Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 327 of 349
Found at i:108718827 original size:35 final size:37
Alignment explanation
Indices: 108718761--108718829 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 37
108718751 AATAGATATT
* * *
108718761 TATTATATTTATTATTATTATTTAATTAATTAATTGA
1 TATTATATTTATTATTATTAATGAATAAATTAATTGA
108718798 TATTATA-TTATTA-TATTAATGAATAAATTAAT
1 TATTATATTTATTATTATTAATGAATAAATTAAT
108718830 AAATTGACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.55
36 6 0.21
37 7 0.24
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (37 bp):
TATTATATTTATTATTATTAATGAATAAATTAATTGA
Found at i:108719179 original size:11 final size:11
Alignment explanation
Indices: 108719163--108719192 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
108719153 CAAAGTTTTC
108719163 TTGAAATTAAG
1 TTGAAATTAAG
108719174 TTGAAATTAAG
1 TTGAAATTAAG
108719185 TTGAAATT
1 TTGAAATT
108719193 TTGAAAGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (11 bp):
TTGAAATTAAG
Found at i:108724710 original size:28 final size:28
Alignment explanation
Indices: 108724673--108724726 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
108724663 ACTGAGCAAT
108724673 TTGCTCAACGTATGATTTGTTTTCTCTG
1 TTGCTCAACGTATGATTTGTTTTCTCTG
* *
108724701 TTGCTGAACGTATGGTTTGTTTTCTC
1 TTGCTCAACGTATGATTTGTTTTCTC
108724727 CATCGTATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.13, C:0.17, G:0.20, T:0.50
Consensus pattern (28 bp):
TTGCTCAACGTATGATTTGTTTTCTCTG
Found at i:108724850 original size:27 final size:27
Alignment explanation
Indices: 108724812--108724865 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
108724802 CATATATTTA
108724812 TGTTAAAGTGTGGTATGTACCTAGTTT
1 TGTTAAAGTGTGGTATGTACCTAGTTT
108724839 TGTTAAAGTGTGGTATGTACCTAGTTT
1 TGTTAAAGTGTGGTATGTACCTAGTTT
108724866 AGGTAAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.44
Consensus pattern (27 bp):
TGTTAAAGTGTGGTATGTACCTAGTTT
Found at i:108724872 original size:27 final size:27
Alignment explanation
Indices: 108724815--108724872 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
108724805 ATATTTATGT
* *
108724815 TAAAGTGTGGTATGTACCTAGTTTTGT
1 TAAAGTGTGGTATGTACCTAGTTTAGG
108724842 TAAAGTGTGGTATGTACCTAGTTTAGG
1 TAAAGTGTGGTATGTACCTAGTTTAGG
108724869 TAAA
1 TAAA
108724873 CTTTTGAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.40
Consensus pattern (27 bp):
TAAAGTGTGGTATGTACCTAGTTTAGG
Found at i:108727024 original size:26 final size:26
Alignment explanation
Indices: 108726988--108727046 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
108726978 TCAACCTGTT
* * * *
108726988 TGTATTTCTGTTATGTATTTCTATTA
1 TGTATGTCTGTTAGGTATGTATATTA
108727014 TGTATGTCTGTTAGGTATGTATATTA
1 TGTATGTCTGTTAGGTATGTATATTA
108727040 TGTATGT
1 TGTATGT
108727047 TATGTATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.20, C:0.05, G:0.19, T:0.56
Consensus pattern (26 bp):
TGTATGTCTGTTAGGTATGTATATTA
Found at i:108727032 original size:13 final size:13
Alignment explanation
Indices: 108726983--108727046 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
108726973 AAAGGTCAAC
*
108726983 CTGTT-TGTATTT
1 CTGTTATGTATGT
*
108726995 CTGTTATGTATTT
1 CTGTTATGTATGT
*
108727008 CTATTATGTATGT
1 CTGTTATGTATGT
*
108727021 CTGTTAGGTATGT
1 CTGTTATGTATGT
* *
108727034 ATATTATGTATGT
1 CTGTTATGTATGT
108727047 TATGTATATT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
12 5 0.11
13 39 0.89
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.56
Consensus pattern (13 bp):
CTGTTATGTATGT
Found at i:108727043 original size:9 final size:9
Alignment explanation
Indices: 108727029--108727164 Score: 91
Period size: 9 Copynumber: 14.7 Consensus size: 9
108727019 GTCTGTTAGG
108727029 TATGTATAT
1 TATGTATAT
*
108727038 TATGTATGT
1 TATGTATAT
108727047 TATGTATAT
1 TATGTATAT
*
108727056 TACTGTTTAT
1 TA-TGTATAT
*
108727066 GCATGTATAT
1 -TATGTATAT
*
108727076 TATGTATGT
1 TATGTATAT
108727085 TATGTA-AT
1 TATGTATAT
108727093 ATAT-TACTATT
1 -TATGTA-TA-T
*
108727104 TATGTATTT
1 TATGTATAT
*
108727113 TATGTATGTT
1 TATGTAT-AT
108727123 ATATAGTATAT
1 -TAT-GTATAT
*
108727134 TAT-TGT-T
1 TATGTATAT
* *
108727141 TATATATTT
1 TATGTATAT
108727150 TATGTATAT
1 TATGTATAT
108727159 TATGTA
1 TATGTA
108727165 GTGTTTATGT
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
7 4 0.04
8 7 0.07
9 56 0.55
10 22 0.22
11 8 0.08
12 4 0.04
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (9 bp):
TATGTATAT
Found at i:108727084 original size:13 final size:13
Alignment explanation
Indices: 108726998--108727180 Score: 67
Period size: 13 Copynumber: 15.0 Consensus size: 13
108726988 TGTATTTCTG
* *
108726998 TTATGTATTTCTA
1 TTATGTATGTATA
* *
108727011 TTATGTATGTCTG
1 TTATGTATGTATA
*
108727024 TTAGGTATGTATA
1 TTATGTATGTATA
108727037 TTATGTATGT-TA
1 TTATGTATGTATA
*
108727049 TGTA--TAT-TACTGT
1 T-TATGTATGTA-T-A
*
108727062 TTATGCATGTATA
1 TTATGTATGTATA
108727075 TTATGTATGT-TA
1 TTATGTATGTATA
* *
108727087 TGTA-ATATAT-TA
1 T-TATGTATGTATA
* * *
108727099 CTATTTATGTATT
1 TTATGTATGTATA
108727112 TTATGTATGT-TA
1 TTATGTATGTATA
108727124 -TA--TA-GTATA
1 TTATGTATGTATA
* *
108727133 TTATTGTTTATATA
1 TTA-TGTATGTATA
108727147 TT-T-TATGTATA
1 TTATGTATGTATA
*
108727158 TTATGTA-GTGT-
1 TTATGTATGTATA
108727169 TTATGTAT-TATA
1 TTATGTATGTATA
108727181 AGTGATTTCT
Statistics
Matches: 125, Mismatches: 25, Indels: 41
0.65 0.13 0.21
Matches are distributed among these distances:
8 2 0.02
9 4 0.03
10 3 0.02
11 24 0.19
12 25 0.20
13 56 0.45
14 9 0.07
15 2 0.02
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.56
Consensus pattern (13 bp):
TTATGTATGTATA
Found at i:108727106 original size:19 final size:20
Alignment explanation
Indices: 108727051--108727110 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
108727041 GTATGTTATG
* * *
108727051 TATATTACTGTTTATGCATG
1 TATATTACTATTTATGTATA
*
108727071 TATATTATGTATGTTATGTA-A
1 TATATTA-CTAT-TTATGTATA
108727092 TATATTACTATTTATGTAT
1 TATATTACTATTTATGTAT
108727111 TTTATGTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 7 0.22
20 10 0.31
21 9 0.28
22 6 0.19
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (20 bp):
TATATTACTATTTATGTATA
Found at i:108727118 original size:37 final size:36
Alignment explanation
Indices: 108727029--108727164 Score: 132
Period size: 37 Copynumber: 3.7 Consensus size: 36
108727019 GTCTGTTAGG
*
108727029 TATGTATATTATGTATGTTATG--TATATTACTGTTT
1 TATGTATATTATGTATGTTATGTATATATTACT-ATT
108727064 ATGCATGTATATTATGTATGTTATGTAATATATTACTATT
1 -T--ATGTATATTATGTATGTTATGT-ATATATTACTATT
* * * *
108727104 TATGTATTTTATGTATGTTATATAGTATATTATTGTT
1 TATGTATATTATGTATGTTATGTA-TATATTACTATT
* * *
108727141 TATATATTTTATGTATATTATGTA
1 TATGTATATTATGTATGTTATGTA
108727165 GTGTTTATGT
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
36 2 0.02
37 51 0.59
38 21 0.24
39 1 0.01
40 2 0.02
41 9 0.10
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (36 bp):
TATGTATATTATGTATGTTATGTATATATTACTATT
Found at i:108727121 original size:41 final size:38
Alignment explanation
Indices: 108727030--108727107 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
108727020 TCTGTTAGGT
*
108727030 ATGTATATTATGTATGTTATGTATATTACTGTTTATGC
1 ATGTATATTATGTATGTTATGTATATTACTATTTATGC
108727068 ATGTATATTATGTATGTTATGTAATATATTACTATTTATG
1 ATGTATATTATGTATGTTATG---TATATTACTATTTATG
108727108 TATTTTATGT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 21 0.58
41 15 0.42
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.53
Consensus pattern (38 bp):
ATGTATATTATGTATGTTATGTATATTACTATTTATGC
Found at i:108727319 original size:9 final size:9
Alignment explanation
Indices: 108727305--108727401 Score: 63
Period size: 9 Copynumber: 10.4 Consensus size: 9
108727295 TTCTGTTATG
108727305 TATGTATAT
1 TATGTATAT
*
108727314 TATGTATGT
1 TATGTATAT
108727323 TATGTATAT
1 TATGTATAT
*
108727332 TACTGTTTAT
1 TA-TGTATAT
* *
108727342 GCATGTGTAT
1 -TATGTATAT
*
108727352 TATGTATGT
1 TATGTATAT
108727361 TATGTA-AT
1 TATGTATAT
*
108727369 ATAT-TACTGTT
1 -TATGTA-T-AT
*
108727380 TATGTATTT
1 TATGTATAT
*
108727389 TATGTATGT
1 TATGTATAT
108727398 TATG
1 TATG
108727402 CTGTATATTA
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
8 3 0.04
9 47 0.67
10 16 0.23
11 4 0.06
ACGTcount: A:0.26, C:0.03, G:0.16, T:0.55
Consensus pattern (9 bp):
TATGTATAT
Found at i:108727338 original size:37 final size:34
Alignment explanation
Indices: 108727305--108727440 Score: 146
Period size: 37 Copynumber: 3.7 Consensus size: 34
108727295 TTCTGTTATG
108727305 TATGTATATTATGTATGTTATGTATATTACTGTTT
1 TATGTATATTATGTATGTTATGTATATTACTG-TT
*
108727340 ATGCATGTGTATTATGTATGTTATGTAATATATTACTGTT
1 -T--ATGTATATTATGTATGTTATG---TATATTACTGTT
*
108727380 TATGTATTTTATGTATGTTATGCTGTATATTACTGTT
1 TATGTATATTATGTATGTTA---TGTATATTACTGTT
* *
108727417 TATGTATTTTATGTACGTTATGTA
1 TATGTATATTATGTATGTTATGTA
108727441 GTGCTTATGT
Statistics
Matches: 88, Mismatches: 4, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
34 4 0.05
36 1 0.01
37 48 0.55
38 20 0.23
39 1 0.01
40 4 0.05
41 10 0.11
ACGTcount: A:0.25, C:0.04, G:0.16, T:0.54
Consensus pattern (34 bp):
TATGTATATTATGTATGTTATGTATATTACTGTT
Found at i:108727384 original size:19 final size:19
Alignment explanation
Indices: 108727360--108727422 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
108727350 ATTATGTATG
108727360 TTATGTAATATATTACTGT
1 TTATGTAATATATTACTGT
* *
108727379 TTATGTATTTTATGTA-TG-
1 TTATGTAATATAT-TACTGT
*
108727397 TTATGCT-GTATATTACTGT
1 TTATG-TAATATATTACTGT
108727416 TTATGTA
1 TTATGTA
108727423 TTTTATGTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 2 0.06
18 12 0.34
19 19 0.54
20 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.56
Consensus pattern (19 bp):
TTATGTAATATATTACTGT
Found at i:108727623 original size:37 final size:37
Alignment explanation
Indices: 108727582--108727678 Score: 158
Period size: 37 Copynumber: 2.6 Consensus size: 37
108727572 TTCTGTTATG
* *
108727582 TATGTATATTATGTATGTTATGTAATATATTATTGTT
1 TATGTATTTTATGTATGTTATGTAATATATTACTGTT
**
108727619 TATGTATTTTATGTATGTTATACAATATATTACTGTT
1 TATGTATTTTATGTATGTTATGTAATATATTACTGTT
108727656 TATGTATTTTATGTATGTTATGT
1 TATGTATTTTATGTATGTTATGT
108727679 TACTGTTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (37 bp):
TATGTATTTTATGTATGTTATGTAATATATTACTGTT
Found at i:108727631 original size:9 final size:9
Alignment explanation
Indices: 108727582--108727692 Score: 55
Period size: 9 Copynumber: 11.8 Consensus size: 9
108727572 TTCTGTTATG
*
108727582 TATGTATAT
1 TATGTATTT
*
108727591 TATGTATGT
1 TATGTATTT
* *
108727600 TATGTAATA
1 TATGTATTT
108727609 TAT-TATTGTT
1 TATGTA-T-TT
108727619 TATGTATTT
1 TATGTATTT
*
108727628 TATGTATGT
1 TATGTATTT
** * *
108727637 TATACAATA
1 TATGTATTT
108727646 TAT-TACTGTT
1 TATGTA-T-TT
108727656 TATGTATTT
1 TATGTATTT
*
108727665 TATGTATGT
1 TATGTATTT
108727674 TATGTTACTGTT
1 TATG-TA-T-TT
108727686 TATGTAT
1 TATGTAT
108727693 GTATGTTATG
Statistics
Matches: 76, Mismatches: 17, Indels: 17
0.69 0.15 0.15
Matches are distributed among these distances:
8 3 0.04
9 48 0.63
10 13 0.17
11 7 0.09
12 5 0.07
ACGTcount: A:0.27, C:0.03, G:0.14, T:0.57
Consensus pattern (9 bp):
TATGTATTT
Found at i:108727633 original size:276 final size:273
Alignment explanation
Indices: 108727015--108727677 Score: 970
Period size: 276 Copynumber: 2.4 Consensus size: 273
108727005 TTTCTATTAT
* * *
108727015 GTATGTCTGTTAGGTATGTATATTATGTATGTTATGTATATTACTGTTTATGCATGTATATTATG
1 GTATTTCTGTTATGTATGTATATTATGTATGTTATGTATATTACTG-TT-T--ATGTATTTTATG
* *
108727080 TATGTTATGTAATATATTACTATTTATGTATTTTATGTATGTTAT-ATAGTATATTATTGTTTAT
62 TATGTTATGTAATATATTACTGTTTATGTATTTTATGTATGTTATGATAGTATATTACTGTTTAT
* * * *
108727144 ATATTTTATGTATATTATGTAGTGTTTATGTATTATAAGTGATTTCTATTTTTTTTGTTGGCATT
127 ATATTTTATGTACATTATGTAGTGCTTATGTATTATAACTAATTTCTATTTTTTTTGTTGGCATT
* * * ** *
108727209 CGCGTGTATGTAGAGAACTCCATATTGAAGGGAATTCTTTTTCGTGGGTTAAGTCGATTGAGGCT
192 CACGTGTATGCAGAGAACTCCATATTGAAGGGAAATCTTTTTCAAGGGTTAAATCGATTGAGGCT
* * *
108727274 GAAAGGTCAGTTTGTTA
257 AAAAGGCCAGTCTGTTA
*
108727291 GTATTTCTGTTATGTATGTATATTATGTATGTTATGTATATTACTGTTTATGCATGTGTATTATG
1 GTATTTCTGTTATGTATGTATATTATGTATGTTATGTATATTACTGTTTATG--TAT-T-TTATG
*
108727356 TATGTTATGTAATATATTACTGTTTATGTATTTTATGTATGTTATGCT-GTATATTACTGTTTAT
62 TATGTTATGTAATATATTACTGTTTATGTATTTTATGTATGTTATGATAGTATATTACTGTTTAT
* *
108727420 GTATTTTATGTACGTTATGTAGTGCTTATGTATTATAACTAATTTCTAATTTTTTTTGTTGGCAT
127 ATATTTTATGTACATTATGTAGTGCTTATGTATTATAACTAATTTCT-ATTTTTTTTGTTGGCAT
*
108727485 TCATGTGTATGCAGAGAACTCCATATTGAAGGGAAATCTTTTTCAAGGGTTAAATCGATTGAGGC
191 TCACGTGTATGCAGAGAACTCCATATTGAAGGGAAATCTTTTTCAAGGGTTAAATCGATTGAGGC
108727550 TAAAAGGCCAGTCTGTTA
256 TAAAAGGCCAGTCTGTTA
*
108727568 GTATTTCTGTTATGTATGTATATTATGTATGTTATGTAATATATTATTGTTTATGTATTTTATGT
1 GTATTTCTGTTATGTATGTATATTATGTATGTTATG---TATATTACTGTTTATGTATTTTATGT
**
108727633 ATGTTATACAATATATTACTGTTTATGTATTTTATGTATGTTATG
63 ATGTTATGTAATATATTACTGTTTATGTATTTTATGTATGTTATG
108727678 TTACTGTTTA
Statistics
Matches: 351, Mismatches: 27, Indels: 18
0.89 0.07 0.05
Matches are distributed among these distances:
272 3 0.01
274 3 0.01
275 2 0.01
276 198 0.56
277 128 0.36
278 2 0.01
280 15 0.04
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (273 bp):
GTATTTCTGTTATGTATGTATATTATGTATGTTATGTATATTACTGTTTATGTATTTTATGTATG
TTATGTAATATATTACTGTTTATGTATTTTATGTATGTTATGATAGTATATTACTGTTTATATAT
TTTATGTACATTATGTAGTGCTTATGTATTATAACTAATTTCTATTTTTTTTGTTGGCATTCACG
TGTATGCAGAGAACTCCATATTGAAGGGAAATCTTTTTCAAGGGTTAAATCGATTGAGGCTAAAA
GGCCAGTCTGTTA
Found at i:108727699 original size:20 final size:19
Alignment explanation
Indices: 108727663--108727872 Score: 155
Period size: 20 Copynumber: 10.3 Consensus size: 19
108727653 GTTTATGTAT
108727663 TTTATGTATGTTATGTTACTG
1 TTTATGTATG-TATGTTA-TG
108727684 TTTATGTATGTATGTTATG
1 TTTATGTATGTATGTTATG
108727703 TTTACTATTGTTTATGTATGTTATG
1 -TT--TA-TG--TATGTATGTTATG
* *
108727728 TTTAT-TATTGTTTCTGTATG
1 TTTATGTA-TGTATGT-TATG
108727748 TATGTATGTATGTATG-TATG
1 T-T-TATGTATGTATGTTATG
108727768 TATGTATGTATGTATG-TATG
1 T-T-TATGTATGTATGTTATG
108727788 TATGTATGTATGTATG-TATG
1 T-T-TATGTATGTATGTTATG
108727808 TATGTATGTATGTATG-TATG
1 T-T-TATGTATGTATGTTATG
108727828 TATGTATGTATGTATG-TATG
1 T-T-TATGTATGTATGTTATG
108727848 -TTATGTTATGTTATGTTATG
1 TTTATG-TATG-TATGTTATG
108727868 TTTAT
1 TTTAT
108727873 TACTATTTAT
Statistics
Matches: 170, Mismatches: 4, Indels: 30
0.83 0.02 0.15
Matches are distributed among these distances:
17 4 0.02
18 7 0.04
19 11 0.06
20 102 0.60
21 16 0.09
22 11 0.06
23 4 0.02
24 2 0.01
25 13 0.08
ACGTcount: A:0.22, C:0.01, G:0.21, T:0.56
Consensus pattern (19 bp):
TTTATGTATGTATGTTATG
Found at i:108727751 original size:4 final size:4
Alignment explanation
Indices: 108727742--108727868 Score: 218
Period size: 4 Copynumber: 30.8 Consensus size: 4
108727732 TTATTGTTTC
108727742 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
108727790 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
108727838 TGTA TGTA TGTTA TGTTA TGTTA TGTTA TGT
1 TGTA TGTA TG-TA TG-TA TG-TA TG-TA TGT
108727869 TTATTACTAT
Statistics
Matches: 122, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
4 103 0.84
5 19 0.16
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:108740832 original size:6 final size:6
Alignment explanation
Indices: 108740823--108740860 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
108740813 CCGAGTCAAA
108740823 AAAAAT AAAAAAT AAAAAT AAAAA- ATAAAAT AAAAAT A
1 AAAAAT -AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT A
108740861 TATATTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 1 0.03
6 21 0.72
7 7 0.24
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:108740834 original size:7 final size:7
Alignment explanation
Indices: 108740822--108740852 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
108740812 TCCGAGTCAA
108740822 AAAAAAT
1 AAAAAAT
108740829 AAAAAAT
1 AAAAAAT
108740836 -AAAAAT
1 AAAAAAT
108740842 AAAAAAT
1 AAAAAAT
108740849 AAAA
1 AAAA
108740853 TAAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:108740841 original size:13 final size:13
Alignment explanation
Indices: 108740823--108740858 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
108740813 CCGAGTCAAA
108740823 AAAAATAAAAAAT
1 AAAAATAAAAAAT
108740836 AAAAATAAAAAAT
1 AAAAATAAAAAAT
108740849 -AAAATAAAAA
1 AAAAATAAAAA
108740859 TATATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:108747306 original size:46 final size:46
Alignment explanation
Indices: 108747254--108747481 Score: 260
Period size: 46 Copynumber: 5.0 Consensus size: 46
108747244 AGTGTGCTCT
** * *
108747254 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATTGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
** **
108747300 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATATTATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
108747346 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
108747392 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
108747438 GTGACA-GAAAATGAGTAAGACCATAGCTGAAAGACACTATGGCA
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
108747482 TCATGTCAAA
Statistics
Matches: 161, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 160 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:108752762 original size:31 final size:31
Alignment explanation
Indices: 108752712--108752774 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
108752702 TATAAAATAA
*** *
108752712 TTATTAAATTATTTGAAAGTTTTTATTCAAG
1 TTATTAAATTATACAAAAGTTTCTATTCAAG
*
108752743 TTATTAAATTATACAAAAGTTTCTATTTAAG
1 TTATTAAATTATACAAAAGTTTCTATTCAAG
108752774 T
1 T
108752775 CACTAATCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (31 bp):
TTATTAAATTATACAAAAGTTTCTATTCAAG
Found at i:108753496 original size:8 final size:8
Alignment explanation
Indices: 108753485--108753532 Score: 89
Period size: 8 Copynumber: 6.1 Consensus size: 8
108753475 TTAAATTCTT
108753485 AAATATAA
1 AAATATAA
108753493 AAATATAA
1 AAATATAA
108753501 AAATATAA
1 AAATATAA
108753509 AAATATAA
1 AAATATAA
108753517 AAATATAA
1 AAATATAA
108753525 AAAT-TAA
1 AAATATAA
108753532 A
1 A
108753533 TTCTGAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 4 0.10
8 36 0.90
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATATAA
Found at i:108754089 original size:21 final size:21
Alignment explanation
Indices: 108754065--108754104 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
108754055 AAAAATAAAC
108754065 AAAAGTAGTAAA-AGAATATTA
1 AAAAGTA-TAAAGAGAATATTA
*
108754086 AAAATTATAAAGAGAATAT
1 AAAAGTATAAAGAGAATAT
108754105 GAATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (21 bp):
AAAAGTATAAAGAGAATATTA
Found at i:108755516 original size:15 final size:16
Alignment explanation
Indices: 108755479--108755531 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 16
108755469 TTAAAAAATA
108755479 TTTATATTATATATTTT
1 TTTAT-TTATATATTTT
**
108755496 AATATTTA-ATATTTT
1 TTTATTTATATATTTT
* *
108755511 TTTATTTATAAAATTT
1 TTTATTTATATATTTT
108755527 TTTAT
1 TTTAT
108755532 ATAGTAATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 13 0.45
16 13 0.45
17 3 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTTATATATTTT
Found at i:108757600 original size:12 final size:13
Alignment explanation
Indices: 108757573--108757605 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
108757563 AAATCAAGCC
108757573 TAATATTATTATAT
1 TAATATTA-TATAT
108757587 TAATATTA-ATAT
1 TAATATTATATAT
108757599 TAATATT
1 TAATATT
108757606 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
14 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATATTATATAT
Found at i:108757753 original size:16 final size:19
Alignment explanation
Indices: 108757705--108757760 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
108757695 TTTTTTCATA
108757705 TAATAAATTATTAATATAGT
1 TAATAAATTATTAATATA-T
108757725 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
108757743 TAATAAATTATTTAATAT
1 TAATAAATTA-TTAATAT
108757761 TTCAATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 8 0.26
19 1 0.03
20 6 0.19
21 4 0.13
22 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:108760204 original size:30 final size:30
Alignment explanation
Indices: 108760170--108760226 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
108760160 AAAAGCCAAT
*
108760170 TGATTTTAATGTTTA-ATTTTTTTCAAAAAG
1 TGATTTTAA-GTTTATATGTTTTTCAAAAAG
*
108760200 TGATTTTGAGTTTATATGTTTTTCAAA
1 TGATTTTAAGTTTATATGTTTTTCAAA
108760227 TCTCAATTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (30 bp):
TGATTTTAAGTTTATATGTTTTTCAAAAAG
Found at i:108760816 original size:22 final size:22
Alignment explanation
Indices: 108760781--108760861 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
108760771 TACACACTGC
*
108760781 ATTTGTGGAAAAACCACCAGTA
1 ATTTGTAGAAAAACCACCAGTA
* ** *
108760803 ATTTGTAGATAAACTGCTAGTAAA
1 ATTTGTAGAAAAACCACCAGT--A
*
108760827 AATTGT-GAAAAACCACCAGTA
1 ATTTGTAGAAAAACCACCAGTA
*
108760848 ATTTGTAGATAAAC
1 ATTTGTAGAAAAAC
108760862 TGTTAGTAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
21 6 0.14
22 22 0.50
23 10 0.23
24 6 0.14
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (22 bp):
ATTTGTAGAAAAACCACCAGTA
Found at i:108760848 original size:45 final size:46
Alignment explanation
Indices: 108760783--108760905 Score: 189
Period size: 45 Copynumber: 2.7 Consensus size: 46
108760773 CACACTGCAT
108760783 TTGTGGAAAAACCACCAGTAATTTGTAGATAAACTGCTAGTAAAAA
1 TTGTGGAAAAACCACCAGTAATTTGTAGATAAACTGCTAGTAAAAA
*
108760829 TTGT-GAAAAACCACCAGTAATTTGTAGATAAACTGTTAGTAAAAA
1 TTGTGGAAAAACCACCAGTAATTTGTAGATAAACTGCTAGTAAAAA
* *
108760874 TTGTGGATAAACCACTAGT-ATTT-TCAGATAAA
1 TTGTGGAAAAACCACCAGTAATTTGT-AGATAAA
108760906 AAGTTTGCAG
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
44 1 0.01
45 55 0.76
46 16 0.22
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (46 bp):
TTGTGGAAAAACCACCAGTAATTTGTAGATAAACTGCTAGTAAAAA
Found at i:108760869 original size:22 final size:22
Alignment explanation
Indices: 108760799--108760870 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
108760789 AAAAACCACC
108760799 AGTAATTTGTAGATAAACTGCT
1 AGTAATTTGTAGATAAACTGCT
* * ** *
108760821 AGTAAAAATTGT-GAAAAACCACC
1 AGT--AATTTGTAGATAAACTGCT
*
108760844 AGTAATTTGTAGATAAACTGTT
1 AGTAATTTGTAGATAAACTGCT
108760866 AGTAA
1 AGTAA
108760871 AAATTGTGGA
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
21 6 0.17
22 14 0.39
23 10 0.28
24 6 0.17
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (22 bp):
AGTAATTTGTAGATAAACTGCT
Found at i:108760892 original size:24 final size:23
Alignment explanation
Indices: 108760791--108760893 Score: 68
Period size: 24 Copynumber: 4.5 Consensus size: 23
108760781 ATTTGTGGAA
* *
108760791 AAACCACCAGT-AATTTGTAGAT
1 AAACCACTAGTAAAATTGTAGAT
** *
108760813 AAACTGCTAGTAAAAATTGT-GAA
1 AAACCACTAGT-AAAATTGTAGAT
* *
108760836 AAACCACCAGT-AATTTGTAGAT
1 AAACCACTAGTAAAATTGTAGAT
*** *
108760858 AAACTGTTAGTAAAAATTGTGGAT
1 AAACCACTAGT-AAAATTGTAGAT
108760882 AAACCACTAGTA
1 AAACCACTAGTA
108760894 TTTTCAGATA
Statistics
Matches: 57, Mismatches: 19, Indels: 9
0.67 0.22 0.11
Matches are distributed among these distances:
21 6 0.11
22 17 0.30
23 11 0.19
24 23 0.40
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (23 bp):
AAACCACTAGTAAAATTGTAGAT
Found at i:108769862 original size:22 final size:20
Alignment explanation
Indices: 108769821--108769864 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
108769811 CATACAAAAT
*
108769821 ATGCCAAAAAGGCTAACAAA
1 ATGCCAAAAAGGCAAACAAA
*
108769841 ATGCCACAAAGGCCAAATCAAA
1 ATGCCAAAAAGG-CAAA-CAAA
108769863 AT
1 AT
108769865 ACTATAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 3 0.15
22 6 0.30
ACGTcount: A:0.52, C:0.23, G:0.14, T:0.11
Consensus pattern (20 bp):
ATGCCAAAAAGGCAAACAAA
Found at i:108772970 original size:17 final size:17
Alignment explanation
Indices: 108772950--108772985 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
108772940 TAATTAGTTA
108772950 AATT-AATTAATTTTCTC
1 AATTAAATT-ATTTTCTC
108772967 AATTAAATTATTTTCTC
1 AATTAAATTATTTTCTC
108772984 AA
1 AA
108772986 CCCAATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAAATTATTTTCTC
Found at i:108773489 original size:21 final size:21
Alignment explanation
Indices: 108773465--108773506 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
108773455 CTTAACCTTT
108773465 TTTGGGATAAAATTCGTTATC
1 TTTGGGATAAAATTCGTTATC
*
108773486 TTTGGGATAAAATTTGTTATC
1 TTTGGGATAAAATTCGTTATC
108773507 CCAATGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (21 bp):
TTTGGGATAAAATTCGTTATC
Found at i:108802036 original size:22 final size:23
Alignment explanation
Indices: 108802006--108802051 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
108801996 TGAATAATTT
108802006 TAATACTTTTAAAATTTTTAAAA
1 TAATACTTTTAAAATTTTTAAAA
* *
108802029 TAAT-CTTTTGAATTTTTTAAAA
1 TAATACTTTTAAAATTTTTAAAA
108802051 T
1 T
108802052 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (23 bp):
TAATACTTTTAAAATTTTTAAAA
Found at i:108804412 original size:5 final size:5
Alignment explanation
Indices: 108804402--108804443 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
108804392 TTATGTTTTA
108804402 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
108804444 ATAAAAACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:108804512 original size:5 final size:5
Alignment explanation
Indices: 108804502--108804532 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
108804492 GACGAAACAG
*
108804502 AAAGA AAAGA AAAAA AAAGA AAAGA AAAGA A
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA A
108804533 GAAATTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:108805338 original size:37 final size:37
Alignment explanation
Indices: 108805289--108805360 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
108805279 CATGGTAAGT
**
108805289 ATTAGTATTGAATTGTATGAAAT-CAAATTGAATTGTG
1 ATTAGTATTGAATAAT-TGAAATGCAAATTGAATTGTG
*
108805326 ATTA-TATGTGAATAATTGAAATGCATATTGAATTG
1 ATTAGTAT-TGAATAATTGAAATGCAAATTGAATTG
108805361 AGAAAGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 9 0.30
37 21 0.70
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (37 bp):
ATTAGTATTGAATAATTGAAATGCAAATTGAATTGTG
Found at i:108805661 original size:38 final size:39
Alignment explanation
Indices: 108805560--108805661 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 39
108805550 ACCTTGAGTT
* **
108805560 GATGAGACATTGGGTGTCATACTGTTACTCCGGATAGATTC
1 GATGAGACACTGGGTGTCA-ACT-TTACTCCGGATAGAGCC
** * * *
108805601 GATGAGGTACTGGGT-ACTACTTTACTCCGGCTAG-GCC
1 GATGAGACACTGGGTGTCAACTTTACTCCGGATAGAGCC
108805638 GATGAGACACTGGGTGTCAACTTT
1 GATGAGACACTGGGTGTCAACTTT
108805662 GCTTCGAACT
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
37 14 0.29
38 18 0.38
39 3 0.06
40 1 0.02
41 12 0.25
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAACTTTACTCCGGATAGAGCC
Found at i:108811081 original size:12 final size:12
Alignment explanation
Indices: 108811066--108811107 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
108811056 AAAATTCAAA
108811066 TATAAATATATT
1 TATAAATATATT
*
108811078 TATATATATATT
1 TATAAATATATT
*
108811090 TATGAAAAATATT
1 TAT-AAATATATT
108811103 T-TAAA
1 TATAAA
108811108 AAATACTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 3 0.12
12 15 0.58
13 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
TATAAATATATT
Found at i:108812636 original size:26 final size:27
Alignment explanation
Indices: 108812600--108812653 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
108812590 GTATATATAT
*
108812600 TTTTAATA-TTTAAATAAATCAAA-ATC
1 TTTTAAAATTTTAAA-AAATCAAAGATC
108812626 TTTTAAAATTTTAAAAAATCAAAGATC
1 TTTTAAAATTTTAAAAAATCAAAGATC
108812653 T
1 T
108812654 AAACTGATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (27 bp):
TTTTAAAATTTTAAAAAATCAAAGATC
Found at i:108813398 original size:30 final size:30
Alignment explanation
Indices: 108813324--108813437 Score: 104
Period size: 30 Copynumber: 3.7 Consensus size: 30
108813314 ATAAAATTAA
* * *
108813324 ATTAAATTAAATTATTTAAATATTTCATGTATC
1 ATTAAATT-AATTATTTAAA-A-ATCATTTATT
*
108813357 ATTATATTAATTATTTAAAAATCATTTATT
1 ATTAAATTAATTATTTAAAAATCATTTATT
* * *
108813387 ATTAAATTAATTTTTTAAATATAATTTATT
1 ATTAAATTAATTATTTAAAAATCATTTATT
*
108813417 ATTATATTTAAGTT-TTTAAAA
1 ATTA-AATTAA-TTATTTAAAA
108813438 TATTTTATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
30 37 0.54
31 12 0.17
32 13 0.19
33 7 0.10
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.53
Consensus pattern (30 bp):
ATTAAATTAATTATTTAAAAATCATTTATT
Found at i:108813415 original size:27 final size:28
Alignment explanation
Indices: 108813385--108813466 Score: 78
Period size: 31 Copynumber: 2.9 Consensus size: 28
108813375 AAATCATTTA
108813385 TTATTAA-ATTAATTTTTTAAATATAAT
1 TTATTAACATTAATTTTTTAAATATAAT
* * *
108813412 TTATTATTATATTTAAGTTTTTAAA-ATATT
1 TTATTA--ACA-TTAATTTTTTAAATATAAT
*
108813442 TTATATAACATTAATTTTATAAATA
1 TTAT-TAACATTAATTTTTTAAATA
108813467 AAGTATATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
27 6 0.14
28 11 0.25
29 4 0.09
30 9 0.20
31 14 0.32
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
TTATTAACATTAATTTTTTAAATATAAT
Found at i:108813438 original size:60 final size:58
Alignment explanation
Indices: 108813324--108813466 Score: 139
Period size: 60 Copynumber: 2.4 Consensus size: 58
108813314 ATAAAATTAA
* *
108813324 ATTAAATTAAATTATTTAAATATTTCATGTATCATTATATTAATTATTTAAAAATCATTTATT
1 ATTAAATT-AATTTTTTAAATA-TTAATGTATCATTATATTAATTATTTAAAAAT-A-TT-TT
* *
108813387 ATTAAATTAATTTTTTAAATA-TAATTTATTATTATATTTAAGTT-TTT-AAAATATTTT
1 ATTAAATTAATTTTTTAAATATTAATGTATCATTATA-TTAA-TTATTTAAAAATATTTT
*
108813444 ATATAACATTAATTTTATAAATA
1 AT-TAA-ATTAATTTTTTAAATA
108813467 AAGTATATCA
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
57 4 0.06
58 5 0.07
59 16 0.23
60 17 0.24
61 7 0.10
62 14 0.20
63 8 0.11
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (58 bp):
ATTAAATTAATTTTTTAAATATTAATGTATCATTATATTAATTATTTAAAAATATTTT
Found at i:108813445 original size:30 final size:28
Alignment explanation
Indices: 108813357--108813464 Score: 94
Period size: 30 Copynumber: 3.6 Consensus size: 28
108813347 TTCATGTATC
108813357 ATTATATTAATTATTTAAAA-ATCATTTATT
1 ATTATATTAATT-TTTAAAATAT--TTTATT
* *
108813387 ATTAAATTAATTTTTTAAATATAATTTATT
1 ATTATATTAA-TTTTTAAA-ATATTTTATT
108813417 ATTATATTTAAGTTTTTAAAATATTTTA-T
1 ATTATA-TTAA-TTTTTAAAATATTTTATT
* *
108813446 ATAACATTAATTTTATAAA
1 ATTATATTAATTTT-TAAA
108813465 TAAAGTATAT
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
27 4 0.06
28 8 0.12
29 5 0.08
30 33 0.50
31 15 0.23
32 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.54
Consensus pattern (28 bp):
ATTATATTAATTTTTAAAATATTTTATT
Found at i:108819559 original size:27 final size:27
Alignment explanation
Indices: 108819529--108819580 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
108819519 CCGCCATGAG
108819529 TTGCCGGTTAGCAGTACCGATGAACAA
1 TTGCCGGTTAGCAGTACCGATGAACAA
108819556 TTGCCGGTTAGCAGTACCGATGAAC
1 TTGCCGGTTAGCAGTACCGATGAAC
108819581 TATCTAGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (27 bp):
TTGCCGGTTAGCAGTACCGATGAACAA
Found at i:108821341 original size:30 final size:28
Alignment explanation
Indices: 108821307--108821371 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
108821297 TTTATCAAAC
108821307 AATTTTTTAATATAAATTCAACAATTATAA
1 AATTTTTTAATA-AAATTCAACAATT-TAA
** * **
108821337 AATTTAGTAATAAAATTTAAGTATTTAA
1 AATTTTTTAATAAAATTCAACAATTTAA
108821365 AATTTTT
1 AATTTTT
108821372 CGTTTATCAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
28 8 0.29
29 10 0.36
30 10 0.36
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (28 bp):
AATTTTTTAATAAAATTCAACAATTTAA
Found at i:108821351 original size:13 final size:15
Alignment explanation
Indices: 108821332--108821369 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
108821322 ATTCAACAAT
108821332 TATAAAATTT-AGTA
1 TATAAAATTTAAGTA
108821346 -ATAAAATTTAAGTA
1 TATAAAATTTAAGTA
*
108821360 TTTAAAATTT
1 TATAAAATTT
108821370 TTCGTTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 9 0.43
14 4 0.19
15 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (15 bp):
TATAAAATTTAAGTA
Found at i:108821597 original size:18 final size:20
Alignment explanation
Indices: 108821562--108821615 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
108821552 AAGAAGCATA
*
108821562 AAAATTATAAAAAAATTACA-
1 AAAATTAT-TAAAAATTACAG
*
108821582 AAAA-TATTAGAAATTACAG
1 AAAATTATTAAAAATTACAG
108821601 AAAATTATTAAAAAT
1 AAAATTATTAAAAAT
108821616 AATAGGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 9 0.31
19 7 0.24
20 13 0.45
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAATTATTAAAAATTACAG
Found at i:108822199 original size:18 final size:17
Alignment explanation
Indices: 108822159--108822216 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
108822149 TATTTATATA
*
108822159 TATTTATAAATTTTTGT
1 TATTTATAAATTTTTAT
*
108822176 AAATTTATAAATCTTTTAT
1 -TATTTATAAAT-TTTTAT
*
108822195 TATTTTTAGAATTTTTA-
1 TATTTATA-AATTTTTAT
108822212 TATTT
1 TATTT
108822217 TTTTATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.15
18 21 0.62
19 8 0.24
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (17 bp):
TATTTATAAATTTTTAT
Found at i:108822238 original size:19 final size:19
Alignment explanation
Indices: 108822192--108822231 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
108822182 ATAAATCTTT
*
108822192 TATTATTTTTAGAATTTTTA
1 TATT-TTTTTAGAATTTATA
*
108822212 TATTTTTTTATAATTTATA
1 TATTTTTTTAGAATTTATA
108822231 T
1 T
108822232 TCTTTTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TATTTTTTTAGAATTTATA
Found at i:108822562 original size:15 final size:17
Alignment explanation
Indices: 108822522--108822563 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
108822512 AAATTATAAG
108822522 ATCTAAATTCAAATATT
1 ATCTAAATTCAAATATT
**
108822539 ATCCGAATTCAAA-A-T
1 ATCTAAATTCAAATATT
108822554 ATCTAAATTC
1 ATCTAAATTC
108822564 GATGTTGCGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 9 0.43
16 1 0.05
17 11 0.52
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (17 bp):
ATCTAAATTCAAATATT
Found at i:108827836 original size:36 final size:36
Alignment explanation
Indices: 108827767--108827840 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
108827757 ATTTTGTCTC
*
108827767 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
108827804 TTTCTTA-ATTTATTTTGCTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
108827840 T
1 T
108827841 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:108827845 original size:18 final size:17
Alignment explanation
Indices: 108827794--108827841 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
108827784 TTTTTTAAGT
*
108827794 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
108827812 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
108827830 TTTATATTATTA
1 TTTATATTATTA
108827842 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:108827899 original size:21 final size:21
Alignment explanation
Indices: 108827843--108827916 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
108827833 ATATTATTAA
* * * *
108827843 TTTTAAAAAATTTGTAATATA
1 TTTTTAAAATTTTATAATATT
*
108827864 TATTTAAAATGTTTTATAATATT
1 TTTTTAAAA--TTTTATAATATT
*
108827887 TTTTTAAAATTTTA-ATTATT
1 TTTTTAAAATTTTATAATATT
108827907 ATTTTTAAAA
1 -TTTTTAAAA
108827917 ATATTTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 5 0.12
21 21 0.49
23 17 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTTTATAATATT
Found at i:108827917 original size:22 final size:23
Alignment explanation
Indices: 108827830--108827918 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 23
108827820 GCTTATTTAA
* *
108827830 TTTATATTATTAATTTTAAAAAA
1 TTTATATTATTATTTTTAAAAAT
* * * *
108827853 TTTGTAATA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAA-AT
*
108827876 TTTATAATATT-TTTTT-AAAAT
1 TTTATATTATTATTTTTAAAAAT
108827897 TTTA-ATTATTATTTTTAAAAAT
1 TTTATATTATTATTTTTAAAAAT
108827919 ATTTTTTAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
20 5 0.10
21 10 0.19
22 17 0.33
23 19 0.37
24 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTATATTATTATTTTTAAAAAT
Found at i:108828247 original size:28 final size:29
Alignment explanation
Indices: 108828178--108828247 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
108828168 GTGACTATTA
108828178 ATAAAT-TTAAATA-TAAATATAAATTTT
1 ATAAATATTAAATATTAAATATAAATTTT
* * *
108828205 AAAAAGTA-TATATATTAAATAT-TATTTT
1 ATAAA-TATTAAATATTAAATATAAATTTT
108828233 ATAAATATTAAATAT
1 ATAAATATTAAATAT
108828248 ATTTTTTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
27 6 0.18
28 21 0.62
29 7 0.21
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (29 bp):
ATAAATATTAAATATTAAATATAAATTTT
Found at i:108828255 original size:23 final size:21
Alignment explanation
Indices: 108828211--108828252 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
108828201 TTTTAAAAAG
*
108828211 TATATATATTAAATATTATTT
1 TATAAATATTAAATATTATTT
108828232 TATAAATATTAAATA-TATTT
1 TATAAATATTAAATATTATTT
108828252 T
1 T
108828253 TTTCTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATAAATATTAAATATTATTT
Found at i:108828428 original size:27 final size:26
Alignment explanation
Indices: 108828398--108828468 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
108828388 TTTTAAACAC
*
108828398 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTAAATA-ATTTAAAAAATCAT
* * *
108828425 AATTTTTCAATAATATAAGAAATCAT
1 AATTTTTAAATAATTTAAAAAATCAT
*
108828451 AATATTTTAGATATATTT
1 AAT-TTTTAAATA-ATTT
108828469 TTTAAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
26 14 0.40
27 18 0.51
28 3 0.09
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (26 bp):
AATTTTTAAATAATTTAAAAAATCAT
Found at i:108828447 original size:26 final size:27
Alignment explanation
Indices: 108828398--108828459 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
108828388 TTTTAAACAC
* *
108828398 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTAAATACATATAAAAAATCAT
* *
108828425 AATTTTTCAATA-ATATAAGAAATCAT
1 AATTTTTAAATACATATAAAAAATCAT
108828451 AATATTTTA
1 AAT-TTTTA
108828460 GATATATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTAAATACATATAAAAAATCAT
Found at i:108828521 original size:34 final size:34
Alignment explanation
Indices: 108828466--108828530 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
108828456 TTTAGATATA
* *
108828466 TTTTTTAAAATTTTGTCTTTTTCCTTTTTTTTAC
1 TTTTTTAAAATTTTATCTTTTTCCTTATTTTTAC
* * *
108828500 TTTTTTGAAATTTTATGTTTTTTCTTATTTT
1 TTTTTTAAAATTTTATCTTTTTCCTTATTTT
108828531 ATTTTGTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (34 bp):
TTTTTTAAAATTTTATCTTTTTCCTTATTTTTAC
Found at i:108828627 original size:21 final size:21
Alignment explanation
Indices: 108828588--108828631 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
108828578 ATTTAAAATG
108828588 TTTTATAATATATTTTTTATAA
1 TTTTATAATATATTTTTTA-AA
108828610 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
108828630 TT
1 TT
108828632 CTTTTTTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:108828756 original size:18 final size:18
Alignment explanation
Indices: 108828733--108828771 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
108828723 GTGACTATTA
*
108828733 ATAAATTTAAATATAAAT
1 ATAAATTTAAAAATAAAT
*
108828751 ATAAATTTAAAAATATAT
1 ATAAATTTAAAAATAAAT
108828769 ATA
1 ATA
108828772 TTAAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAATTTAAAAATAAAT
Found at i:108833630 original size:120 final size:120
Alignment explanation
Indices: 108833491--108834356 Score: 1522
Period size: 120 Copynumber: 7.2 Consensus size: 120
108833481 TATATTTAGA
* * * * *
108833491 AAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGT
1 AAAA-TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGT
* *
108833556 AAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTAATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
* * * *
108833612 AAAATATATTTAATAATAATTAT-TTCAAATTATA-TTTATAGTATCATATATTATAATTTTAGT
1 AAAATATATTTAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTCAGT
* * *
108833675 AAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATATTTTAATT
65 AAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
*
108833731 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
*
108833796 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
*
108833851 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCACATATTATGATTTCAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
108833916 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
108833971 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
*
108834036 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
108834091 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
108834156 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
108834211 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
1 AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
108834276 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
66 AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
108834331 AAAATATATTTAATAATAATTATGTT
1 AAAATATATTTAATAATAATTATGTT
108834357 TAAATATGAT
Statistics
Matches: 724, Mismatches: 17, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
118 3 0.00
119 110 0.15
120 607 0.84
121 4 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
AAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTA
AATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATT
Found at i:108833973 original size:18 final size:17
Alignment explanation
Indices: 108833945--108833979 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108833935 ATTATTAAGA
*
108833945 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
108833962 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
108833980 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:108834213 original size:18 final size:17
Alignment explanation
Indices: 108834185--108834219 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108834175 ATTATTAAGA
*
108834185 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
108834202 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
108834220 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:108834333 original size:18 final size:17
Alignment explanation
Indices: 108834305--108834339 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108834295 ATTATTAAGA
*
108834305 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
108834322 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
108834340 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:108834553 original size:44 final size:45
Alignment explanation
Indices: 108834504--108834594 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
108834494 ACCTCTATTC
* * *
108834504 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
108834548 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
108834593 CA
1 CA
108834595 CCCTAAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:108834596 original size:16 final size:16
Alignment explanation
Indices: 108834575--108834643 Score: 113
Period size: 16 Copynumber: 4.2 Consensus size: 16
108834565 GATTAGCTAT
108834575 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
108834591 TACACC-CTAAATCCCAA
1 TACACCTCT-AAT-CCAA
108834608 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
108834624 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
108834640 TACA
1 TACA
108834644 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.04
16 33 0.66
17 13 0.26
18 2 0.04
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:108834617 original size:33 final size:32
Alignment explanation
Indices: 108834575--108834643 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 32
108834565 GATTAGCTAT
108834575 TACACCTCTAATCCAATACACC-CTAAATCCCAA
1 TACACCTCTAATCCAATACACCTCT-AAT-CCAA
108834608 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
108834640 TACA
1 TACA
108834644 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 8 0.23
33 25 0.71
34 2 0.06
ACGTcount: A:0.39, C:0.38, G:0.00, T:0.23
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:108838901 original size:14 final size:13
Alignment explanation
Indices: 108838867--108838908 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 13
108838857 ACTTGAAATG
108838867 TATTTTTT-TAAA
1 TATTTTTTATAAA
*
108838879 -ATGTTTTATAATA
1 TATTTTTTATAA-A
108838892 TATTTTTTATAAA
1 TATTTTTTATAAA
108838905 TATT
1 TATT
108838909 AAAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 6 0.24
12 3 0.12
13 6 0.24
14 10 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TATTTTTTATAAA
Found at i:108838949 original size:31 final size:34
Alignment explanation
Indices: 108838895--108838961 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 34
108838885 TATAATATAT
108838895 TTTTTATAAATATTAAAAATATATTTTCAA-ATTA
1 TTTTTATAAATATT-AAAATATATTTTCAATATTA
*
108838929 TTTTT-TAAATATT-AAATATATTTTTAATATTA
1 TTTTTATAAATATTAAAATATATTTTCAATATTA
108838961 T
1 T
108838962 AAAACATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 13 0.42
32 5 0.16
33 8 0.26
34 5 0.16
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (34 bp):
TTTTTATAAATATTAAAATATATTTTCAATATTA
Found at i:108839009 original size:29 final size:28
Alignment explanation
Indices: 108838977--108839037 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
108838967 ATTTAAAATG
108838977 ATTTAAAATGATTTAAAATATTTTTTAA
1 ATTTAAAATGATTTAAAATATTTTTTAA
* *
108839005 TATTTTAAATGATTTTAAATATTTTTTAA
1 -ATTTAAAATGATTTAAAATATTTTTTAA
108839034 ATTT
1 ATTT
108839038 TACTTAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (28 bp):
ATTTAAAATGATTTAAAATATTTTTTAA
Found at i:108839010 original size:9 final size:9
Alignment explanation
Indices: 108838931--108839029 Score: 65
Period size: 10 Copynumber: 10.4 Consensus size: 9
108838921 TCAAATTATT
108838931 TTTTAAATA
1 TTTTAAATA
*
108838940 -TTAAATATA
1 TTTTAA-ATA
*
108838949 TTTTTAATA
1 TTTTAAATA
* *
108838958 TTATAAAACA
1 TT-TTAAATA
*
108838968 TTTAAAATGA
1 TTTTAAAT-A
*
108838978 TTTAAAATGA
1 TTTTAAAT-A
*
108838988 TTTAAAATA
1 TTTTAAATA
*
108838997 TTTTTTAATA
1 -TTTTAAATA
108839007 TTTTAAATGA
1 TTTTAAAT-A
108839017 TTTTAAATA
1 TTTTAAATA
108839026 TTTT
1 TTTT
108839030 TTAAATTTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
8 4 0.05
9 26 0.35
10 44 0.59
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (9 bp):
TTTTAAATA
Found at i:108839777 original size:10 final size:10
Alignment explanation
Indices: 108839762--108839831 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
108839752 AAAATAATAA
108839762 TTAAAAATTT
1 TTAAAAATTT
108839772 TT-AAAATTT
1 TTAAAAATTT
108839781 TTAAAAATATT
1 TTAAAAAT-TT
*
108839792 ATAAAACA-TT
1 TTAAAA-ATTT
* *
108839802 TTAAATAAATA
1 TTAAA-AATTT
*
108839813 TTATAAATTT
1 TTAAAAATTT
*
108839823 TTTAAAATT
1 TTAAAAATT
108839832 AATAATATAC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
9 9 0.19
10 24 0.51
11 13 0.28
12 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (10 bp):
TTAAAAATTT
Found at i:108839814 original size:23 final size:22
Alignment explanation
Indices: 108839777--108839819 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
108839767 AATTTTTAAA
*
108839777 ATTTTTAAAAATATTATAAAAC
1 ATTTTAAAAAATATTATAAAAC
108839799 ATTTTAAATAAATATTATAAA
1 ATTTTAAA-AAATATTATAAA
108839820 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTTAAAAAATATTATAAAAC
Found at i:108839824 original size:21 final size:20
Alignment explanation
Indices: 108839762--108839829 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 20
108839752 AAAATAATAA
*
108839762 TTAAAAAT-TTTTAAAATTT
1 TTAAAAATATTATAAAATTT
108839781 TTAAAAATATTATAAAACATTT
1 TTAAAAATATTAT-AAA-ATTT
* *
108839803 TAAATAAATATTATAAATTTT
1 TTAA-AAATATTATAAAATTT
108839824 TTAAAA
1 TTAAAA
108839830 TTAATAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 8 0.20
20 5 0.12
21 9 0.22
22 10 0.24
23 9 0.22
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAAATATTATAAAATTT
Found at i:108839877 original size:18 final size:18
Alignment explanation
Indices: 108839827--108839880 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
108839817 AAATTTTTTA
* *
108839827 AAATTAATAATATACATT
1 AAATAAATAATATAAATT
* *
108839845 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
108839863 AAGA-AAATAATATAAATT
1 AA-ATAAATAATATAAATT
108839881 TTAAAAAAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:108839943 original size:17 final size:16
Alignment explanation
Indices: 108839921--108839960 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
108839911 AAAATATAAG
108839921 AAAAAAATAAAAAAGTT
1 AAAAAAATAAAAAAG-T
*
108839938 AAAAAAGTAAAAAAGT
1 AAAAAAATAAAAAAGT
108839954 AAAAAAA
1 AAAAAAA
108839961 AATATAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (16 bp):
AAAAAAATAAAAAAGT
Found at i:108839960 original size:9 final size:8
Alignment explanation
Indices: 108839921--108839959 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
108839911 AAAATATAAG
*
108839921 AAAAAAAT
1 AAAAAAGT
108839929 AAAAAAGTT
1 AAAAAAG-T
108839938 AAAAAAGT
1 AAAAAAGT
108839946 AAAAAAGT
1 AAAAAAGT
108839954 AAAAAA
1 AAAAAA
108839960 AAATATAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (8 bp):
AAAAAAGT
Found at i:108844776 original size:65 final size:65
Alignment explanation
Indices: 108844672--108844801 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
108844662 ATGACAAACA
108844672 GATTGTGAGTCCTGACCTTAACATAATCTAAATTGAAATAGTAAGCTATTATAATCAGTTTCTTC
1 GATTGTGAGTCCTGACCTTAACATAATCTAAATTGAAATAGTAAGCTATTATAATCAGTTTCTTC
108844737 GATTGTGAGTCCTGACCTTAACATAATCTAAATTGAAATAGTAAGCTATTATAATCAGTTTCTTC
1 GATTGTGAGTCCTGACCTTAACATAATCTAAATTGAAATAGTAAGCTATTATAATCAGTTTCTTC
108844802 ATTCTTTCCC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (65 bp):
GATTGTGAGTCCTGACCTTAACATAATCTAAATTGAAATAGTAAGCTATTATAATCAGTTTCTTC
Found at i:108849164 original size:48 final size:50
Alignment explanation
Indices: 108849071--108849164 Score: 138
Period size: 49 Copynumber: 1.9 Consensus size: 50
108849061 TATAGTCGAC
** *
108849071 ACCCTTTCTATCAATTTAAAAAAAAAATTAGTTTTGGGCACCCCATGGAT
1 ACCCTTTCTATCAATTTAAAAAAAAAAGGAGTTTTGGACACCCCATGGAT
*
108849121 ACCCTTT-TATCAATTTAAAAAAAAAAGGA-TTTTGGACATCCCAT
1 ACCCTTTCTATCAATTTAAAAAAAAAAGGAGTTTTGGACACCCCAT
108849165 AGCCAGCACC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 13 0.32
49 20 0.50
50 7 0.17
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (50 bp):
ACCCTTTCTATCAATTTAAAAAAAAAAGGAGTTTTGGACACCCCATGGAT
Found at i:108850637 original size:11 final size:11
Alignment explanation
Indices: 108850621--108850647 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
108850611 GTCTCATTTA
108850621 TTTTTTTGTCT
1 TTTTTTTGTCT
108850632 TTTTTTTGTCT
1 TTTTTTTGTCT
108850643 TTTTT
1 TTTTT
108850648 CCTACTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (11 bp):
TTTTTTTGTCT
Found at i:108851402 original size:14 final size:14
Alignment explanation
Indices: 108851392--108851473 Score: 59
Period size: 14 Copynumber: 5.9 Consensus size: 14
108851382 TACTATTTTC
108851392 TTATCATTATTATA
1 TTATCATTATTATA
*
108851406 TTATTATTATTATA
1 TTATCATTATTATA
108851420 TTAT-A-T-TTAGTA
1 TTATCATTATTA-TA
*
108851432 TTATCTTTAATATTATA
1 TTATC---ATTATTATA
108851449 TT-TCTATTATTATA
1 TTATC-ATTATTATA
108851463 TT-T-ATTATTAT
1 TTATCATTATTAT
108851474 CTATTACTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
11 3 0.05
12 15 0.25
13 1 0.02
14 29 0.49
16 3 0.05
17 5 0.08
18 3 0.05
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (14 bp):
TTATCATTATTATA
Found at i:108851410 original size:3 final size:3
Alignment explanation
Indices: 108851378--108851516 Score: 75
Period size: 3 Copynumber: 48.3 Consensus size: 3
108851368 TGCTTTAACG
* * *
108851378 TTA TTA CTA TT- TTC TTA TCA TTA TTA -TA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
108851423 -TA TTTA GTA TTA TCT- TTA ATA TTA -TA TT- TCTA TTA TTA -TA TTTA
1 TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA
* * * *
108851467 TTA TTA TCTA TTA CT- TTA TTT TTA TTT TTA TT- TTA ATA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
108851511 -TA TTA T
1 TTA TTA T
108851517 ATTCACCTTT
Statistics
Matches: 103, Mismatches: 17, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
2 19 0.18
3 75 0.73
4 9 0.09
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:108851445 original size:38 final size:39
Alignment explanation
Indices: 108851399--108851508 Score: 110
Period size: 38 Copynumber: 3.0 Consensus size: 39
108851389 TTCTTATCAT
*
108851399 TATT-ATATTATTATTATTATATTATATTTAGTATTATC
1 TATTAATATTATTATTATTATATTATATTTAATATTATC
*
108851437 T-TTAATATTA-TATT-TCTATTATTATATTTATTATTATC
1 TATTAATATTATTATTAT-TA-TATTATATTTAATATTATC
* *
108851475 TATTACT-TTATTTTTATT-T-TTAT-TTTAATATTAT
1 TATTAATATTATTATTATTATATTATATTTAATATTAT
108851509 TATATTATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
35 10 0.16
36 5 0.08
37 9 0.15
38 29 0.47
39 8 0.13
40 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (39 bp):
TATTAATATTATTATTATTATATTATATTTAATATTATC
Found at i:108851459 original size:26 final size:23
Alignment explanation
Indices: 108851399--108851473 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 23
108851389 TTCTTATCAT
108851399 TATTATATTATTATTATT-ATATTA
1 TATT-TATTATTATT-TTAATATTA
*
108851423 TATTTAGTATTATCTTTAATATTA
1 TATTTATTATTAT-TTTAATATTA
*
108851447 TATTTCTATTATTATATTTATTATTA
1 TA-TT-TATTATTAT-TTTAATATTA
108851473 T
1 T
108851474 CTATTACTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
23 10 0.23
24 13 0.30
25 2 0.05
26 18 0.42
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (23 bp):
TATTTATTATTATTTTAATATTA
Found at i:108851531 original size:26 final size:27
Alignment explanation
Indices: 108851497--108851547 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
108851487 TTTATTTTTA
108851497 TTTTAATATTATTATATTATATTCACC
1 TTTTAATATTATTATATTATATTCACC
* *
108851524 TTTT-ATATTTTTATATTATTTTCA
1 TTTTAATATTATTATATTATATTCA
108851548 TTACTATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTAATATTATTATATTATATTCACC
Found at i:108851636 original size:18 final size:17
Alignment explanation
Indices: 108851613--108851648 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
108851603 TTTTATATAG
108851613 TTTTTATTATTACTTTGT
1 TTTTTATT-TTACTTTGT
108851631 TTTTTATTTTACTTTGT
1 TTTTTATTTTACTTTGT
108851648 T
1 T
108851649 ATATTTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTACTTTGT
Found at i:108851929 original size:47 final size:48
Alignment explanation
Indices: 108851870--108851989 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 48
108851860 TTTAAATACC
*
108851870 ATATTA-TATACATATATTTT-A-TATCTAT-TCTTATATATTATTATTTT
1 ATATTATTATACATATATTTTCACTAT-TATCACTTAT-TATT-TTATTTT
*
108851917 -TGTTATTATACATATTATTTTCACTATTATCACTTATTATTTTATTTT
1 ATATTATTATACATA-TATTTTCACTATTATCACTTATTATTTTATTTT
*
108851965 AATATTATTATATATATATTCTTCA
1 -ATATTATTATACATATATT-TTCA
108851990 TATATGTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
46 4 0.07
47 8 0.13
48 13 0.21
49 12 0.20
50 24 0.39
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (48 bp):
ATATTATTATACATATATTTTCACTATTATCACTTATTATTTTATTTT
Found at i:108852050 original size:11 final size:11
Alignment explanation
Indices: 108852028--108852058 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
108852018 ATATCTATTT
108852028 TATATATATATG
1 TATATAT-TATG
108852040 TATATATTATG
1 TATATATTATG
108852051 TATATATT
1 TATATATT
108852059 TTAACTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:108856911 original size:32 final size:32
Alignment explanation
Indices: 108856874--108856938 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
108856864 GAAAAAAAAG
108856874 TAAGCTTACGTTTTCCTCAGAATGAACCTTGA
1 TAAGCTTACGTTTTCCTCAGAATGAACCTTGA
*
108856906 TAAGCTTACGTTTTCCTCAGAATGAGCCTTGA
1 TAAGCTTACGTTTTCCTCAGAATGAACCTTGA
108856938 T
1 T
108856939 CATTTGGCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (32 bp):
TAAGCTTACGTTTTCCTCAGAATGAACCTTGA
Found at i:108864004 original size:11 final size:11
Alignment explanation
Indices: 108863988--108864017 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
108863978 TTATAGGCAT
108863988 AAGAAGTATAA
1 AAGAAGTATAA
108863999 AAGAAGTATAA
1 AAGAAGTATAA
108864010 AAGAAGTA
1 AAGAAGTA
108864018 GAAATCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (11 bp):
AAGAAGTATAA
Found at i:108865181 original size:38 final size:35
Alignment explanation
Indices: 108865112--108865196 Score: 93
Period size: 38 Copynumber: 2.4 Consensus size: 35
108865102 ATAAAATATT
*
108865112 AAAAA-TAAAAAGA-ATTTTAAAAAATAAAAACTG
1 AAAAATTAAAAAAATATTTTAAAAAATAAAAACTG
* *
108865145 AAAAATTCCAAAAAAATATTTTAAAAATTTACAAACTG
1 AAAAATT--AAAAAAATATTTTAAAAA-ATAAAAACTG
*
108865183 ATAAATTAAAAAAA
1 AAAAATTAAAAAAA
108865197 GATTAATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 5 0.12
34 1 0.02
36 13 0.30
37 10 0.23
38 14 0.33
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.25
Consensus pattern (35 bp):
AAAAATTAAAAAAATATTTTAAAAAATAAAAACTG
Found at i:108865194 original size:36 final size:34
Alignment explanation
Indices: 108865117--108865222 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 34
108865107 ATATTAAAAA
* * *
108865117 TAAAAAGAATTTTAAAAAATAAAAACTGAAAAAT
1 TAAAAAAAATTTTAAAAAATACAAACTGATAAAT
*
108865151 TCCAAAAAAATATTTTAAAAATTTACAAACTGATAAAT
1 T--AAAAAAA-ATTTTAAAAA-ATACAAACTGATAAAT
* * *
108865189 TAAAAAAAGATTAATAAAAAGTACAAACTAATAA
1 TAAAAAAA-ATT-TTAAAAAATACAAACTGATAA
108865223 TTTTTGAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
34 1 0.02
36 28 0.47
37 16 0.27
38 14 0.24
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (34 bp):
TAAAAAAAATTTTAAAAAATACAAACTGATAAAT
Found at i:108869856 original size:3 final size:3
Alignment explanation
Indices: 108869848--108869887 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
108869838 TAATGTGAAC
108869848 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
108869888 CTAAAGCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:108870303 original size:3 final size:3
Alignment explanation
Indices: 108870289--108870336 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
108870279 AAAGGAAAAT
* *
108870289 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATT ATA ATTA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA
108870334 ATA
1 ATA
108870337 TAAATTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:108870438 original size:3 final size:3
Alignment explanation
Indices: 108870432--108870663 Score: 104
Period size: 3 Copynumber: 75.7 Consensus size: 3
108870422 ATTATACTAC
* * **
108870432 TAA TAA TAA TAA TGAGA TAA TAA TAA T-A GAA GAA TAA TGACA TGC TAA
1 TAA TAA TAA TAA T-A-A TAA TAA TAA TAA TAA TAA TAA T-A-A TAA TAA
* *
108870480 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TGAA TAA -AA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* * * * * *
108870525 GGTAA -AA TAA -AA AAGA TGA CAA TAG TAA TAA AAA TAA -AA -AA AAA
1 --TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * *
108870569 GCGA TGA TAA TAA TAA TAA TAGA AAA TAA TAA TAA TAA TAA -AA GAA
1 -TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
108870615 TAA TAA TAA TAA TAGA -AA TAA TTAA TTAA TTAA TTT TAA TAA TAA -AA
1 TAA TAA TAA TAA TA-A TAA TAA -TAA -TAA -TAA TAA TAA TAA TAA TAA
108870662 TA
1 TA
108870664 GCAAAATAAC
Statistics
Matches: 180, Mismatches: 29, Indels: 40
0.72 0.12 0.16
Matches are distributed among these distances:
2 16 0.09
3 136 0.76
4 22 0.12
5 6 0.03
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:108876516 original size:12 final size:12
Alignment explanation
Indices: 108876499--108876536 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
108876489 GACCCGCTTG
108876499 TATTAATTTTTA
1 TATTAATTTTTA
108876511 TATTAATTTTTA
1 TATTAATTTTTA
*
108876523 TA-TAATTTATA
1 TATTAATTTTTA
108876534 TAT
1 TAT
108876537 ATATAACACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:108876528 original size:11 final size:11
Alignment explanation
Indices: 108876502--108876537 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
108876492 CCGCTTGTAT
108876502 TAATTTTTATA
1 TAATTTTTATA
108876513 TTAATTTTTATA
1 -TAATTTTTATA
*
108876525 TAATTTATATA
1 TAATTTTTATA
108876536 TA
1 TA
108876538 TATAACACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:108876687 original size:30 final size:30
Alignment explanation
Indices: 108876651--108876715 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
108876641 TAACTTAACA
*
108876651 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
*
108876681 AACAAATACCTTTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
108876711 AACAA
1 AACAA
108876716 TAACATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:108876770 original size:22 final size:22
Alignment explanation
Indices: 108876745--108876787 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
108876735 TATCCAAACA
108876745 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
** *
108876767 ATAATATTAAAATGGTAGCAA
1 ATAATAACAAAATAGTAGCAA
108876788 AATAGGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:108881753 original size:21 final size:20
Alignment explanation
Indices: 108881729--108881784 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
108881719 AAATATATAA
*
108881729 ATTTTGAAGTTTTTTAAATTT
1 ATTTTGAA-TTTTTTAAAATT
*
108881750 ATTTTGAATTTTTAAAAATT
1 ATTTTGAATTTTTTAAAATT
*
108881770 ACTTTGAACTTTTTT
1 ATTTTGAA-TTTTTT
108881785 TTTATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (20 bp):
ATTTTGAATTTTTTAAAATT
Found at i:108886279 original size:23 final size:22
Alignment explanation
Indices: 108886239--108886282 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
108886229 AGATTTGAAT
108886239 TTTTAAATCTGAACAATAAAAA
1 TTTTAAATCTGAACAATAAAAA
108886261 TTTTAAATTTCTGAA-AATAAAA
1 TTTTAAA--TCTGAACAATAAAA
108886283 GTAAGGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 7 0.35
24 6 0.30
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
TTTTAAATCTGAACAATAAAAA
Found at i:108886771 original size:19 final size:19
Alignment explanation
Indices: 108886747--108886807 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
108886737 AATCTTTAAG
108886747 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
108886766 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
108886785 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
108886802 GATATG
1 GATATG
108886808 ATATGATATG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:108893969 original size:26 final size:26
Alignment explanation
Indices: 108893940--108894046 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
108893930 TGATACAAAT
108893940 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
108893966 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
108893992 TGATAATGGGTTAGG-AAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
108894017 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
108894043 TGAT
1 TGAT
108894047 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:108894021 original size:51 final size:52
Alignment explanation
Indices: 108893940--108894046 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
108893930 TGATACAAAT
108893940 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
108893992 TGATAATGGGTTAGG-AAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
108894043 TGAT
1 TGAT
108894047 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 38 0.72
52 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:108897985 original size:205 final size:205
Alignment explanation
Indices: 108897627--108898372 Score: 1279
Period size: 205 Copynumber: 3.7 Consensus size: 205
108897617 GGCTGAAACA
* *
108897627 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGATGACTTTGG
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGA-TTTGG
*
108897692 CTTTCATGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
65 CTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAA
* *
108897757 ATCGAAGTCTGGCATCT-CATTTCGACGGGGAGCAGATACATAGCAGATCTAACCTTCAGATGTT
130 ATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGTAGATCTAACCTTCAGATGTT
108897821 TATACTGAAGC
195 TATACTGAAGC
*
108897832 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTAGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
108897897 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
*
108897962 TCGAAGTCTGGCATCTCCATTTCGACGGAGAGTAGATACATAGTAGATCTAACCTTCAGATGTTT
131 TCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGTAGATCTAACCTTCAGATGTTT
*
108898027 ATACTGAAGT
196 ATACTGAAGC
* *
108898037 AGATCCAAGATGGTTTAGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTAATTTGGC
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
108898102 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
*
108898167 TCGAAGTCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGTAGATCTAACCTTCAGATG---
131 TCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGTAGATCTAACCTTCAGATGTTT
108898229 --ACTGAAGC
196 ATACTGAAGC
* * *
108898237 AGATCCAAGATGGTTTGCCATCCTTGTGCTTACAAGGAACAAATCGAAGATATAGCTGATTTGGT
1 AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
** * *
108898302 TTTCGTGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAA
66 TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
108898367 TCGAAG
131 TCGAAG
108898373 AAACAGATTT
Statistics
Matches: 517, Mismatches: 23, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
200 134 0.26
204 85 0.16
205 298 0.58
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGC
TTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAA
TCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGTAGATCTAACCTTCAGATGTTT
ATACTGAAGC
Found at i:108899024 original size:19 final size:19
Alignment explanation
Indices: 108899000--108899107 Score: 111
Period size: 19 Copynumber: 5.8 Consensus size: 19
108898990 AATCTTTAAG
108899000 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
108899019 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
108899038 GATAT--AGTCTTAGATAT
1 GATATGCAATCTTAGATAT
*
108899055 GATATG--AT-AT-GATAT
1 GATATGCAATCTTAGATAT
108899070 GATATGCAATCTTAAAGATAT
1 GATATGCAATCTT--AGATAT
* *
108899091 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
108899108 GATTTAATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
17 19 0.25
18 1 0.01
19 24 0.32
20 3 0.04
21 7 0.09
22 9 0.12
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:108899058 original size:5 final size:5
Alignment explanation
Indices: 108899050--108899075 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
108899040 TATAGTCTTA
108899050 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
108899076 CAATCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:108899089 original size:36 final size:37
Alignment explanation
Indices: 108899000--108899093 Score: 108
Period size: 36 Copynumber: 2.6 Consensus size: 37
108898990 AATCTTTAAG
*
108899000 GATATGCAATCTTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATG-AATCATAGATAT
*
108899038 GATAT--AGTCTTAGATATGATATG-AT-AT-GATAT
1 GATATGCAATCTTAGATATGATATGAATCATAGATAT
108899070 GATATGCAATCTTAAAGATATGAT
1 GATATGCAATCTT--AGATATGAT
108899094 TTTGTAATCT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
32 10 0.20
33 1 0.02
34 7 0.14
36 26 0.53
38 5 0.10
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.37
Consensus pattern (37 bp):
GATATGCAATCTTAGATATGATATGAATCATAGATAT
Found at i:108902733 original size:22 final size:22
Alignment explanation
Indices: 108902705--108902773 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 22
108902695 TTTTTATCAT
*
108902705 ATATTTATTATATATATTATTC
1 ATATTTATTATATATATTATAC
108902727 ATATTTATACTATATATATTTTAGTAC
1 ATATTTAT--TATATATA--TTA-TAC
*
108902754 ATATTT-TTTTATATATTATA
1 ATATTTATTATATATATTATA
108902774 AATTATATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
21 2 0.05
22 11 0.28
24 15 0.38
26 4 0.10
27 8 0.20
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (22 bp):
ATATTTATTATATATATTATAC
Found at i:108902924 original size:16 final size:14
Alignment explanation
Indices: 108902900--108902961 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 14
108902890 ATATTTCCTC
*
108902900 ATATATTATATTAT
1 ATATATTTTATTAT
*
108902914 ATATATTTTATTAC
1 ATATATTTTATTAT
108902928 ATATATTTTTATTACT
1 ATATA-TTTTATTA-T
*
108902944 ATACGATTTATATTAT
1 ATA-TATTT-TATTAT
108902960 AT
1 AT
108902962 TTTATTTGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 17 0.43
15 8 0.20
16 9 0.22
17 6 0.15
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (14 bp):
ATATATTTTATTAT
Found at i:108902935 original size:14 final size:14
Alignment explanation
Indices: 108902899--108902946 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
108902889 TATATTTCCT
*
108902899 CATATATTATATTA
1 CATATATTTTATTA
*
108902913 TATATATTTTATTA
1 CATATATTTTATTA
108902927 CATATATTTTTATTA
1 CATATA-TTTTATTA
108902942 C-TATA
1 CATATA
108902947 CGATTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 21 0.70
15 9 0.30
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (14 bp):
CATATATTTTATTA
Found at i:108905099 original size:19 final size:18
Alignment explanation
Indices: 108905075--108905123 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
108905065 TCTCTCAATA
108905075 AAAATTCAAAACAATTTTT
1 AAAATTCAAAA-AATTTTT
*
108905094 AAAATTCAAAATATTTTT
1 AAAATTCAAAAAATTTTT
108905112 AAAATT-AAAAAA
1 AAAATTCAAAAAA
108905124 AAAAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.18
18 12 0.43
19 11 0.39
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTCAAAAAATTTTT
Found at i:108906891 original size:16 final size:17
Alignment explanation
Indices: 108906865--108906898 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
108906855 ATTATTTTAG
108906865 AAAATTTTTAAATTTTT
1 AAAATTTTTAAATTTTT
*
108906882 AAAA-TTTTAATTTTTT
1 AAAATTTTTAAATTTTT
108906898 A
1 A
108906899 TGTATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AAAATTTTTAAATTTTT
Done.