Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 183 of 196
Found at i:53724029 original size:20 final size:20
Alignment explanation
Indices: 53724006--53724044 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
53723996 AATTACAAAA
53724006 AAAAATCAT-AAATAATTTTC
1 AAAAAT-ATAAAATAATTTTC
*
53724026 AAAAATTTAAAATAATTTT
1 AAAAATATAAAATAATTTT
53724045 TAAATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATATAAAATAATTTTC
Found at i:53724051 original size:18 final size:18
Alignment explanation
Indices: 53724028--53724082 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
53724018 TAATTTTCAA
53724028 AAATTTAAAATAATTTTT
1 AAATTTAAAATAATTTTT
**
53724046 AAATTTATAAA-AATTTCA
1 AAATTTA-AAATAATTTTT
*
53724064 AAATTT-ATAT-ATTTTT
1 AAATTTAAAATAATTTTT
53724080 AAA
1 AAA
53724083 AGAATTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 9 0.30
18 18 0.60
19 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTAAAATAATTTTT
Found at i:53740812 original size:29 final size:30
Alignment explanation
Indices: 53740779--53740835 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
53740769 CCTTTTTACT
*
53740779 TTTCCCTCAAAACTTTTACTCCT-TCCCAC
1 TTTCCCCCAAAACTTTTACTCCTCTCCCAC
53740808 TTTCCCCCAAAACTTTTACTCCTCTCCC
1 TTTCCCCCAAAACTTTTACTCCTCTCCC
53740836 CTCCCAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.19, C:0.44, G:0.00, T:0.37
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCTCTCCCAC
Found at i:53741113 original size:16 final size:17
Alignment explanation
Indices: 53741092--53741123 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
53741082 ACTTTCCCTC
53741092 AAACTTTT-ATTTTCCA
1 AAACTTTTAATTTTCCA
53741108 AAACTTTTAATTTTCC
1 AAACTTTTAATTTTCC
53741124 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:53744297 original size:15 final size:17
Alignment explanation
Indices: 53744268--53744301 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
53744258 AAATAATTAT
53744268 ATTATATATACTAAAAA
1 ATTATATATACTAAAAA
53744285 ATTATAT-TA-TAAAAA
1 ATTATATATACTAAAAA
53744300 AT
1 AT
53744302 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:53744304 original size:22 final size:23
Alignment explanation
Indices: 53744257--53744304 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
53744247 ATTACGGAAA
* * *
53744257 AAAATAATTATATTATATATACT
1 AAAATAATTATATTATAAAAAAT
53744280 AAAA-AATTATATTATAAAAAAT
1 AAAATAATTATATTATAAAAAAT
53744302 AAA
1 AAA
53744305 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:53749571 original size:3 final size:3
Alignment explanation
Indices: 53749563--53749606 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
53749553 CTTACTCCTT
53749563 TTC 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 TTC TT
53749607 TCTCTCAGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:53751250 original size:18 final size:18
Alignment explanation
Indices: 53751223--53751280 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
53751213 TATATTATAA
*
53751223 TAATAGTTATATATGTAT
1 TAATAATTATATATGTAT
53751241 TAATAATTATATAT-TA-
1 TAATAATTATATATGTAT
*
53751257 TAAT-ATTATTTATGTAT
1 TAATAATTATATATGTAT
53751274 TAATAAT
1 TAATAAT
53751281 ATACTAATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 6 0.17
18 15 0.43
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (18 bp):
TAATAATTATATATGTAT
Found at i:53751276 original size:33 final size:36
Alignment explanation
Indices: 53751203--53751280 Score: 110
Period size: 33 Copynumber: 2.3 Consensus size: 36
53751193 CTATATCTTT
53751203 TATT-ATAATCTATATTATAATAATAGTTATATATG
1 TATTAATAATCTATATTATAATAATAGTTATATATG
* *
53751238 TATTAATAAT-TATA-TATTATAATA-TTATTTATG
1 TATTAATAATCTATATTATAATAATAGTTATATATG
53751271 TATTAATAAT
1 TATTAATAAT
53751281 ATACTAATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
33 18 0.45
34 9 0.22
35 8 0.20
36 5 0.12
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TATTAATAATCTATATTATAATAATAGTTATATATG
Found at i:53751439 original size:8 final size:8
Alignment explanation
Indices: 53751394--53751443 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
53751384 ATATATTTTA
53751394 ATAATTA-
1 ATAATTAT
53751401 ATAATTAT
1 ATAATTAT
*
53751409 ATATTTATT
1 ATAATTA-T
53751418 ATACA-TATT
1 ATA-ATTA-T
53751427 ATAATTAT
1 ATAATTAT
53751435 ATAATTAT
1 ATAATTAT
53751443 A
1 A
53751444 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:53751751 original size:6 final size:6
Alignment explanation
Indices: 53751740--53751764 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
53751730 GGATCTTCTA
53751740 TGGACT TGGACT TGGACT TGGACT T
1 TGGACT TGGACT TGGACT TGGACT T
53751765 CCTTGAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (6 bp):
TGGACT
Found at i:53754559 original size:21 final size:21
Alignment explanation
Indices: 53754535--53754606 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
53754525 TTAATAACCT
* *
53754535 TGGTCAAAATAGTTGTGGTGA
1 TGGTCAAAATTGTTATGGTGA
*
53754556 TGGTCAAAATTGTTATGGTGC
1 TGGTCAAAATTGTTATGGTGA
*
53754577 TGGTCAAAATTGTTATGATGA
1 TGGTCAAAATTGTTATGGTGA
53754598 TGGTCAAAA
1 TGGTCAAAA
53754607 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:53763780 original size:14 final size:14
Alignment explanation
Indices: 53763761--53763787 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53763751 ATTTAATCTT
53763761 TAAATATTTTTTTA
1 TAAATATTTTTTTA
53763775 TAAATATTTTTTT
1 TAAATATTTTTTT
53763788 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:53773002 original size:31 final size:30
Alignment explanation
Indices: 53772958--53773071 Score: 101
Period size: 31 Copynumber: 3.8 Consensus size: 30
53772948 AAAAATGTAT
53772958 CAAATTAGAAAAAAGAGTCAAGTTTAGGTAC
1 CAAATTAG-AAAAAGAGTCAAGTTTAGGTAC
** * *
53772989 CAAATTAAGAAAAATTGTCAAATTTGGGTAC
1 CAAATT-AGAAAAAGAGTCAAGTTTAGGTAC
*
53773020 CAAATTGGACCAAAA-A---AAGTTTAGGTAC
1 CAAATTAGA--AAAAGAGTCAAGTTTAGGTAC
*
53773048 CAAATTAAGAAAAAGTGTCAAGTT
1 CAAATT-AGAAAAAGAGTCAAGTT
53773072 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:53786874 original size:25 final size:25
Alignment explanation
Indices: 53786846--53786938 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 25
53786836 TTTCCGTTAT
53786846 TTGGCTCTCACGAGCTTCTCGATAA
1 TTGGCTCTCACGAGCTTCTCGATAA
* * *
53786871 TTGGCCCTCATGAGCTTCCCGATTAA
1 TTGGCTCTCACGAGCTTCTCGA-TAA
*
53786897 -TGGCTCTC-CGAAGCTTCTTGAT-A
1 TTGGCTCTCACG-AGCTTCTCGATAA
* *
53786920 TATGGCTCGCAAGAGCTTC
1 T-TGGCTCTCACGAGCTTC
53786939 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 2 0.04
25 47 0.87
26 4 0.07
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (25 bp):
TTGGCTCTCACGAGCTTCTCGATAA
Found at i:53787014 original size:25 final size:25
Alignment explanation
Indices: 53786918--53787015 Score: 74
Period size: 25 Copynumber: 3.9 Consensus size: 25
53786908 AGCTTCTTGA
*
53786918 TATATGGCTCGCAAGAGCTTCCCAA
1 TATATGGCTCGCAAGAGCTTCCCAT
* *
53786943 TATACGGCTCG-AATGAGCTTCCCGT
1 TATATGGCTCGCAA-GAGCTTCCCAT
** * * * *
53786968 TAT-TCAACTCACATGAGTTTCCCCT
1 TATAT-GGCTCGCAAGAGCTTCCCAT
*
53786993 TATATGGCTCGGAAGAGCTTCCC
1 TATATGGCTCGCAAGAGCTTCCC
53787016 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:53788038 original size:11 final size:11
Alignment explanation
Indices: 53788024--53788062 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
53788014 TTAAAAAATA
53788024 TATAAATTAAT
1 TATAAATTAAT
*
53788035 TATAAAGTATAT
1 TATAAATTA-AT
53788047 TATTAAATTAAT
1 TA-TAAATTAAT
53788059 TATA
1 TATA
53788063 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:53788074 original size:14 final size:17
Alignment explanation
Indices: 53788042--53788079 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
53788032 AATTATAAAG
53788042 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
53788059 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
53788073 TATATTA
1 TATATTA
53788080 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:53791445 original size:25 final size:25
Alignment explanation
Indices: 53791411--53791538 Score: 151
Period size: 25 Copynumber: 5.3 Consensus size: 25
53791401 TACATCAATA
53791411 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
53791436 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
*
53791459 ATTAAAATAAGGATTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
53791484 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
53791507 ATTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
53791532 ATTAAAA
1 ATTAAAA
53791539 ATCACAAAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
23 37 0.44
24 4 0.05
25 44 0.52
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.38
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:53791460 original size:48 final size:48
Alignment explanation
Indices: 53791404--53791538 Score: 261
Period size: 48 Copynumber: 2.8 Consensus size: 48
53791394 TAAAAATTAC
53791404 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
53791452 ATCAATAATTAAAATAAGGATTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
53791500 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
53791539 ATCACAAAAT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.37
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:53791462 original size:23 final size:23
Alignment explanation
Indices: 53791404--53791521 Score: 123
Period size: 23 Copynumber: 5.0 Consensus size: 23
53791394 TAAAAATTAC
53791404 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
53791429 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
*
53791452 ATCAATAATTAAAATAAGGATTTTA
1 ATCAATAATTAAAATAAGGA--CTA
* *
53791477 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
53791500 ATCAATAATTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
53791522 TTAATATTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
23 38 0.49
24 4 0.05
25 35 0.45
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (23 bp):
ATCAATAATTAAAATAAGGACTA
Found at i:53791894 original size:16 final size:16
Alignment explanation
Indices: 53791873--53791908 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
53791863 ATTGATAGTG
53791873 TGTTCTAATTTTAATA
1 TGTTCTAATTTTAATA
53791889 TGTTCTAATTTTAATA
1 TGTTCTAATTTTAATA
53791905 TGTT
1 TGTT
53791909 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:53794931 original size:92 final size:91
Alignment explanation
Indices: 53794774--53794982 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
53794764 TTGATTTTAG
* * * *
53794774 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTGTTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
53794839 ATTTAA-TATTAATTATTTTAAATTGTA
65 ATATAATTATT-ATTATTTTAAATTATA
*
53794866 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
53794930 TATATAATTATTATTATTTTAAATTATA
64 TATATAATTATTATTATTTTAAATTATA
* * * *
53794958 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
53794983 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:53795047 original size:54 final size:54
Alignment explanation
Indices: 53794987--53795599 Score: 269
Period size: 54 Copynumber: 10.4 Consensus size: 54
53794977 TTATTAGTTA
* * *
53794987 TAATTATTTTAAATTTTATTAAATCATATATTTTAAATAAAATAGATTTAATAT
1 TAATTATTTAAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * * **
53795041 TAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTTAAAATTTT-A-TTA-A--ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
53795106 T
54 T
* * *
53795107 TAATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * **
53795161 TAATTATGTT--AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAA
1 TAATTAT-TTAAAATTT-TA--TTA-A--ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAA
53795224 TAT
52 TAT
* *
53795227 TAATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAT
1 TAATTATTTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * *
53795281 TAATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * **
53795335 TAATTATGTT--AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAA
1 TAATTAT-TTAAAATTT-TA--TTA-A--ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAA
53795398 TAT
52 TAT
* *
53795401 TAATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAAT
1 TAATTATTTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAAT-AT
* * **
53795456 T-ATTATGTT--AATTTATATTTTACAGTATCATATATTATGATTTTAGTAAATTCATATAAGAA
1 TAATTAT-TTAAAATTT-TA--TTA-A--ATCATATATT-TTA-ATTA--AAA-T-ATAT-TTAA
53795518 TAT
52 TAT
* * *
53795521 TAATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * *
53795575 TAATTATGTTTAAATATGATTAAAT
1 TAATTAT-TTAAAATTTTATTAAAT
53795600 TATTTATTAT
Statistics
Matches: 430, Mismatches: 58, Indels: 141
0.68 0.09 0.22
Matches are distributed among these distances:
53 15 0.03
54 113 0.26
55 31 0.07
56 25 0.06
57 12 0.03
59 43 0.10
60 27 0.06
61 42 0.10
63 13 0.03
64 22 0.05
65 22 0.05
66 50 0.12
67 15 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (54 bp):
TAATTATTTAAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
Found at i:53795136 original size:120 final size:119
Alignment explanation
Indices: 53794998--53795288 Score: 478
Period size: 120 Copynumber: 2.4 Consensus size: 119
53794988 AATTATTTTA
* * * *
53794998 AATTTTATTAAATCATATATTTTAAATAAAATAGATTTAATATTAATTATTTCAAATTT-TCA-T
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATTT--AATTTAT-ATT
*
53795061 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
53795118 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTAT-TTAATTTATATTTT
53795183 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
53795238 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATT
53795289 AAGAATTTTA
Statistics
Matches: 161, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
119 7 0.04
120 152 0.94
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATATTAATTATTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:53795153 original size:16 final size:16
Alignment explanation
Indices: 53795132--53795174 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
53795122 TTATTAAATT
53795132 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
53795148 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
53795163 AT-TATGTTAATT
1 ATATATTTTAATT
53795175 TATATTTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:53795282 original size:174 final size:174
Alignment explanation
Indices: 53795102--53795461 Score: 704
Period size: 174 Copynumber: 2.1 Consensus size: 174
53795092 TTCATATAAG
53795102 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
1 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
53795167 TGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATT
66 TGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATT
53795232 ATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTT
131 ATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTT
53795276 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
1 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
53795341 TGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATT
66 TGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATT
53795406 ATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTT
131 ATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTT
53795450 AATAATT-ATTAT
1 AAT-ATTAATTAT
53795462 GTTAATTTAT
Statistics
Matches: 185, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
174 182 0.98
175 3 0.02
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (174 bp):
AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
TGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATT
ATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTT
Found at i:53795283 original size:21 final size:19
Alignment explanation
Indices: 53795224--53795329 Score: 56
Period size: 18 Copynumber: 6.0 Consensus size: 19
53795214 CATATAAGAA
*
53795224 TATTAATTATTAAGA-ATTT
1 TATTAATTA-TAATATATTT
*
53795243 TATTAA--AT--TATATAT
1 TATTAATTATAATATATTT
53795258 T-TTAATTATAATATATTT
1 TATTAATTATAATATATTT
*
53795276 AATATTAATTATTAAGA-ATTT
1 --TATTAATTA-TAATATATTT
*
53795297 TATTAA--AT--TATATAT
1 TATTAATTATAATATATTT
53795312 T-TTAATTATAATATATTT
1 TATTAATTATAATATATTT
53795330 AATAATAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 29
0.65 0.07 0.28
Matches are distributed among these distances:
14 10 0.15
15 8 0.12
16 6 0.09
17 2 0.03
18 12 0.18
19 12 0.18
20 1 0.02
21 11 0.17
22 4 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TATTAATTATAATATATTT
Found at i:53795312 original size:294 final size:294
Alignment explanation
Indices: 53794998--53795581 Score: 1039
Period size: 294 Copynumber: 2.0 Consensus size: 294
53794988 AATTATTTTA
*
53794998 AATTTTATTAAATCATATATTTTAAATAAAATAGATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATCATATATTTTAAATAAAATAGATTTAATAATAATTATGTT--AATTTAT-AT
*
53795060 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
53795125 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
128 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
53795190 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATA
193 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATA
*
53795255 TATTTTAATTATAATATATTTAATATTAATTATTAAG
258 TATTTTAATTATAATATATTTAATAATAATTATTAAG
* * * *
53795292 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAAATAAAATAGATTTAATAATAATTATGTTAATTTATATTTT
53795357 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
*
53795422 AATTATATATTTTAATTATAATATATTTAATAATTATTATGTTAATTTATATTTTACAGTATCAT
131 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
*
53795487 ATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAT
196 ATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAT
53795552 TTTAATTATAATATATTTAATAATAATTAT
261 TTTAATTATAATATATTTAATAATAATTAT
53795582 GTTTAAATAT
Statistics
Matches: 278, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
293 6 0.02
294 270 0.97
295 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (294 bp):
AATTTTATTAAATCATATATTTTAAATAAAATAGATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
ATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAT
TTTAATTATAATATATTTAATAATAATTATTAAG
Found at i:53795373 original size:120 final size:120
Alignment explanation
Indices: 53795276--53795584 Score: 600
Period size: 120 Copynumber: 2.6 Consensus size: 120
53795266 TAATATATTT
53795276 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
1 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
*
53795341 TGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAG
66 TGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTAAATTCATATAAG
*
53795396 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTA
1 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
53795461 TGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTAAATTCATATAAG
66 TGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTAAATTCATATAAG
53795516 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
1 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
53795581 TGTT
66 TGTT
53795585 TAAATATGAT
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 186 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTA
TGTTAATTTATATTTTACAGTATCATATATTATGATTTTAGTAAATTCATATAAG
Found at i:53795567 original size:16 final size:16
Alignment explanation
Indices: 53795546--53795587 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
53795536 TTATTAAATT
*
53795546 ATATATTTTAATTATA
1 ATATATTTTAATAATA
53795562 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
53795577 AT-TATGTTTAA
1 ATATAT-TTTAA
53795588 ATATGATTAA
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:53795572 original size:15 final size:15
Alignment explanation
Indices: 53795537--53795578 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
53795527 TTAAGAATTT
*
53795537 TATTAAATTAT-ATA
1 TATTTAATTATAATA
53795551 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
53795565 TATTTAATAATAAT
1 TATTTAATTATAAT
53795579 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:53795749 original size:152 final size:156
Alignment explanation
Indices: 53795521--53795825 Score: 510
Period size: 152 Copynumber: 2.0 Consensus size: 156
53795511 ATAAGAATAT
* * *
53795521 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
* *
53795586 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
53795651 T-A-A-TTACCAAAACAAATTTCTTC
131 TAACATTTACCAAAACAAATTTCTTC
* *
53795674 TAATTATTAAGAATTTTATGAAATTATATATTTTAA-TAAAATGGGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
53795738 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
53795803 TAATCATTTACCAAAACAAATTT
131 TAA-CATTTACCAAAACAAATTT
53795826 ATGCTAAGGG
Statistics
Matches: 141, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
152 88 0.62
153 36 0.26
155 1 0.01
156 16 0.11
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATGAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAACATTTACCAAAACAAATTTCTTC
Found at i:53795976 original size:16 final size:16
Alignment explanation
Indices: 53795955--53795990 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
53795945 GATTTGCTAT
53795955 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
53795971 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
53795987 TACA
1 TACA
53795991 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:53796022 original size:7 final size:7
Alignment explanation
Indices: 53796010--53796039 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
53796000 ACGCACTGTA
53796010 AAGGTTT
1 AAGGTTT
53796017 AAGGTTT
1 AAGGTTT
53796024 AAGGTTT
1 AAGGTTT
53796031 AAGGTTT
1 AAGGTTT
53796038 AA
1 AA
53796040 AGCTTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (7 bp):
AAGGTTT
Found at i:53807773 original size:24 final size:24
Alignment explanation
Indices: 53807745--53807797 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
53807735 TTTCTAGAAG
*
53807745 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
* *
53807769 ATTTAGCATTTATTAGTATAGTTT
1 ATTTAGCATTTATTAGTATAATAT
53807793 ATTTA
1 ATTTA
53807798 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:53811422 original size:18 final size:18
Alignment explanation
Indices: 53811399--53811444 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
53811389 AATATAAATC
53811399 TTAAATAAATAATAG-AAA
1 TTAAATAAA-AATAGAAAA
53811417 TTAAATAAAAAT-GAAAA
1 TTAAATAAAAATAGAAAA
*
53811434 TGAAATAAAAA
1 TTAAATAAAAA
53811445 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:53816399 original size:35 final size:36
Alignment explanation
Indices: 53816351--53816419 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
53816341 ATTTGTTAGA
53816351 TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
*
53816387 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAA
53816420 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:53817781 original size:20 final size:20
Alignment explanation
Indices: 53817756--53817795 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53817746 AATATTTTCC
*
53817756 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
53817776 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
53817796 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:53817804 original size:34 final size:35
Alignment explanation
Indices: 53817744--53817810 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
53817734 CAAATACCAG
* * *
53817744 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCAGTTTACAAAAAAGT
53817779 AAAACATTTTCCAG-AAATCAGTTTACAAAAAA
1 AAAACATTTTCCAGTAAATCAGTTTACAAAAAA
53817811 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:53819187 original size:223 final size:218
Alignment explanation
Indices: 53818726--53819217 Score: 605
Period size: 223 Copynumber: 2.2 Consensus size: 218
53818716 ATATACGAAA
* * *
53818726 GAAAAAAAATAAAAAAAAAAATTTGGGTGCTGGCCTGTTAATGGCCGGCACCCAGTGTACAGTAC
1 GAAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTGTACAGTAC
* **
53818791 CAAAAAAAAAAAAATTTTGTGTCAGAGTCAGATTTAAAAATACAAAAAAAAAAAAAATTTTTTTT
66 CAAAAAAAAAAAAATTTTGTGTCAGAATCAGA-TTAAAAATACAAAAAAAAAAAAAA--TAATTT
53818856 GAGTGCTGGCCTGTCAATGACCGGCACCCAGTACACAGTACGAAGAAAAAAAAATTATATTTTTT
128 GAGTGCTGGCCTGTCAATGACCGGCACCCAGTACACAGTACGAAGAAAAAAAAATTATATTTTTT
53818921 TTCGTGTCAGAATCAGATAAAAAAAC
193 TTCGTGTCAGAATCAGATAAAAAAAC
53818947 GAAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTGTACAGTA
1 GAAAAAAAAT-AAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTGTACAGTA
** *** *
53819012 CCAAAAAAATTTTTATTTTTTTCGTGTCAGAATTAGA-TAAAAATACGAAAAAAATAAAAAAA-A
65 CCAAAAAAA---AAAAAATTTT-GTGTCAGAATCAGATTAAAAATAC-AAAAAAA-AAAAAAATA
* * ** * ***** * *
53819075 ATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC-CA-AAAATTTTTTTTTGTT
124 ATTTGAGTGCTGGCCTGTCAATGACCGGCACCCAGTACACAGTACGAAGAAAAAAAAATTATATT
*
53819138 TTTTTTCGTGTCAGAATCATATAAAAAAATAC
189 TTTTTTCGTGTCAGAATCAGAT-AAAAAA-AC
*
53819170 GAAAAAAAAATAAAAAAAAAATTTTTGGTGCTGGCCTGTCAATGGCCA
1 G-AAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCA
53819218 TTCAGTGGAT
Statistics
Matches: 235, Mismatches: 26, Indels: 18
0.84 0.09 0.06
Matches are distributed among these distances:
221 40 0.17
222 67 0.29
223 79 0.34
224 18 0.08
225 12 0.05
226 19 0.08
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (218 bp):
GAAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTGTACAGTAC
CAAAAAAAAAAAAATTTTGTGTCAGAATCAGATTAAAAATACAAAAAAAAAAAAAATAATTTGAG
TGCTGGCCTGTCAATGACCGGCACCCAGTACACAGTACGAAGAAAAAAAAATTATATTTTTTTTC
GTGTCAGAATCAGATAAAAAAAC
Found at i:53819214 original size:116 final size:112
Alignment explanation
Indices: 53818726--53819216 Score: 522
Period size: 116 Copynumber: 4.4 Consensus size: 112
53818716 ATATACGAAA
* *
53818726 GAAAAAAAATAAAAAAAAAAATTTGGGTGCTGGCCTGTTAATGGCCGGCACCCAGTGTACAGTAC
1 GAAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
****** * * **
53818791 CAAAAAAA---AAAAAATTTT-GTGTCAGAGTCAGATTTAAAAATAC
66 CAAAAAAATTTTTTTTTTTTTCGTGTCAGAATCATATAAAAAAATAC
**** * * **
53818834 -AAAAAAAA-AAAAAATTTTTTTTGAGTGCTGGCCTGTCAATGACCGGCACCCAGTACACAGTAC
1 GAAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
* * * *
53818897 GAAGAAAAAAAAATTATATTTTTTTTCGTGTCAGAATCAGAT-AAAAAA-AC
66 -----CAAAAAAATTTTTTTTTTTTTCGTGTCAGAATCATATAAAAAAATAC
*
53818947 GAAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCCAGTGTACAGTA
1 GAAAAAAAAT-AAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTA
* * *
53819012 CCAAAAAAATTTTTATTTTTTTCGTGTCAGAAT--TAGATAAAAATAC
65 CCAAAAAAATTTTTTTTTTTTTCGTGTCAGAATCATATAAAAAAATAC
53819058 G-AAAAAAAT-AAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
1 GAAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
**
53819120 CAAAAATTTTTTTTTGTTTTTTTTCGTGTCAGAATCATATAAAAAAATAC
66 CAAAAA--AATTTTT-TTTTTTTTCGTGTCAGAATCATATAAAAAAATAC
*
53819170 GAAAAAAAAATAAAAAAAAAATTTTTGGTGCTGGCCTGTCAATGGCC
1 G-AAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCC
53819217 ATTCAGTGGA
Statistics
Matches: 319, Mismatches: 41, Indels: 38
0.80 0.10 0.10
Matches are distributed among these distances:
106 45 0.14
107 57 0.18
108 9 0.03
109 6 0.02
110 31 0.10
111 38 0.12
112 12 0.04
113 2 0.01
114 26 0.08
115 23 0.07
116 70 0.22
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (112 bp):
GAAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTAC
CAAAAAAATTTTTTTTTTTTTCGTGTCAGAATCATATAAAAAAATAC
Found at i:53819557 original size:116 final size:115
Alignment explanation
Indices: 53819325--53819935 Score: 688
Period size: 104 Copynumber: 5.4 Consensus size: 115
53819315 GTAATTGACA
* *** *
53819325 GGCCATTGACATGCCAGCACCCAAAATTTTTTTTTTA-TTTTTTTCGTATTTTTTATCTGATTTT
1 GGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCT
* * * * *
53819389 AACACGAAAAAAAAATAAAAATTTTTTTTTGGTATTCTACACTGGGTGCC
66 GACACGAAAAAAAAAAAAAAAATTTTTTTTGGTACTGTACACTGGGTGCC
53819439 GGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCT
1 GGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCT
***
53819504 GACACGAAAAAAAAACAAAAAAAAAAATTTTT-GTACTGTACACTGGGTGCC
66 GACACG-AAAAAAAA-AAAAAAAATTTTTTTTGGTACTGTACACTGGGTGCC
*
53819555 GGCCATTGACAGGCCAGCACCC--AAAAA---TTTT-TTTTTTTTCGTATTTTTTATTTGATTCT
1 GGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCT
* *
53819614 GACA-G----GAAAAAAATAAATTTTTTTTGGTACTGTACACTGGGTGCC
66 GACACGAAAAAAAAAAAAAAAATTTTTTTTGGTACTGTACACTGGGTGCC
*
53819659 GGCCATTGACAGGCCAGCACCC-AAAAAA-----TT-TTTTTTTTCATATTTTTTTATCTGATTC
1 GGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTATTTTTTTTCGTA-TTTTTTATCTGATTC
* * * **
53819717 TGACACGAAAAAAAATAAAAAAAA-ATTTCTTCGTACTGTGTACTGGGTGCC
65 TGACACGAAAAAAAA-AAAAAAAATTTTTTTTGGTACTGTACACTGGGTGCC
** *
53819768 GGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTAATTTTTTTTTCGTATTTTTAAATCTGA
1 GGCCATTGACAGGCCAGCACCCAAAAA-AATTTTTTT-A-TTTTTTTTCGTATTTTT-TATCTGA
* * * *
53819833 CTCTGACACAAAAAAAATAAAATAAAAATTTTTTTTTGGTATTGTACACTAGGTGCC
62 TTCTGACACGAAAAAAA-AAAA-AAAAA-TTTTTTTTGGTACTGTACACTGGGTGCC
* *
53819890 GGCCATTGACAGGCTAGCACCCAAAAAAATTTTTTTTTGTTTTTTT
1 GGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTAT-TTTTTTT
53819936 TCTTTCGTAT
Statistics
Matches: 424, Mismatches: 45, Indels: 50
0.82 0.09 0.10
Matches are distributed among these distances:
103 25 0.06
104 63 0.15
105 6 0.01
109 48 0.11
110 42 0.10
111 4 0.01
114 38 0.09
115 31 0.07
116 49 0.12
117 11 0.03
118 5 0.01
119 36 0.08
120 13 0.03
121 7 0.02
122 46 0.11
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (115 bp):
GGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCT
GACACGAAAAAAAAAAAAAAAATTTTTTTTGGTACTGTACACTGGGTGCC
Found at i:53819924 original size:122 final size:119
Alignment explanation
Indices: 53819688--53819936 Score: 320
Period size: 122 Copynumber: 2.1 Consensus size: 119
53819678 CCCAAAAAAT
** *
53819688 TTTTTTTTTCATATTTTTTTATCTGATTCTGACACGAAAAAAAATAAAAAAAAATTTCTTCGTAC
1 TTTTTTTTTCATATTTTTAAATCTGACTCTGACACGAAAAAAAATAAAAAAAAATTTCTTCGTAC
** * **
53819753 TGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTTAA
66 TGTACACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTAA
* * *
53819807 TTTTTTTTTCGTATTTTTAAATCTGACTCTGACAC-AAAAAAAATAAAATAAAAATTTTTTTTTG
1 TTTTTTTTTCATATTTTTAAATCTGACTCTGACACGAAAAAAAATAAAA-AAAAA---TTTCTTC
* * **
53819871 GTATTGTACACTAGGTGCCGGCCATTGACAGGCTAGCACCCAAAAAAATTTTTTTTTG
62 GTACTGTACACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTAA
53819929 TTTTTTTT
1 TTTTTTTT
53819937 CTTTCGTATA
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
118 13 0.12
119 36 0.32
122 62 0.56
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (119 bp):
TTTTTTTTTCATATTTTTAAATCTGACTCTGACACGAAAAAAAATAAAAAAAAATTTCTTCGTAC
TGTACACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTAA
Found at i:53829652 original size:27 final size:27
Alignment explanation
Indices: 53829614--53829668 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
53829604 TAAGAAGAGA
53829614 TTGGTTGTTAGGTGCGATGTCGACAAC
1 TTGGTTGTTAGGTGCGATGTCGACAAC
53829641 TTGGTTGTTAGGTGCGATGTCGACAAC
1 TTGGTTGTTAGGTGCGATGTCGACAAC
53829668 T
1 T
53829669 ATAACTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.15, G:0.33, T:0.35
Consensus pattern (27 bp):
TTGGTTGTTAGGTGCGATGTCGACAAC
Found at i:53830779 original size:29 final size:30
Alignment explanation
Indices: 53830746--53830806 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
53830736 AATCTATTTC
*
53830746 CATACATCATTAAAATTTTA-ATAGTTTTG
1 CATACATCATTAAAATTTTAGATACTTTTG
* **
53830775 CATACATTATTACTATTTTAGATACTTTTG
1 CATACATCATTAAAATTTTAGATACTTTTG
53830805 CA
1 CA
53830807 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:0.13, G:0.07, T:0.46
Consensus pattern (30 bp):
CATACATCATTAAAATTTTAGATACTTTTG
Found at i:53836750 original size:41 final size:42
Alignment explanation
Indices: 53836686--53836767 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
53836676 CGAATATAAT
*
53836686 AAATATATATTTTTTTAATTTTTTAATTTTAAAATACTTTTA
1 AAATATATATTTTTTTAATTTTTTAATTTTAAAATAATTTTA
* * *
53836728 AAATA-ATTTTTTTTTATTTTTTTATTTTTAAAATAATTTT
1 AAATATATATTTTTTTAATTTTTTAATTTTAAAATAATTTT
53836768 TTAATGTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 31 0.86
42 5 0.14
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (42 bp):
AAATATATATTTTTTTAATTTTTTAATTTTAAAATAATTTTA
Found at i:53837132 original size:21 final size:19
Alignment explanation
Indices: 53837106--53837165 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 19
53837096 AAATAAAGCT
53837106 AAAAGAAAAAGAAAAATAATA
1 AAAAGAAAAAGAAAAA-AA-A
** *
53837127 AAAAGAAAACTAAAAACAA
1 AAAAGAAAAAGAAAAAAAA
53837146 AAAAGAAAAAAGAAAAAAAA
1 AAAAG-AAAAAGAAAAAAAA
53837166 CTCAATGATG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 6 0.19
20 12 0.38
21 14 0.44
ACGTcount: A:0.83, C:0.03, G:0.08, T:0.05
Consensus pattern (19 bp):
AAAAGAAAAAGAAAAAAAA
Found at i:53837161 original size:19 final size:18
Alignment explanation
Indices: 53837062--53837165 Score: 52
Period size: 19 Copynumber: 5.6 Consensus size: 18
53837052 TAAGTCTAAG
53837062 AAAAAAAAATAAAG-AAAC
1 AAAAAAAAA-AAAGAAAAC
* *
53837080 TAAAAAATAAAAATAAAA-
1 -AAAAAAAAAAAAGAAAAC
* *** *
53837098 ATAAAGCTAAAAGAAAAAG
1 AAAAAAAAAAAAG-AAAAC
53837117 AAAAATAATAAAAAGAAAAC
1 AAAAA-AA-AAAAAGAAAAC
*
53837137 TAAAAACAAAAAAGAAAA-
1 -AAAAAAAAAAAAGAAAAC
53837155 AAGAAAAAAAA
1 AA-AAAAAAAA
53837166 CTCAATGATG
Statistics
Matches: 64, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
17 10 0.16
18 14 0.22
19 25 0.39
20 5 0.08
21 10 0.16
ACGTcount: A:0.81, C:0.04, G:0.07, T:0.09
Consensus pattern (18 bp):
AAAAAAAAAAAAGAAAAC
Found at i:53837226 original size:12 final size:12
Alignment explanation
Indices: 53837192--53837232 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
53837182 AAATTAAAGG
*
53837192 TAATAGTAAGAA
1 TAATAGTAAAAA
*
53837204 TAATACTAAAAA
1 TAATAGTAAAAA
53837216 -AATAGTAAAAA
1 TAATAGTAAAAA
53837227 TAATAG
1 TAATAG
53837233 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:53841939 original size:273 final size:274
Alignment explanation
Indices: 53841451--53841990 Score: 931
Period size: 273 Copynumber: 2.0 Consensus size: 274
53841441 TTAGAATGTG
53841451 GCTCCTTTATGATCTCTCATGGGATTTCTTGCAGAGAAGGTTGAGCCACATGGTCACTACCATTA
1 GCTCCTTTATGATCTCTCATGGGATTTCTTGCAGAGAAGGTTGAGCCACATGGTCACTACCATTA
* *
53841516 ACAGAAGATTTAAAATCATCTTGATCACTAGATGTTATAACAGAATCACGAGCTTGTAGAGTAAT
66 ACAGAAGATTTAAAATCATCTTAATCACTAGATGTTATAACAGAATCACGAGCTTGAAGAGTAAT
53841581 CGATTCGTCACCTACACGAAGTATTAACTCACCCGTACCAACATCAATTATGGTTCTAGCAGTTG
131 CGATTCGTCACCTACACGAAGTATTAACTCACCCGTACCAACATCAATTATGGTTCTAGCAGTTG
53841646 CTAAAAAGGGCTGCCCTAAAATT-AGGTACCTCACTGTCCTCATCCATGTCTAAAACAACAAAGT
196 CTAAAAAGGGCTGCCCTAAAATTAAGGTACCTCACTGTCCTCATCCATGTCTAAAACAACAAAGT
53841710 CAACAGAATCACGA
261 CAACAGAATCACGA
*
53841724 GCTCCTTTATGATCTCTCGTGGGATTTCTTGCAGAGAAGGTTGAGCCACATGGTCACTACCATTA
1 GCTCCTTTATGATCTCTCATGGGATTTCTTGCAGAGAAGGTTGAGCCACATGGTCACTACCATTA
* * * **
53841789 ACAGAAGATTTAAAATCATCTTAATCATTAGATGTTATAACAGAATTATGATTTTGAAGAGTAAT
66 ACAGAAGATTTAAAATCATCTTAATCACTAGATGTTATAACAGAATCACGAGCTTGAAGAGTAAT
* *
53841854 TGATTCGTCACCTACACGAAGTATTAACTCACCCGTACCAACATCAGTTATGGTTCTAGCAGTTG
131 CGATTCGTCACCTACACGAAGTATTAACTCACCCGTACCAACATCAATTATGGTTCTAGCAGTTG
* **
53841919 CTAAAAAGGG-TCGTCCTAAAATTAAAGGTACCTCGTTGTCCTCATCCATGTCTAAAACAACAAA
196 CTAAAAAGGGCT-GCCCTAAAATT-AAGGTACCTCACTGTCCTCATCCATGTCTAAAACAACAAA
53841983 GTCAACAG
259 GTCAACAG
53841991 GGAATATGAA
Statistics
Matches: 251, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
272 1 0.00
273 205 0.82
275 45 0.18
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (274 bp):
GCTCCTTTATGATCTCTCATGGGATTTCTTGCAGAGAAGGTTGAGCCACATGGTCACTACCATTA
ACAGAAGATTTAAAATCATCTTAATCACTAGATGTTATAACAGAATCACGAGCTTGAAGAGTAAT
CGATTCGTCACCTACACGAAGTATTAACTCACCCGTACCAACATCAATTATGGTTCTAGCAGTTG
CTAAAAAGGGCTGCCCTAAAATTAAGGTACCTCACTGTCCTCATCCATGTCTAAAACAACAAAGT
CAACAGAATCACGA
Found at i:53844018 original size:20 final size:20
Alignment explanation
Indices: 53843993--53844030 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53843983 AAATATAATG
53843993 TAAAAATTA-AACTAAAAAAA
1 TAAAAATTATAA-TAAAAAAA
53844013 TAAAAATTATAATAAAAA
1 TAAAAATTATAATAAAAA
53844031 TAAAAATGGC
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:53845672 original size:18 final size:18
Alignment explanation
Indices: 53845649--53845684 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
53845639 TAAATTATTG
53845649 TTATAACTTTATAAAATA
1 TTATAACTTTATAAAATA
53845667 TTATAACTTTATAAAATA
1 TTATAACTTTATAAAATA
53845685 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:53850023 original size:23 final size:26
Alignment explanation
Indices: 53849976--53850024 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
53849966 TCAATCACAA
53849976 TTTCTCACATTTTCAATTCAATAATT
1 TTTCTCACATTTTCAATTCAATAATT
53850002 TTTC-CAC-TTTTCAA-TCAATAATT
1 TTTCTCACATTTTCAATTCAATAATT
53850025 AATCCGCAAT
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:53850199 original size:12 final size:12
Alignment explanation
Indices: 53850182--53850210 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
53850172 ATCTTAGTAA
53850182 TAATAATAATAC
1 TAATAATAATAC
53850194 TAATAATAATAC
1 TAATAATAATAC
53850206 TAATA
1 TAATA
53850211 CTTACCTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:53850886 original size:11 final size:11
Alignment explanation
Indices: 53850870--53850895 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
53850860 TCTTTCTTTC
53850870 TTTCTCCCCTG
1 TTTCTCCCCTG
53850881 TTTCTCCCCTG
1 TTTCTCCCCTG
53850892 TTTC
1 TTTC
53850896 ATTTCGAATT
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:53850969 original size:5 final size:5
Alignment explanation
Indices: 53850951--53850990 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
53850941 TGTTTTATGT
*
53850951 ATATA ATAATA ATATA ATATT ATAATA ATATA ATATA ATA
1 ATATA AT-ATA ATATA ATATA AT-ATA ATATA ATATA ATA
53850991 ACTTACTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:53850975 original size:16 final size:16
Alignment explanation
Indices: 53850951--53850991 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
53850941 TGTTTTATGT
53850951 ATATAATAATAATATA
1 ATATAATAATAATATA
*
53850967 ATATTATAATAATATA
1 ATATAATAATAATATA
53850983 ATATAATAA
1 ATATAATAA
53850992 CTTACTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATAATAATATA
Found at i:53850991 original size:8 final size:8
Alignment explanation
Indices: 53850956--53850985 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
53850946 TATGTATATA
53850956 ATAATAAT
1 ATAATAAT
*
53850964 ATAATATT
1 ATAATAAT
53850972 ATAATAAT
1 ATAATAAT
53850980 ATAATA
1 ATAATA
53850986 TAATAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATAAT
Found at i:53853248 original size:50 final size:50
Alignment explanation
Indices: 53853181--53853336 Score: 249
Period size: 50 Copynumber: 3.1 Consensus size: 50
53853171 GAGGTACATG
*
53853181 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCT
1 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCA
*
53853231 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA
1 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCA
** * * *
53853281 TTGGCACCGAGATGAGAACTCCCATGTAAGATCATATTTGGGATATGGCA
1 TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCA
53853331 TTGGCA
1 TTGGCA
53853337 GTACAAAAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 98 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
TTGGCACCGAGATGAGAGGTCCCATGTAAGACCATATCTGGGACATGGCA
Found at i:53853377 original size:48 final size:49
Alignment explanation
Indices: 53853200--53853382 Score: 174
Period size: 50 Copynumber: 3.7 Consensus size: 49
53853190 AGATGAGAGG
* * * * * **
53853200 TCCCATGTAAGACCATATCTGGGACATGGCTTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATAAAAAC
* * *
53853250 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACATAAAAAC
* * * *
53853300 TCCCATGTAAGATCATATTTGGGATATGGCATTGGCA-GTACA-AAAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACATAAAAAC
*
53853348 AT-CCATGTAAGACCATGTCTGGGACATGGCTTTGG
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGG
53853383 TATGTTATTA
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
48 33 0.29
49 3 0.03
50 79 0.69
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACATAAAAAC
Found at i:53855655 original size:11 final size:11
Alignment explanation
Indices: 53855639--53855682 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
53855629 TTATATACTA
53855639 AATAAAATATT
1 AATAAAATATT
53855650 AATAAAATATATT
1 AAT-AAA-ATATT
*
53855663 ATTAAAATATT
1 AATAAAATATT
53855674 AATAAAATA
1 AATAAAATA
53855683 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:53855663 original size:13 final size:13
Alignment explanation
Indices: 53855645--53855687 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
53855635 ACTAAATAAA
53855645 ATATTAATAAAAT
1 ATATTAATAAAAT
*
53855658 ATATT-ATTAAA-
1 ATATTAATAAAAT
53855669 ATATTAATAAAAT
1 ATATTAATAAAAT
53855682 AATATT
1 -ATATT
53855688 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:53855669 original size:24 final size:25
Alignment explanation
Indices: 53855641--53855687 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
53855631 ATATACTAAA
53855641 TAAAATATTAATAAAAT-ATATTAT
1 TAAAATATTAATAAAATAATATTAT
53855665 TAAAATATTAATAAAATAATATT
1 TAAAATATTAATAAAATAATATT
53855688 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:53863979 original size:21 final size:21
Alignment explanation
Indices: 53863941--53863981 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
53863931 TTACCTAGGG
* *
53863941 TGTGAATTGGATGGAATTGAA
1 TGTGAATTGCATGAAATTGAA
*
53863962 TGTGAATTGCATTAAATTGA
1 TGTGAATTGCATGAAATTGA
53863982 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:53864600 original size:23 final size:24
Alignment explanation
Indices: 53864575--53864671 Score: 83
Period size: 23 Copynumber: 4.1 Consensus size: 24
53864565 AGTTACTTGT
*
53864575 TAAGCTC-AATGAGCTTCCTGTTT
1 TAAGCTCGAATGAGCTTCCTGTTA
* ** *
53864598 TAAACTCTTATGAGTTTCCTGTTA
1 TAAGCTCGAATGAGCTTCCTGTTA
*
53864622 T-AGCTCGGATGAGCTTCCTGTTA
1 TAAGCTCGAATGAGCTTCCTGTTA
* *
53864645 CATGGCTC-ACATGAGCTTCCTGTTA
1 TA-AGCTCGA-ATGAGCTTCCTGTTA
53864670 TA
1 TA
53864672 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:53864604 original size:45 final size:47
Alignment explanation
Indices: 53864555--53864643 Score: 119
Period size: 45 Copynumber: 1.9 Consensus size: 47
53864545 CCCTGATAAT
* *
53864555 AACTCTTCGGAGTTACTTGTTA-AGCTC-AATGAGCTTCCTGTTTTA
1 AACTCTTAGGAGTTACCTGTTATAGCTCGAATGAGCTTCCTGTTTTA
* * *
53864600 AACTCTTATGAGTTTCCTGTTATAGCTCGGATGAGCTTCCTGTT
1 AACTCTTAGGAGTTACCTGTTATAGCTCGAATGAGCTTCCTGTT
53864644 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:53864610 original size:24 final size:23
Alignment explanation
Indices: 53864583--53864671 Score: 70
Period size: 25 Copynumber: 3.7 Consensus size: 23
53864573 GTTAAGCTCA
* **
53864583 ATGAGCTTCCTGTTTTAAACTCTT
1 ATGAGCTTCCTGTTAT-AACTCGG
* *
53864607 ATGAGTTTCCTGTTATAGCTCGG
1 ATGAGCTTCCTGTTATAACTCGG
** **
53864630 ATGAGCTTCCTGTTACATGGCTCAC
1 ATGAGCTTCCTGTT--ATAACTCGG
53864655 ATGAGCTTCCTGTTATA
1 ATGAGCTTCCTGTTATA
53864672 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:53864658 original size:25 final size:25
Alignment explanation
Indices: 53864630--53864677 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
53864620 TATAGCTCGG
53864630 ATGAGCTTCCTGTTACATGGCTCAC
1 ATGAGCTTCCTGTTACATGGCTCAC
*
53864655 ATGAGCTTCCTGTTATATGGCTC
1 ATGAGCTTCCTGTTACATGGCTC
53864678 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:53867093 original size:14 final size:14
Alignment explanation
Indices: 53867056--53867097 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
53867046 TCTTATCATC
53867056 AAATGTTATATTTTA
1 AAATGTTATA-TTTA
*
53867071 ATTAT-TTATATTTA
1 A-AATGTTATATTTA
53867085 AAATGTTATATTT
1 AAATGTTATATTT
53867098 TAGTTATTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 6 0.26
16 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (14 bp):
AAATGTTATATTTA
Found at i:53867773 original size:14 final size:15
Alignment explanation
Indices: 53867754--53867794 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
53867744 TTTCTTTTAA
53867754 TTAATTTAA-AAAAT
1 TTAATTTAATAAAAT
*
53867768 TTAA-TTAATTAAAT
1 TTAATTTAATAAAAT
53867782 TT-ATTTAATAAAA
1 TTAATTTAATAAAA
53867795 AAATAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAATTTAATAAAAT
Found at i:53880813 original size:21 final size:21
Alignment explanation
Indices: 53880787--53880828 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
53880777 TAATTTTTCT
53880787 ATCTATTTTGGGGTAATTTAA
1 ATCTATTTTGGGGTAATTTAA
53880808 ATCTATTTTGGGGTAATTTAA
1 ATCTATTTTGGGGTAATTTAA
53880829 CTAAAAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.48
Consensus pattern (21 bp):
ATCTATTTTGGGGTAATTTAA
Found at i:53882136 original size:22 final size:22
Alignment explanation
Indices: 53882111--53882161 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
53882101 TAAAATATTT
* * *
53882111 AATTATAAAATTTAAAATTTAA
1 AATTAAAAAAATTAAAAATTAA
53882133 AATTAAAAAAATTAAAAATTAA
1 AATTAAAAAAATTAAAAATTAA
53882155 AA-TAAAA
1 AATTAAAA
53882162 TTACAATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AATTAAAAAAATTAAAAATTAA
Found at i:53882145 original size:16 final size:16
Alignment explanation
Indices: 53882124--53882156 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
53882114 TATAAAATTT
*
53882124 AAAATTTAAAATTAAA
1 AAAATTAAAAATTAAA
53882140 AAAATTAAAAATTAAA
1 AAAATTAAAAATTAAA
53882156 A
1 A
53882157 TAAAATTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATTAAAAATTAAA
Found at i:53885766 original size:19 final size:22
Alignment explanation
Indices: 53885744--53885785 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
53885734 TTTCTTCTCT
53885744 TATTTT-TTTTT-TAAA-AATA
1 TATTTTATTTTTCTAAATAATA
53885763 TATTTTATTTTTCTAAATAATA
1 TATTTTATTTTTCTAAATAATA
53885785 T
1 T
53885786 GATCGGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 5 0.25
21 4 0.20
22 5 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTATTTTTCTAAATAATA
Found at i:53886751 original size:2 final size:2
Alignment explanation
Indices: 53886746--53886773 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
53886736 AGAGAGCTCC
53886746 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
53886774 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:53887341 original size:29 final size:29
Alignment explanation
Indices: 53887299--53887358 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
53887289 CTCTAATCTT
53887299 ACTTTTATCACTATTTTTATTAAGTGTAA
1 ACTTTTATCACTATTTTTATTAAGTGTAA
53887328 ACTTTTATCACTATTTTTATTAAGTGTAA
1 ACTTTTATCACTATTTTTATTAAGTGTAA
53887357 AC
1 AC
53887359 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:53887406 original size:12 final size:12
Alignment explanation
Indices: 53887389--53887413 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53887379 CCTTAATCTC
53887389 TTTGTTCTGTCA
1 TTTGTTCTGTCA
53887401 TTTGTTCTGTCA
1 TTTGTTCTGTCA
53887413 T
1 T
53887414 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:53889878 original size:21 final size:22
Alignment explanation
Indices: 53889839--53889880 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
53889829 ATTTCTTTTA
* *
53889839 TTTTTTTAACAAAATTTTAAGG
1 TTTTTTGAACAAAAATTTAAGG
53889861 TTTTTTGAA-AAAAATTTAAG
1 TTTTTTGAACAAAAATTTAAG
53889881 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:53899805 original size:26 final size:26
Alignment explanation
Indices: 53899748--53899798 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
53899738 CTCGTTATAT
*
53899748 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCAATTAAA
* *
53899774 GGCTCTTTGTGAGCTTCCTAATTAA
1 GGCTCTTCGTGAGCTTCCCAATTAA
53899799 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:53904513 original size:19 final size:19
Alignment explanation
Indices: 53904489--53904525 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
53904479 CACGTCAGTG
*
53904489 CTCTCTGATTACTAGCACA
1 CTCTCTGATCACTAGCACA
53904508 CTCTCTGATCACTAGCAC
1 CTCTCTGATCACTAGCAC
53904526 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:53904546 original size:22 final size:22
Alignment explanation
Indices: 53904520--53904565 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
53904510 CTCTGATCAC
*
53904520 TAGCACGTTAGTGCTCTCCGTT
1 TAGCACATTAGTGCTCTCCGTT
* *
53904542 TAGCACATTTGTGCTCTCTGTT
1 TAGCACATTAGTGCTCTCCGTT
53904564 TA
1 TA
53904566 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:53914422 original size:50 final size:50
Alignment explanation
Indices: 53914363--53914581 Score: 240
Period size: 50 Copynumber: 4.3 Consensus size: 50
53914353 TATCCCGGAT
* ** * *
53914363 ATGGTCTTACATGAAAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
** * * *
53914413 ATGGTCTTACGGGGGACCTCTCATTTCGGTGCCAACGCCATGTCCTAGAC
1 ATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
*
53914463 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * * * *
53914513 ATGGTCTTATATGGGACCTTTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGAGACCTCTCAT-A--TC---GGTGCCAACGCCATGTCCCAGAC
53914569 ATGGTCTTACATG
1 ATGGTCTTACATG
53914582 GGATCTCATT
Statistics
Matches: 141, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 106 0.75
53 2 0.01
56 33 0.23
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
Found at i:53914485 original size:100 final size:103
Alignment explanation
Indices: 53914363--53914581 Score: 273
Period size: 100 Copynumber: 2.1 Consensus size: 103
53914353 TATCCCGGAT
** * * *
53914363 ATGGTCTTACATGAAAGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGG
1 ATGGTCTTACATGAAACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG
* *
53914428 ACCTCTCAT-T-TC-GGTGCCAACGCCATGTCCTAGAC
66 ACCTCTCATATCTCAGATGCCAACGCCATGTCCCAGAC
* * * *
53914463 ATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTATATGGG
1 ATGGTCTTACATGAAACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG
* *
53914528 ACCTTTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
66 ACCTCTCAT-ATCTC-A-GATGCCAACGCCATGTCCCAGAC
53914569 ATGGTCTTACATG
1 ATGGTCTTACATG
53914582 GGATCTCATT
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
100 64 0.64
102 1 0.01
103 2 0.02
106 33 0.33
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (103 bp):
ATGGTCTTACATGAAACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG
ACCTCTCATATCTCAGATGCCAACGCCATGTCCCAGAC
Found at i:53917540 original size:41 final size:41
Alignment explanation
Indices: 53917495--53917609 Score: 214
Period size: 41 Copynumber: 2.8 Consensus size: 41
53917485 TGATTCAGTA
53917495 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
53917536 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
53917577 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
53917610 TATTACATTC
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
40 2 0.03
41 71 0.97
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:53925076 original size:41 final size:41
Alignment explanation
Indices: 53925031--53925145 Score: 214
Period size: 41 Copynumber: 2.8 Consensus size: 41
53925021 TGATTCAGTA
53925031 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
53925072 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
53925113 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
53925146 TATTACATTC
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
40 2 0.03
41 71 0.97
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:53938816 original size:6 final size:6
Alignment explanation
Indices: 53938791--53938839 Score: 80
Period size: 6 Copynumber: 7.8 Consensus size: 6
53938781 CCAAACACTC
53938791 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
53938840 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:53938869 original size:45 final size:45
Alignment explanation
Indices: 53938817--53938968 Score: 241
Period size: 45 Copynumber: 3.4 Consensus size: 45
53938807 GTAACAGTAA
* * *
53938817 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAC
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* * *
53938862 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCGAGT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
*
53938907 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCAAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
53938952 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
53938969 GTCGGCACAT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 97 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:53940982 original size:46 final size:45
Alignment explanation
Indices: 53940878--53941203 Score: 361
Period size: 46 Copynumber: 7.6 Consensus size: 45
53940868 TACGTATAAT
*
53940878 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTA-
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
* *
53940920 CATCTTATCACCTTTTCACTTGATCAGATAAATGTAGCTAAGGCTAC
1 CA-CTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
53940967 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
53941013 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
53941059 GACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
53941095 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
53941131 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* * *
53941177 CACTTATCACTCTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
53941204 AGTACTCAAA
Statistics
Matches: 255, Mismatches: 14, Indels: 26
0.86 0.05 0.09
Matches are distributed among these distances:
36 64 0.25
38 3 0.01
40 2 0.01
41 2 0.01
42 4 0.02
43 8 0.03
44 7 0.03
45 20 0.08
46 143 0.56
47 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:53941101 original size:36 final size:36
Alignment explanation
Indices: 53941060--53941167 Score: 198
Period size: 36 Copynumber: 3.0 Consensus size: 36
53941050 TAAAGCTACG
*
53941060 ACTTATCACTTTGTCACTTGATCAGATAAGTATAGC
1 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
53941096 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
1 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
*
53941132 ACTTATCACTTTTTCACTTGATCAGATAAGTGTAGC
1 ACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
53941168 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:53947570 original size:6 final size:6
Alignment explanation
Indices: 53947570--53947607 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
53947560 GATTTTTATT
*
53947570 TTTTTA TTTTTA TTTTTA CTTTTA TTTTT- TTATTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TT
53947608 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:53947584 original size:20 final size:20
Alignment explanation
Indices: 53947561--53947604 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
53947551 ATATACATAG
*
53947561 ATTTTTATTTTTTTATTTTT
1 ATTTTTACTTTTTTATTTTT
53947581 ATTTTTACTTTTATT-TTTTT
1 ATTTTTACTTTT-TTATTTTT
53947601 ATTT
1 ATTT
53947605 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:53948015 original size:109 final size:108
Alignment explanation
Indices: 53947812--53948151 Score: 486
Period size: 109 Copynumber: 3.1 Consensus size: 108
53947802 TACGCATATT
* *
53947812 AATATCCTTTTAAAAAAATTCAAAGTAA-GACAATGTTTTGCATTTGGAAATTCGAGAAAACGTG
1 AATATCCTTTT-AAAAATTTCAAAATAAGGA-AATGTTTTGCATTTGGAAATTCGAGAAAACGTG
* *
53947876 CCCTAATGCGCTGGGTTTCCATTTTTCTCGTTCGACCAAATAGCCA
64 CCCTAATGTGCTGGGTTTCGA-TTTTCTCGTTCGACCAAATAGCCA
* * *
53947922 AATAACCTTTTAAAAATTTTAAAATAAGGAAATGTTTTACATTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
*
53947987 CTAATGTGCTGAGTTTCGATTTTACTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTT-CTCGTTCGACCAAATAGCCA
* * * * *
53948031 AATATCCTTTTAGAAATATCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
* *
53948096 CTAATGTGTTGGGTTTCGA-TTTCTCGTTGGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTCTCGTTCGACCAAATAGCCA
*
53948138 AATATCCTCTTAAA
1 AATATCCTTTTAAA
53948152 TCTTAATCCA
Statistics
Matches: 207, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
107 31 0.15
108 7 0.03
109 157 0.76
110 12 0.06
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Consensus pattern (108 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGAAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTCTCGTTCGACCAAATAGCCA
Found at i:53954577 original size:12 final size:12
Alignment explanation
Indices: 53954562--53954586 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53954552 TCAATTCCAT
53954562 ATTCAAAGAAGA
1 ATTCAAAGAAGA
53954574 ATTCAAAGAAGA
1 ATTCAAAGAAGA
53954586 A
1 A
53954587 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:53960305 original size:37 final size:37
Alignment explanation
Indices: 53960264--53960335 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
53960254 AAGAAAATGA
*
53960264 ATAAAATTATAAAAATAT-AAAAGATATATATATGTGT
1 ATAAAATTATAAAAATATGAAAA-ATATATACATGTGT
**
53960301 ATAAAATTATGGAAATATGAAAAATATATACATGT
1 ATAAAATTATAAAAATATGAAAAATATATACATGT
53960336 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:53963418 original size:10 final size:10
Alignment explanation
Indices: 53963403--53963439 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
53963393 GGTGCTGCTG
53963403 GAAAAAGAGA
1 GAAAAAGAGA
53963413 GAAAAAGAGA
1 GAAAAAGAGA
*
53963423 GAAAGAGAAGA
1 GAAAAAG-AGA
53963434 GAAAAA
1 GAAAAA
53963440 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:53963674 original size:40 final size:41
Alignment explanation
Indices: 53963600--53963699 Score: 123
Period size: 40 Copynumber: 2.4 Consensus size: 41
53963590 TAGATGTTAC
* *
53963600 TTAGTATTATTGTTAGTAAAAAACTAGTATTATTA-TTATGG
1 TTAGTATTATTTTTAGTAAAAAACTAG-ATTATTATTTATAG
* *
53963641 TTAGTTATTATTTTTAGTAAAACACTA-ATTATTATTTTTAG
1 TTAG-TATTATTTTTAGTAAAAAACTAGATTATTATTTATAG
*
53963682 TTAGTATTATTTTGAGTA
1 TTAGTATTATTTTTAGTA
53963700 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:53969131 original size:156 final size:155
Alignment explanation
Indices: 53968927--53970260 Score: 1069
Period size: 156 Copynumber: 8.5 Consensus size: 155
53968917 AAAAAGTTAG
*
53968927 TTATTTCTTTCAATAAAAATATATTATTT-TCGTATTTTATTATTTTACATTATTTTAGTACATT
1 TTATTACTTTCAATAAAAATATATTATTTCT-GTATTTTATTATTTTACATTATTTTAGTACATT
* * *
53968991 ATGTTTGAAGTGTATTAGTTATTTCTTTTTTCTAAAAAAATTTAGTAAAAAACTCTTATTTCGGC
65 ATGTTTGAATTGTATTAATTATTTCTATTTT-TAAAAAAATTTAGTAAAAAACTCTTATTTCGGC
*
53969056 CATTTGTTCGTATTTTTTTCCCGAATT
129 CCTTTGTTCGTATTTTTTTCCCGAATT
53969083 TTATTACTTTCAATAAAAATATATTATTTCTGTATTTTATTATTTTACATTATTTTAGTACATTA
1 TTATTACTTTCAATAAAAATATATTATTTCTGTATTTTATTATTTTACATTATTTTAGTACATTA
* * * * *
53969148 TGTTTGAAGTGTATTAGTTATTTCTTTTTTCTAAAAAAATTTAGTAAAAAACTCTTATTTTGGTC
66 TGTTTGAATTGTATTAATTATTTCTATTTT-TAAAAAAATTTAGTAAAAAACTCTTATTTCGGCC
*
53969213 ATTTGTTCGTATTTTTTTCCCGAATT
130 CTTTGTTCGTATTTTTTTCCCGAATT
* *
53969239 TTATTACTTTCAATAAAAATATATTATTTCTGTA-TTT-TTA---AAAATTATTTCT-G-A-ATT
1 TTATTACTTTCAATAAAAATATATTATTTCTGTATTTTATTATTTTACATTATTT-TAGTACATT
* **
53969296 -T-TATT-ACTT-TCA--AA--A--TAAATTTTT--AAAAATTTAGTGTAAAAATAAACTCTTAT
65 ATGT-TTGAATTGT-ATTAATTATTTCTATTTTTAAAAAAATTTA--GT--AAA-AAACTCTTAT
* ** * **
53969349 TCCCACCCTTTGCTCGTATAATTTTCCCGAATT
123 TTCGGCCCTTTGTTCGTATTTTTTTCCCGAATT
* * *
53969382 TTATTACTTTCAATAAAAATATAATCT-TTTC-GTATTTTATTATTTTATATTATTTCAGCACAT
1 TTATTACTTTCAATAAAAATAT-AT-TATTTCTGTATTTTATTATTTTACATTATTTTAGTACAT
* * ** *
53969445 TTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTT-AAAAAATTTAGTAAAGGACTCTTAC
64 TATGTTTG--A-A-TTGTATTAATTATTTCT--ATTTTTAAAAAAATTTAGTAAAAAACTCTTAT
* *
53969509 TTCGGCCCTTTATTCGTATTTTTTTCTCCGCATT
123 TTCGGCCCTTTGTTCGTATTTTTTTC-CCGAATT
* * * *
53969543 TTATTACTTT--A-AAAAATATCATAATTTCT-AATTTTATAATTTTACATT-TTTTCAGTATAT
1 TTATTACTTTCAATAAAAATAT-ATTATTTCTGTATTTTATTATTTTACATTATTTT-AGTACAT
* * ** * *
53969603 TATGTTTGAAATT-TATTAATTTAGTGTGT-TTTTTAAATTAATGTAGTGTAAAAAAAAAACCCT
64 TATGTTTG-AATTGTATTAA-TTA-TTTCTATTTTTAAAAAAATTTA--GT----AAAAAACTCT
* * * * *
53969666 TATTCCTGCCCTTTGCTCGTATTATTTTCTCGAATT
120 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATT
* *
53969702 TTATTACTTTCAATGAAAATATATTATTT-TCGTATTTTATTATTTTATATTATTTTAGTACATT
1 TTATTACTTTCAATAAAAATATATTATTTCT-GTATTTTATTATTTTACATTATTTTAGTACATT
* * ** *
53969766 TTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAAA-TTAGTAAAGGACTCTTACT
65 ATGTTTG--A-A-TTGTATTAATTATTTCT--ATTTTTAAAAAAATTTAGTAAAAAACTCTTATT
* *
53969830 TCGGCCCTTTATTCGTATTTTTTTCTCCGCATT
124 TCGGCCCTTTGTTCGTATTTTTTTC-CCGAATT
* * * *
53969863 TTATTACTTT--A-AAAAATATCATAATTTCT-AATTTTATAATTTTACATT-TTTTCAGTATAT
1 TTATTACTTTCAATAAAAATAT-ATTATTTCTGTATTTTATTATTTTACATTATTTT-AGTACAT
* * ** *
53969923 TATGTTTGAAATT-TATTAATTTAGTGTGT-TTTTTAAATTAATTTAGTGTAAAATAAATTCTTA
64 TATGTTTG-AATTGTATTAA-TTA-TTTCTATTTTTAAAAAAATTTA--GT-AAA-AAACTCTTA
* * *
53969986 TTCCTGCCCTTTGCTT-GTATTATTTTCCCGAATT
122 TTTCGGCCCTTTG-TTCGTATTTTTTTCCCGAATT
* * * *
53970020 TTATTACTTTCATTAAAATTATATTATTT-TCGTATTTTATTATTTTATATTATTTCAGTACATT
1 TTATTACTTTCAATAAAAATATATTATTTCT-GTATTTTATTATTTTACATTATTTTAGTACATT
* *
53970084 TTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTT-AAAAAATTTAGTAAAACACTCTTATT
65 ATGTTTG--A-A-TTGTATTAATTATTTCT--ATTTTTAAAAAAATTTAGTAAAAAACTCTTATT
*
53970148 TCGGCCATTTGTTCGTATTTTTTTCTCC-ACATT
124 TCGGCCCTTTGTTCGTATTTTTTTC-CCGA-ATT
* *
53970181 TTATTACTTT-AA-AAAAACCATA--ATTT-T-TAATTTTATTATTTTACATTATTTTACTACAT
1 TTATTACTTTCAATAAAAA-TATATTATTTCTGT-ATTTTATTATTTTACATTATTTTAGTACAT
53970240 TATGTTTGAAATT-TATTAATT
64 TATGTTTG-AATTGTATTAATT
53970261 TAGTGTGTTT
Statistics
Matches: 951, Mismatches: 135, Indels: 187
0.75 0.11 0.15
Matches are distributed among these distances:
138 9 0.01
140 3 0.00
141 5 0.01
142 3 0.00
143 60 0.06
144 9 0.01
145 5 0.01
146 1 0.00
147 4 0.00
148 12 0.01
149 4 0.00
150 4 0.00
151 12 0.01
152 2 0.00
153 23 0.02
154 26 0.03
155 14 0.01
156 203 0.21
157 66 0.07
158 110 0.12
159 37 0.04
160 157 0.17
161 64 0.07
162 43 0.05
163 13 0.01
164 26 0.03
165 19 0.02
166 7 0.01
167 10 0.01
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.51
Consensus pattern (155 bp):
TTATTACTTTCAATAAAAATATATTATTTCTGTATTTTATTATTTTACATTATTTTAGTACATTA
TGTTTGAATTGTATTAATTATTTCTATTTTTAAAAAAATTTAGTAAAAAACTCTTATTTCGGCCC
TTTGTTCGTATTTTTTTCCCGAATT
Found at i:53969926 original size:320 final size:319
Alignment explanation
Indices: 53969315--53970277 Score: 1612
Period size: 320 Copynumber: 3.0 Consensus size: 319
53969305 TCAAAATAAA
** *
53969315 TTTTTAAA--AATTTAGTGTAAAAATAAACTCTTATTCCCACCCTTTGCTCGTATAATTTTCCCG
1 TTTTTAAATTAATTTAGTGTAAAAATAAACTCTTATTCCTGCCCTTTGCTCGTATTATTTTCCCG
* * *
53969378 AATTTTATTACTTTCAATAAAAATATAATCTTTTCGTATTTTATTATTTTATATTATTTCAGCAC
66 AATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTAC
53969443 ATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAGGACTCTTA
131 ATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAGGACTCTTA
53969508 CTTCGGCCCTTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTA
196 CTTCGGCCCTTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTA
53969573 ATTTTATAATTTTACATTTTTTCAGTATATTATGTTTGAAATTTATTAATTTAGTGTGT
261 ATTTTATAATTTTACATTTTTTCAGTATATTATGTTTGAAATTTATTAATTTAGTGTGT
* * * *
53969632 TTTTTAAATTAATGTAGTGTAAAAAAAAAACCCTTATTCCTGCCCTTTGCTCGTATTATTTTCTC
1 TTTTTAAATTAATTTAGTGT-AAAAATAAACTCTTATTCCTGCCCTTTGCTCGTATTATTTTCCC
* *
53969697 GAATTTTATTACTTTCAATGAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTA
65 GAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTA
*
53969762 CATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAAATTAGTAAAGGACTCTT
130 CATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAGGACTCTT
53969827 ACTTCGGCCCTTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCT
195 ACTTCGGCCCTTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCT
53969892 AATTTTATAATTTTACATTTTTTCAGTATATTATGTTTGAAATTTATTAATTTAGTGTGT
260 AATTTTATAATTTTACATTTTTTCAGTATATTATGTTTGAAATTTATTAATTTAGTGTGT
* *
53969952 TTTTTAAATTAATTTAGTGT-AAAATAAATTCTTATTCCTGCCCTTTGCTTGTATTATTTTCCCG
1 TTTTTAAATTAATTTAGTGTAAAAATAAACTCTTATTCCTGCCCTTTGCTCGTATTATTTTCCCG
* *
53970016 AATTTTATTACTTTCATTAAAATTATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTAC
66 AATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTAC
* **
53970081 ATTTTGTTTGAAATATTTGTATTAATTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTA
131 ATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAGGACTCTTA
* * * * * *
53970146 TTTCGGCCATTTGTTCGTATTTTTTTCTCCACATTTTATTACTTTAAAAAA-ACCATAATTTTTA
196 CTTCGGCCCTTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTA
* * *
53970210 ATTTTATTATTTTACATTATTTT-ACTACATTATGTTTGAAATTTATTAATTTAGTGTGT
261 ATTTTATAATTTTACATT-TTTTCAGTATATTATGTTTGAAATTTATTAATTTAGTGTGT
53970269 TTTTTAAAT
1 TTTTTAAAT
53970278 ATACCATTTT
Statistics
Matches: 606, Mismatches: 36, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
317 79 0.13
318 212 0.35
319 9 0.01
320 306 0.50
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (319 bp):
TTTTTAAATTAATTTAGTGTAAAAATAAACTCTTATTCCTGCCCTTTGCTCGTATTATTTTCCCG
AATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTCAGTAC
ATTTTGTTTGAAATATTTGTATTCATTATTTCTGAATTTTTAAAAAATTTAGTAAAGGACTCTTA
CTTCGGCCCTTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTA
ATTTTATAATTTTACATTTTTTCAGTATATTATGTTTGAAATTTATTAATTTAGTGTGT
Found at i:53970308 original size:157 final size:154
Alignment explanation
Indices: 53969354--53970280 Score: 631
Period size: 160 Copynumber: 5.8 Consensus size: 154
53969344 CTTATTCCCA
* ** *
53969354 CCCTTTGCTCGTATAATTTTC-CCGA-ATTTTATTACTTTCAATAAAAAT-ATAATCTTTTCGTA
1 CCCTTTGTTCGTATTTTTTTCTCC-ACATTTTATTACTTT-AA-AAAAATCATAAT-TTTT--AA
* * * * * * * *
53969416 TTTTATTATTTTATATTATTTCAGCACATTTTGTTTGAAATATT-TGTATTCATTATTTCTGAAT
60 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT-TTAT-TAAT--TTA-GTGTG-TT
* ** * *
53969480 TTTTAAA-A-AATTTAGTAAAGGACTCTTACTTCGG
119 TTTTAAATATAATTTTGTAAAATATTCTTATTTCGG
* * *
53969514 CCCTTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTA
1 CCCTTTGTTCGTATTTTTTTCTCCACATTTTATTACTTTAAAAAA-ATCATAATTTTTAATTTTA
* *
53969579 TAATTTTACATT-TTTTCAGTATATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAAT-T
65 TTATTTTACATTATTTT-AGTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATAT
* * ** * *
53969642 AATGTAGTGTAAAAAAAAAACCCTTATTCCTG
129 AAT-T-TTGT----AAAATATTCTTATTTCGG
* * * *
53969674 CCCTTTGCTCGTATTATTTTCTCGA-ATTTTATTACTTTCAATGAAAATAT-ATTATTTTCGT-A
1 CCCTTTGTTCGTATTTTTTTCTCCACATTTTATTACTTT-AA--AAAA-ATCATAATTTT--TAA
* * * * * *
53969736 TTTTATTATTTTATATTATTTTAGTACATTTTGTTTGAAATATT-TGTATTCATTATTTCTGAAT
60 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAAT-TTAT-TAAT--TTA-GTGTG-TT
* * ** * *
53969800 TTTTAAA-A-AAATTAGTAAAGGACTCTTACTTCGG
119 TTTTAAATATAATTTTGTAAAATATTCTTATTTCGG
* * *
53969834 CCCTTTATTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTA
1 CCCTTTGTTCGTATTTTTTTCTCCACATTTTATTACTTTAAAAAA-ATCATAATTTTTAATTTTA
* *
53969899 TAATTTTACATT-TTTTCAGTATATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAAT-T
65 TTATTTTACATTATTTT-AGTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATAT
* *
53969962 AATTTAGTGTAAAATAAATTCTTATTCCTG
129 AATTT--TGTAAAAT--ATTCTTATTTCGG
* ** *
53969992 CCCTTTGCTT-GTATTATTTTC-CCGA-ATTTTATTACTTTCATTAAAATTATATTATTTTCGT-
1 CCCTTTG-TTCGTATTTTTTTCTCC-ACATTTTATTACTTT-AAAAAAATCATA--ATTTT--TA
* * * * * *
53970053 ATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA-TTATTTCTGAA
59 ATTTTATTATTTTACATTATTTTAGTACATTATGTTTG-AA-A-TT-TATTAATTTA-GTGTG-T
* * *
53970117 TTTTTAAA-A-AATTTAGTAAAACACTCTTATTTCGG
118 TTTTTAAATATAATTTTGTAAAATATTCTTATTTCGG
* *
53970152 CCATTTGTTCGTATTTTTTTCTCCACATTTTATTACTTTAAAAAAACCATAATTTTTAATTTTAT
1 CCCTTTGTTCGTATTTTTTTCTCCACATTTTATTACTTTAAAAAAATCATAATTTTTAATTTTAT
*
53970217 TATTTTACATTATTTTACTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATATA
66 TATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATATA
53970281 CCATTTTTTC
Statistics
Matches: 602, Mismatches: 105, Indels: 126
0.72 0.13 0.15
Matches are distributed among these distances:
152 8 0.01
153 26 0.04
154 19 0.03
155 8 0.01
156 10 0.02
157 72 0.12
158 108 0.18
159 31 0.05
160 156 0.26
161 60 0.10
162 48 0.08
163 15 0.02
164 16 0.03
165 12 0.02
166 5 0.01
167 8 0.01
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.52
Consensus pattern (154 bp):
CCCTTTGTTCGTATTTTTTTCTCCACATTTTATTACTTTAAAAAAATCATAATTTTTAATTTTAT
TATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTTAAATATAA
TTTTGTAAAATATTCTTATTTCGG
Found at i:53970647 original size:4 final size:4
Alignment explanation
Indices: 53970638--53970741 Score: 51
Period size: 4 Copynumber: 25.8 Consensus size: 4
53970628 CCTCTTCTTC
* *
53970638 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
* *
53970683 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
53970729 TTC- TTC- TTCT TTC
1 TTCT TTCT TTCT TTC
53970742 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:53970656 original size:21 final size:21
Alignment explanation
Indices: 53970632--53970741 Score: 83
Period size: 18 Copynumber: 5.6 Consensus size: 21
53970622 TCCTTGCCTC
*
53970632 TTCTTCTTCTTTCTTTTTTTT
1 TTCTTCTTCTTTCTTTTTCTT
* *
53970653 TTCTTCTCCTTTCCTTTTCTT
1 TTCTTCTTCTTTCTTTTTCTT
*
53970674 TCCTTCTT-TTTC--TTTC-T
1 TTCTTCTTCTTTCTTTTTCTT
* * * *
53970691 TCCCTCTCCTTTCCTTTTC-T
1 TTCTTCTTCTTTCTTTTTCTT
*
53970711 TTCTTTTTCTTTC--TTTC-T
1 TTCTTCTTCTTTCTTTTTCTT
53970729 TTCTTCTTCTTTC
1 TTCTTCTTCTTTC
53970742 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:53970665 original size:10 final size:10
Alignment explanation
Indices: 53970632--53970741 Score: 72
Period size: 10 Copynumber: 11.3 Consensus size: 10
53970622 TCCTTGCCTC
53970632 TTCTTCTTCT
1 TTCTTCTTCT
* *
53970642 TTCTTTTTTTT
1 TTC-TTCTTCT
*
53970653 TTCTTCTCCT
1 TTCTTCTTCT
53970663 TTCCTT-TTCT
1 TT-CTTCTTCT
53970673 TTC--CTTCT
1 TTCTTCTTCT
53970681 TT-TTCTTTCT
1 TTCTTC-TTCT
* * *
53970691 TCCCTCTCCT
1 TTCTTCTTCT
53970701 TTCCTT-TTCT
1 TT-CTTCTTCT
*
53970711 TTCTTTTTCT
1 TTCTTCTTCT
53970721 TTC-T-TTCT
1 TTCTTCTTCT
53970729 TTCTTCTTCT
1 TTCTTCTTCT
53970739 TTC
1 TTC
53970742 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:53970741 original size:38 final size:38
Alignment explanation
Indices: 53970607--53970742 Score: 152
Period size: 38 Copynumber: 3.6 Consensus size: 38
53970597 AAAAATTACT
* * * *
53970607 TTTCCTTCTTTCTTTTCCTTGCCTCTTC-TTCTTCTTTC
1 TTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTT-TTTC
* *
53970645 TTT-TTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTCTT-
1 TTTCTTTCTTTCTTCTCCTTTCCTTTTCTTT-CTTTTTC
* *
53970682 TTTCTTTCTTCCCTCTCCTTTCCTTTTCTTTCTTTTTC
1 TTTCTTTCTTTCTTCTCCTTTCCTTTTCTTTCTTTTTC
*
53970720 TTTCTTTCTTTCTTCTTCTTTCC
1 TTTCTTTCTTTCTTCTCCTTTCC
53970743 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:53970752 original size:24 final size:23
Alignment explanation
Indices: 53970674--53970752 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 23
53970664 TCCTTTTCTT
53970674 TCCTTCTTTTTCTT-TCTTCCCTC
1 TCCTTCTTTTTCTTCT-TTCCCTC
* ** *
53970697 TCCTTTCCTTTTCTTTCTTTTTCTT
1 TCC-TTCTTTTTC-TTCTTTCCCTC
*
53970722 TCTTTCTTTCTTCTTCTTTCCCTC
1 TCCTTCTTT-TTCTTCTTTCCCTC
53970746 TCCTTCT
1 TCCTTCT
53970753 CTTCCCCCCA
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:53979394 original size:15 final size:15
Alignment explanation
Indices: 53979361--53979404 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
53979351 CCCACCACCA
* *
53979361 CCACCTCCACCACCG
1 CCACCGCCACCTCCG
*
53979376 CCACCGCCACCTCCT
1 CCACCGCCACCTCCG
*
53979391 CCACCGCCGCCTCC
1 CCACCGCCACCTCC
53979405 ACCAGAAGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.14, C:0.68, G:0.09, T:0.09
Consensus pattern (15 bp):
CCACCGCCACCTCCG
Found at i:53991936 original size:12 final size:12
Alignment explanation
Indices: 53991919--53991953 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
53991909 TTGTTCATTT
*
53991919 ATTCATCAAGTC
1 ATTCATTAAGTC
53991931 ATTCATTAAGTC
1 ATTCATTAAGTC
53991943 ATTCATTAAGT
1 ATTCATTAAGT
53991954 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
Found at i:53991972 original size:30 final size:30
Alignment explanation
Indices: 53991932--53991989 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
53991922 CATCAAGTCA
* *
53991932 TTCATTAAGTCATTCATTAAGTGTTTTTTT
1 TTCATCAAGTCATTCATCAAGTGTTTTTTT
*
53991962 TTCATCAAGTCTTTCATCAAGTGTTTTT
1 TTCATCAAGTCATTCATCAAGTGTTTTT
53991990 CATCAAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.53
Consensus pattern (30 bp):
TTCATCAAGTCATTCATCAAGTGTTTTTTT
Found at i:53991995 original size:26 final size:25
Alignment explanation
Indices: 53991958--53992013 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
53991948 TTAAGTGTTT
*
53991958 TTTTTTCATCAAGTCTTTCATCAAG
1 TTTTTTCATCAAGTCTTTAATCAAG
*
53991983 TGTTTTTCATCAAGTTTTTAATCAAG
1 T-TTTTTCATCAAGTCTTTAATCAAG
53992009 TTTTT
1 TTTTT
53992014 AATTACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.54
Consensus pattern (25 bp):
TTTTTTCATCAAGTCTTTAATCAAG
Found at i:53992016 original size:12 final size:12
Alignment explanation
Indices: 53991959--53992013 Score: 74
Period size: 12 Copynumber: 4.4 Consensus size: 12
53991949 TAAGTGTTTT
53991959 TTTTTCATCAAG
1 TTTTTCATCAAG
*
53991971 TCTTTCATCAAGTG
1 TTTTTCATCAA--G
53991985 TTTTTCATCAAG
1 TTTTTCATCAAG
*
53991997 TTTTTAATCAAG
1 TTTTTCATCAAG
53992009 TTTTT
1 TTTTT
53992014 AATTACCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 27 0.71
14 11 0.29
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:54000300 original size:12 final size:12
Alignment explanation
Indices: 54000283--54000317 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
54000273 TTGTTCATTT
*
54000283 ATTCATCAAGTC
1 ATTCATTAAGTC
54000295 ATTCATTAAGTC
1 ATTCATTAAGTC
54000307 ATTCATTAAGT
1 ATTCATTAAGT
54000318 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:54000334 original size:29 final size:29
Alignment explanation
Indices: 54000296--54000352 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
54000286 CATCAAGTCA
* *
54000296 TTCATTAAGTCATTCATTAAGTGTTTTTT
1 TTCATCAAGTCATTCATCAAGTGTTTTTT
*
54000325 TTCATCAAGTCTTTCATCAAGTGTTTTT
1 TTCATCAAGTCATTCATCAAGTGTTTTT
54000353 CATCAAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.53
Consensus pattern (29 bp):
TTCATCAAGTCATTCATCAAGTGTTTTTT
Found at i:54000358 original size:26 final size:25
Alignment explanation
Indices: 54000321--54000376 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
54000311 ATTAAGTGTT
*
54000321 TTTTTTCATCAAGTCTTTCATCAAG
1 TTTTTTCATCAAGTCTTTAATCAAG
*
54000346 TGTTTTTCATCAAGTTTTTAATCAAG
1 T-TTTTTCATCAAGTCTTTAATCAAG
54000372 TTTTT
1 TTTTT
54000377 AATTACCAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.54
Consensus pattern (25 bp):
TTTTTTCATCAAGTCTTTAATCAAG
Found at i:54000379 original size:12 final size:12
Alignment explanation
Indices: 54000322--54000376 Score: 74
Period size: 12 Copynumber: 4.4 Consensus size: 12
54000312 TTAAGTGTTT
54000322 TTTTTCATCAAG
1 TTTTTCATCAAG
*
54000334 TCTTTCATCAAGTG
1 TTTTTCATCAA--G
54000348 TTTTTCATCAAG
1 TTTTTCATCAAG
*
54000360 TTTTTAATCAAG
1 TTTTTCATCAAG
54000372 TTTTT
1 TTTTT
54000377 AATTACCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 27 0.71
14 11 0.29
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:54009810 original size:22 final size:21
Alignment explanation
Indices: 54009783--54009968 Score: 163
Period size: 22 Copynumber: 9.0 Consensus size: 21
54009773 TAGATTAGAA
*
54009783 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTGT-AATT
*
54009805 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
54009826 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
54009844 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
54009865 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
54009887 TATAGTTTTGGAT-TAGTAATT
1 TTTTG-TATGAATATTGTAATT
54009908 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
54009927 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGT-AATT
54009949 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
54009969 AATATTATAG
Statistics
Matches: 131, Mismatches: 20, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.02
19 30 0.23
20 23 0.18
21 26 0.20
22 41 0.31
23 8 0.06
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:54009854 original size:19 final size:19
Alignment explanation
Indices: 54009807--54009863 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
54009797 TTTAAATTTT
* *
54009807 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
54009827 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
54009846 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
54009864 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:54009949 original size:41 final size:40
Alignment explanation
Indices: 54009783--54009968 Score: 175
Period size: 41 Copynumber: 4.5 Consensus size: 40
54009773 TAGATTAGAA
*
54009783 TTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGT-AA--TTTTGTATGAATATTATAATT
* *
54009826 TTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
* * * *
54009865 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATT
1 -TTTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATT
54009908 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATT
54009949 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
54009969 AATATTATAG
Statistics
Matches: 118, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
39 22 0.19
40 6 0.05
41 44 0.37
42 33 0.28
43 10 0.08
44 3 0.03
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
Found at i:54010089 original size:19 final size:19
Alignment explanation
Indices: 54010065--54010122 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
54010055 TGAATGTTGT
54010065 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
54010084 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
* *
54010106 AATATTGTAATATTGTA
1 AATATTATAATTTTGTA
54010123 ATTTTGCATG
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 13 0.43
22 17 0.57
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:54010092 original size:96 final size:98
Alignment explanation
Indices: 54009917--54010143 Score: 368
Period size: 96 Copynumber: 2.3 Consensus size: 98
54009907 TTTTTGTATG
*
54009917 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAATATTATAGTTT
1 AATATTGTAATTTTGTATGAATATTAT-AATTTTTTGTATGAATATTG--ATAATATTATAATTT
54009982 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
63 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
54010018 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATGTTG-TAATATTATAATTTTGT
1 AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGATAATATTATAATTTTGT
54010081 ATGAATATTGCAATTTTTTTGTATGAATATTGT
66 ATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
54010114 AATATTGTAATTTTGCATGAATATTGTAAT
1 AATATTGTAATTTTGTATGAATATTATAAT
54010144 GTGAGGATAT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
96 73 0.61
97 2 0.02
99 18 0.15
101 26 0.22
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (98 bp):
AATATTGTAATTTTGTATGAATATTATAATTTTTTGTATGAATATTGATAATATTATAATTTTGT
ATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:54010139 original size:49 final size:49
Alignment explanation
Indices: 54009917--54010139 Score: 310
Period size: 49 Copynumber: 4.5 Consensus size: 49
54009907 TTTTTGTATG
** *
54009917 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
54009966 AATAATAT-TATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AAT-AT-TGTA-A-TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* *
54010018 AATTTTGTAATTTTGTATGAATATT---ATATTTTTTGTATGAATGTTGT
1 AATATTGTAATTTTGTATGAATATTGCAAT-TTTTTTGTATGAATATTGT
*
54010065 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
*
54010114 AATATTGTAATTTTGCATGAATATTG
1 AATATTGTAATTTTGTATGAATATTG
54010140 TAATGTGAGG
Statistics
Matches: 155, Mismatches: 10, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
46 2 0.01
47 41 0.26
49 60 0.39
50 8 0.05
51 5 0.03
52 39 0.25
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.53
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
Done.