*
58507477 ATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAAATTAGTAAAAGACTCTTA
130 ATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAAGACTCTTA
*
58507542 CTTCGGCCCTTTGTTCGTA-TTTTTTCTCCGCATTTTATTACTTTCAAAAATATTATAATTTCTA
195 CTTCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTT-AAAAATATCATAATTTCTA
* *
58507606 ATTTTATAATTTTACATTATTTCAGTGCATGATGTTTGAAATTTATTAATTTAGTGTGT
259 ATTTTATAATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAGTGTGT
* *
58507665 TTTTTAAATTAATTTAGTGT-AAAACAAATTCTTATTCCTACCCTTTGCTCGTATTATTTTCCCG
1 TTTTTAAATTAATTTAGTGTAAAAAAAAACTCTTATTCCTACCCTTTGCTCGTATTATTTTCCCG
58507729 AATTTTATTACTTTCATTAAAATTATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTAC
66 AATTTTATTACTTTCATTAAAA-TATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTAC
* *
58507794 ATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTA
130 ATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAAGACTCTTA
* * * * *
58507859 TTTCGGCCATTTGTTCGTATTTTTTTCTCCACATTTTATTACTTTAAAAA-ACCATAATTTTTAA
195 CTTCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAATATCATAATTTCTAA
* * *
58507923 TTTTATTATTTTACATTATTTTACTACATTATGTTTGAAATTTATTAATTTAGTGTGT
260 TTTTATAATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAGTGTGT
58507981 TTTTTAAAT
1 TTTTTAAAT
58507990 ATACCATTTT
Statistics
Matches: 593, Mismatches: 46, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
316 79 0.13
317 186 0.31
318 141 0.24
319 187 0.32
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (317 bp):
TTTTTAAATTAATTTAGTGTAAAAAAAAACTCTTATTCCTACCCTTTGCTCGTATTATTTTCCCG
AATTTTATTACTTTCATTAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTACA
TTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAAGACTCTTAC
TTCGGCCCTTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAATATCATAATTTCTAAT
TTTATAATTTTACATTATTTCAGTACATTATGTTTGAAATTTATTAATTTAGTGTGT
Found at i:58508355 original size:4 final size:4
Alignment explanation
Indices: 58508346--58508449 Score: 51
Period size: 4 Copynumber: 25.8 Consensus size: 4
58508336 CCTCTTCTTC
* *
58508346 TTCT TTCT TT-T TTTT TTCT TCTCCT TTCCTT TTCT TTCC TTC- TT-T
1 TTCT TTCT TTCT TTCT TTCT T-T-CT TT-C-T TTCT TTCT TTCT TTCT
* *
58508391 TTCT TTCT TCCCT CTCCT TTCCTT TTCT TTC- TT-T TTCT TTCT TTCT
1 TTCT TTCT T-TCT -TTCT TT-C-T TTCT TTCT TTCT TTCT TTCT TTCT
58508437 TTC- TTC- TTCT TTC
1 TTCT TTCT TTCT TTC
58508450 CCTCTCCTTC
Statistics
Matches: 83, Mismatches: 4, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
3 17 0.20
4 44 0.53
5 12 0.14
6 10 0.12
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TTCT
Found at i:58508364 original size:21 final size:21
Alignment explanation
Indices: 58508340--58508449 Score: 83
Period size: 18 Copynumber: 5.6 Consensus size: 21
58508330 TCCTTGCCTC
*
58508340 TTCTTCTTCTTTCTTTTTTTT
1 TTCTTCTTCTTTCTTTTTCTT
* *
58508361 TTCTTCTCCTTTCCTTTTCTT
1 TTCTTCTTCTTTCTTTTTCTT
*
58508382 TCCTTCTT-TTTC--TTTC-T
1 TTCTTCTTCTTTCTTTTTCTT
* * * *
58508399 TCCCTCTCCTTTCCTTTTC-T
1 TTCTTCTTCTTTCTTTTTCTT
*
58508419 TTCTTTTTCTTTC--TTTC-T
1 TTCTTCTTCTTTCTTTTTCTT
58508437 TTCTTCTTCTTTC
1 TTCTTCTTCTTTC
58508450 CCTCTCCTTC
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
17 7 0.09
18 25 0.34
20 18 0.24
21 24 0.32
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (21 bp):
TTCTTCTTCTTTCTTTTTCTT
Found at i:58508373 original size:10 final size:10
Alignment explanation
Indices: 58508340--58508449 Score: 72
Period size: 10 Copynumber: 11.3 Consensus size: 10
58508330 TCCTTGCCTC
58508340 TTCTTCTTCT
1 TTCTTCTTCT
* *
58508350 TTCTTTTTTTT
1 TTC-TTCTTCT
*
58508361 TTCTTCTCCT
1 TTCTTCTTCT
58508371 TTCCTT-TTCT
1 TT-CTTCTTCT
58508381 TTC--CTTCT
1 TTCTTCTTCT
58508389 TT-TTCTTTCT
1 TTCTTC-TTCT
* * *
58508399 TCCCTCTCCT
1 TTCTTCTTCT
58508409 TTCCTT-TTCT
1 TT-CTTCTTCT
*
58508419 TTCTTTTTCT
1 TTCTTCTTCT
58508429 TTC-T-TTCT
1 TTCTTCTTCT
58508437 TTCTTCTTCT
1 TTCTTCTTCT
58508447 TTC
1 TTC
58508450 CCTCTCCTTC
Statistics
Matches: 77, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
8 13 0.17
9 7 0.09
10 42 0.55
11 15 0.19
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:58508449 original size:38 final size:38
Alignment explanation
Indices: 58508315--58508450 Score: 152
Period size: 38 Copynumber: 3.6 Consensus size: 38
58508305 AAAAATTACT
* * * *
58508315 TTTCCTTCTTTCTTTTCCTTGCCTCTTC-TTCTTCTTTC
1 TTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTT-TTTC
* *
58508353 TTT-TTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTCTT-
1 TTTCTTTCTTTCTTCTCCTTTCCTTTTCTTT-CTTTTTC
* *
58508390 TTTCTTTCTTCCCTCTCCTTTCCTTTTCTTTCTTTTTC
1 TTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTTTTTC
*
58508428 TTTCTTTCTTTCTTCTTCTTTCC
1 TTTCTTTCTTTCTTCTCCTTTCC
58508451 CTCTCCTTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
37 27 0.33
38 51 0.63
39 3 0.04
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.68
Consensus pattern (38 bp):
TTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTTTTTC
Found at i:58508460 original size:24 final size:23
Alignment explanation
Indices: 58508382--58508460 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
58508372 TCCTTTTCTT
58508382 TCCTTCTTTTTCTT-TCTTCCCTC
1 TCCTTCTTTTTCTTCT-TTCCCTC
* ** *
58508405 TCCTTTCCTTTTCTTTCTTTTTCTT
1 TCC-TTCTTTTTC-TTCTTTCCCTC
*
58508430 TCTTTCTTTCTTCTTCTTTCCCTC
1 TCCTTCTTT-TTCTTCTTTCCCTC
58508454 TCCTTCT
1 TCCTTCT
58508461 CTTCCCCCCC
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
23 3 0.07
24 27 0.64
25 11 0.26
26 1 0.02
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (23 bp):
TCCTTCTTTTTCTTCTTTCCCTC
Found at i:58516443 original size:3 final size:3
Alignment explanation
Indices: 58516435--58516499 Score: 85
Period size: 3 Copynumber: 21.7 Consensus size: 3
58516425 AGTGCTACCC
* * *
58516435 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCT CCA CCT CCA CCT CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
* *
58516483 CCA CCG CCA CCG CCA CC
1 CCA CCA CCA CCA CCA CC
58516500 TCCTCCACCG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.25, C:0.68, G:0.03, T:0.05
Consensus pattern (3 bp):
CCA
Found at i:58516507 original size:15 final size:15
Alignment explanation
Indices: 58516471--58516517 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
58516461 ACCACCTCCA
* *
58516471 CCTCCACCTCCACCA
1 CCTCCACCGCCACCT
*
58516486 CCGCCACCGCCACCT
1 CCTCCACCGCCACCT
*
58516501 CCTCCACCGCCGCCT
1 CCTCCACCGCCACCT
58516516 CC
1 CC
58516518 ACCAGAAGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.13, C:0.68, G:0.09, T:0.11
Consensus pattern (15 bp):
CCTCCACCGCCACCT
Found at i:58527167 original size:15 final size:15
Alignment explanation
Indices: 58527147--58527180 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
58527137 TTACTTTTTG
* *
58527147 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
58527162 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
58527177 TTAT
1 TTAT
58527181 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:58529102 original size:19 final size:20
Alignment explanation
Indices: 58529062--58529105 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
58529052 GTTTCTTTTG
* *
58529062 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
58529081 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
58529100 GCATTA
1 GCATTA
58529106 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:58531054 original size:17 final size:18
Alignment explanation
Indices: 58531020--58531060 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
58531010 AATTATTTTT
* *
58531020 AATCTTTCATTCTTTTCA
1 AATCATTCATTCTATTCA
58531038 AATCATTCATTC-ATTCA
1 AATCATTCATTCTATTCA
58531055 AATCAT
1 AATCAT
58531061 ACTGTACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (18 bp):
AATCATTCATTCTATTCA
Found at i:58533354 original size:86 final size:86
Alignment explanation
Indices: 58533209--58533557 Score: 529
Period size: 86 Copynumber: 4.1 Consensus size: 86
58533199 AGTGAAAATT
* * * * * * * *
58533209 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCGT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCT
58533274 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
*
58533295 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCT
58533360 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* *
58533381 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCT
* *
58533446 GCACTGATAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * *
58533467 GAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTAGTTGAAGATATCAGATCTTGCTTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCT
*
58533532 GTATTTG-CAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
58533553 GAAGA
1 GAAGA
58533558 TGGCAGATTT
Statistics
Matches: 242, Mismatches: 20, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
86 240 0.99
87 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:58533396 original size:42 final size:42
Alignment explanation
Indices: 58533263--58533396 Score: 98
Period size: 42 Copynumber: 3.1 Consensus size: 42
58533253 GTTATCAGAT
*
58533263 CTTGCCTTCGTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
* * * * * * *
58533305 CTTGCC-ACTCT-CGTTTG-TAG-TAGAGCTAG-TTGAAGATAGCAGAT
1 CTTGCCTTC-CTGC-ATTGACAGCGA-AGC-AGATCGAAG--A-CAAAC
58533349 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
58533391 CTTGCC
1 CTTGCC
58533397 ACTCTCGTTT
Statistics
Matches: 65, Mismatches: 15, Indels: 24
0.62 0.14 0.23
Matches are distributed among these distances:
40 1 0.02
41 12 0.18
42 21 0.32
43 2 0.03
44 16 0.25
45 12 0.18
46 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACAAAC
Found at i:58533751 original size:136 final size:136
Alignment explanation
Indices: 58533506--58535949 Score: 4565
Period size: 136 Copynumber: 18.1 Consensus size: 136
58533496 GCAGAGCTAG
* *
58533506 TTGAAGATAT-CAGATCTTGCTTTCCTGTATTT-GCAGCGAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
* *
58533569 ACCTCC---TGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTG
65 ACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTG
58533631 GAATAGA
130 GAATAGA
*
58533638 TTGAAGATAT-CAGATCTTGCTTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
58533702 ACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTA-TTGGCAGTG
65 ACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTG
58533766 GAATAGA
130 GAATAGA
58533773 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58533838 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58533903 AATAGA
131 AATAGA
* *
58533909 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGACAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58533974 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534039 AATAGA
131 AATAGA
*
58534045 TTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534110 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534175 AATAGA
131 AATAGA
58534181 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534246 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534311 AATAGA
131 AATAGA
*
58534317 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534382 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534447 AATAGA
131 AATAGA
58534453 TT-AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534517 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534582 AATAGA
131 AATAGA
58534588 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534653 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534718 AATAGA
131 AATAGA
58534724 TTGAAGATTGCAGATCTTGCCTTCCTGTATTT-GCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534788 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534853 AATAGA
131 AATAGA
58534859 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
58534924 CCTCCATGTGACTACAGTGGAGTACATTGATGTCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534989 AATAGA
131 AATAGA
*
58534995 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58535060 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58535125 AATAGA
131 AATAGA
58535131 TT-AAGATTGCAGATCTTGCCTT-CTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
58535194 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58535259 AATAGA
131 AATAGA
*
58535265 TTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGA-TTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58535329 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58535394 AATAGA
131 AATAGA
*
58535400 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58535465 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58535530 AATAGA
131 AATAGA
58535536 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58535601 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58535666 AATAGA
131 AATAGA
58535672 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
58535737 CCTCCATGTGACTACAGTGGAGTACATTGATGTCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58535802 AATAGA
131 AATAGA
* *
58535808 TTTAAGATTGCAGATATTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* * * *
58535873 CCT-CA-CTGACTACAGTGGAGTACATTAAAGCCGATAACTCTATCTCTCTGCATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58535936 AATAGA
131 AATAGA
58535942 TTGAAGAT
1 TTGAAGAT
58535950 CAAAGATGGC
Statistics
Matches: 2271, Mismatches: 30, Indels: 20
0.98 0.01 0.01
Matches are distributed among these distances:
132 32 0.01
133 36 0.02
134 179 0.08
135 576 0.25
136 1448 0.64
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (136 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
AATAGA
Found at i:58533985 original size:271 final size:272
Alignment explanation
Indices: 58533506--58535949 Score: 4565
Period size: 271 Copynumber: 9.0 Consensus size: 272
58533496 GCAGAGCTAG
* *
58533506 TTGAAGATAT-CAGATCTTGCTTTCCTGTATTT-GCAGCGAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
* *
58533569 ACCTCC---TGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTG
65 ACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTG
*
58533631 GAATAGATTGAAGATAT-CAGATCTTGCTTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGC
130 GAATAGATTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGC
58533695 AGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTA-TT
194 AGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTT
58533759 GGCAGTGGAATAGA
259 GGCAGTGGAATAGA
58533773 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58533838 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
* *
58533903 AATAGATTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGACAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
58533968 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
58534033 CAGTGGAATAGA
261 CAGTGGAATAGA
*
58534045 TTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534110 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534175 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
58534240 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
58534305 CAGTGGAATAGA
261 CAGTGGAATAGA
*
58534317 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534382 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534447 AATAGATT-AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
58534511 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
58534576 CAGTGGAATAGA
261 CAGTGGAATAGA
58534588 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534653 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534718 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTT-GCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
58534782 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
58534847 CAGTGGAATAGA
261 CAGTGGAATAGA
58534859 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
58534924 CCTCCATGTGACTACAGTGGAGTACATTGATGTCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
*
58534989 AATAGATTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
58535054 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
58535119 CAGTGGAATAGA
261 CAGTGGAATAGA
58535131 TT-AAGATTGCAGATCTTGCCTT-CTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
58535194 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
*
58535259 AATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
58535324 A-TTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
58535388 CAGTGGAATAGA
261 CAGTGGAATAGA
*
58535400 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58535465 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58535530 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
58535595 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
58535660 CAGTGGAATAGA
261 CAGTGGAATAGA
58535672 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
58535737 CCTCCATGTGACTACAGTGGAGTACATTGATGTCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
* *
58535802 AATAGATTTAAGATTGCAGATATTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
* * * *
58535867 ATTTTACCT-CA-CTGACTACAGTGGAGTACATTAAAGCCGATAACTCTATCTCTCTGCATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
58535930 CAGTGGAATAGA
261 CAGTGGAATAGA
58535942 TTGAAGAT
1 TTGAAGAT
58535950 CAAAGATGGC
Statistics
Matches: 2135, Mismatches: 30, Indels: 21
0.98 0.01 0.01
Matches are distributed among these distances:
266 1 0.00
267 29 0.01
268 36 0.02
269 77 0.04
270 257 0.12
271 905 0.42
272 830 0.39
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (272 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
CAGTGGAATAGA
Found at i:58534493 original size:407 final size:408
Alignment explanation
Indices: 58533506--58535949 Score: 4565
Period size: 407 Copynumber: 6.0 Consensus size: 408
58533496 GCAGAGCTAG
* *
58533506 TTGAAGATAT-CAGATCTTGCTTTCCTGTATTT-GCAGCGAAGCAGATCGAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
* *
58533569 ACCTCC---TGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTG
65 ACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTG
*
58533631 GAATAGATTGAAGATAT-CAGATCTTGCTTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGC
130 GAATAGATTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGC
58533695 AGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTA-TT
194 AGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTT
58533759 GGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAA
259 GGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAA
58533824 GATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
324 GATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT
58533889 GTATTTGGCAGTGGAATAGA
389 GTATTTGGCAGTGGAATAGA
* *
58533909 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGACAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58533974 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
*
58534039 AATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
58534104 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
58534169 CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
261 CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
58534234 TGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
326 TGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
58534299 ATTTGGCAGTGGAATAGA
391 ATTTGGCAGTGGAATAGA
*
58534317 TTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534382 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534447 AATAGATT-AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
58534511 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
58534576 CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
261 CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
58534641 TGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
326 TGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
58534706 ATTTGGCAGTGGAATAGA
391 ATTTGGCAGTGGAATAGA
58534724 TTGAAGATTGCAGATCTTGCCTTCCTGTATTT-GCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58534788 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58534853 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
* *
58534918 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGATGTCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
*
58534983 CAGTGGAATAGATTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
261 CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
58535048 TGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
326 TGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
58535113 ATTTGGCAGTGGAATAGA
391 ATTTGGCAGTGGAATAGA
58535131 TT-AAGATTGCAGATCTTGCCTT-CTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
58535194 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCTCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
*
58535259 AATAGATTAAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
58535324 A-TTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
*
58535388 CAGTGGAATAGATTTAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
261 CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
58535453 TGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
326 TGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
58535518 ATTTGGCAGTGGAATAGA
391 ATTTGGCAGTGGAATAGA
58535536 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
58535601 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
66 CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
58535666 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
131 AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
* *
58535731 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGATGTCGATAACTCTATCTCCCTGTATTTGG
196 ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* *
58535796 CAGTGGAATAGATTTAAGATTGCAGATATTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
261 CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
* * * *
58535861 TGGCAGATTTTACCT-CA-CTGACTACAGTGGAGTACATTAAAGCCGATAACTCTATCTCTCTGC
326 TGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
58535924 ATTTGGCAGTGGAATAGA
391 ATTTGGCAGTGGAATAGA
58535942 TTGAAGAT
1 TTGAAGAT
58535950 CAAAGATGGC
Statistics
Matches: 2003, Mismatches: 26, Indels: 21
0.98 0.01 0.01
Matches are distributed among these distances:
402 1 0.00
403 28 0.01
404 35 0.02
405 219 0.11
406 375 0.19
407 916 0.46
408 429 0.21
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (408 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGG
AATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAG
ATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGA
TGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGT
ATTTGGCAGTGGAATAGA
Found at i:58535960 original size:95 final size:95
Alignment explanation
Indices: 58535851--58536044 Score: 327
Period size: 95 Copynumber: 2.0 Consensus size: 95
58535841 GCAGCGAAGC
58535851 AGATCAAAGATGGCAGATTTTACCTCACTGACTACA-GTGGAGTACATTAAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCACTGACTACATG-GGAGTACATTAAAGCCGATAACTCTA
*
58535915 TCTCTCTGCATTTGGCAGTGGAATAGATTGA
65 TCTCCCTGCATTTGGCAGTGGAATAGATTGA
* * *
58535946 AGATCAAAGATGGCAGATTTTACTTCCCTGACTACATGGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCACTGACTACATGGGAGTACATTAAAGCCGATAACTCTAT
*
58536011 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
58536041 AGAT
1 AGAT
58536045 TGTAGATCTT
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 92 0.99
96 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCACTGACTACATGGGAGTACATTAAAGCCGATAACTCTAT
CTCCCTGCATTTGGCAGTGGAATAGATTGA
Found at i:58536005 original size:229 final size:230
Alignment explanation
Indices: 58535715--58536147 Score: 699
Period size: 229 Copynumber: 1.9 Consensus size: 230
58535705 GCAGCGAAGC
* * *
58535715 AGATCAAAGATGGCAGATTTTACCTCCATGTGACTACAGTGGAGTACATTGATGTCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCA-CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
58535780 ATCTCCCTGTATTTGGCAGTGGAATAGATTTAAGATTGCAGATATTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATATTGCCTTCCTGTATTTGGCAG
*
58535845 CGAAGCAGATCAAAGATGGCAGATTTTACCTCACTGACTACAGTGGAGTACATTAAAGCCGATAA
130 CAAAGCAGATCAAAGATGGCAGATTTTACCTCACTGACTACAGTGGAGTACATTAAAGCCGATAA
58535910 CTCTATCTCTCTGCATTTGGCAGTGGAATAGATTGA
195 CTCTATCTCTCTGCATTTGGCAGTGGAATAGATTGA
*
58535946 AGATCAAAGATGGCAGATTTTACTTCC-CTGACTACA-TGGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGT-GGAGTACATTGAAGCCGATAACTCT
* *
58536009 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGTAGATCTTGCCTTCCTGTATTTGGCAG
65 ATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATATTGCCTTCCTGTATTTGGCAG
* * * * * *
58536074 CAAAGGAGATCAAAGATGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGATAG
130 CAAAGCAGATCAAAGATGGCAGATTTTACCTCACTGACTACAGTGGAGTACATTAAAGCCGATAA
*
58536139 TTCTATCTC
195 CTCTATCTC
58536148 CCGGGGCAAG
Statistics
Matches: 186, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
228 1 0.01
229 159 0.85
231 26 0.14
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (230 bp):
AGATCAAAGATGGCAGATTTTACCTCCACTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATATTGCCTTCCTGTATTTGGCAGC
AAAGCAGATCAAAGATGGCAGATTTTACCTCACTGACTACAGTGGAGTACATTAAAGCCGATAAC
TCTATCTCTCTGCATTTGGCAGTGGAATAGATTGA
Found at i:58536320 original size:44 final size:44
Alignment explanation
Indices: 58536157--58536577 Score: 275
Period size: 44 Copynumber: 9.6 Consensus size: 44
58536147 CCCGGGGCAA
* * * * * *
58536157 GAAGTAGATCAAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-CGT
* * * ** * *
58536201 GAAGTGGATCGACGA-CGCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-CGT
* * * *
58536245 GAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCGT
* * * * **
58536289 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTG-GCGT
* * * *
58536333 GAAGTGGATCCAAGATA-CAGATCTTGTCTTTC-TATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTC-TTCATATATTGG-CGT
* * * *
58536377 GAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCGT
* * * * **
58536421 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTG-GCGT
* * ** * *
58536465 GAAGTGGATCCAAGATA-CAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-CGT
* * * *
58536509 GAAGTAGATCGAAGAAAGTAGATCTTGTC-TCATGTATTGGCAT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCGT
*
58536552 GAAGTAGATTGAAGATTA-CAGATCTT
1 GAAGTAGATCGAAGA-TAGCAGATCTT
58536578 ATCTCCCTAA
Statistics
Matches: 289, Mismatches: 75, Indels: 27
0.74 0.19 0.07
Matches are distributed among these distances:
43 78 0.27
44 160 0.55
45 51 0.18
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGCGT
Found at i:58536394 original size:132 final size:132
Alignment explanation
Indices: 58536157--58536567 Score: 680
Period size: 132 Copynumber: 3.1 Consensus size: 132
58536147 CCCGGGGCAA
* * * * * * **
58536157 GAAGTAGATCAAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
58536222 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
58536287 GT
131 GT
58536289 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
* *
58536354 TCTTGTCTTTCTATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
58536419 GT
131 GT
58536421 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
* * *
58536486 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTC-TCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
*
58536550 AT
131 GT
*
58536552 GAAGTAGATTGAAGAT
1 GAAGTAGATCGAAGAT
58536568 TACAGATCTT
Statistics
Matches: 262, Mismatches: 17, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
131 28 0.11
132 234 0.89
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
TCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:58536522 original size:88 final size:90
Alignment explanation
Indices: 58536157--58536532 Score: 320
Period size: 88 Copynumber: 4.3 Consensus size: 90
58536147 CCCGGGGCAA
* * * * * *
58536157 GAAGTAGATCAAAGATAGCTGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGACGA-CGCA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGCGAAGTAGATCCAAGATAGCA
58536220 GATCTTGTCTTCCCATATTGGTGGC
66 GATCTTGTCTTCCCATATTGGTGGC
* * * * * * * * * *
58536245 GAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGCGAAGTAGATCCAAGATAGCA
* * * * * *
58536309 GGTCCTATCTTCCTATATTGATAG-
66 GATCTTGTCTTCCCATATTGGTGGC
* * * * * * * *
58536333 GAAGTGGATCCAAGATA-CAGATCTTGTCTTTCTATATTGGTGGCGAAGCAGATCGC-AGAAAGC
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGCGAAGTAGATC-CAAGATAGC
*** * *
58536396 AGATCTTGTCTTCATGTATTGG-CGT
65 AGATCTTGTCTTCCCATATTGGTGGC
* * *
58536421 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAAGATA-CA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGCGAAGTAGATCCAAGATAGCA
58536484 GATCTTGTCTTCCCATATTGGTGGC
66 GATCTTGTCTTCCCATATTGGTGGC
* *
58536509 GAAGTAGATCGAAGAAAGTAGATC
1 GAAGTAGATCGAAGATAGCAGATC
58536533 TTGTCTCATG
Statistics
Matches: 222, Mismatches: 58, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
87 43 0.19
88 138 0.62
89 41 0.18
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (90 bp):
GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGTAGCGAAGTAGATCCAAGATAGCA
GATCTTGTCTTCCCATATTGGTGGC
Found at i:58538955 original size:15 final size:15
Alignment explanation
Indices: 58538935--58538968 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
58538925 TTACTTTTTG
* *
58538935 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
58538950 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
58538965 TTAT
1 TTAT
58538969 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:58543751 original size:12 final size:12
Alignment explanation
Indices: 58543734--58543768 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
58543724 TTGTTCATTT
*
58543734 ATTCATCAAGTC
1 ATTCATTAAGTC
58543746 ATTCATTAAGTC
1 ATTCATTAAGTC
58543758 ATTCATTAAGT
1 ATTCATTAAGT
58543769 GTTTTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (12 bp):
ATTCATTAAGTC
Found at i:58543785 original size:29 final size:29
Alignment explanation
Indices: 58543747--58543827 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 29
58543737 CATCAAGTCA
* *
58543747 TTCATTAAGTCATTCATTAAGTGTTTTTT
1 TTCATCAAGTCATTCATCAAGTGTTTTTT
*
58543776 TTCATCAAGTCTTTCATCAAGTG---TTT
1 TTCATCAAGTCATTCATCAAGTGTTTTTT
* *
58543802 TTCATCAAGTTATTAATCAAGT-TTTT
1 TTCATCAAGTCATTCATCAAGTGTTTT
58543828 AATTACCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
26 22 0.51
28 1 0.02
29 20 0.47
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.51
Consensus pattern (29 bp):
TTCATCAAGTCATTCATCAAGTGTTTTTT
Found at i:58543806 original size:14 final size:14
Alignment explanation
Indices: 58543773--58543811 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
58543763 TTAAGTGTTT
58543773 TTTTTCATCAA--G
1 TTTTTCATCAAGTG
*
58543785 TCTTTCATCAAGTG
1 TTTTTCATCAAGTG
58543799 TTTTTCATCAAGT
1 TTTTTCATCAAGT
58543812 TATTAATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (14 bp):
TTTTTCATCAAGTG
Found at i:58552115 original size:12 final size:12
Alignment explanation
Indices: 58552098--58552132 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
58552088 TTGTTCATTT
*
58552098 ATTCATCAAGTC
1 ATTCATTAAGTC
58552110 ATTCATTAAGTC
1 ATTCATTAAGTC
58552122 ATTCATTAAGT
1 ATTCATTAAGT
58552133 GTTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (12 bp):
ATTCATTAAGTC
Done.