Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 74 of 216
Found at i:22470444 original size:44 final size:44
Alignment explanation
Indices: 22470385--22470472 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
22470375 TTCTGTCTGC
22470385 TTGTTTCTGGTTAATCCGGGTAACTTCATTTTCTGTTTGGCTGT
1 TTGTTTCTGGTTAATCCGGGTAACTTCATTTTCTGTTTGGCTGT
* *
22470429 TTGTTTTTGGTTAATCTGGGTAACTTCATTTTCTGTTTGGCTGT
1 TTGTTTCTGGTTAATCCGGGTAACTTCATTTTCTGTTTGGCTGT
22470473 ATTTTGCTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (44 bp):
TTGTTTCTGGTTAATCCGGGTAACTTCATTTTCTGTTTGGCTGT
Found at i:22470619 original size:24 final size:24
Alignment explanation
Indices: 22470592--22470638 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
22470582 TCTGTCTGTA
22470592 TTAATGCGAGTACCATATTTCTGG
1 TTAATGCGAGTACCATATTTCTGG
*
22470616 TTAATGTGAGTACCATATTTCTG
1 TTAATGCGAGTACCATATTTCTG
22470639 CCTAATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (24 bp):
TTAATGCGAGTACCATATTTCTGG
Found at i:22470644 original size:24 final size:24
Alignment explanation
Indices: 22470593--22470646 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
22470583 CTGTCTGTAT
* **
22470593 TAATGCGAGTACCATATTTCTGGT
1 TAATGTGAGTACCATATTTCTGCC
22470617 TAATGTGAGTACCATATTTCTGCC
1 TAATGTGAGTACCATATTTCTGCC
22470641 TAATGT
1 TAATGT
22470647 TTGTTTCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (24 bp):
TAATGTGAGTACCATATTTCTGCC
Found at i:22475381 original size:44 final size:44
Alignment explanation
Indices: 22475309--22475397 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
22475299 AATTTATAGC
* * *
22475309 TTCAGTTATGCTTCTCTTAACTCCTTGTAAAACCAGTTCGATGT
1 TTCAATTATGCTTCTCTCAACTCATTGTAAAACCAGTTCGATGT
* *
22475353 TTCAATTATGCTTCTCTCAACTCATTGTAAAACTAGTTCGGTGT
1 TTCAATTATGCTTCTCTCAACTCATTGTAAAACCAGTTCGATGT
22475397 T
1 T
22475398 GCTTATACCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (44 bp):
TTCAATTATGCTTCTCTCAACTCATTGTAAAACCAGTTCGATGT
Found at i:22479206 original size:25 final size:24
Alignment explanation
Indices: 22479173--22479220 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
22479163 CAATTATCTA
22479173 AAAATGTTAAAATTTTAAA-GATATT
1 AAAATGTT--AATTTTAAATGATATT
22479198 AAAATGTTAATTTTAAATGATAT
1 AAAATGTTAATTTTAAATGATAT
22479221 ATTTAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.41
24 5 0.23
25 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (24 bp):
AAAATGTTAATTTTAAATGATATT
Found at i:22492195 original size:21 final size:21
Alignment explanation
Indices: 22492169--22492208 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22492159 AAACAGCTAA
*
22492169 GGTTCACATATAATTTCTATG
1 GGTTCACATATAACTTCTATG
22492190 GGTTCACATATAACTTCTA
1 GGTTCACATATAACTTCTA
22492209 AGTGTTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (21 bp):
GGTTCACATATAACTTCTATG
Found at i:22492215 original size:21 final size:20
Alignment explanation
Indices: 22492165--22492216 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
22492155 TATTAAACAG
*
22492165 CTAAGGTTCACATATAATTT
1 CTAAGGTTCACATATAACTT
*
22492185 CTATGGGTTCACATATAACTT
1 CTA-AGGTTCACATATAACTT
22492206 CTAAGTGTTCA
1 CTAAG-GTTCA
22492217 TATTACAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (20 bp):
CTAAGGTTCACATATAACTT
Found at i:22492251 original size:23 final size:22
Alignment explanation
Indices: 22492225--22492269 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22492215 CATATTACAA
* *
22492225 TTCCTATAGTGTTCGCATGTTAT
1 TTCCTATAG-GTTCACATATTAT
*
22492248 TTCCTCTAGGTTCACATATTAT
1 TTCCTATAGGTTCACATATTAT
22492270 ACTGTTCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (22 bp):
TTCCTATAGGTTCACATATTAT
Found at i:22492269 original size:22 final size:23
Alignment explanation
Indices: 22492170--22492269 Score: 61
Period size: 21 Copynumber: 4.6 Consensus size: 23
22492160 AACAGCTAAG
* *
22492170 GTTCACATATAATTT-CTAT-GG
1 GTTCACATATTATTTCCTATAGT
* *
22492191 GTTCACATATAACTT-CTA-AGT
1 GTTCACATATTATTTCCTATAGT
*
22492212 GTT--CATATTACAATTCCTATAGT
1 GTTCACATATT--ATTTCCTATAGT
* * *
22492235 GTTCGCATGTTATTTCCTCTAG-
1 GTTCACATATTATTTCCTATAGT
22492257 GTTCACATATTAT
1 GTTCACATATTAT
22492270 ACTGTTCACA
Statistics
Matches: 63, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
19 5 0.08
21 24 0.38
22 14 0.22
23 15 0.24
25 5 0.08
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (23 bp):
GTTCACATATTATTTCCTATAGT
Found at i:22492555 original size:19 final size:20
Alignment explanation
Indices: 22492517--22492555 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
22492507 TGGGTTTTGA
22492517 AGAAAAAATAGAGAATAAAT
1 AGAAAAAATAGAGAATAAAT
* *
22492537 AGAAAGAAT-GAGGATAAAT
1 AGAAAAAATAGAGAATAAAT
22492556 TCTATTAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (20 bp):
AGAAAAAATAGAGAATAAAT
Found at i:22492634 original size:6 final size:6
Alignment explanation
Indices: 22492626--22492659 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
22492616 ATAGATTTCT
*
22492626 ATTTGT ATTTGA ATTTGA ATTTGA ATTTGA ATTT
1 ATTTGA ATTTGA ATTTGA ATTTGA ATTTGA ATTT
22492660 ATTTAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.15, T:0.56
Consensus pattern (6 bp):
ATTTGA
Found at i:22493917 original size:13 final size:14
Alignment explanation
Indices: 22493899--22493933 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
22493889 GATATATGAA
22493899 TGATTGAATT-TAT
1 TGATTGAATTATAT
22493912 TGATTGAATTACTAT
1 TGATTGAATTA-TAT
22493927 TGATTGA
1 TGATTGA
22493934 TTGCTTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
15 10 0.50
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (14 bp):
TGATTGAATTATAT
Found at i:22494127 original size:5 final size:5
Alignment explanation
Indices: 22494117--22494142 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22494107 TGCATTTGTA
22494117 TGGGT TGGGT TGGGT TGGGT TGGGT T
1 TGGGT TGGGT TGGGT TGGGT TGGGT T
22494143 AGGTAGATAT
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:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (5 bp):
TGGGT
Found at i:22501181 original size:25 final size:25
Alignment explanation
Indices: 22501153--22501215 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
22501143 AACCAAATAG
*
22501153 AGCCTTTGTGGCGAGTTATCTGTAA
1 AGCCTTTGTGGCGAGTTATCTGAAA
* * * *
22501178 AGCCCTTATGGCGATTTATTTGAAA
1 AGCCTTTGTGGCGAGTTATCTGAAA
* *
22501203 AGTCTATGTGGCG
1 AGCCTTTGTGGCG
22501216 TATTATTTAG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (25 bp):
AGCCTTTGTGGCGAGTTATCTGAAA
Found at i:22507203 original size:33 final size:33
Alignment explanation
Indices: 22507135--22507204 Score: 81
Period size: 33 Copynumber: 2.1 Consensus size: 33
22507125 CATAAAGATC
* *
22507135 TAAAATAAAATATTTGCAATATTTCAGTAATAA
1 TAAAATAAAATATTTGCAATATGTCAGAAATAA
*
22507168 TAAAATAAAATA-TTGTATATATGT-AGAAATAAA
1 TAAAATAAAATATTTGCA-ATATGTCAGAAAT-AA
22507201 TAAA
1 TAAA
22507205 CATGTAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 9 0.28
33 23 0.72
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (33 bp):
TAAAATAAAATATTTGCAATATGTCAGAAATAA
Found at i:22513360 original size:2 final size:2
Alignment explanation
Indices: 22513353--22513381 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22513343 TCATTTGCAG
22513353 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
22513382 CAATCCATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:22516456 original size:51 final size:51
Alignment explanation
Indices: 22516385--22516481 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
22516375 TTCTTTGCTT
*
22516385 AAAAACGTCTAAGCCAGCCTAACTCGCAATGATAAAGGATTCAACAAAAAA
1 AAAAACGCCTAAGCCAGCCTAACTCGCAATGATAAAGGATTCAACAAAAAA
* * *
22516436 AAAAACGCCTAAGTCGGCCTAACTTGCAATGATAAAGGATTCAACA
1 AAAAACGCCTAAGCCAGCCTAACTCGCAATGATAAAGGATTCAACA
22516482 GAATTCCCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (51 bp):
AAAAACGCCTAAGCCAGCCTAACTCGCAATGATAAAGGATTCAACAAAAAA
Found at i:22516728 original size:17 final size:17
Alignment explanation
Indices: 22516686--22516730 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
22516676 CATCAAAGGC
*
22516686 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
22516703 TACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
22516720 TACAATTAGAA
1 TACAATTAGAA
22516731 CTCTAAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:22521558 original size:48 final size:48
Alignment explanation
Indices: 22521488--22521584 Score: 140
Period size: 48 Copynumber: 2.0 Consensus size: 48
22521478 TTCTTTGCTT
*
22521488 AAAAACGCCTAAGTTAGCCTAACTCGCAATGATAAAAGATTCAACAGA
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACAGA
* * * * *
22521536 AAAAATGCCTAAGTCGGCCTAACTTGCAATGATAAAGGATTCAATAGA
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACAGA
22521584 A
1 A
22521585 TTCCCTCAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAAGATTCAACAGA
Found at i:22521828 original size:19 final size:19
Alignment explanation
Indices: 22521804--22521857 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
22521794 AAAACTGTAT
22521804 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
22521823 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
22521840 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
22521858 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:22521838 original size:36 final size:36
Alignment explanation
Indices: 22521787--22521857 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
22521777 ATCAAAGGCT
22521787 ACAATTAAAAACTGTATACAATTAGAACTCTAAGAC
1 ACAATTAAAAACTGTATACAATTAGAACTCTAAGAC
* *
22521823 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATTAAAAACTGTATACAATTAGAACTCTAAGA
22521858 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.25
Consensus pattern (36 bp):
ACAATTAAAAACTGTATACAATTAGAACTCTAAGAC
Found at i:22521845 original size:17 final size:16
Alignment explanation
Indices: 22521786--22521851 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 16
22521776 CATCAAAGGC
*
22521786 TACAATTAAAAACTGTA
1 TACAATT-AGAACTGTA
*
22521803 TACAATTAGAACTCTAAGA
1 TACAATTAGAACTGT---A
*
22521822 CACAATTAGAAGCTGTA
1 TACAATTAGAA-CTGTA
22521839 TACAATTAGAACT
1 TACAATTAGAACT
22521852 CTAAGATTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
16 8 0.20
17 18 0.45
19 11 0.28
20 3 0.08
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (16 bp):
TACAATTAGAACTGTA
Found at i:22523196 original size:23 final size:23
Alignment explanation
Indices: 22523169--22523228 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
22523159 TACTTAAATT
*
22523169 TATTTCAAATATATAA-AATTATA
1 TATTT-AAATATATAATAACTATA
*
22523192 TATTTAAATTTATAATAACTATA
1 TATTTAAATATATAATAACTATA
22523215 T-TTTAAATTATATA
1 TATTTAAA-TATATA
22523229 TTCAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTAAATATATAATAACTATA
Found at i:22523205 original size:22 final size:23
Alignment explanation
Indices: 22523169--22523228 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
22523159 TACTTAAATT
* *
22523169 TATTTCAAATATATAA-AATTATA
1 TATTT-AAATTTATAATAACTATA
22523192 TATTTAAATTTATAATAACTATA
1 TATTTAAATTTATAATAACTATA
22523215 T-TTTAAATTATATA
1 TATTTAAATT-TATA
22523229 TTCAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTTAAATTTATAATAACTATA
Found at i:22531200 original size:63 final size:64
Alignment explanation
Indices: 22531119--22531246 Score: 240
Period size: 63 Copynumber: 2.0 Consensus size: 64
22531109 AGAAAAGTAA
22531119 AAAAAAAAAAGTCATTCTCTATTAAGCTTTTATCCTGTTTATATAGGAATTAGCCTGTAATTCC
1 AAAAAAAAAAGTCATTCTCTATTAAGCTTTTATCCTGTTTATATAGGAATTAGCCTGTAATTCC
*
22531183 AAAAAAAAAA-TCCTTCTCTATTAAGCTTTTATCCTGTTTATATAGGAATTAGCCTGTAATTCC
1 AAAAAAAAAAGTCATTCTCTATTAAGCTTTTATCCTGTTTATATAGGAATTAGCCTGTAATTCC
22531246 A
1 A
22531247 CTATAACTTG
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
63 53 0.84
64 10 0.16
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (64 bp):
AAAAAAAAAAGTCATTCTCTATTAAGCTTTTATCCTGTTTATATAGGAATTAGCCTGTAATTCC
Found at i:22532543 original size:24 final size:24
Alignment explanation
Indices: 22532511--22532556 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22532501 AACAAAAATT
* * *
22532511 TAAATATTCCTAACAATTTAAACA
1 TAAAAATTCCAAACAAATTAAACA
22532535 TAAAAATTCCAAACAAATTAAA
1 TAAAAATTCCAAACAAATTAAA
22532557 ACTTCAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAAAATTCCAAACAAATTAAACA
Found at i:22534848 original size:41 final size:41
Alignment explanation
Indices: 22534791--22535021 Score: 313
Period size: 41 Copynumber: 5.6 Consensus size: 41
22534781 AGATCGAGCA
*
22534791 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGTCT
1 TTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCTGGTCT
* *
22534832 TTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCGGGACT
1 TTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCTGGTCT
*
22534873 TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGGTCT
1 TTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCTGGTCT
* * *
22534914 TTAGCAGCAATTTT-AGAAAAGCGCCGTTAATGCTCTGGTCT
1 TTAGCGGCATTTTTGA-AAAAGCGCCGCTAATGCTCTGGTCT
** * *
22534955 TTAATGGCATTTTCGAAAAAGCGCCGCTAATTCTC-GGTGCT
1 TTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCTGGT-CT
* *
22534996 TTAGCAGCGTTTTTGAAAAAGCGCCG
1 TTAGCGGCATTTTTGAAAAAGCGCCG
22535022 AAAAATATTT
Statistics
Matches: 165, Mismatches: 22, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
40 4 0.02
41 160 0.97
42 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (41 bp):
TTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCTGGTCT
Found at i:22535403 original size:50 final size:50
Alignment explanation
Indices: 22535344--22535483 Score: 246
Period size: 50 Copynumber: 2.8 Consensus size: 50
22535334 AAAATTTAAA
22535344 AAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
1 AAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
22535394 AAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
1 AAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
* *
22535444 AAATATTAGTTGAAATAGAATTAATAATTATA-TTTAAATA
1 AAATATTAGTTTAAATAGAATTAATAAATA-AGTTTAAATA
22535484 TTTTTAAATA
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 86 0.99
51 1 0.01
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (50 bp):
AAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTT
Found at i:22535404 original size:27 final size:25
Alignment explanation
Indices: 22535328--22535483 Score: 146
Period size: 25 Copynumber: 6.3 Consensus size: 25
22535318 CTTTTATATA
*
22535328 TTTAAA-AAAATTTAAAAAATATTAG
1 TTTAAATAAAA-TTAATAAATATTAG
*
22535353 TTTAAATAGAATTAATAAATA--AG
1 TTTAAATAAAATTAATAAATATTAG
*
22535376 TTTAAATAAAATATATTTAAATATTAG
1 TTTAAATAAAAT-TA-ATAAATATTAG
*
22535403 TTTAAATAGAATTAATAAATA--AG
1 TTTAAATAAAATTAATAAATATTAG
*
22535426 TTTAAATAAAATATATTTAAATATTAG
1 TTTAAATAAAAT-TA-ATAAATATTAG
* * *
22535453 TTGAAATAGAATTAATAATTA-TA-
1 TTTAAATAAAATTAATAAATATTAG
22535476 TTTAAATA
1 TTTAAATA
22535484 TTTTTAAATA
Statistics
Matches: 109, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
23 33 0.30
24 6 0.06
25 38 0.35
26 7 0.06
27 25 0.23
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (25 bp):
TTTAAATAAAATTAATAAATATTAG
Found at i:22542128 original size:140 final size:138
Alignment explanation
Indices: 22541807--22542149 Score: 356
Period size: 140 Copynumber: 2.4 Consensus size: 138
22541797 CATTTGTAAT
* *
22541807 TATCTAATC-ATCTAACGAAATGAGTTAATATGTTAAAAATATTAATTAAAAATAAAAATAAAAA
1 TATCTAA-CAATCTAACGAAAAGAGTTAATATGTTAAAAA-ATTAATT---AA-AAAATTAAAAA
* * * *
22541871 ACTTGAAGCAACATTAAATAAAAATACAAATGTGAGTAGTAAAAGAATAAAACTCGAGACTCAAT
60 ACTTGAAGCAACATGAAATAAAAATAAAAATATGAGTAGTAAAAGAATAAAACTCGAGACTCAAG
*
22541936 GTTGTAATTACAAC
125 GATGTAATTACAAC
* * * * * *
22541950 TATCTTACCATCTAACGAAAA-AATTAACATCTTAAAAAACATTAATTAAAAAATTAAAAAGCTT
1 TATCTAACAATCTAACGAAAAGAGTTAATATGTT-AAAAA-ATTAATTAAAAAATTAAAAAACTT
* * *
22542014 GAAGTAACATGAAATAAAAAATAAAAATATGAGTA--AGAGAGAAATTAAACTCGAGACTCAAGG
64 GAAGCAACATGAAAT-AAAAATAAAAATATGAGTAGTA-AAAG-AATAAAACTCGAGACTCAAGG
*
22542077 ATGTAATTGCAAC
126 ATGTAATTACAAC
* *
22542090 TAAT-TAAACAATCTAAC-AAAAGAGCTAATATGTTAAAAAATTAATTAAAAATTTAAAAAA
1 T-ATCT-AACAATCTAACGAAAAGAGTTAATATGTTAAAAAATTAATTAAAAAATTAAAAAA
22542150 TCTTAACATG
Statistics
Matches: 167, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
138 1 0.01
139 48 0.29
140 60 0.36
141 19 0.11
142 10 0.06
143 29 0.17
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (138 bp):
TATCTAACAATCTAACGAAAAGAGTTAATATGTTAAAAAATTAATTAAAAAATTAAAAAACTTGA
AGCAACATGAAATAAAAATAAAAATATGAGTAGTAAAAGAATAAAACTCGAGACTCAAGGATGTA
ATTACAAC
Found at i:22543222 original size:23 final size:23
Alignment explanation
Indices: 22543196--22543242 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
22543186 TAAATTTTGA
*
22543196 ATTATTTAGTGATAATCTTTAGG
1 ATTATTTAGTGATAATATTTAGG
22543219 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
22543242 A
1 A
22543243 AAAATCTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:22543239 original size:13 final size:13
Alignment explanation
Indices: 22543198--22543240 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
22543188 AATTTTGAAT
22543198 TATTTAGTGATAA
1 TATTTAGTGATAA
*
22543211 TCTTTAG-GAT--
1 TATTTAGTGATAA
22543221 TATTTAGTGATAA
1 TATTTAGTGATAA
22543234 TATTTAG
1 TATTTAG
22543241 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:22546093 original size:16 final size:16
Alignment explanation
Indices: 22546072--22546103 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22546062 ATTTTGTTGC
*
22546072 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
22546088 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
22546104 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:22546386 original size:51 final size:51
Alignment explanation
Indices: 22546321--22546420 Score: 164
Period size: 51 Copynumber: 2.0 Consensus size: 51
22546311 ATTAATGATA
* * *
22546321 CCGATTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGATACACATAGTAACCTGCACATAGTACTACACACGTGACCATCACTAT
*
22546372 CCGATACACGTAGTAACCTGCACATAGTACTACACACGTGACCATCACT
1 CCGATACACATAGTAACCTGCACATAGTACTACACACGTGACCATCACT
22546421 TTCACTTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (51 bp):
CCGATACACATAGTAACCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:22551312 original size:14 final size:13
Alignment explanation
Indices: 22551277--22551306 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22551267 ACATTCGAAA
*
22551277 AAAAAAAATAAAT
1 AAAAAATATAAAT
22551290 AAAAAATATAAAT
1 AAAAAATATAAAT
22551303 AAAA
1 AAAA
22551307 GTATATTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAATATAAAT
Found at i:22551861 original size:13 final size:13
Alignment explanation
Indices: 22551843--22551898 Score: 82
Period size: 13 Copynumber: 4.5 Consensus size: 13
22551833 AAATTTGAAT
22551843 TATTTAGTGATAA
1 TATTTAGTGATAA
*
22551856 TATTTAGTGATCA
1 TATTTAGTGATAA
22551869 TATTTAG-GAT--
1 TATTTAGTGATAA
22551879 TATTTAGTGATAA
1 TATTTAGTGATAA
22551892 TATTTAG
1 TATTTAG
22551899 AAAAAATCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
10 7 0.18
11 3 0.08
12 3 0.08
13 26 0.67
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:22553231 original size:10 final size:10
Alignment explanation
Indices: 22553178--22553316 Score: 84
Period size: 10 Copynumber: 14.7 Consensus size: 10
22553168 TTTTATTGCT
22553178 TTTTTAT-AA
1 TTTTTATAAA
22553187 TTTATTA-AAA
1 TTT-TTATAAA
*
22553197 TTTTTATTAA
1 TTTTTATAAA
*
22553207 GTTTTAT-AA
1 TTTTTATAAA
*
22553216 TATTTATAAA
1 TTTTTATAAA
*
22553226 TTTTTAT-GA
1 TTTTTATAAA
22553235 TTCTTT-TAAA
1 TT-TTTATAAA
22553245 TTTTTATAAA
1 TTTTTATAAA
*
22553255 -TTTTGT-AA
1 TTTTTATAAA
* *
22553263 --TTTCTAAG
1 TTTTTATAAA
*
22553271 TTTATATAAA
1 TTTTTATAAA
22553281 TTTTTAGT--A
1 TTTTTA-TAAA
22553290 TTTTTATAAA
1 TTTTTATAAA
* *
22553300 TTTTAATAAC
1 TTTTTATAAA
22553310 TTTTTAT
1 TTTTTAT
22553317 TATAAAAATG
Statistics
Matches: 100, Mismatches: 17, Indels: 25
0.70 0.12 0.18
Matches are distributed among these distances:
7 4 0.04
8 4 0.04
9 32 0.32
10 59 0.59
11 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:22553299 original size:19 final size:19
Alignment explanation
Indices: 22553178--22553316 Score: 108
Period size: 19 Copynumber: 7.4 Consensus size: 19
22553168 TTTTATTGCT
*
22553178 TTTTTAT-AATTTATTAAAA
1 TTTTTATAAATTT-TTATAA
* *
22553197 TTTTTATTAAGTTTTATAA
1 TTTTTATAAATTTTTATAA
* *
22553216 TATTTATAAATTTTTATGA
1 TTTTTATAAATTTTTATAA
22553235 TTCTTT-TAAATTTTTATAA
1 TT-TTTATAAATTTTTATAA
* * * *
22553254 ATTTTGT-AATTTCTA-AG
1 TTTTTATAAATTTTTATAA
*
22553271 TTTATATAAATTTTTAGT-A
1 TTTTTATAAATTTTTA-TAA
*
22553290 TTTTTATAAATTTTAATAA
1 TTTTTATAAATTTTTATAA
22553309 CTTTTTAT
1 -TTTTTAT
22553317 TATAAAAATG
Statistics
Matches: 94, Mismatches: 18, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
17 5 0.05
18 18 0.19
19 57 0.61
20 14 0.15
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTTATAAATTTTTATAA
Found at i:22558357 original size:9 final size:9
Alignment explanation
Indices: 22558340--22558376 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22558330 TGAGTTTTCA
22558340 AATTCGAAT
1 AATTCGAAT
*
22558349 AACTCGAAT
1 AATTCGAAT
22558358 AATTCGAAT
1 AATTCGAAT
22558367 AATTCGAAT
1 AATTCGAAT
22558376 A
1 A
22558377 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22575508 original size:27 final size:27
Alignment explanation
Indices: 22575478--22575530 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
22575468 CTATCACATT
*
22575478 AGGTCTGGCGAG-TAGGTGTATGCCAGC
1 AGGTCTGGCAAGCT-GGTGTATGCCAGC
*
22575505 AGGTCTGGCAAGCTGGTGTTTGCCAG
1 AGGTCTGGCAAGCTGGTGTATGCCAG
22575531 TGGATTTGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.17, C:0.19, G:0.40, T:0.25
Consensus pattern (27 bp):
AGGTCTGGCAAGCTGGTGTATGCCAGC
Found at i:22578724 original size:8 final size:8
Alignment explanation
Indices: 22578707--22578866 Score: 60
Period size: 8 Copynumber: 18.4 Consensus size: 8
22578697 TATTTTCTTA
*
22578707 TAAAATAT
1 TAAAAAAT
22578715 TAAAAAAT
1 TAAAAAAT
22578723 T-AAAAA-
1 TAAAAAAT
22578729 TAAAAAAGT
1 TAAAAAA-T
*
22578738 ATAAAAGTAT
1 -TAAAA-AAT
*
22578748 T-AAATAT
1 TAAAAAAT
22578755 TAAAAATAT
1 TAAAAA-AT
22578764 T--AAAAT
1 TAAAAAAT
22578770 TGATATAAAAT
1 T-A-A-AAAAT
*
22578781 TATAAAAT
1 TAAAAAAT
22578789 TATTAAAAAT
1 TA--AAAAAT
*
22578799 GATAAAAACT
1 --TAAAAAAT
22578809 TAAAAATAT
1 TAAAAA-AT
22578818 TAGAAAAAAT
1 T--AAAAAAT
22578828 ATATAAAAAT
1 -TA-AAAAAT
*
22578838 CTAATAAAT
1 -TAAAAAAT
22578847 TATAAAAAT
1 TA-AAAAAT
*
22578856 TATAAAAT
1 TAAAAAAT
22578864 TAA
1 TAA
22578867 TAAAGCATAT
Statistics
Matches: 118, Mismatches: 12, Indels: 44
0.68 0.07 0.25
Matches are distributed among these distances:
6 4 0.03
7 17 0.14
8 36 0.31
9 19 0.16
10 27 0.23
11 13 0.11
12 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (8 bp):
TAAAAAAT
Found at i:22578819 original size:29 final size:28
Alignment explanation
Indices: 22578784--22578866 Score: 68
Period size: 29 Copynumber: 3.0 Consensus size: 28
22578774 ATAAAATTAT
22578784 AAAATTATTAAAAATGATA-AAAACTTAA
1 AAAATTATTAAAAATGATATAAAA-TTAA
**
22578812 AAATATTAGAAAAAAT-ATATAAAAATCTAA
1 AAA-ATTATTAAAAATGATAT-AAAAT-TAA
*
22578842 TAAATTA-TAAAAAT--TATAAAATTAA
1 AAAATTATTAAAAATGATATAAAATTAA
22578867 TAAAGCATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
25 3 0.06
26 5 0.11
27 3 0.06
28 12 0.26
29 15 0.32
30 9 0.19
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAATTATTAAAAATGATATAAAATTAA
Found at i:22578825 original size:28 final size:26
Alignment explanation
Indices: 22578708--22578866 Score: 97
Period size: 28 Copynumber: 6.0 Consensus size: 26
22578698 ATTTTCTTAT
*
22578708 AAAATATTAAAAA--AT-TAAAAATA
1 AAAATATTAAAAATGATATAAAATTA
*
22578731 AAAA-AGTATAAAA-G-TATTAAATATTA
1 AAAATATTA-AAAATGATA-TAAA-ATTA
*
22578757 AAAATATTAAAATTGATATAAAATTA
1 AAAATATTAAAAATGATATAAAATTA
22578783 TAAAATTATTAAAAATGATA-AAAACTTA
1 -AAAA-TATTAAAAATGATATAAAA-TTA
22578811 AAAATATTAGAAAAAAT-ATATAAAAATCTA
1 AAAATATT---AAAAATGATAT-AAAAT-TA
22578841 ATAAAT-TATAAAAAT--TATAAAATTA
1 A-AAATAT-TAAAAATGATATAAAATTA
22578866 A
1 A
22578867 TAAAGCATAT
Statistics
Matches: 112, Mismatches: 5, Indels: 36
0.73 0.03 0.24
Matches are distributed among these distances:
22 3 0.03
23 9 0.08
25 7 0.06
26 23 0.21
27 23 0.21
28 27 0.24
29 7 0.06
30 8 0.07
31 5 0.04
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (26 bp):
AAAATATTAAAAATGATATAAAATTA
Found at i:22578855 original size:9 final size:9
Alignment explanation
Indices: 22578704--22579133 Score: 110
Period size: 9 Copynumber: 46.0 Consensus size: 9
22578694 TAATATTTTC
22578704 TTATAAAATA
1 TTATAAAA-A
22578714 TTA-AAAAA
1 TTATAAAAA
22578722 -T-TAAAAA
1 TTATAAAAA
22578729 -TA-AAAAA
1 TTATAAAAA
*
22578736 GTAT-AAAA
1 TTATAAAAA
* *
22578744 GTAT-TAAA
1 TTATAAAAA
22578752 -TATTAAAAA
1 TTA-TAAAAA
*
22578761 -TATTAAAA
1 TTATAAAAA
22578769 TTGATATAAAA
1 TT-ATA-AAAA
22578780 TTAT-AAAA
1 TTATAAAAA
22578788 TTATTAAAAA
1 TTA-TAAAAA
*
22578798 TGATAAAAA
1 TTATAAAAA
22578807 CTTA-AAAATA
1 -TTATAAAA-A
*
22578817 TTAGAAAAAA
1 TTA-TAAAAA
22578827 TATATAAAAA
1 T-TATAAAAA
*
22578837 TCTA-ATAAA
1 T-TATAAAAA
22578846 TTATAAAAA
1 TTATAAAAA
22578855 TTAT-AAAA
1 TTATAAAAA
22578863 TTAATAAAGCATA
1 TT-ATAAA--A-A
22578876 TT-TAAAATA
1 TTATAAAA-A
*
22578885 TT-TAAAATT
1 TTATAAAA-A
22578894 TTATAAAAA
1 TTATAAAAA
*
22578903 CGTATAAAAA
1 -TTATAAAAA
* *
22578913 TTCTTTAAAAC
1 -T-TATAAAAA
22578924 TTATAAAAAA
1 TTAT-AAAAA
*
22578934 TCATAAAAA
1 TTATAAAAA
22578943 -TATAAAAA
1 TTATAAAAA
* *
22578951 -AATTAAATA
1 TTA-TAAAAA
**
22578960 TTATAAATG
1 TTATAAAAA
*
22578969 TTAT-TAAA
1 TTATAAAAA
* *
22578977 -TATTAAAT
1 TTATAAAAA
*
22578985 TTGATATAAAC
1 TT-ATA-AAAA
22578996 TTATAAAAA
1 TTATAAAAA
*
22579005 TTATTAACCAGA
1 TTA-TAA--AAA
*
22579017 TCATAAAAA
1 TTATAAAAA
*
22579026 CTTATAAATA
1 -TTATAAAAA
*
22579036 TTGTAAAAA
1 TTATAAAAA
22579045 -TATAAAAA
1 TTATAAAAA
*
22579053 TCTAATAAATTAT
1 T-T-ATAAA--AA
*
22579066 TTATAAAAT
1 TTATAAAAA
22579075 TTAT-AAAA
1 TTATAAAAA
22579083 TATATTAAAAA
1 T-TA-TAAAAA
22579094 TTTTATAAAAA
1 --TTATAAAAA
* *
22579105 CCTGTAAAATA
1 -TTATAAAA-A
* *
22579116 TAAAAAAAA
1 TTATAAAAA
22579125 TTATAAAAA
1 TTATAAAAA
22579134 AATCATTTAA
Statistics
Matches: 321, Mismatches: 52, Indels: 95
0.69 0.11 0.20
Matches are distributed among these distances:
7 17 0.05
8 57 0.18
9 105 0.33
10 77 0.24
11 51 0.16
12 8 0.02
13 6 0.02
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:22578913 original size:30 final size:29
Alignment explanation
Indices: 22578879--22578945 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
22578869 AAGCATATTT
* *
22578879 AAAATATTTAAAATTTTATAAAAACGT-ATA
1 AAAATATTTAAAA-CTTATAAAAA-ATCATA
*
22578909 AAAATTCTTTAAAACTTATAAAAAATCATA
1 AAAA-TATTTAAAACTTATAAAAAATCATA
22578939 AAAATAT
1 AAAATAT
22578946 AAAAAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
29 3 0.10
30 20 0.65
31 8 0.26
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.34
Consensus pattern (29 bp):
AAAATATTTAAAACTTATAAAAAATCATA
Found at i:22578942 original size:20 final size:19
Alignment explanation
Indices: 22578896--22578951 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
22578886 TTAAAATTTT
*
22578896 ATAAAAACGTATAAAAATTC
1 ATAAAAAC-TATAAAAAATC
* *
22578916 TTTAAAACTTATAAAAAATC
1 ATAAAAAC-TATAAAAAATC
22578936 ATAAAAA-TATAAAAAA
1 ATAAAAACTATAAAAAA
22578952 ATTAAATATT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 9 0.30
20 21 0.70
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAAAAACTATAAAAAATC
Found at i:22579083 original size:21 final size:21
Alignment explanation
Indices: 22579039--22579103 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
22579029 ATAAATATTG
* *
22579039 TAAAA-ATA-TAAAAATCTAA
1 TAAAATATATTAAAAATTTTA
*
22579058 TAAATTAT-TTATAAAA-TTTA
1 TAAAATATATTA-AAAATTTTA
22579078 TAAAATATATTAAAAATTTTA
1 TAAAATATATTAAAAATTTTA
22579099 TAAAA
1 TAAAA
22579104 ACCTGTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.11
20 17 0.46
21 16 0.43
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATATATTAAAAATTTTA
Found at i:22586329 original size:27 final size:28
Alignment explanation
Indices: 22586281--22586343 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
22586271 TTAAAAAGTA
*
22586281 TTAAAAATATTTTTATAATTTTT-AATT
1 TTAAAAATATTTCTATAATTTTTGAATT
*
22586308 TTAAAAATAATTTCTAT-TTTTTTGAATT
1 TTAAAAAT-ATTTCTATAATTTTTGAATT
*
22586336 TTTAAAAT
1 TTAAAAAT
22586344 TTTAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
TTAAAAATATTTCTATAATTTTTGAATT
Found at i:22586516 original size:3 final size:3
Alignment explanation
Indices: 22586508--22586561 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
22586498 TTAAATTGAC
22586508 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22586556 TTA TTA
1 TTA TTA
22586562 AGTTGAGAGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22587049 original size:38 final size:38
Alignment explanation
Indices: 22587004--22587121 Score: 130
Period size: 38 Copynumber: 3.0 Consensus size: 38
22586994 AAATTAGTTC
*
22587004 AAAATCTTATGAACATTAAAATTTAATAGTTGGATATT
1 AAAATCTTATGACCATTAAAATTTAATAGTTGGATATT
* * ** *
22587042 AAAATCTTACGACCATTAAAATTTAATTGTTAAAAATT
1 AAAATCTTATGACCATTAAAATTTAATAGTTGGATATT
22587080 AACAATACTGTTATGACCATTAAAATTTAA-AGGTTGGATATT
1 AA-AAT-C--TTATGACCATTAAAATTTAATA-GTTGGATATT
22587122 GTTATTTTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
38 34 0.53
39 3 0.05
40 1 0.02
42 26 0.41
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.37
Consensus pattern (38 bp):
AAAATCTTATGACCATTAAAATTTAATAGTTGGATATT
Found at i:22588122 original size:14 final size:14
Alignment explanation
Indices: 22588103--22588131 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22588093 ATAGAAACAC
22588103 TCAAAAACCCAATA
1 TCAAAAACCCAATA
22588117 TCAAAAACCCAATA
1 TCAAAAACCCAATA
22588131 T
1 T
22588132 ATGTATCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (14 bp):
TCAAAAACCCAATA
Found at i:22591772 original size:32 final size:32
Alignment explanation
Indices: 22591736--22591807 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
22591726 TTTTATTTAA
*
22591736 CTTAGTGTATTTACTTTTTATAGGTTTTCCAT
1 CTTAGTGCATTTACTTTTTATAGGTTTTCCAT
22591768 CTTAGTGCATTTACTTTTTATAGGTTTTCCAT
1 CTTAGTGCATTTACTTTTTATAGGTTTTCCAT
22591800 C--AGTGCAT
1 CTTAGTGCAT
22591808 GAGAAGAGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 7 0.18
32 32 0.82
ACGTcount: A:0.19, C:0.15, G:0.14, T:0.51
Consensus pattern (32 bp):
CTTAGTGCATTTACTTTTTATAGGTTTTCCAT
Found at i:22594622 original size:15 final size:15
Alignment explanation
Indices: 22594586--22594627 Score: 68
Period size: 16 Copynumber: 2.8 Consensus size: 15
22594576 AATATATATT
22594586 TTAAACATAAAAAAC
1 TTAAACATAAAAAAC
22594601 TTAAAACATAAAAAAC
1 TT-AAACATAAAAAAC
22594617 TTAAAC-TAAAA
1 TTAAACATAAAA
22594628 CTAAAAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.19
15 6 0.23
16 15 0.58
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (15 bp):
TTAAACATAAAAAAC
Found at i:22594635 original size:19 final size:21
Alignment explanation
Indices: 22594597--22594643 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
22594587 TAAACATAAA
22594597 AAACTTAAAACATAAAAAACTT
1 AAAC-TAAAACATAAAAAACTT
22594619 AAACTAAAAC-T-AAAAACTT
1 AAACTAAAACATAAAAAACTT
22594638 AAACTA
1 AAACTA
22594644 GTATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.56
20 1 0.04
21 6 0.24
22 4 0.16
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACTAAAACATAAAAAACTT
Found at i:22608322 original size:14 final size:14
Alignment explanation
Indices: 22608303--22608331 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22608293 CAAAATCTTA
22608303 AAATAATATATATT
1 AAATAATATATATT
22608317 AAATAATATATATT
1 AAATAATATATATT
22608331 A
1 A
22608332 TTTTTCTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATAATATATATT
Found at i:22608613 original size:27 final size:27
Alignment explanation
Indices: 22608583--22608644 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
22608573 ACCTAAATCC
22608583 AAATGTAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGGTTTCATTA
* *
22608610 AAATGGAAAACCCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGGTTTCATTA
22608637 AAATGTAA
1 AAATGTAA
22608645 TACCTACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTATGGTTTCATTA
Found at i:22609580 original size:22 final size:21
Alignment explanation
Indices: 22609529--22609580 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
22609519 AGGTCCAAAC
**
22609529 TTTATTTTAAAAATTTAAAATT
1 TTTATTTT-AAAATGAAAAATT
*
22609551 TTT-CTTTAAAATGAATAAATT
1 TTTATTTTAAAATGAA-AAATT
22609572 TTTATTTTA
1 TTTATTTTA
22609581 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 7 0.29
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTATTTTAAAATGAAAAATT
Found at i:22609782 original size:148 final size:145
Alignment explanation
Indices: 22609464--22609883 Score: 509
Period size: 147 Copynumber: 2.9 Consensus size: 145
22609454 CGATTTCTTT
* * * * * * *
22609464 AAAAAAATCACAACTTTTCTTAAAAAACAAAACTTTATTTCGAAATAATTGAAACAGGTCCAAAC
1 AAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAAC
* * * **** *
22609529 TTTATTTTAAAAATTTAAAATTTTTCTTTAAAATGAATAAATTTTTATTTTATTTTTAAAAATCT
66 TTTGTTTTAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAAATATTTTTTTTTTAAAAATCT
22609594 AAACTTTTTTTTTTA
131 AAACTTTTTTTTTTA
* * * *
22609609 AAAACAAATCACTATTTTTCTTAAAAGTTAAAGCTTTATTTCGAAATGGTTGAAAAAGATCAAAA
1 AAAA-AAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAA
* * * *
22609674 CATTGTTGTAAAAAATTTAAACTTTTCCTTTAAAATGACTAAAAAAAGATTTTTTTTTTGAAAAA
65 CTTTGTT-TTAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAAATATTTTTTTTTT-AAAAA
22609739 TCTAAACTTTCTTATTTTT-
128 TCTAAACTTT-TT-TTTTTA
*** * *
22609758 TTTAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATTGTTGAAAAAGATTAAAAC
1 AAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAAC
* * *
22609823 TTTGTTTTAAAAATTTAAAATTTTCCTTTAATATGACTAAAAACATATTTTTATTTTAAAA
66 TTTGTTTTAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAAATATTTTTTTTTTAAAA
22609884 CTTTAAAAAA
Statistics
Matches: 232, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
145 4 0.02
146 58 0.25
147 86 0.37
148 76 0.33
149 3 0.01
150 5 0.02
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (145 bp):
AAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAAC
TTTGTTTTAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAAAATATTTTTTTTTTAAAAATCT
AAACTTTTTTTTTTA
Found at i:22610205 original size:39 final size:39
Alignment explanation
Indices: 22610150--22610324 Score: 235
Period size: 39 Copynumber: 4.5 Consensus size: 39
22610140 TAGTAGATAA
22610150 CTGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCC
1 CTGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCC
* * *
22610189 CTGTTGTACTTTGGTACCCCTGATCGCACTTACGTGTCC
1 CTGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCC
* * *
22610228 CTGTTGTACTTCGGTACCCCTGATCAG-ACTTATGTTCCC
1 CTGTTGTACTTCGGTACCCCTGA-CCGCACTTACGTGCCC
* * * *
22610267 TTGTTGTACTTTGGTACCCCTGACTGCACTTAGGTGCCC
1 CTGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCC
*
22610306 CTGTTGTACTTCAGTACCC
1 CTGTTGTACTTCGGTACCC
22610325 TTATTTGCAC
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 2 0.02
39 114 0.97
40 1 0.01
ACGTcount: A:0.14, C:0.32, G:0.20, T:0.34
Consensus pattern (39 bp):
CTGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCC
Found at i:22610334 original size:39 final size:39
Alignment explanation
Indices: 22610150--22610351 Score: 230
Period size: 39 Copynumber: 5.2 Consensus size: 39
22610140 TAGTAGATAA
*
22610150 CTGTTGTACTTCGGTACCCCTGACCGCACTTACGTGCCC
1 CTGTTGTACTTCGGTACCCCTGACTGCACTTACGTGCCC
* *
22610189 CTGTTGTACTTTGGTACCCCTGA-TCGCACTTACGTGTCC
1 CTGTTGTACTTCGGTACCCCTGACT-GCACTTACGTGCCC
* * *
22610228 CTGTTGTACTTCGGTACCCCTGATCAG-ACTTATGTTCCC
1 CTGTTGTACTTCGGTACCCCTGA-CTGCACTTACGTGCCC
* * *
22610267 TTGTTGTACTTTGGTACCCCTGACTGCACTTAGGTGCCC
1 CTGTTGTACTTCGGTACCCCTGACTGCACTTACGTGCCC
* * * * *
22610306 CTGTTGTACTTCAGTA-CCCTTATTTGCACTCATGTGCCC
1 CTGTTGTACTTCGGTACCCCTGA-CTGCACTTACGTGCCC
22610345 CTGTTGT
1 CTGTTGT
22610352 TCGGTATGCC
Statistics
Matches: 138, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
38 7 0.05
39 130 0.94
40 1 0.01
ACGTcount: A:0.13, C:0.31, G:0.20, T:0.36
Consensus pattern (39 bp):
CTGTTGTACTTCGGTACCCCTGACTGCACTTACGTGCCC
Found at i:22627554 original size:21 final size:21
Alignment explanation
Indices: 22627528--22627570 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22627518 CATGGGTGAG
** *
22627528 CACACGGGTGTGTGGAGTAGC
1 CACACGGGCATGTGGAATAGC
22627549 CACACGGGCATGTGGAATAGC
1 CACACGGGCATGTGGAATAGC
22627570 C
1 C
22627571 CCATGGCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.16
Consensus pattern (21 bp):
CACACGGGCATGTGGAATAGC
Found at i:22628759 original size:15 final size:15
Alignment explanation
Indices: 22628741--22628785 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
22628731 ACATATTGAG
* *
22628741 ATTAAACATCATTTC
1 ATTAAAGATCATGTC
22628756 ATTAAAGATCATGTC
1 ATTAAAGATCATGTC
22628771 ATTAAAGATCATGTC
1 ATTAAAGATCATGTC
22628786 CAAAAAGGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (15 bp):
ATTAAAGATCATGTC
Found at i:22629375 original size:20 final size:21
Alignment explanation
Indices: 22629352--22629393 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22629342 ACAATTTTAG
*
22629352 CGATACTT-TTTAAAAATTAT
1 CGATACTTGTTTAAAAAGTAT
22629372 CGATACTTGTTTAAAAAGTAT
1 CGATACTTGTTTAAAAAGTAT
22629393 C
1 C
22629394 AGTACTCGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
CGATACTTGTTTAAAAAGTAT
Found at i:22643994 original size:31 final size:30
Alignment explanation
Indices: 22643959--22644086 Score: 91
Period size: 31 Copynumber: 4.2 Consensus size: 30
22643949 AGAGGATAAA
*
22643959 AAGTAACACATTAAACATTTTATAAAAATAC
1 AAGTATCACATTAAACATTTTAT-AAAATAC
* * * * **
22643990 AAGTACCATAATAAAACAAATATTGAT--AATTT
1 AAGTATCA-CATTAAAC--AT-TTTATAAAATAC
*
22644022 AAGTATCACATTAAACATTTT-TAATATAC
1 AAGTATCACATTAAACATTTTATAAAATAC
* *
22644051 AAGTATCACATGAAATATTTTATTAAAATAC
1 AAGTATCACATTAAACATTTTA-TAAAATAC
22644082 AAGTA
1 AAGTA
22644087 CCAAATGTGA
Statistics
Matches: 73, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
27 1 0.01
28 2 0.03
29 23 0.32
31 25 0.34
32 16 0.22
34 2 0.03
35 4 0.05
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (30 bp):
AAGTATCACATTAAACATTTTATAAAATAC
Found at i:22644055 original size:29 final size:31
Alignment explanation
Indices: 22644022--22644086 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
22644012 TTGATAATTT
* *
22644022 AAGTATCACATTAAACA-TTT-TTAATATAC
1 AAGTATCACATGAAACATTTTATTAAAATAC
*
22644051 AAGTATCACATGAAATATTTTATTAAAATAC
1 AAGTATCACATGAAACATTTTATTAAAATAC
22644082 AAGTA
1 AAGTA
22644087 CCAAATGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 15 0.48
30 3 0.10
31 13 0.42
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (31 bp):
AAGTATCACATGAAACATTTTATTAAAATAC
Found at i:22648917 original size:14 final size:14
Alignment explanation
Indices: 22648900--22648939 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
22648890 ACCTCATATA
22648900 AATTTTCTATAAAT
1 AATTTTCTATAAAT
* *
22648914 AATTTTTTAAAAAT
1 AATTTTCTATAAAT
22648928 AATTTTCTATAA
1 AATTTTCTATAA
22648940 TTATTTAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTTCTATAAAT
Found at i:22649066 original size:19 final size:20
Alignment explanation
Indices: 22649044--22649100 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
22649034 CATTTTCAAC
22649044 ATTATTTTTAATAATTT-TT
1 ATTATTTTTAATAATTTCTT
* *
22649063 ATTAATTTTAACAATTTCTT
1 ATTATTTTTAATAATTTCTT
* *
22649083 ATCATTTTAAATAATTTC
1 ATTATTTTTAATAATTTC
22649101 CTTTTTTTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATTTTTAATAATTTCTT
Found at i:22649098 original size:20 final size:20
Alignment explanation
Indices: 22649044--22649100 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
22649034 CATTTTCAAC
*
22649044 ATTATTTTTAATAATTT-TT
1 ATTAATTTTAATAATTTCTT
*
22649063 ATTAATTTTAACAATTTCTT
1 ATTAATTTTAATAATTTCTT
*
22649083 A-TCATTTTAAATAATTTC
1 ATTAATTTT-AATAATTTC
22649101 CTTTTTTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTAATTTTAATAATTTCTT
Found at i:22649802 original size:38 final size:38
Alignment explanation
Indices: 22649729--22649830 Score: 147
Period size: 38 Copynumber: 2.7 Consensus size: 38
22649719 TAAAATTAAA
*
22649729 ATAATTAATTATT-TTAAGTGAA-AG-ATAAATTTTAATG
1 ATAATTAATTATTATT-A-TAAATAGTATAAATTTTAATG
*
22649766 ATAATTATTTATTATTATAAATAGTATAAATTTTAATG
1 ATAATTAATTATTATTATAAATAGTATAAATTTTAATG
22649804 ATAATTAATTATTATTATAAATAGTAT
1 ATAATTAATTATTATTATAAATAGTAT
22649831 CTATACTTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
36 3 0.05
37 15 0.25
38 41 0.69
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (38 bp):
ATAATTAATTATTATTATAAATAGTATAAATTTTAATG
Found at i:22649977 original size:21 final size:21
Alignment explanation
Indices: 22649948--22649988 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22649938 TGCTTTTGTT
*
22649948 CTTTTATACTTTTATATAATC
1 CTTTCATACTTTTATATAATC
22649969 CTTTCATACTTTTATATAAT
1 CTTTCATACTTTTATATAAT
22649989 TTCTATTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (21 bp):
CTTTCATACTTTTATATAATC
Found at i:22652029 original size:37 final size:37
Alignment explanation
Indices: 22651979--22652057 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22651969 TTATTACGAA
* * *
22651979 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
22652016 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
22652053 GTCTT
1 GTCTT
22652058 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:22652254 original size:47 final size:47
Alignment explanation
Indices: 22652176--22652541 Score: 599
Period size: 47 Copynumber: 7.7 Consensus size: 47
22652166 CCCTTCGGGA
* * * * * *
22652176 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22652223 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22652270 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22652317 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22652364 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22652413 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22652460 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
22652507 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
22652542 AGAATCCTAA
Statistics
Matches: 303, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 255 0.84
49 47 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22652432 original size:143 final size:143
Alignment explanation
Indices: 22652176--22652520 Score: 595
Period size: 143 Copynumber: 2.4 Consensus size: 143
22652166 CCCTTCGGGA
* * * * * * * *
22652176 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
22652239 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
22652304 TCGGCCATTAGGC
131 TCGGCCATTAGGC
22652317 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
22652382 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
22652447 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
22652460 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
22652521 GCATGTTCAC
Statistics
Matches: 193, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
141 47 0.24
143 146 0.76
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:22656136 original size:40 final size:40
Alignment explanation
Indices: 22656106--22656493 Score: 593
Period size: 40 Copynumber: 9.8 Consensus size: 40
22656096 AGCATGATTA
* * *
22656106 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
22656146 CTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAATG
1 CTCTTCG-GGACTTAGCCCGGATATATCACTAGCACGAATG
* *
22656186 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
22656226 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
22656266 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* * *
22656306 CTCTTCGAGACTTAGCCCAGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
22656346 CTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
22656386 CTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
22656425 CTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
22656464 CTCCTCGGGACTTAGCCCGGATATATCACT
1 CTCTTCGGGACTTAGCCCGGATATATCACT
22656494 CTCAATTCTC
Statistics
Matches: 328, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
39 78 0.24
40 248 0.76
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:22657754 original size:35 final size:35
Alignment explanation
Indices: 22657708--22657778 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
22657698 TTATTACGAA
* * *
22657708 GTCTTACCCGGACATAATCTCCACACGAAGTTATC
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATC
*
22657743 GTCTTACCCGGACAAAATCCCCACACGTAGTCATC
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATC
22657778 G
1 G
22657779 GGTCTTTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (35 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATC
Found at i:22657981 original size:47 final size:47
Alignment explanation
Indices: 22657903--22658313 Score: 691
Period size: 47 Copynumber: 8.7 Consensus size: 47
22657893 CCCTTCGGGA
* * * * * *
22657903 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22657950 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22657997 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22658044 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22658091 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22658140 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22658187 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22658234 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
22658281 CTTATCTCATATAT--GCTTTCACATCCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
22658314 AGAATCCTAA
Statistics
Matches: 349, Mismatches: 13, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
45 17 0.05
47 285 0.82
49 47 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22658237 original size:190 final size:190
Alignment explanation
Indices: 22657903--22658313 Score: 699
Period size: 190 Copynumber: 2.2 Consensus size: 190
22657893 CCCTTCGGGA
* * * *
22657903 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
22657966 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
22658031 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
22658091 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
22658156 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
22658221 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22658281 CTTATCTC--ATATAT--GCTTTCACATCCATCACAT
1 CTTATCACATATATATACACTTTCACATCCATCACAT
22658314 AGAATCCTAA
Statistics
Matches: 211, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
186 17 0.08
188 16 0.08
189 1 0.00
190 177 0.84
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22663828 original size:29 final size:29
Alignment explanation
Indices: 22663795--22663874 Score: 115
Period size: 29 Copynumber: 2.8 Consensus size: 29
22663785 TATAAGTGAG
* *
22663795 CCTTTGTGGCTATCTCTGTTAAATGGAAA
1 CCTTTGTGGCCATCTATGTTAAATGGAAA
* *
22663824 CCTTTGTGGCCATCTATGTTCAATGGAAG
1 CCTTTGTGGCCATCTATGTTAAATGGAAA
*
22663853 CCTTTGTGGCGATCTATGTTAA
1 CCTTTGTGGCCATCTATGTTAA
22663875 TATGCAAGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (29 bp):
CCTTTGTGGCCATCTATGTTAAATGGAAA
Found at i:22663918 original size:29 final size:29
Alignment explanation
Indices: 22663850--22663978 Score: 141
Period size: 29 Copynumber: 4.4 Consensus size: 29
22663840 TGTTCAATGG
* * * * *
22663850 AAGCCTTTGTGGCGATCTATGTTAATATGC
1 AAGCCTTTATGGTGATCTCTGTT-ATAAGA
*
22663880 AAGCCTTTATGGTGATATCTGTTATAAGA
1 AAGCCTTTATGGTGATCTCTGTTATAAGA
** *
22663909 AAGTGTTTATGGTGATCTATGTTATAAGA
1 AAGCCTTTATGGTGATCTCTGTTATAAGA
* * *
22663938 AAGCCTTTGTGGTGATCTCTGTTAAAAGG
1 AAGCCTTTATGGTGATCTCTGTTATAAGA
22663967 AAGCCTTTATGG
1 AAGCCTTTATGG
22663979 CAACCTTTGC
Statistics
Matches: 82, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
29 63 0.77
30 19 0.23
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (29 bp):
AAGCCTTTATGGTGATCTCTGTTATAAGA
Found at i:22663976 original size:58 final size:59
Alignment explanation
Indices: 22663793--22663979 Score: 173
Period size: 58 Copynumber: 3.2 Consensus size: 59
22663783 TGTATAAGTG
* * * * ** * * *
22663793 AGCCTTTGTGGCTATCTCTGTTAA-ATGGAAA-CCTTTGTGGCCATCTATGTTCAATGGA
1 AGCCTTTATGGCGATCTATGTTAATA-AGAAAGCCTTTGTGGTGATCTCTGTTAAAAGGA
* * * * * * *
22663851 AGCCTTTGTGGCGATCTATGTTAATATGCAAGCCTTTATGGTGATATCTGTTATAAGAA
1 AGCCTTTATGGCGATCTATGTTAATAAGAAAGCCTTTGTGGTGATCTCTGTTAAAAGGA
** *
22663910 AGTGTTTATGGTGATCTATGTT-ATAAGAAAGCCTTTGTGGTGATCTCTGTTAAAAGGA
1 AGCCTTTATGGCGATCTATGTTAATAAGAAAGCCTTTGTGGTGATCTCTGTTAAAAGGA
22663968 AGCCTTTATGGC
1 AGCCTTTATGGC
22663980 AACCTTTGCT
Statistics
Matches: 101, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
58 64 0.63
59 37 0.37
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (59 bp):
AGCCTTTATGGCGATCTATGTTAATAAGAAAGCCTTTGTGGTGATCTCTGTTAAAAGGA
Found at i:22682833 original size:184 final size:184
Alignment explanation
Indices: 22682524--22682886 Score: 577
Period size: 184 Copynumber: 2.0 Consensus size: 184
22682514 CTTGCGACAA
* * *
22682524 CCATCACATACCATCAACCCTATTGATCATATATCAGCTGCCTCTTTCAGGATCAATCGAGTCCT
1 CCATCACATACCATCAACCCTATTGATCACATATCAGCGGCCTCTTTCAGGATCAATCGAGTCCC
* *
22682589 AGCAAGCTCTGTCGACTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTGTG
66 AGCAAGCCCTGTCGACTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTGCG
* * *
22682654 CCACCAGTCAACGACAACAGCAGAATTTTTTCAATAGTTTCCTTGGAGAGGCAG
131 CCACCAGCCAACGACAACAACAGAATTTTTTCAATAGTTTCCTTAGAGAGGCAG
* * *
22682708 CCATCACATACCATTGATCCCTATTGATCACATA-CAGCGGCCTCTTTCGGGCA-CAATCGAGTC
1 CCATCACATACCA-TCAACCCTATTGATCACATATCAGCGGCCTCTTTCAGG-ATCAATCGAGTC
*
22682771 CCAGCAAGCCCTGTCGATTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTG
64 CCAGCAAGCCCTGTCGACTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTG
*
22682836 CGCCACCAGCCAACGGCAACAACAGAATTTTTTCAATAGTTTCCTTAGAGA
129 CGCCACCAGCCAACGACAACAACAGAATTTTTTCAATAGTTTCCTTAGAGA
22682887 TTGTGGCTAA
Statistics
Matches: 164, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
184 146 0.89
185 18 0.11
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (184 bp):
CCATCACATACCATCAACCCTATTGATCACATATCAGCGGCCTCTTTCAGGATCAATCGAGTCCC
AGCAAGCCCTGTCGACTACCATCGTCAACAATTGGAAGCAATCGGGACCTGTAGAACCTTGTGCG
CCACCAGCCAACGACAACAACAGAATTTTTTCAATAGTTTCCTTAGAGAGGCAG
Found at i:22685067 original size:19 final size:17
Alignment explanation
Indices: 22685023--22685073 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
22685013 TGTCGTTTGT
*
22685023 TTTCAAAATATTCTTCA
1 TTTCAAAATATTATTCA
22685040 TTT-ACAAATCATTATTCAA
1 TTTCA-AAAT-ATTATTC-A
*
22685059 TTTCAAAATTTTATT
1 TTTCAAAATATTATT
22685074 TTTATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.25
18 11 0.39
19 8 0.29
20 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTCAAAATATTATTCA
Found at i:22693667 original size:40 final size:40
Alignment explanation
Indices: 22693601--22693690 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
22693591 TGAATTATGG
* *
22693601 AATT-CTGAATATTGTTTTTGATTACTGAATTGAATTGTGA
1 AATTACTGAATATTGTTTGTGA-TACTGAATTGAACTGTGA
* *
22693641 AGTTACTGAATATTGTTATGTG-TACTGCATTGAACTGTGA
1 AATTACTGAATATTGTT-TGTGATACTGAATTGAACTGTGA
*
22693681 AATTATTGAA
1 AATTACTGAA
22693691 GTAATGAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
40 27 0.64
41 12 0.29
42 3 0.07
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (40 bp):
AATTACTGAATATTGTTTGTGATACTGAATTGAACTGTGA
Found at i:22693933 original size:39 final size:39
Alignment explanation
Indices: 22693881--22693990 Score: 112
Period size: 45 Copynumber: 2.7 Consensus size: 39
22693871 CAGACACTTA
* **
22693881 TGTGTCGACTACTGTTACTGTTACTGATTCGGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGATTCAACACTTTG
*
22693920 TGTGTCGAATACTGTTACCGTTACTGTTGCAGATTCAACACTTTG
1 TGTGTCGAATACTGTTACTGTTAC---T---GATTCAACACTTTG
* *
22693965 TATGTTGAATACTGTTACTGTTACTG
1 TGTGTCGAATACTGTTACTGTTACTG
22693991 TTACTGCCAC
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
39 23 0.40
42 2 0.03
45 33 0.57
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (39 bp):
TGTGTCGAATACTGTTACTGTTACTGATTCAACACTTTG
Found at i:22693962 original size:45 final size:45
Alignment explanation
Indices: 22693894--22693994 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
22693884 GTCGACTACT
* ** *
22693894 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTATGTCGAATACTGTTACC
* * *
22693939 GTTACTGTTGCAGATTCAACACTTTGTATGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCAACACTTTGTATGTCGAATACTGTTACC
22693984 GTTACTGTTAC
1 GTTACTGTTAC
22693995 TGCCACCATT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTATGTCGAATACTGTTACC
Found at i:22703796 original size:20 final size:19
Alignment explanation
Indices: 22703758--22703826 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
22703748 TACAATTTGG
*
22703758 TATCGATACCATTTAAAAAC
1 TATCGATA-CATTTAAAAAA
*
22703778 TATCGATACTTTTATAAAAA
1 TATCGATACATTTA-AAAAA
* **
22703798 TATTGATACATAAAAGAAAA
1 TATCGATACATTTAA-AAAA
22703818 TATCGATAC
1 TATCGATAC
22703827 CCGTGGGTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 6 0.15
20 34 0.85
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (19 bp):
TATCGATACATTTAAAAAA
Found at i:22707852 original size:317 final size:318
Alignment explanation
Indices: 22707270--22707894 Score: 1137
Period size: 317 Copynumber: 2.0 Consensus size: 318
22707260 CAATCTCTTC
*
22707270 AAGAGTCACGACATGAGATAGGTCAGAATAATTCCACCTCAACATGGAAACGTGGAACACATCAT
1 AAGAGTCACGACATGAGATAGGTCAGAATAATACCACCTCAACATGGAAACGTGGAACACATCAT
* *
22707335 GGATACAGTCTAAATCTGGAGGCGGCTCTAACTTATAAGCAACCGATCCCACACGTTTCGAAATC
66 GGATACAGTCTAAATCTGGAGGCAGCTCTAACTTATAAGCAACCGATCCCACACGTTTCAAAATC
*
22707400 CGATATGGCCTAATGAACCTAAGGCTCAACTTTCCCTTACGTCCAAACCGTAGAACTTTCTTCCA
131 CGATACGGCCTAATGAACCTAAGGCTCAACTTTCCCTTACGTCCAAACCGTAGAACTTTCTTCCA
22707465 AGGAGATACCTTCAGAAACACATAATCACCCACAGAATATTCGATGTCCCTTCTTTTCAGATCTA
196 AGGAGATACCTTCAGAAACACATAATCACCCACAGAATATTCGATGTCCCTTCTTTTCAGATCTA
22707530 AATATGACTTCTGTCTATTAAACGCCACCTCAAGACGATCCCAAATCATAGGTCCTCT
261 AATATGACTTCTGTCTATTAAACGCCACCTCAAGACGATCCCAAATCATAGGTCCTCT
22707588 AAGAGTCACGACATGAGATAGGTCAGAATAATACCACCTCAACATGGAAACGTGGAACACATCAT
1 AAGAGTCACGACATGAGATAGGTCAGAATAATACCACCTCAACATGGAAACGTGGAACACATCAT
* *
22707653 GGATACAGTCTAAATCTGGAGGCAGCTCTAACTTATAAGCAACTGATCCCACACGTTTCAAAATT
66 GGATACAGTCTAAATCTGGAGGCAGCTCTAACTTATAAGCAACCGATCCCACACGTTTCAAAATC
* * *
22707718 C-A-ACGTCACTAATGAATCTAGGGCTCAACTTTCCCTTACGTCCAAACCGTAGAACTTTCTTCC
131 CGATACGGC-CTAATGAACCTAAGGCTCAACTTTCCCTTACGTCCAAACCGTAGAACTTTCTTCC
*
22707781 AATGAGATACCTTCAGAAACACATAATCACCCACAGAATATTCGATGTCCCTTCTTTTCAGATCT
195 AAGGAGATACCTTCAGAAACACATAATCACCCACAGAATATTCGATGTCCCTTCTTTTCAGATCT
22707846 AAATATGACTTCTGTCTATTAAACGCCACCTCAAGACGATCCCAAATCA
260 AAATATGACTTCTGTCTATTAAACGCCACCTCAAGACGATCCCAAATCA
22707895 ATCTAACTTT
Statistics
Matches: 296, Mismatches: 10, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
316 3 0.01
317 167 0.56
318 126 0.43
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (318 bp):
AAGAGTCACGACATGAGATAGGTCAGAATAATACCACCTCAACATGGAAACGTGGAACACATCAT
GGATACAGTCTAAATCTGGAGGCAGCTCTAACTTATAAGCAACCGATCCCACACGTTTCAAAATC
CGATACGGCCTAATGAACCTAAGGCTCAACTTTCCCTTACGTCCAAACCGTAGAACTTTCTTCCA
AGGAGATACCTTCAGAAACACATAATCACCCACAGAATATTCGATGTCCCTTCTTTTCAGATCTA
AATATGACTTCTGTCTATTAAACGCCACCTCAAGACGATCCCAAATCATAGGTCCTCT
Found at i:22717078 original size:131 final size:131
Alignment explanation
Indices: 22716837--22717079 Score: 310
Period size: 131 Copynumber: 1.9 Consensus size: 131
22716827 ATTTTTAAAA
* * *
22716837 TAAATATTAATATTATAAGTATATTTAAATTTTCTATCTTCATCTTCTACTTCAACCCATTATTC
1 TAAATATTAATATTACAAGTATATTTAAATTTTCTATCTTCATCTTCTACTTCAACCCATCAATC
* *** * *
22716902 TTGTTGTCATCTTCCATATTGGATCTTCTTCTTCAATCTATATCATCATCTGAAATATATATTTT
66 TCGACATCATCTTCCATAGTGGATCTTCTTCTACAATCTATATCATCATCTGAAATATATATTTT
22716967 T
131 T
* * * * *
22716968 TAAATATTAATATTACAAGTATATTT-AATTTCTCTATTTTGATCTTTTGCTTTAACCCATCAAT
1 TAAATATTAATATTACAAGTATATTTAAATTT-TCTATCTTCATCTTCTACTTCAACCCATCAAT
* *
22717032 CTCGACATCATCTTTCATCGT-GATCTTCTTCTACAATCTATCATCATC
65 CTCGACATCATCTTCCATAGTGGATCTTCTTCTACAATCTAT-ATCATC
22717080 TAGACCTACT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
130 24 0.26
131 70 0.74
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.47
Consensus pattern (131 bp):
TAAATATTAATATTACAAGTATATTTAAATTTTCTATCTTCATCTTCTACTTCAACCCATCAATC
TCGACATCATCTTCCATAGTGGATCTTCTTCTACAATCTATATCATCATCTGAAATATATATTTT
T
Found at i:22726220 original size:23 final size:23
Alignment explanation
Indices: 22726190--22726235 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22726180 TCAAGTAAGA
22726190 ACACTTACTTCTAGGAATTAGAT
1 ACACTTACTTCTAGGAATTAGAT
22726213 ACACTTACTTCTAGGAATTAGAT
1 ACACTTACTTCTAGGAATTAGAT
22726236 TAGATGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (23 bp):
ACACTTACTTCTAGGAATTAGAT
Found at i:22726492 original size:22 final size:23
Alignment explanation
Indices: 22726459--22726501 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
22726449 TATTAAATCA
22726459 CTCTAAAATCTCAAAACCAAAGC
1 CTCTAAAATCTCAAAACCAAAGC
* *
22726482 CTCT-AAATCTCTATACCAAA
1 CTCTAAAATCTCAAAACCAAA
22726502 AACTTAGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.23
Consensus pattern (23 bp):
CTCTAAAATCTCAAAACCAAAGC
Found at i:22728469 original size:17 final size:17
Alignment explanation
Indices: 22728443--22728484 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
22728433 AGTGAATCGA
*
22728443 AAGCTCGTTCGGGTTGG
1 AAGCTTGTTCGGGTTGG
22728460 AAGCTTGTTCGGGTTGG
1 AAGCTTGTTCGGGTTGG
22728477 AAGCTTGT
1 AAGCTTGT
22728485 CAAAGTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.14, C:0.14, G:0.38, T:0.33
Consensus pattern (17 bp):
AAGCTTGTTCGGGTTGG
Found at i:22736140 original size:27 final size:27
Alignment explanation
Indices: 22736102--22736157 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
22736092 TTATCACACT
22736102 ATCCATCAACTATATC-GATACTTTTGG
1 ATCCATCAACTATATCAG-TACTTTTGG
*
22736129 ATCCATCGACTATATCAGTACTTTTGG
1 ATCCATCAACTATATCAGTACTTTTGG
22736156 AT
1 AT
22736158 GTTTTTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (27 bp):
ATCCATCAACTATATCAGTACTTTTGG
Found at i:22744251 original size:165 final size:163
Alignment explanation
Indices: 22743801--22744304 Score: 762
Period size: 165 Copynumber: 3.1 Consensus size: 163
22743791 TAATTTCATA
* * * *
22743801 AAAAATCCCTTTACAAAATTTGTTTATTTTACAACAAGAACTCATAATATTTCATTAAATTTAAA
1 AAAAAT-CATTTACAAAACTTGTTTA-TTTAC-ACAAGGACTCATAATATTTCATTAAATTTCAA
* * *
22743866 GAATCATGCAAAACATGCTCATGGAAAAACCCTAAAACTTCACCA-AG-TTTGCAAATTAGTCCC
63 GAATCATGC-AAACATTCTCATGGAAAAACCCTAAAACTTTA--ATAGTTTTGCAAAATAGTCCC
*
22743929 TAGGCTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
125 TGGGCTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
* *
22743968 AAAAATCATTTAAAAAACTTGTTTATTTA-ACAAGGACTCATAATCTTTCATTAAATTTCAAGAA
1 AAAAATCATTTACAAAACTTGTTTATTTACACAAGGACTCATAATATTTCATTAAATTTCAAGAA
* *
22744032 TCATCCAAACATTCTCATGGAAAAACCCTAAAACTTTAATAGTTTTGCAAAATAGTCTCTGGGCT
66 TCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATAGTTTTGCAAAATAGTCCCTGGGCT
22744097 AGCTAGATTAAGCTACAACGACTTCAAAAACAT
131 AGCTAGATTAAGCTACAACGACTTCAAAAACAT
*
22744130 AAAAATCATTTACAAAACTTGTTTATTTAACACCAAGGACTCATAATATTTCATTAAATTTCAAT
1 AAAAATCATTTACAAAACTTGTTTATTT-ACA-CAAGGACTCATAATATTTCATTAAATTTCAAG
* * * *
22744195 AATCATGCAAACGTTCTCATGGGAAAGCCCTAAAACTTTAATAGTTTTACAAAATAGTCCCTGGG
64 AATCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATAGTTTTGCAAAATAGTCCCTGGG
22744260 CTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
129 CTAGCTAGATTAAGCTACAACGACTTCAAAAACAT
22744295 AAAAATCATT
1 AAAAATCATT
22744305 AAAAACGGGA
Statistics
Matches: 311, Mismatches: 21, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
160 1 0.00
161 2 0.01
162 109 0.35
163 38 0.12
164 1 0.00
165 138 0.44
166 16 0.05
167 6 0.02
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (163 bp):
AAAAATCATTTACAAAACTTGTTTATTTACACAAGGACTCATAATATTTCATTAAATTTCAAGAA
TCATGCAAACATTCTCATGGAAAAACCCTAAAACTTTAATAGTTTTGCAAAATAGTCCCTGGGCT
AGCTAGATTAAGCTACAACGACTTCAAAAACAT
Found at i:22747351 original size:154 final size:154
Alignment explanation
Indices: 22747071--22747375 Score: 477
Period size: 154 Copynumber: 2.0 Consensus size: 154
22747061 TGGAAAATCT
* * *
22747071 ATTTCAGAAAATATATTTTTTAACTATTGTAGAAAATACGTAATATATTTTATGTTACTGTGTAT
1 ATTTCAGAAAATATAATTTTTAACTATTGTAGAAAATACGAAATATATTTTATATTACTGTGTAT
22747136 TTACCATTTTGCCCCTTAAGAAAATCCAATAAATAACATACCATTCTCCTCATTTTACACAACAA
66 TTACCATTTTGCCCCTTAAGAAAATCCAATAAATAACATACCATTCTCCTCATTTTACACAACAA
22747201 GAAAAACAACAATATTTTCTCCTC
131 GAAAAACAACAATATTTTCTCCTC
* * * * *
22747225 ATTTCAGAAAATA-AATTTTTAATTGTTGTAGAATATACGAAAATATATTTTCTATTATTGTGTA
1 ATTTCAGAAAATATAATTTTTAACTATTGTAGAAAATACG-AAATATATTTTATATTACTGTGTA
* * *
22747289 TTTACCATTTTTCCCCTTAAGAAAATCCTATAAATAGCATACCATTCTCCTCATTTTACACAACA
65 TTTACCATTTTGCCCCTTAAGAAAATCCAATAAATAACATACCATTCTCCTCATTTTACACAACA
* *
22747354 AGGAAAACAACAATTTTTTCTC
130 AGAAAAACAACAATATTTTCTC
22747376 TCACAACTCA
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
153 22 0.16
154 115 0.84
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (154 bp):
ATTTCAGAAAATATAATTTTTAACTATTGTAGAAAATACGAAATATATTTTATATTACTGTGTAT
TTACCATTTTGCCCCTTAAGAAAATCCAATAAATAACATACCATTCTCCTCATTTTACACAACAA
GAAAAACAACAATATTTTCTCCTC
Found at i:22749174 original size:16 final size:16
Alignment explanation
Indices: 22749144--22749173 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22749134 ACAATTGTTG
22749144 TTCTATTACTATTTTA
1 TTCTATTACTATTTTA
22749160 TTCTATTACT-TTTT
1 TTCTATTACTATTTT
22749174 TTATCCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (16 bp):
TTCTATTACTATTTTA
Found at i:22755471 original size:5 final size:5
Alignment explanation
Indices: 22755447--22755480 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
22755437 CCGATTCGTC
22755447 AGGAGA AGGAA AGAGAA AGGAA AGGAA AGGAA AG
1 AGGA-A AGGAA AG-GAA AGGAA AGGAA AGGAA AG
22755481 AGAAGTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.67
6 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
AGGAA
Found at i:22757083 original size:13 final size:13
Alignment explanation
Indices: 22757065--22757089 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22757055 CTAGGATCTA
22757065 AAACACAAGCAAC
1 AAACACAAGCAAC
22757078 AAACACAAGCAA
1 AAACACAAGCAA
22757090 TTTCATCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.28, G:0.08, T:0.00
Consensus pattern (13 bp):
AAACACAAGCAAC
Found at i:22757864 original size:26 final size:26
Alignment explanation
Indices: 22757811--22757871 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
22757801 TATCCCAGTT
** **
22757811 AAATTTTGAAAATTTTACCCCTGGTA
1 AAATTTTGACGATTTTACCCCTAATA
*
22757837 AATTTTTGACGATTTTACCCCTAATA
1 AAATTTTGACGATTTTACCCCTAATA
22757863 AAATTTTGA
1 AAATTTTGA
22757872 GAAAATTCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (26 bp):
AAATTTTGACGATTTTACCCCTAATA
Found at i:22759984 original size:28 final size:28
Alignment explanation
Indices: 22759925--22759984 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
22759915 TACATAGATC
**
22759925 GATTATTTAACTAGTAGATGAAGTATAA
1 GATTATTTAACTAGTAGAACAAGTATAA
22759953 GATTATTTAACTACGTA-AACAA-TATAA
1 GATTATTTAACTA-GTAGAACAAGTATAA
22759980 TGATT
1 -GATT
22759985 TTACCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.18
28 20 0.71
29 3 0.11
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (28 bp):
GATTATTTAACTAGTAGAACAAGTATAA
Found at i:22764008 original size:20 final size:20
Alignment explanation
Indices: 22763971--22764009 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22763961 CCCTTGCAGT
** *
22763971 CTAAATTTTTTAACTTTTTC
1 CTAAATTTTCCAAATTTTTC
22763991 CTAAATTTTCCAAATTTTT
1 CTAAATTTTCCAAATTTTT
22764010 TCGATTTAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (20 bp):
CTAAATTTTCCAAATTTTTC
Found at i:22770349 original size:18 final size:18
Alignment explanation
Indices: 22770326--22770366 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
22770316 TTAGCAATAC
*
22770326 TTTTATCTCAAAAGTATT
1 TTTTATCCCAAAAGTATT
*
22770344 TTTTATCCCAAAAGTGTT
1 TTTTATCCCAAAAGTATT
22770362 TTTTA
1 TTTTA
22770367 GAAATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.51
Consensus pattern (18 bp):
TTTTATCCCAAAAGTATT
Found at i:22782279 original size:21 final size:21
Alignment explanation
Indices: 22782253--22782294 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22782243 AGAATATATA
22782253 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
22782274 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
22782295 GATTTTATGA
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:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTGAATTT
Found at i:22782949 original size:41 final size:41
Alignment explanation
Indices: 22782904--22782995 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
22782894 GGCTATGTGC
22782904 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCT-TACGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGA-CTATACGT
* * * *
22782945 CTAGCAGGCTTAATGCCGGTGATATATTTCGGACTATAGGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACTATACGT
22782986 CTAGCAGGCT
1 CTAGCAGGCT
22782996 AAGAGCTGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.04
41 44 0.96
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACTATACGT
Found at i:22789921 original size:21 final size:21
Alignment explanation
Indices: 22789895--22789936 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22789885 AGAATATATA
22789895 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
22789916 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
22789937 GATTTTATGA
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:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTGAATTT
Found at i:22790599 original size:41 final size:41
Alignment explanation
Indices: 22790554--22790645 Score: 132
Period size: 41 Copynumber: 2.2 Consensus size: 41
22790544 GGCTATGTGC
*
22790554 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCT-TACGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGA-CTATAAGT
* * *
22790595 CTAGCAGGCTTAATGCCGGTGATATATTTCGGACTATAAGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACTATAAGT
22790636 CTAGCAGGCT
1 CTAGCAGGCT
22790646 AAGAGCTGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.04
41 44 0.96
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACTATAAGT
Found at i:22790977 original size:40 final size:40
Alignment explanation
Indices: 22790944--22791052 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 40
22790934 ATAGATATCA
22790944 CATTAGCGGCGCTTCTTT-AAAAACGCCGCTATAGATCAAG
1 CATTAGCGGCG-TTCTTTGAAAAACGCCGCTATAGATCAAG
* * * * *
22790984 CATTAGCGGCGTTTTTTGGAAAGCGCCGCTATAGGTCGAG
1 CATTAGCGGCGTTCTTTGAAAAACGCCGCTATAGATCAAG
*
22791024 CATTAGCGATGC-TT-TTTGAAAAATGCCGC
1 CATTAGCG--GCGTTCTTTGAAAAACGCCGC
22791053 AAAAAAACCG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 5 0.09
40 49 0.84
41 2 0.03
42 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (40 bp):
CATTAGCGGCGTTCTTTGAAAAACGCCGCTATAGATCAAG
Found at i:22791161 original size:40 final size:40
Alignment explanation
Indices: 22791095--22791185 Score: 130
Period size: 40 Copynumber: 2.3 Consensus size: 40
22791085 GCACTTTTAT
* *
22791095 AAAAACGCCGCTATAGATGAGACATTAGTAGCGCTTTTTG
1 AAAAACGCCGCTATAGATAAGACATTAGCAGCGCTTTTTG
*
22791135 AAAAACGCCGCTATAGATCAAG-CATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGAT-AAGACATTAGCAGCGCTTTTTG
*
22791175 AAAAACACCGC
1 AAAAACGCCGC
22791186 AAAAAAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 44 0.96
41 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATAAGACATTAGCAGCGCTTTTTG
Found at i:22795680 original size:18 final size:18
Alignment explanation
Indices: 22795657--22795716 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
22795647 TATGTATTCT
22795657 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
22795675 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
22795692 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
22795710 AATGTAA
1 AATGTAA
22795717 CTTGTTTTAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:22795953 original size:43 final size:43
Alignment explanation
Indices: 22795906--22796120 Score: 304
Period size: 43 Copynumber: 5.0 Consensus size: 43
22795896 GGTGTTTGCG
* * *
22795906 GGAAAAGTGCCGCTAAAGGTCTCGGTATTTAGCGGCGTTTTTT
1 GGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTT
*
22795949 GGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTTTT
1 GGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTT
* **
22795992 GGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCATTTTCA
1 GGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTT
* * * ***
22796035 AGAAAAGCGCCGCTAAAGGTTTTGGTCTTTAGCGGCGATTGCG
1 GGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTT
*
22796078 GGAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTTTT
1 GGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTT
22796121 CCGGCGCTTC
Statistics
Matches: 153, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 153 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (43 bp):
GGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTTTT
Found at i:22796190 original size:22 final size:22
Alignment explanation
Indices: 22796162--22796205 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
22796152 TAGTGGCGCT
* *
22796162 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
22796184 AAAAAGCACCGCTAAAAGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
22796206 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAAGCACCGCTAAAAGCCTA
Found at i:22799232 original size:14 final size:14
Alignment explanation
Indices: 22799213--22799242 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22799203 CTAACCCCAA
*
22799213 TTACTAACTTGATT
1 TTACTAACTCGATT
22799227 TTACTAACTCGATT
1 TTACTAACTCGATT
22799241 TT
1 TT
22799243 TGGGATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (14 bp):
TTACTAACTCGATT
Found at i:22804192 original size:19 final size:19
Alignment explanation
Indices: 22804168--22804214 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
22804158 AAGTTCATAT
22804168 GGCCGTGTGACAAAGCCTA
1 GGCCGTGTGACAAAGCCTA
*
22804187 GGCCGTGTGACAGAGCCTA
1 GGCCGTGTGACAAAGCCTA
*
22804206 GACCGTGTG
1 GGCCGTGTG
22804215 GCTCAGAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.21, C:0.26, G:0.36, T:0.17
Consensus pattern (19 bp):
GGCCGTGTGACAAAGCCTA
Found at i:22812375 original size:23 final size:23
Alignment explanation
Indices: 22812314--22812375 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
22812304 TTCTATGTGC
* * *
22812314 GCAAGTGATAGTGGCACTATGGT
1 GCAAGTGATAATGACACTACGGT
* *
22812337 GCAAGTGAAAACGACACTACGGT
1 GCAAGTGATAATGACACTACGGT
*
22812360 GCAAGTGTTAATGACA
1 GCAAGTGATAATGACA
22812376 TTTCGGTGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (23 bp):
GCAAGTGATAATGACACTACGGT
Found at i:22814832 original size:44 final size:43
Alignment explanation
Indices: 22814776--22814861 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 43
22814766 AGTCTAATCA
*
22814776 GAAATGAGCAACCCGATTGAGGAGATGTTTTTTCCTTAAGCACG
1 GAAATGAACAACCCGATTGAGGAGATG-TTTTTCCTTAAGCACG
*
22814820 GAAATGAACAACCCGATTGAGGAGATGTTTTTCCTTGAGCAC
1 GAAATGAACAACCCGATTGAGGAGATGTTTTTCCTTAAGCAC
22814862 CAGAGCAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 14 0.35
44 26 0.65
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
GAAATGAACAACCCGATTGAGGAGATGTTTTTCCTTAAGCACG
Found at i:22815462 original size:28 final size:28
Alignment explanation
Indices: 22815430--22815486 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
22815420 TTTTGTAGTG
22815430 ATACATAATTGGGGAGAGCTCAGTCACT
1 ATACATAATTGGGGAGAGCTCAGTCACT
22815458 ATACATAATTGGGGAGAGCTCAGTCACT
1 ATACATAATTGGGGAGAGCTCAGTCACT
22815486 A
1 A
22815487 AACAGAAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (28 bp):
ATACATAATTGGGGAGAGCTCAGTCACT
Found at i:22817933 original size:33 final size:33
Alignment explanation
Indices: 22817891--22817953 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
22817881 GTTGTTTGGC
*
22817891 GGTTGGCTTCTATCTTCCATTGTACCCTTTAGA
1 GGTTGGCTTCTATCTTCCATTGCACCCTTTAGA
22817924 GGTTGGCTTCTATCTTCCATTGCACCCTTT
1 GGTTGGCTTCTATCTTCCATTGCACCCTTT
22817954 CTTCTACATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.13, C:0.27, G:0.17, T:0.43
Consensus pattern (33 bp):
GGTTGGCTTCTATCTTCCATTGCACCCTTTAGA
Found at i:22826257 original size:66 final size:66
Alignment explanation
Indices: 22826181--22826314 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
22826171 TTGATATAAT
22826181 TGTGGTTTCTATGAATGGCACATTGGTTGGTTGATTTTAGGACACTAAAATGGCATGTTTGTGTA
1 TGTGGTTTCTATGAATGGCACATTGGTTGGTTGATTTTAGGACACTAAAATGGCATGTTTGTGTA
22826246 C
66 C
22826247 TGTGGTTTCTATGAATGGCACATTGGTTGGTTGATTTTAGGACACTAAAATGGCATGTTTGTGTA
1 TGTGGTTTCTATGAATGGCACATTGGTTGGTTGATTTTAGGACACTAAAATGGCATGTTTGTGTA
22826312 C
66 C
22826313 TG
1 TG
22826315 GTGAATGATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.22, C:0.10, G:0.28, T:0.40
Consensus pattern (66 bp):
TGTGGTTTCTATGAATGGCACATTGGTTGGTTGATTTTAGGACACTAAAATGGCATGTTTGTGTA
C
Found at i:22827461 original size:35 final size:34
Alignment explanation
Indices: 22827403--22827470 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
22827393 CTGAAGGACC
* *
22827403 AGTCGATAACCATCATCACGGTGTTGCTCTATAG
1 AGTCGATAACCATCATCACGGTGTCGCCCTATAG
** *
22827437 AGTCGATAGACCATTGTCATGGTGTCGCCCTATA
1 AGTCGATA-ACCATCATCACGGTGTCGCCCTATA
22827471 AAGCCAGTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 8 0.29
35 20 0.71
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (34 bp):
AGTCGATAACCATCATCACGGTGTCGCCCTATAG
Found at i:22830686 original size:31 final size:31
Alignment explanation
Indices: 22830650--22830721 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 31
22830640 TTCGACCGTT
*
22830650 AATTTTGGT-TCTTATACTTTTCGAATTA-GA
1 AATTTTAGTCTCTT-TACTTTTCGAATTATGA
*
22830680 CAATTTTAGTCTCTTTACTTTTTGAATTATGA
1 -AATTTTAGTCTCTTTACTTTTCGAATTATGA
22830712 AATTTTAGTC
1 AATTTTAGTC
22830722 CTAACCTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 31 0.84
32 6 0.16
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (31 bp):
AATTTTAGTCTCTTTACTTTTCGAATTATGA
Found at i:22834872 original size:124 final size:124
Alignment explanation
Indices: 22834575--22834986 Score: 621
Period size: 125 Copynumber: 3.3 Consensus size: 124
22834565 ATTTATTAAG
*
22834575 GAAATCGCTCCCACGTGGACGCGCTTTTGGTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * *
22834640 ATTTCTAAGCAAATAGTATAAAAACGCTTCAAGCATGATGCTTTATTAGAAGAATTTCT
66 GTTTCTAAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
22834699 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
22834764 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTAAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
* *
22834824 GAAATCGCTCCCATC-TAGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGA
1 GAAATCGCTCCCA-CGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGA
* * * * * * *
22834888 CGTTTCTAAGCAAATAGTGTGTAAAATGCTTTAAGTAGGATGCTTTATGAGAAGAAATAT-T
65 CGTTTCTAAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTTTATCAGAAG-AATTTCT
* * *
22834949 GAAATCGCTCCCACGTGGACGTGTTTTTGTTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
22834987 CATGTTTGGG
Statistics
Matches: 264, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
124 82 0.31
125 177 0.67
126 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (124 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTAAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
Done.