Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 95 of 136
Found at i:31758869 original size:19 final size:21
Alignment explanation
Indices: 31758818--31758870 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
31758808 TTTAGTGGAA
*
31758818 TCAAGTGAAATGAAATTTGAGT
1 TCAAGTCAAAT-AAATTTGAGT
*
31758840 T-AAGTCGAATAAATTT-A-T
1 TCAAGTCAAATAAATTTGAGT
31758858 TCAAGTCAAATAA
1 TCAAGTCAAATAA
31758871 TTTCTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.07
19 11 0.41
20 6 0.22
21 7 0.26
22 1 0.04
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.32
Consensus pattern (21 bp):
TCAAGTCAAATAAATTTGAGT
Found at i:31763983 original size:17 final size:17
Alignment explanation
Indices: 31763952--31763984 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31763942 GAACTTTATA
31763952 AAATATAAAAGATATTG
1 AAATATAAAAGATATTG
31763969 AAATGATAAAA-ATATT
1 AAAT-ATAAAAGATATT
31763985 TTAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (17 bp):
AAATATAAAAGATATTG
Found at i:31764003 original size:9 final size:9
Alignment explanation
Indices: 31763951--31764056 Score: 63
Period size: 9 Copynumber: 11.4 Consensus size: 9
31763941 AGAACTTTAT
31763951 AAAATATAA
1 AAAATATAA
* *
31763960 AAGATAT-T
1 AAAATATAA
*
31763968 GAAATGATAA
1 AAAAT-ATAA
* *
31763978 AAATATTTTA
1 AAA-ATATAA
31763988 AAAATATAA
1 AAAATATAA
*
31763997 TAAATATAA
1 AAAATATAA
* *
31764006 TAACTATAA
1 AAAATATAA
31764015 AAAATCATAA
1 AAAAT-ATAA
31764025 AAAACTAT-A
1 AAAA-TATAA
*
31764034 AAAATATTTA
1 AAAATA-TAA
*
31764044 AAAATGTAA
1 AAAATATAA
31764053 AAAA
1 AAAA
31764057 AAATGAAATA
Statistics
Matches: 74, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
8 5 0.07
9 43 0.58
10 23 0.31
11 3 0.04
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (9 bp):
AAAATATAA
Found at i:31765898 original size:72 final size:73
Alignment explanation
Indices: 31765822--31765982 Score: 202
Period size: 72 Copynumber: 2.2 Consensus size: 73
31765812 TATATTTATT
* * * * * *
31765822 AAAAATAATGATATTTGAAATAATTAATTGATTTTCTAATATTATAATTTATCATACTCACAATG
1 AAAAATAATGATATTTGAAATAATTAATTGATTTTATAATATTAAAAATCACCATACCCACAATG
31765887 TAGGT-GA
66 TAGGTGGA
** * *
31765894 AAAAATAATGATATTAAAAATAATTATTTGATTTTATAATATTAAAAATCACCATACCCGCAATG
1 AAAAATAATGATATTTGAAATAATTAATTGATTTTATAATATTAAAAATCACCATACCCACAATG
31765959 TAGGTGGA
66 TAGGTGGA
*
31765967 GAAAATAA--ATATTTGA
1 AAAAATAATGATATTTGA
31765983 CATATAAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
71 6 0.08
72 60 0.80
73 9 0.12
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (73 bp):
AAAAATAATGATATTTGAAATAATTAATTGATTTTATAATATTAAAAATCACCATACCCACAATG
TAGGTGGA
Found at i:31772231 original size:3 final size:3
Alignment explanation
Indices: 31772223--31772260 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
31772213 TATACGTAGT
31772223 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
31772261 TAATTGGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31783456 original size:28 final size:28
Alignment explanation
Indices: 31783416--31783471 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
31783406 TTTTGTTGGT
*
31783416 TAAGGGCTCAAAATTTTGAGTAAAAAAA
1 TAAGGGCTCAAAATTTTCAGTAAAAAAA
* * *
31783444 TAAGGGTTGAAAATTTTCATTAAAAAAA
1 TAAGGGCTCAAAATTTTCAGTAAAAAAA
31783472 ATACAGATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (28 bp):
TAAGGGCTCAAAATTTTCAGTAAAAAAA
Found at i:31787995 original size:51 final size:51
Alignment explanation
Indices: 31787843--31788001 Score: 160
Period size: 51 Copynumber: 3.1 Consensus size: 51
31787833 TTCTCCTCTA
* * *
31787843 ACTTGCCTACAAGATGGA-TTTGCCTCTAAGGATATCATA-CTTTTTAGATTC
1 ACTTGCCTACAAGAT-GACTTTGCCTCCAAGGATATCATACCTTCTAAG-TTC
* ** * * **
31787894 ACTTGCCTACAAAACAACTTTGCCTCCAAGGCTATCATACTTTCCCAGTTC
1 ACTTGCCTACAAGATGACTTTGCCTCCAAGGATATCATACCTTCTAAGTTC
* * *
31787945 ACTTGCCTACAAGATGACTTTACCTCCACGGTTATCATACCTTCTAAGTTC
1 ACTTGCCTACAAGATGACTTTGCCTCCAAGGATATCATACCTTCTAAGTTC
*
31787996 GCTTGC
1 ACTTGC
31788002 TTTCAATGAA
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
50 1 0.01
51 82 0.94
52 4 0.05
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (51 bp):
ACTTGCCTACAAGATGACTTTGCCTCCAAGGATATCATACCTTCTAAGTTC
Found at i:31790265 original size:7 final size:7
Alignment explanation
Indices: 31790253--31790277 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31790243 TGTAGTCGTA
31790253 AATGGTC
1 AATGGTC
31790260 AATGGTC
1 AATGGTC
31790267 AATGGTC
1 AATGGTC
31790274 AATG
1 AATG
31790278 CTTCAGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (7 bp):
AATGGTC
Found at i:31798443 original size:20 final size:21
Alignment explanation
Indices: 31798402--31798459 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
31798392 GGCCCGGCCC
31798402 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA-CAAAA
31798424 ATTTATTTTAAAAATA-AAAA
1 ATTTATTTTAAAAATACAAAA
**
31798444 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
31798460 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 18 0.55
22 9 0.27
23 6 0.18
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTTATTTTAAAAATACAAAA
Found at i:31798463 original size:31 final size:31
Alignment explanation
Indices: 31798427--31798490 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
31798417 ACCAAAAATT
31798427 TATTTTAAAAATAAAAAAAGTATTTTAAAAA
1 TATTTTAAAAATAAAAAAAGTATTTTAAAAA
* * *
31798458 TATTTTAAAATTTAAAAAATTATTTTAAAAA
1 TATTTTAAAAATAAAAAAAGTATTTTAAAAA
31798489 TA
1 TA
31798491 AATATATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
TATTTTAAAAATAAAAAAAGTATTTTAAAAA
Found at i:31798470 original size:19 final size:20
Alignment explanation
Indices: 31798448--31798487 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
31798438 TAAAAAAAGT
*
31798448 ATTTTAAAAA-TATTTTAAA
1 ATTTAAAAAATTATTTTAAA
31798467 ATTTAAAAAATTATTTTAAA
1 ATTTAAAAAATTATTTTAAA
31798487 A
1 A
31798488 ATAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAAAAAATTATTTTAAA
Found at i:31798487 original size:12 final size:11
Alignment explanation
Indices: 31798441--31798490 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 11
31798431 TTAAAAATAA
31798441 AAAAAGTATTTT
1 AAAAA-TATTTT
31798453 AAAAATATTTT
1 AAAAATATTTT
*
31798464 --AAA-ATTTA
1 AAAAATATTTT
31798472 AAAAATTATTTT
1 AAAAA-TATTTT
31798484 AAAAATA
1 AAAAATA
31798491 AATATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
8 4 0.12
9 3 0.09
10 3 0.09
11 8 0.25
12 14 0.44
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:31798492 original size:19 final size:19
Alignment explanation
Indices: 31798453--31798492 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
31798443 AAAGTATTTT
*
31798453 AAAAATATTTTAAAATTTA
1 AAAAATATTTTAAAATATA
31798472 AAAAATTATTTTAAAA-ATA
1 AAAAA-TATTTTAAAATATA
31798491 AA
1 AA
31798493 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATATTTTAAAATATA
Found at i:31800529 original size:24 final size:22
Alignment explanation
Indices: 31800488--31800536 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
31800478 ATTCATTCAT
31800488 TATTTTTTTTGTATTTTTTAAA
1 TATTTTTTTTGTATTTTTTAAA
* *
31800510 TATTTTTATTTTTATATTTTTTAA
1 TATTTTT-TTTGTAT-TTTTTAAA
31800534 TAT
1 TAT
31800537 ATATAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 6 0.26
24 10 0.43
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (22 bp):
TATTTTTTTTGTATTTTTTAAA
Found at i:31804163 original size:136 final size:137
Alignment explanation
Indices: 31803999--31804272 Score: 541
Period size: 136 Copynumber: 2.0 Consensus size: 137
31803989 ATCCAATTCT
31803999 AATTGGTTAAAATCATAAAAACTTTATTGTATTAGAATCTATGAGTAAATAACTTAATTATCCCG
1 AATTGGTTAAAATCATAAAAACTTTATTGTATTAGAATCTATGAGTAAATAACTTAATTATCCCG
31804064 TTTAGTAATGGGGTAAAATTACGATGACTAATTAATTTAATTTTCACTTTGAATTTCAATTGTTT
66 TTTAGTAATGGGGTAAAATTACGATGACTAATTAATTTAATTTTCACTTTGAATTTCAATTGTTT
31804129 AATTAAA
131 AATTAAA
31804136 AATTGGTT-AAATCATAAAAACTTTATTGTATTAGAATCTATGAGTAAATAACTTAATTATCCCG
1 AATTGGTTAAAATCATAAAAACTTTATTGTATTAGAATCTATGAGTAAATAACTTAATTATCCCG
31804200 TTTAGTAATGGGGTAAAATTACGATGACTAATTAATTTAATTTTCACTTTGAATTTCAATTGTTT
66 TTTAGTAATGGGGTAAAATTACGATGACTAATTAATTTAATTTTCACTTTGAATTTCAATTGTTT
31804265 AATTAAA
131 AATTAAA
31804272 A
1 A
31804273 TCAATTATAT
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
136 129 0.94
137 8 0.06
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.41
Consensus pattern (137 bp):
AATTGGTTAAAATCATAAAAACTTTATTGTATTAGAATCTATGAGTAAATAACTTAATTATCCCG
TTTAGTAATGGGGTAAAATTACGATGACTAATTAATTTAATTTTCACTTTGAATTTCAATTGTTT
AATTAAA
Found at i:31807505 original size:29 final size:30
Alignment explanation
Indices: 31807473--31807531 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31807463 ATTAGCGTAA
*
31807473 TGTGT-ATTTTTATAAAT-AAATTTTGATTT
1 TGTGTAATTTTT-TAAATGAAATTTTAATTT
*
31807502 TGTGTAATTTTTTACATGAAATTTTAATTT
1 TGTGTAATTTTTTAAATGAAATTTTAATTT
31807532 AATTTAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (30 bp):
TGTGTAATTTTTTAAATGAAATTTTAATTT
Found at i:31807906 original size:19 final size:19
Alignment explanation
Indices: 31807882--31807918 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
31807872 TTGTCACTAA
31807882 CTAATAATCTAGAGTAATC
1 CTAATAATCTAGAGTAATC
31807901 CTAATAATCTAGAGTAAT
1 CTAATAATCTAGAGTAAT
31807919 ACTTTTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (19 bp):
CTAATAATCTAGAGTAATC
Found at i:31807939 original size:3 final size:3
Alignment explanation
Indices: 31807931--31807982 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
31807921 TTTTTCACTT
31807931 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
31807979 TTA T
1 TTA T
31807983 CTCTCTTTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:31811243 original size:5 final size:5
Alignment explanation
Indices: 31811233--31811260 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
31811223 TAACCTTGGA
31811233 CTAGG CTAGG CTAGG CTAGG CTAGG CTA
1 CTAGG CTAGG CTAGG CTAGG CTAGG CTA
31811261 CGCTGAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.21
Consensus pattern (5 bp):
CTAGG
Found at i:31814907 original size:13 final size:14
Alignment explanation
Indices: 31814886--31814922 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
31814876 TCCAAGTTAG
31814886 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
31814900 AT-AAATAACTAAA
1 ATAAAATAATTAAA
31814913 ATAAAATAAT
1 ATAAAATAAT
31814923 AAATCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:31820931 original size:27 final size:26
Alignment explanation
Indices: 31820892--31820948 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
31820882 AAATCCTAAA
* * *
31820892 TTTTCTTTGTTTCCTTCCCT-TTTTCT
1 TTTTCTTTCTTT-CTCCCCTGTTTTCG
31820918 TTTTCTTTCCTTTCTCCCCTGTTTTCG
1 TTTTCTTT-CTTTCTCCCCTGTTTTCG
31820945 TTTT
1 TTTT
31820949 GCTATTCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.00, C:0.28, G:0.05, T:0.67
Consensus pattern (26 bp):
TTTTCTTTCTTTCTCCCCTGTTTTCG
Found at i:31824965 original size:33 final size:33
Alignment explanation
Indices: 31824918--31824991 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
31824908 ATAATATCAT
* *
31824918 ATAATATCCTATTAGGAATTAAATTGTTAACAG
1 ATAATATCCTATTAGGAATTAAATTGCTAACAC
* *
31824951 ATAATAT-CTCATTAGGAATTAATTTGCTAAGAC
1 ATAATATCCT-ATTAGGAATTAAATTGCTAACAC
31824984 ATAATATC
1 ATAATATC
31824992 ACATAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 2 0.06
33 33 0.94
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (33 bp):
ATAATATCCTATTAGGAATTAAATTGCTAACAC
Found at i:31833092 original size:29 final size:30
Alignment explanation
Indices: 31833060--31833117 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
31833050 GAATTGTTTG
31833060 GATA-CAAGTTAAAG-AGAAGGGCTTATTTA
1 GATACCAA-TTAAAGTAGAAGGGCTTATTTA
**
31833089 GATACCAATTAAAGTTTAAGGGCTTATTT
1 GATACCAATTAAAGTAGAAGGGCTTATTT
31833118 GGGTGTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.33
Consensus pattern (30 bp):
GATACCAATTAAAGTAGAAGGGCTTATTTA
Found at i:31854144 original size:17 final size:17
Alignment explanation
Indices: 31854122--31854160 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
31854112 CAAGCTCAAA
31854122 CAAAGACGCAAACTCAT
1 CAAAGACGCAAACTCAT
* *
31854139 CAAAGATGCAAGCTCAT
1 CAAAGACGCAAACTCAT
31854156 CAAAG
1 CAAAG
31854161 TGCGAGCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (17 bp):
CAAAGACGCAAACTCAT
Found at i:31855512 original size:19 final size:20
Alignment explanation
Indices: 31855488--31855528 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
31855478 AGTTTTTCTT
31855488 TAATTTATAATAATT-TTTA
1 TAATTTATAATAATTATTTA
* *
31855507 TAATTTTTAATTATTATTTA
1 TAATTTATAATAATTATTTA
31855527 TA
1 TA
31855529 TAATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATTTATAATAATTATTTA
Found at i:31855716 original size:8 final size:9
Alignment explanation
Indices: 31855683--31855770 Score: 54
Period size: 10 Copynumber: 9.0 Consensus size: 9
31855673 AGTTGGTTTA
31855683 TATAATTTT
1 TATAATTTT
31855692 CTATAAGTTTT
1 -TATAA-TTTT
31855703 TATAATTTTT
1 TATAA-TTTT
31855713 TAATAATGTTT
1 T-ATAAT-TTT
*
31855724 CTATAATTTC
1 -TATAATTTT
*
31855734 TACAATATTT
1 TATAAT-TTT
*
31855744 TCATAA-TAT
1 T-ATAATTTT
31855753 T-TAATATTT
1 TATAAT-TTT
31855762 TATAATTTT
1 TATAATTTT
31855771 CTAAAGTATT
Statistics
Matches: 62, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
7 3 0.05
9 14 0.23
10 25 0.40
11 19 0.31
12 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (9 bp):
TATAATTTT
Found at i:31855782 original size:20 final size:19
Alignment explanation
Indices: 31855683--31855782 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 19
31855673 AGTTGGTTTA
31855683 TATAATTTTCTATAAGT-TTT
1 TATAATTTTCTA-AA-TATTT
* *
31855703 TATAATTTTTTAATAATGTTT
1 TATAATTTTCT-A-AATATTT
31855724 CTATAA-TTTCTACAATATTT
1 -TATAATTTTCTA-AATATTT
*
31855744 TCATAATATT-T-AATATTT
1 T-ATAATTTTCTAAATATTT
31855762 TATAATTTTCTAAAGTATTT
1 TATAATTTTCTAAA-TATTT
31855782 T
1 T
31855783 TTATAAAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
17 7 0.11
18 9 0.14
19 3 0.05
20 29 0.44
21 13 0.20
22 5 0.08
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (19 bp):
TATAATTTTCTAAATATTT
Found at i:31856156 original size:12 final size:12
Alignment explanation
Indices: 31856139--31856164 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31856129 CAAAACAGAC
31856139 TTTTAGCGGCGT
1 TTTTAGCGGCGT
31856151 TTTTAGCGGCGT
1 TTTTAGCGGCGT
31856163 TT
1 TT
31856165 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:31856554 original size:114 final size:114
Alignment explanation
Indices: 31856233--31857399 Score: 2062
Period size: 114 Copynumber: 10.3 Consensus size: 114
31856223 AAAATAAGCA
* * * ** * * *
31856233 TTAGCGGTGTTTTTGAGAAAGCGCTGCAAAAAA-CCTAAGCGAAACGAC-ATCGTTTCCCGAGCT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCT-GTTTTCTGAGCT
* * * * *
31856296 TTCAGG-GATTTAGCGGCGTTTTTAAGAAAGCGTCGCTAATGCTCAGGGAT
65 TTC-GGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
* * * *
31856346 TTAACGACGTTTTTGGAAAAGCGCTGC-AAAAATCCTAAGCCC-A--ACGC-GTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
* * * * *
31856406 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
31856455 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
31856520 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
66 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
31856569 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
31856634 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
66 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
31856683 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
31856748 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
66 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
31856797 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
31856862 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
66 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
31856911 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
31856976 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
66 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
31857025 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
31857090 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
66 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
31857139 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
31857204 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
66 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
31857253 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
31857318 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
66 TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
31857367 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAA
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAA
31857400 NNNNNNNNNN
Statistics
Matches: 1024, Mismatches: 22, Indels: 15
0.97 0.02 0.01
Matches are distributed among these distances:
108 2 0.00
109 77 0.08
110 17 0.02
111 1 0.00
112 6 0.01
113 33 0.03
114 888 0.87
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAATCCTAAGCCCAACGACGCTGTTTTCTGAGCTT
TCGGCGATTTAACGGTGTTTTTAAGAACGCGCCGCTAATGCTCAGGGCT
Found at i:31857877 original size:102 final size:102
Alignment explanation
Indices: 31857706--31858003 Score: 307
Period size: 105 Copynumber: 2.9 Consensus size: 102
31857696 NNNNNNNNNN
* * * *
31857706 GCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGTGTCAT
1 GCAAAAAATAAATCAATTTATAAAAAA-ATAA-AAAAAA--TTTAGAATAGCAAAACGGCGTCGT
**** *** *
31857771 TTTGTTCAAAATGAAATAGTGGCGTTTTTTA-TAAAAAC-GC-C
62 TTTGTTCAAAATGAAA-A--AAAATTTGCGAGCAAAAACGGCTC
*
31857812 GCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAGACGGCGTCGTTTTG
1 GCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTG
* * *
31857877 TTCAAAATGAAAAAAAATTTGCGAGCAATAGCGGCATTT
66 TTCAAAATGAAAAAAAATTTGCGAGCAAAAACGGC--TC
* *
31857916 GCAAAAAATAAATCAATTTATTAAAAAAATAAAAAAAATTTAGAATAGCAAAACGACGACGTTTT
1 GCAAAAAATAAATCAATTTA-TAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTT
*
31857981 GATCAAAATG-AAAAAAATTTGCG
65 GTTCAAAATGAAAAAAAATTTGCG
31858004 GCGTTTGTCA
Statistics
Matches: 166, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
99 4 0.02
100 4 0.02
101 3 0.02
102 36 0.22
104 39 0.23
105 53 0.32
106 27 0.16
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (102 bp):
GCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTG
TTCAAAATGAAAAAAAATTTGCGAGCAAAAACGGCTC
Found at i:31857965 original size:105 final size:103
Alignment explanation
Indices: 31857812--31858003 Score: 330
Period size: 105 Copynumber: 1.8 Consensus size: 103
31857802 TAAAAACGCC
* * *
31857812 GCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAGACGGCGTCGTTTTG
1 GCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGACGACGTTTTG
*
31857877 TTCAAAATGAAAAAAAATTTGCGAGCAATAGCGGCATTT
66 ATCAAAATG-AAAAAAATTTGCGAGCAATAGCGGCATTT
31857916 GCAAAAAATAAATCAATTTATTAAAAAAATAAAAAAAATTTAGAATAGCAAAACGACGACGTTTT
1 GCAAAAAATAAATCAATTTA-TAAAAAAATAAAAAAAATTTAGAATAGCAAAACGACGACGTTTT
31857981 GATCAAAATGAAAAAAATTTGCG
65 GATCAAAATGAAAAAAATTTGCG
31858004 GCGTTTGTCA
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
104 33 0.40
105 50 0.60
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (103 bp):
GCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGACGACGTTTTG
ATCAAAATGAAAAAAATTTGCGAGCAATAGCGGCATTT
Found at i:31858300 original size:108 final size:106
Alignment explanation
Indices: 31858043--31858336 Score: 370
Period size: 108 Copynumber: 2.8 Consensus size: 106
31858033 AAGCAATAGC
* * *
31858043 ATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAATAAAATAAAAAATTTTTAGCATAGCAA
1 ATAAAAAACGCCGCAAAAATAAATCAATTTAT--TAAA-AAAATAAAAAAATTTTAGAATAGCAA
* * * *
31858108 AACGGTGTCATTTTGTTC----AAAATGAAATAGCGGCGTTTTT
63 AACGGCGTCGTTTTGTTCAAAAAAAATGAAATAGCAGCATTTTT
*
31858148 AT---AAACGCCGCAAAAAATAAATCAATTTA-TAAAAAAATAAAAAAATTTTAGAATAGCAAGA
1 ATAAAAAACGCCGC-AAAAATAAATCAATTTATTAAAAAAATAAAAAAATTTTAGAATAGCAAAA
*
31858209 CGGCGTCGTTTTGTTCAAAAAAAAATTAGAATAGCAGCATTTTT
65 CGGCGTCGTTTTGTTC-AAAAAAAATGA-AATAGCAGCATTTTT
**
31858253 ATAAAAAACGCCGCAAAAATAAATCAATTTATTAAAAAAATAAAAAAAAATTAGAATAGCAAAAC
1 ATAAAAAACGCCGCAAAAATAAATCAATTTATTAAAAAAATAAAAAAATTTTAGAATAGCAAAAC
*
31858318 GACGTCGTTTTGTTCAAAA
66 GGCGTCGTTTTGTTCAAAA
31858337 TGAAAAAATT
Statistics
Matches: 165, Mismatches: 13, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
99 39 0.24
100 3 0.02
102 9 0.05
103 17 0.10
104 6 0.04
105 17 0.10
107 21 0.13
108 53 0.32
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (106 bp):
ATAAAAAACGCCGCAAAAATAAATCAATTTATTAAAAAAATAAAAAAATTTTAGAATAGCAAAAC
GGCGTCGTTTTGTTCAAAAAAAATGAAATAGCAGCATTTTT
Found at i:31861301 original size:91 final size:91
Alignment explanation
Indices: 31861192--31861417 Score: 452
Period size: 91 Copynumber: 2.5 Consensus size: 91
31861182 GATTGCAAAA
31861192 AATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTACTTTGAGTAAGAAAAAGTAGATTGT
1 AATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTACTTTGAGTAAGAAAAAGTAGATTGT
31861257 CCTTAATAGAAAGCTCACCTGCATAT
66 CCTTAATAGAAAGCTCACCTGCATAT
31861283 AATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTACTTTGAGTAAGAAAAAGTAGATTGT
1 AATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTACTTTGAGTAAGAAAAAGTAGATTGT
31861348 CCTTAATAGAAAGCTCACCTGCATAT
66 CCTTAATAGAAAGCTCACCTGCATAT
31861374 AATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTACTTT
1 AATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTACTTT
31861418 TAGCTGTTTG
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 135 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (91 bp):
AATTCTTGAGTAAGAAACCTTACATTGTGACTGTAGTGTACTTTGAGTAAGAAAAAGTAGATTGT
CCTTAATAGAAAGCTCACCTGCATAT
Found at i:31861920 original size:18 final size:17
Alignment explanation
Indices: 31861897--31861929 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31861887 GTTTATTTTA
31861897 AATTTTTTGTACATATT
1 AATTTTTTGTACATATT
31861914 AATTTTTTGTACATAT
1 AATTTTTTGTACATAT
31861930 AAAGTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (17 bp):
AATTTTTTGTACATATT
Found at i:31862608 original size:24 final size:22
Alignment explanation
Indices: 31862581--31862625 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
31862571 AAATTTCAAA
31862581 AATAAAACATAATATAATATTTAT
1 AATAAAA-ATAA-ATAATATTTAT
* *
31862605 AATAGAAATAAATATTATTTA
1 AATAAAAATAAATAATATTTA
31862626 ATTAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATAAAAATAAATAATATTTAT
Found at i:31862769 original size:85 final size:84
Alignment explanation
Indices: 31862672--31862882 Score: 264
Period size: 85 Copynumber: 2.5 Consensus size: 84
31862662 CGTTTGTGAA
* * * * * * * *
31862672 AAAGCGCCGCTAAAGTACGTGATCTATAGCTGCGTTTTTATTTAATCGCCGCTAAAGAACATGAT
1 AAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTATTCAAGCGCCGCTAAAGAACATGAC
*
31862737 CTTTAGTGGCATTTAATTTT-
66 CTTTAGAGGCATTT--TTTTC
*
31862757 AAAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTGGTT-TTCAAGCGCCGCTAAAGAACATG
1 AAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTT--TTATTCAAGCGCCGCTAAAGAACATG
*
31862821 ACCTTTAGAGGCGTTTTTTTC
64 ACCTTTAGAGGCATTTTTTTC
*
31862842 CAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTAT
1 AAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTAT
31862883 CTGTAAACGC
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
83 2 0.02
84 5 0.05
85 66 0.61
86 34 0.31
87 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (84 bp):
AAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTATTCAAGCGCCGCTAAAGAACATGAC
CTTTAGAGGCATTTTTTTC
Found at i:31862771 original size:43 final size:41
Alignment explanation
Indices: 31862673--31862880 Score: 218
Period size: 43 Copynumber: 4.9 Consensus size: 41
31862663 GTTTGTGAAA
* * * * ** * *
31862673 AAGCGCCGCTAAAGTACGTGATCTATAGCTGCGTTTTTATTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGAGGCATTTTT-TTC
* * * *
31862715 AATCGCCGCTAAAGAACATGATCTTTAGTGGCATTTAATTTTA
1 AAGCGCCGCTAAAGAACATGACCTTTAGAGGCATTT--TTTTC
*
31862758 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTGGTTTTC
1 AAGCGCCGCTAAAGAACATGACCTTTAGAGGCATTT--TTTTC
*
31862801 AAGCGCCGCTAAAGAACATGACCTTTAGAGGCGTTTTTTTCC
1 AAGCGCCGCTAAAGAACATGACCTTTAGAGGCATTTTTTT-C
* *
31862843 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGACCTTTAGAGGCATTTTT
31862881 ATCTGTAAAC
Statistics
Matches: 146, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
41 4 0.03
42 67 0.46
43 73 0.50
44 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGACCTTTAGAGGCATTTTTTTC
Found at i:31864427 original size:94 final size:94
Alignment explanation
Indices: 31864321--31864521 Score: 242
Period size: 94 Copynumber: 2.1 Consensus size: 94
31864311 TAAAATCAAC
* * * * * *
31864321 TGTGATCATAAATCATCTAGTTGTTAGGAGTAACGATAGTAAATCAACTAACTC-GTAGAAGATT
1 TGTGATCGTAAATCAACGAATTGTTAGAAGTAACGATAATAAATCAACTAACTCAG-AGAAGATT
* * *
31864385 GTTTATGATCGTAAATCAATGAACTTAGGT
65 GTTCATGACCGTAAATCAATAAACTTAGGT
* ** *
31864415 TGTGATCGTAAATCAACGAATTGTTTGAAGTAGTGATAATAAATCAGCTAACTCAGAGAAGATTG
1 TGTGATCGTAAATCAACGAATTGTTAGAAGTAACGATAATAAATCAACTAACTCAGAGAAGATTG
*
31864480 TTCATGACCGTCAATCAATAAACTTAGGT
66 TTCATGACCGTAAATCAATAAACTTAGGT
* *
31864509 TATTATCGTAAAT
1 TGTGATCGTAAAT
31864522 TAATGAGTCT
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 89 0.99
95 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (94 bp):
TGTGATCGTAAATCAACGAATTGTTAGAAGTAACGATAATAAATCAACTAACTCAGAGAAGATTG
TTCATGACCGTAAATCAATAAACTTAGGT
Found at i:31875997 original size:9 final size:9
Alignment explanation
Indices: 31875984--31876050 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
31875974 TTTGGGTAAA
*
31875984 AATTAACCA
1 AATTAACCG
31875993 AATTAACCG
1 AATTAACCG
31876002 AATT-ACCTG
1 AATTAACC-G
31876011 AATTAACCG
1 AATTAACCG
*
31876020 AATTACCCG
1 AATTAACCG
**
31876029 AATTAACTA
1 AATTAACCG
31876038 AATTAACCG
1 AATTAACCG
31876047 AATT
1 AATT
31876051 GAATCACTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
8 3 0.06
9 43 0.88
10 3 0.06
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:31876023 original size:27 final size:27
Alignment explanation
Indices: 31875983--31876050 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
31875973 TTTTGGGTAA
* *
31875983 AAATTAACCAAATTAACCGAATTACCT
1 AAATTAACCGAATTAACCGAATTAACT
* *
31876010 GAATTAACCGAATTACCCGAATTAACT
1 AAATTAACCGAATTAACCGAATTAACT
31876037 AAATTAACCGAATT
1 AAATTAACCGAATT
31876051 GAATCACTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (27 bp):
AAATTAACCGAATTAACCGAATTAACT
Found at i:31879294 original size:14 final size:14
Alignment explanation
Indices: 31879275--31879304 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31879265 ATAATCAAAA
31879275 TTCATGTGTATAAT
1 TTCATGTGTATAAT
31879289 TTCATGTGTATAAT
1 TTCATGTGTATAAT
31879303 TT
1 TT
31879305 AATTAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (14 bp):
TTCATGTGTATAAT
Found at i:31888683 original size:110 final size:110
Alignment explanation
Indices: 31888490--31888702 Score: 356
Period size: 110 Copynumber: 1.9 Consensus size: 110
31888480 CAAATGGCAT
** *
31888490 ACAACTTTTGCATTTTCTGCAATTAAGTCTTTTTTCACAAATCGGCACACAAACGATAAAACTAA
1 ACAACTTTTGCATTTTCTGCAATTAAGTCTTTTTTCACAAATCAACACACAAACAATAAAACTAA
*
31888555 TTCACGACAATTTCACACATATCAATTCACATACTATAAGCACAC
66 TTCAAGACAATTTCACACATATCAATTCACATACTATAAGCACAC
* *
31888600 ACAACTTTTGCATTTTCTGCAATTAAGTGTTTTTTCACAAATCAACACACAAACAATAAAATTAA
1 ACAACTTTTGCATTTTCTGCAATTAAGTCTTTTTTCACAAATCAACACACAAACAATAAAACTAA
31888665 TTCATAG-CAATTTCACACATATCAATTCACATACTATA
66 TTCA-AGACAATTTCACACATATCAATTCACATACTATA
31888703 TGCATAGAAA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
110 95 0.99
111 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (110 bp):
ACAACTTTTGCATTTTCTGCAATTAAGTCTTTTTTCACAAATCAACACACAAACAATAAAACTAA
TTCAAGACAATTTCACACATATCAATTCACATACTATAAGCACAC
Found at i:31903091 original size:193 final size:193
Alignment explanation
Indices: 31902818--31903585 Score: 865
Period size: 193 Copynumber: 4.0 Consensus size: 193
31902808 CAAGGTAAAC
* ** * * *
31902818 AAAACTTGGAAACTAATTTTTATA-CTTAATCAAGCACGATCATCTATTAACTTTCCCAATCGTG
1 AAAACTTGAAAACTAATCCTTATACCTT-GTCAAGTACGATCATCTATTAACTTTCCCAATCGTA
** * * * *
31902882 TAATTCATATTGTATTAAATGAGATATATATTAATTGACTTAAGATTCATGTATCATCTAACCAA
65 TAATTTGTATTGTATTATATGAGACATATATTAGTTGACTTAAGATTCATATATCATCTAACCAA
* * *
31902947 AATATAAGTTTAAATTTGCTTTCAAGTGTGTT-TTACGTGGAAGTTACATTGATGCTAACAAAAG
130 AATATAAGTTT-AATTTGCTTTCAAGTATGTTGTT-TGTGGAAATTACATTGATGCTAACAAAAG
31903011 A
193 A
* * * * * * *
31903012 AAAGCTTAAAAACTAATCCTTATATCTTGTCAAGTACGACCATGTGTTAA-TTTTCCAATCGTAT
1 AAAACTTGAAAACTAATCCTTATACCTTGTCAAGTACGATCATCTATTAACTTTCCCAATCGTAT
** *
31903076 AATTTGTATTGTATTATATGAGACATATATTAGCCGACTTAAGATTCATATATCATCTACCCAAA
66 AATTTGTATTGTATTATATGAGACATATATTAGTTGACTTAAGATTCATATATCATCTAACCAAA
*
31903141 ATACAAGTTTAATTTGCTTTC-AGTTATGTTGTTTGTGG--A--A-ATTGATGCTAACAAAAGA
131 ATATAAGTTTAATTTGCTTTCAAG-TATGTTGTTTGTGGAAATTACATTGATGCTAACAAAAGA
* * * * *
31903199 AAAACTTGCAAACTAATCCTCATACCCTGTAAAGTACGATCATCTATTAACTTTCCCAATGGTAT
1 AAAACTTGAAAACTAATCCTTATACCTTGTCAAGTACGATCATCTATTAACTTTCCCAATCGTAT
* * *
31903264 AATTTGTATTGTATTATATGAGAC--ATGTTAGTTAACTTAAGATTCATATATCATCTGACCAAA
66 AATTTGTATTGTATTATATGAGACATATATTAGTTGACTTAAGATTCATATATCATCTAACCAAA
** * * * **
31903327 GGATAAGTTTAATTTGCTTTCAACTATGTTGTTTGTGAAAATTGCATTGATGCTGGCAAAAGA
131 ATATAAGTTTAATTTGCTTTCAAGTATGTTGTTTGTGGAAATTACATTGATGCTAACAAAAGA
* * * * **
31903390 AAAACTTGAAAATTAATCCTTATACCTTGTCAAGCACAATCATCTATTAACTTTCTCAATTATAT
1 AAAACTTGAAAACTAATCCTTATACCTTGTCAAGTACGATCATCTATTAACTTTCCCAATCGTAT
* * * * *
31903455 ATATAATCTGTATTGTATTATATGAAACATATATTAGTTGACTTAATATTCACATATCAACTATC
66 A-AT--T-TGTATTGTATTATATGAGACATATATTAGTTGACTTAAGATTCATATATCATCTAAC
* * * *
31903520 CAAAATATAAGTTTAATTTGCTTTCAACTGTGTTTTTTTTGTGGAAATTACATTGATGCTACCAA
127 CAAAATATAAGTTTAATTTGCTTTCAA--GTATGTTGTTTGTGGAAATTACATTGATGCTAACAA
31903585 A
190 A
31903586 GTAAAAAGTA
Statistics
Matches: 477, Mismatches: 79, Indels: 31
0.81 0.13 0.05
Matches are distributed among these distances:
186 64 0.13
187 59 0.12
188 38 0.08
191 74 0.16
192 22 0.05
193 79 0.17
194 37 0.08
195 22 0.05
197 53 0.11
199 29 0.06
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (193 bp):
AAAACTTGAAAACTAATCCTTATACCTTGTCAAGTACGATCATCTATTAACTTTCCCAATCGTAT
AATTTGTATTGTATTATATGAGACATATATTAGTTGACTTAAGATTCATATATCATCTAACCAAA
ATATAAGTTTAATTTGCTTTCAAGTATGTTGTTTGTGGAAATTACATTGATGCTAACAAAAGA
Found at i:31903537 original size:383 final size:380
Alignment explanation
Indices: 31902853--31903545 Score: 933
Period size: 378 Copynumber: 1.8 Consensus size: 380
31902843 TTAATCAAGC
* *
31902853 ACGATCATCTATTAACTTTCCCAATCGTGTAATTCATATTGTATTAAATGAGATATATATTAATT
1 ACGATCATCTATTAACTTTCCCAATCGTATAATTCATATTGTATTAAATGAGA-ACATATTAATT
* * * * *
31902918 GACTTAAGATTCATGTATCATCTAACCAAAATATAAGTTTAAATTTGCTTTCAAGTGTGTTTTAC
65 AACTTAAGATTCATATATCATCTAACCAAAAGATAAGTTTAAATTTGCTTTCAACTATGTTTTAC
* * * * *
31902983 GTGGAAGTTACATTGATGCTAACAAAAGAAAAGCTTAAAAACTAATCCTTATATCTTGTCAAGTA
130 GTGAAAATTACATTGATGCTAACAAAAGAAAAACTTAAAAACTAATCCTTATACCTTGTCAAGCA
* * * * * *
31903048 CGACCATGTGTTAATTTTCCAATCGTATAATTTGTATTGTATTATATGAGACATATATTAGCCGA
195 CAACCATCTATTAACTTTCCAATCATATAATTTGTATTGTATTATATGAAACATATATTAGCCGA
* *
31903113 CTTAAGATTCATATATCATCTACCCAAAATACAAGTTTAATTTGCTTTCAGTTATGTTGTTTGTG
260 CTTAAGATTCACATATCAACTACCCAAAATACAAGTTTAATTTGCTTTCAGTTATGTTGTTTGTG
31903178 GAAATTGATGCTAACAAAAGAAAAACTTGCAAACTAATCCTCATACCCTGTAAAGT
325 GAAATTGATGCTAACAAAAGAAAAACTTGCAAACTAATCCTCATACCCTGTAAAGT
* ** * * *
31903234 ACGATCATCTATTAACTTTCCCAATGGTATAATTTGTATTGTATTATATGAG-ACATGTTAGTTA
1 ACGATCATCTATTAACTTTCCCAATCGTATAATTCATATTGTATTAAATGAGAACATATTAATTA
* * *
31903298 ACTTAAGATTCATATATCATCTGACCAAAGGATAAGTTT-AATTTGCTTTCAACTATGTTGTT-T
66 ACTTAAGATTCATATATCATCTAACCAAAAGATAAGTTTAAATTTGCTTTCAACTATGTT-TTAC
* ** * *
31903361 GTGAAAATTGCATTGATGCTGGCAAAAGAAAAACTTGAAAATTAATCCTTATACCTTGTCAAGCA
130 GTGAAAATTACATTGATGCTAACAAAAGAAAAACTTAAAAACTAATCCTTATACCTTGTCAAGCA
* *
31903426 CAATCATCTATTAACTTTCTCAATTATATATATAATCTGTATTGTATTATATGAAACATATATTA
195 CAACCATCTATTAACTTTC-CAATCATATA-AT--T-TGTATTGTATTATATGAAACATATATTA
** * * *
31903491 GTTGACTTAATATTCACATATCAACTATCCAAAATATAAGTTTAATTTGCTTTCA
255 GCCGACTTAAGATTCACATATCAACTACCCAAAATACAAGTTTAATTTGCTTTCA
31903546 ACTGTGTTTT
Statistics
Matches: 265, Mismatches: 41, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
378 87 0.33
379 53 0.20
380 2 0.01
381 47 0.18
382 1 0.00
383 75 0.28
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (380 bp):
ACGATCATCTATTAACTTTCCCAATCGTATAATTCATATTGTATTAAATGAGAACATATTAATTA
ACTTAAGATTCATATATCATCTAACCAAAAGATAAGTTTAAATTTGCTTTCAACTATGTTTTACG
TGAAAATTACATTGATGCTAACAAAAGAAAAACTTAAAAACTAATCCTTATACCTTGTCAAGCAC
AACCATCTATTAACTTTCCAATCATATAATTTGTATTGTATTATATGAAACATATATTAGCCGAC
TTAAGATTCACATATCAACTACCCAAAATACAAGTTTAATTTGCTTTCAGTTATGTTGTTTGTGG
AAATTGATGCTAACAAAAGAAAAACTTGCAAACTAATCCTCATACCCTGTAAAGT
Found at i:31903813 original size:20 final size:20
Alignment explanation
Indices: 31903772--31903814 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
31903762 AAAGATAATG
* *
31903772 TTAAAAGAAATAAAATAGAA
1 TTAAAAGAAATAAAAAACAA
*
31903792 TTAAAAGAATTAAAAAACAA
1 TTAAAAGAAATAAAAAACAA
31903812 TTA
1 TTA
31903815 TATTAAGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.23
Consensus pattern (20 bp):
TTAAAAGAAATAAAAAACAA
Found at i:31909254 original size:194 final size:195
Alignment explanation
Indices: 31909022--31909410 Score: 771
Period size: 194 Copynumber: 2.0 Consensus size: 195
31909012 TCCTTTTTAT
31909022 CAAATTAGACATGTAAACGGTAAAATTTCTTAACGAAATTTTTATATGGTATTTCTATCATACTT
1 CAAATTAGACATGTAAACGGTAAAATTTCTTAACGAAATTTTTATATGGTATTTCTATCATACTT
31909087 AGACCATATAATAATAAAAATAAATTTTTCCAACTTTAGATTTGTGATCTTGAAACCACTATTCT
66 AGACCATATAATAATAAAAATAAATTTTTCCAACTTTAGATTTGTGATCTTGAAACCACTATTCT
31909152 GATTTCACTGAAAATGGGTTGTTACATAAATTTTGTCTTGATTATATATAAATAGGAATTTTGTG
131 GATTTCACTGAAAATGGGTTGTTACATAAATTTTGTCTTGATTATATATAAATAGGAATTTTGTG
31909217 CAAATTAGAC-TGTAAACGGTAAAATTTCTTAACGAAATTTTTATATGGTATTTCTATCATACTT
1 CAAATTAGACATGTAAACGGTAAAATTTCTTAACGAAATTTTTATATGGTATTTCTATCATACTT
31909281 AGACCATATAATAATAAAAATAAATTTTTCCAACTTTAGATTTGTGATCTTGAAACCACTATTCT
66 AGACCATATAATAATAAAAATAAATTTTTCCAACTTTAGATTTGTGATCTTGAAACCACTATTCT
31909346 GATTTCACTGAAAATGGGTTGTTACATAAATTTTGTCTTGATTATATATAAATAGGAATTTTGTG
131 GATTTCACTGAAAATGGGTTGTTACATAAATTTTGTCTTGATTATATATAAATAGGAATTTTGTG
31909411 TTAAACTTTT
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
194 184 0.95
195 10 0.05
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.40
Consensus pattern (195 bp):
CAAATTAGACATGTAAACGGTAAAATTTCTTAACGAAATTTTTATATGGTATTTCTATCATACTT
AGACCATATAATAATAAAAATAAATTTTTCCAACTTTAGATTTGTGATCTTGAAACCACTATTCT
GATTTCACTGAAAATGGGTTGTTACATAAATTTTGTCTTGATTATATATAAATAGGAATTTTGTG
Found at i:31917925 original size:3 final size:3
Alignment explanation
Indices: 31917917--31917947 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
31917907 TTCAAACAAA
31917917 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
31917948 AGTAGTAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:31931097 original size:55 final size:55
Alignment explanation
Indices: 31931026--31931234 Score: 400
Period size: 55 Copynumber: 3.8 Consensus size: 55
31931016 CTTATTATCA
*
31931026 TTTCTAGTAATGGATGTTGAAGCATATCTTTAAAGAAACAAATCCAGATACATGG
1 TTTCCAGTAATGGATGTTGAAGCATATCTTTAAAGAAACAAATCCAGATACATGG
31931081 TTTCCAGTAATGGATGTTGAAGCATATCTTTAAAGAAACAAATCCAGATACATGG
1 TTTCCAGTAATGGATGTTGAAGCATATCTTTAAAGAAACAAATCCAGATACATGG
31931136 TTTCCAGTAATGGATGTTGAAGCATATCTTTAAAGAAACAAATCCAGATACATGG
1 TTTCCAGTAATGGATGTTGAAGCATATCTTTAAAGAAACAAATCCAGATACATGG
*
31931191 TTTCCAGTAATGGATGTTGAAGCATATCTTTAAGGAAACAAATC
1 TTTCCAGTAATGGATGTTGAAGCATATCTTTAAAGAAACAAATC
31931235 GTGGGATTAA
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 152 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (55 bp):
TTTCCAGTAATGGATGTTGAAGCATATCTTTAAAGAAACAAATCCAGATACATGG
Found at i:31940478 original size:23 final size:23
Alignment explanation
Indices: 31940452--31940497 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
31940442 AATGATAGTC
31940452 TAAATA-CTAAAATAAAACAAATT
1 TAAATATC-AAAATAAAACAAATT
* *
31940475 TAAATATCAAAGTAAAAGAAATT
1 TAAATATCAAAATAAAACAAATT
31940498 ATATAGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAATATCAAAATAAAACAAATT
Found at i:31947305 original size:31 final size:30
Alignment explanation
Indices: 31947269--31947329 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
31947259 GTCCAGTCAC
*
31947269 TTAAATAAAAAGTTTCGAATAATTTAGTGAT
1 TTAAATAAAAA-TTTCGAATAATTTAATGAT
* * *
31947300 TTAAATGAAAATTTTGAATAGTTTAATGAT
1 TTAAATAAAAATTTCGAATAATTTAATGAT
31947330 GATTTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.41
Consensus pattern (30 bp):
TTAAATAAAAATTTCGAATAATTTAATGAT
Found at i:31949941 original size:55 final size:55
Alignment explanation
Indices: 31949852--31949962 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
31949842 TGATGACTGA
*
31949852 TATTGATTCATTGTATAGCATTCCTTGATGAAAATACTGAAGAACTATGTGTTTT
1 TATTGATTCATTGTATAGCATTCCTTGATGAAAATACTGAAGAACTATGTATTTT
* *
31949907 TATTTATTCATTGTATAGCATTCCTTGATGAAAATGCTGAAGAACTATGTATTTT
1 TATTGATTCATTGTATAGCATTCCTTGATGAAAATACTGAAGAACTATGTATTTT
31949962 T
1 T
31949963 TTCCTACAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (55 bp):
TATTGATTCATTGTATAGCATTCCTTGATGAAAATACTGAAGAACTATGTATTTT
Found at i:31952755 original size:22 final size:21
Alignment explanation
Indices: 31952710--31952758 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
31952700 AATAAGAAAG
*
31952710 GAAAA-AA-AGAGGAAAAATA
1 GAAAAGAATAGAGGAAAAAAA
31952729 GAAAAGAATAGAGGAAAAAAAA
1 GAAAAGAATAGAGG-AAAAAAA
*
31952751 TAAAAGAA
1 GAAAAGAA
31952759 CTAAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.20
20 2 0.08
21 5 0.20
22 13 0.52
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.06
Consensus pattern (21 bp):
GAAAAGAATAGAGGAAAAAAA
Found at i:31959199 original size:16 final size:15
Alignment explanation
Indices: 31959180--31959231 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
31959170 AAATCTAGAA
31959180 AAAAATATAAATTATT
1 AAAAATA-AAATTATT
**
31959196 -AAAATAAAATTTACA
1 AAAAATAAAA-TTATT
31959211 AAAAATAAAATTATT
1 AAAAATAAAATTATT
31959226 GAAAAA
1 -AAAAA
31959232 AATTAGTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 3 0.10
15 12 0.41
16 14 0.48
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAAATAAAATTATT
Found at i:31959222 original size:30 final size:30
Alignment explanation
Indices: 31959179--31959235 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
31959169 AAAATCTAGA
31959179 AAAAAATATAAATTATTAAAATAAAATTTAC
1 AAAAAATATAAATTATTAAAA-AAAATTTAC
*
31959210 AAAAAATA-AAATTATTGAAAAAAATT
1 AAAAAATATAAATTATTAAAAAAAATT
31959236 AGTTGAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 6 0.24
30 11 0.44
31 8 0.32
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (30 bp):
AAAAAATATAAATTATTAAAAAAAATTTAC
Found at i:31959230 original size:15 final size:15
Alignment explanation
Indices: 31959181--31959243 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
31959171 AATCTAGAAA
31959181 AAAATATAAATTATT-
1 AAAATA-AAATTATTG
***
31959196 AAAATAAAATTTACAA
1 AAAATAAAA-TTATTG
31959212 AAAATAAAATTATTG
1 AAAATAAAATTATTG
31959227 -AAA-AAAATTAGTTG
1 AAAATAAAATTA-TTG
31959241 AAA
1 AAA
31959244 TTAATAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
13 7 0.18
14 9 0.23
15 14 0.36
16 9 0.23
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (15 bp):
AAAATAAAATTATTG
Found at i:31959507 original size:23 final size:23
Alignment explanation
Indices: 31959473--31959544 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
31959463 TACTTTGATT
31959473 TTTTAAAA-TTTATAATTATATA
1 TTTTAAAATTTTATAATTATATA
**
31959495 TTTTAAAATTTTATAAAAAATATA
1 TTTTAAAATTTTAT-AATTATATA
* *
31959519 TTTCAAATTTATTATACATTATATA
1 TTTTAAAATT-TTATA-ATTATATA
31959544 T
1 T
31959545 GATTTTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 8 0.20
23 5 0.12
24 16 0.40
25 11 0.28
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTAAAATTTTATAATTATATA
Found at i:31959517 original size:22 final size:23
Alignment explanation
Indices: 31959473--31959528 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
31959463 TACTTTGATT
* *
31959473 TTTTAAAA-TTTATAATTATATA
1 TTTTAAAATTTTATAATAAAATA
31959495 TTTTAAAATTTTATAA-AAAATA
1 TTTTAAAATTTTATAATAAAATA
*
31959517 TATTTCAAATTT
1 T-TTTAAAATTT
31959529 ATTATACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTTAAAATTTTATAATAAAATA
Found at i:31960614 original size:33 final size:32
Alignment explanation
Indices: 31960568--31960631 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
31960558 TTTAAAAAAA
*
31960568 TTTACTTCCTCAAACCCCCAATT-TTTTTCTT
1 TTTACTTCCTCAAACCCCAAATTCTTTTTCTT
31960599 TTTACTTTCCCTCAAACCCCAAATTCTTTTTCT
1 TTTAC-TT-CCTCAAACCCCAAATTCTTTTTCT
31960632 CCAAATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 5 0.17
32 2 0.07
33 15 0.52
34 7 0.24
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (32 bp):
TTTACTTCCTCAAACCCCAAATTCTTTTTCTT
Found at i:31968240 original size:51 final size:52
Alignment explanation
Indices: 31968175--31968274 Score: 159
Period size: 51 Copynumber: 1.9 Consensus size: 52
31968165 ATACGTCGAG
*
31968175 TTTTAAAGATAAAATCATATTATCATATTTG-AA-AAGTAAATTGATCGATT
1 TTTTAAAGACAAAATCATATTATCATATTTGTAATAAGTAAATTGATCGATT
*
31968225 TTTTAAAAGACAAAATGATATTATCATATTTGTAATAAGTAAATTGATCG
1 TTTT-AAAGACAAAATCATATTATCATATTTGTAATAAGTAAATTGATCG
31968275 GTCGGTCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 4 0.09
51 25 0.56
52 2 0.04
53 14 0.31
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (52 bp):
TTTTAAAGACAAAATCATATTATCATATTTGTAATAAGTAAATTGATCGATT
Found at i:31973716 original size:43 final size:43
Alignment explanation
Indices: 31973655--31973938 Score: 337
Period size: 43 Copynumber: 6.7 Consensus size: 43
31973645 TATGATTTCA
* *
31973655 TGTAAGACCACGTCTGGGATGTTGGCATCAACTTGTGTTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACG
31973698 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACG
* *
31973741 TGTAAGACCACATCTGGGATGTTGGCATCGACTTGTGTTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACG
*
31973784 TGTAAGACCACGTCTGGAACGTTGGCATCGACTTGTGTTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACG
* * ** *
31973827 TGTAAGACCATGTCTGGAACACTGGCATCGTA-TT-TGATT-CG
1 TGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTGTGTTTACG
** * ** * *
31973868 TGTAAGACC-CTGTCTGGGACAG-TGTAATTGA-TATAAGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGTTTACG
31973911 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
31973939 TGTACGATAT
Statistics
Matches: 212, Mismatches: 21, Indels: 16
0.85 0.08 0.06
Matches are distributed among these distances:
40 2 0.01
41 25 0.12
42 9 0.04
43 174 0.82
44 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACG
Found at i:31977971 original size:458 final size:457
Alignment explanation
Indices: 31976596--31977974 Score: 2353
Period size: 458 Copynumber: 3.0 Consensus size: 457
31976586 AGCTATGGTT
* * * *
31976596 ATACACCTTGTAATCCCCAAATAACCTTATTGCCATCGCGGCGTCGCTCCTTAGAGCTTACTGAT
1 ATACACCTTGTAATCCCCAAATGACCTTATCG-CGTCGCGGCGTCGCTCCTTAGAGCTTACTAAT
31976661 TGTCGTTGTGGTGTTGCTCTACGAAACTTAATAGCCGTCAATATCGTCTTATCTCATATCAACCT
65 TGTCGTTGTGGTGTTGCTCTACGAAACTTAATAGCCGTCAATATCGTCTTATCTCATATCAACCT
* *
31976726 TGATGCTCGAACACCAAAGTGTCCCCCAGAGCTTCGCCTATTACGGTTTTCTCCTAGCAATCCCG
130 TGATGCTCGAACACCAAAGTGTCCCCCAGAGCTTCGCCCATTACGGTTTGCTCCTAGCAATCCCG
*
31976791 GATGGTGGAATCGTAATGGAATTTCAATTTCTTTTTTCCATATTCCTCCACCCATTCCTCCACTT
195 GATGGTGGAATCGTAATGGAATTTCAATTTCTTTTTTCCATATTCCTCCACCTATTCCTCCACTT
31976856 ATCATCCTAATATTGATGCTCGAACACTGTAGTGTCCCCTCTGCAAGGCTCGGAGCTTCGTTTAT
260 ATCATCCTAATATTGATGCTCGAACACTGTAGTGTCCCCTCTGCAAGGCTCGGAGCTTCGTTTAT
* * *
31976921 CACGATTTTCACTTAGCAATACCGTATTGCGGTATTTAAAAGAACCACCCTTTTTCCCATCCTAA
325 CACGATTTGCACTCAGCAATACCGTATTGCGGTATTTAACAGAACCACCCTTTTTCCCATCCTAA
*
31976986 CTTCATCTAGCTTGTCGATGATTCCCTTCCATATTTCATAGACATTACATGCAAATTCATAAATT
390 CTTCATCTAGCTTGTCGATGATTCCCTTCCATATTTCATAGACATTACATGCAAATTCATAAACT
*
31977051 ATG
455 ACG
* * *
31977054 AGACACCATGTAATCCCCAAATGACCTTATCGCTGTCGCGACGTCGCTCCTTAGAGCTTACTAAT
1 ATACACCTTGTAATCCCCAAATGACCTTATCGC-GTCGCGGCGTCGCTCCTTAGAGCTTACTAAT
31977119 TGTCGTTGTGGTGTTGCTCTACGAAACTTAATAGCCGTCAATATCGTCTTATCTCATATCAACCT
65 TGTCGTTGTGGTGTTGCTCTACGAAACTTAATAGCCGTCAATATCGTCTTATCTCATATCAACCT
* * *
31977184 TGATGCTCAAACACCAAAGTGTCCCCAAGAGCTTCGCCCATTACGGTTTGCTCCTAGCAATCCCA
130 TGATGCTCGAACACCAAAGTGTCCCCCAGAGCTTCGCCCATTACGGTTTGCTCCTAGCAATCCCG
* *
31977249 GATGGTGGAATCGTAATGGAATTTCAATTTCTTTTTTCCATATTCCTTCTCCTATTCCTCCACTT
195 GATGGTGGAATCGTAATGGAATTTCAATTTCTTTTTTCCATATTCCTCCACCTATTCCTCCACTT
* * * *
31977314 ATCATTCTAATATTGATGCTCGAACACTGTAGTATCCCCTCTACAAGGCTTGGAGCTTCGTTTAT
260 ATCATCCTAATATTGATGCTCGAACACTGTAGTGTCCCCTCTGCAAGGCTCGGAGCTTCGTTTAT
* *
31977379 CACGATTTGCACTCAGCAATACTGTATTGCGGTATTTAACAGAACCACCTTTTTTCCCATCCTAA
325 CACGATTTGCACTCAGCAATACCGTATTGCGGTATTTAACAGAACCACCCTTTTTCCCATCCTAA
* *
31977444 CTTCATCTAGCTTGTCGATGATTCCCTTCCATATTTTAGAGACATTACATGCAAATTCATAAACT
390 CTTCATCTAGCTTGTCGATGATTCCCTTCCATATTTCATAGACATTACATGCAAATTCATAAACT
31977509 ACG
455 ACG
*
31977512 ATACACCTTGTAATCCCCAAATGACCTTATCGTCGTTGCGGCGTCGCTCCTTAGAGCTTACTAAT
1 ATACACCTTGTAATCCCCAAATGACCTTATCG-CGTCGCGGCGTCGCTCCTTAGAGCTTACTAAT
*
31977577 TGTCGTTGTGGTGTTGCTCTACGAAACTTAATAGCCGTCAATTTCGTCTTATCTCATATCAACCT
65 TGTCGTTGTGGTGTTGCTCTACGAAACTTAATAGCCGTCAATATCGTCTTATCTCATATCAACCT
* * * *
31977642 TGATGCTCGAACACCAAAGTGTCCCCCTGAGTTTTGCCCATTACGGTTTGCTCCTATCAATCCCG
130 TGATGCTCGAACACCAAAGTGTCCCCCAGAGCTTCGCCCATTACGGTTTGCTCCTAGCAATCCCG
* *
31977707 GATGGTGGAATCGTAATAGAATTTCAATTTCTTTTTTCCATATTCCTCCGCCTATTCCTCCACTT
195 GATGGTGGAATCGTAATGGAATTTCAATTTCTTTTTTCCATATTCCTCCACCTATTCCTCCACTT
*
31977772 ATCATCCTAATATTGATGCTCGAACACTGTAGTGTCCCCTCTGCAAGGCTCGAAGCTTCGTTTAT
260 ATCATCCTAATATTGATGCTCGAACACTGTAGTGTCCCCTCTGCAAGGCTCGGAGCTTCGTTTAT
* * *
31977837 CATGGTTTGCACTCAGCAATACCGTATTGCTGTATTTAACAGAACCACCCTTTTTCCCATCCTAA
325 CACGATTTGCACTCAGCAATACCGTATTGCGGTATTTAACAGAACCACCCTTTTTCCCATCCTAA
* *
31977902 CTTCATCTAGCTTGTCGATGATTCCCTTCCATATTTCATAGACATTACATACTAATTCATAAACT
390 CTTCATCTAGCTTGTCGATGATTCCCTTCCATATTTCATAGACATTACATGCAAATTCATAAACT
31977967 ACG
455 ACG
31977970 ATACA
1 ATACA
31977975 ATGGCAGATA
Statistics
Matches: 862, Mismatches: 57, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
457 1 0.00
458 860 1.00
459 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.34
Consensus pattern (457 bp):
ATACACCTTGTAATCCCCAAATGACCTTATCGCGTCGCGGCGTCGCTCCTTAGAGCTTACTAATT
GTCGTTGTGGTGTTGCTCTACGAAACTTAATAGCCGTCAATATCGTCTTATCTCATATCAACCTT
GATGCTCGAACACCAAAGTGTCCCCCAGAGCTTCGCCCATTACGGTTTGCTCCTAGCAATCCCGG
ATGGTGGAATCGTAATGGAATTTCAATTTCTTTTTTCCATATTCCTCCACCTATTCCTCCACTTA
TCATCCTAATATTGATGCTCGAACACTGTAGTGTCCCCTCTGCAAGGCTCGGAGCTTCGTTTATC
ACGATTTGCACTCAGCAATACCGTATTGCGGTATTTAACAGAACCACCCTTTTTCCCATCCTAAC
TTCATCTAGCTTGTCGATGATTCCCTTCCATATTTCATAGACATTACATGCAAATTCATAAACTA
CG
Found at i:32009476 original size:30 final size:30
Alignment explanation
Indices: 32009404--32009476 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
32009394 GAAAGTCGAG
* *
32009404 TTCCTATATATAAAATTCTTATTGTGACCAT
1 TTCC-ATATATAGAATTCTTATTGTAACCAT
*
32009435 TTCCATATATAGAATTCTTATTTTAACCAT
1 TTCCATATATAGAATTCTTATTGTAACCAT
*
32009465 TTCCATTTATAG
1 TTCCATATATAG
32009477 GATTGACGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
30 34 0.89
31 4 0.11
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.47
Consensus pattern (30 bp):
TTCCATATATAGAATTCTTATTGTAACCAT
Found at i:32013197 original size:2 final size:2
Alignment explanation
Indices: 32013190--32013219 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32013180 TCAGATTTCC
32013190 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32013220 TCCACATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32013729 original size:50 final size:51
Alignment explanation
Indices: 32013663--32013759 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 51
32013653 TCCTCTTTCA
*
32013663 AGCCATACAACAGGAAGCTT-AAAAAGAGCTATTAATCAGAAAGCTCATAAG
1 AGCCATACAACAGGAAG-TTCAAAAAGAACTATTAATCAGAAAGCTCATAAG
* * * *
32013714 AGCCATA-ATCAGGAAGTTCACAAAGAACTTTTAATCAGGAAGCTCA
1 AGCCATACAACAGGAAGTTCAAAAAGAACTATTAATCAGAAAGCTCA
32013760 CGAAGGCCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
49 2 0.05
50 31 0.77
51 7 0.17
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.20
Consensus pattern (51 bp):
AGCCATACAACAGGAAGTTCAAAAAGAACTATTAATCAGAAAGCTCATAAG
Found at i:32013749 original size:26 final size:25
Alignment explanation
Indices: 32013673--32013782 Score: 82
Period size: 26 Copynumber: 4.4 Consensus size: 25
32013663 AGCCATACAA
* * *
32013673 CAGGAAGCTTAAAAAGAGCTATTAAT
1 CAGGAAGCTCACAAAGACCT-TTAAT
* * *
32013699 CAGAAAGCTCA-TAAGAGCC-ATAAT
1 CAGGAAGCTCACAAAGA-CCTTTAAT
* *
32013723 CAGGAAGTTCACAAAGAACTTTTAAT
1 CAGGAAGCTCACAAAG-ACCTTTAAT
* *
32013749 CAGGAAGCTCACGAAGGCCTTTAAT
1 CAGGAAGCTCACAAAGACCTTTAAT
32013774 CAGG-AGCTC
1 CAGGAAGCTC
32013783 CGGATAGCCA
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
24 18 0.27
25 19 0.29
26 29 0.44
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (25 bp):
CAGGAAGCTCACAAAGACCTTTAAT
Found at i:32015669 original size:68 final size:66
Alignment explanation
Indices: 32015530--32015669 Score: 176
Period size: 68 Copynumber: 2.1 Consensus size: 66
32015520 TTTTCAGATT
*
32015530 ATTTTCATTTTCATTTTGGAAAAACCATATTCATTTCCAAATGATTCAATTTCTCTATTTTCATT
1 ATTTTCATTTTCATTTTGGAAAAACCATATTCATTTCCAAATGATTCAATTTCTCCATTTTCA--
*
32015595 TTC
64 TCC
* *
32015598 ATTTTCATTTTTATTTTGGAGAAAACCATAATT-ATTTCCAAATGATTTCTCATTTCTCCATTTT
1 ATTTTCATTTTCATTTTGGA-AAAACCAT-ATTCATTTCCAAATGA-TTC-AATTTCTCCATTTT
32015662 CA-CC
62 CATCC
32015666 ATTT
1 ATTT
32015670 CTATTCATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
68 24 0.38
69 20 0.31
70 6 0.09
71 14 0.22
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (66 bp):
ATTTTCATTTTCATTTTGGAAAAACCATATTCATTTCCAAATGATTCAATTTCTCCATTTTCATC
C
Found at i:32023834 original size:58 final size:53
Alignment explanation
Indices: 32023689--32023834 Score: 168
Period size: 54 Copynumber: 2.6 Consensus size: 53
32023679 TAGAAAAACC
* *
32023689 ATATTATCATATTTTAAAAGTAAATTAACCGATCGATCAATATTTAAAAGACAA
1 ATATTATCATATTTT-AAAGTAAATTGACCGGTCGATCAATATTTAAAAGACAA
* *
32023743 ATATTATCATATTTATAAAGTAAATTGATCGGTCAGA-CAATTTTTAAAAGACAAAA
1 ATATTATCATATTT-TAAAGTAAATTGACCGGTC-GATCAATATTTAAAAGAC--AA
*
32023799 TGATATTATCATATTTGTAAAGTAAATTGGCCGGTC
1 --ATATTATCATATTT-TAAAGTAAATTGACCGGTC
32023835 TTTTAAAGAT
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
54 43 0.54
55 3 0.04
56 2 0.03
58 31 0.39
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (53 bp):
ATATTATCATATTTTAAAGTAAATTGACCGGTCGATCAATATTTAAAAGACAA
Found at i:32026604 original size:51 final size:52
Alignment explanation
Indices: 32026539--32026638 Score: 159
Period size: 51 Copynumber: 1.9 Consensus size: 52
32026529 ATACGTCGAG
*
32026539 TTTTAAAGATAAAATCATATTATCATATTTG-AA-AAGTAAATTGATCGATT
1 TTTTAAAGACAAAATCATATTATCATATTTGTAATAAGTAAATTGATCGATT
*
32026589 TTTTAAAAGACAAAATGATATTATCATATTTGTAATAAGTAAATTGATCG
1 TTTT-AAAGACAAAATCATATTATCATATTTGTAATAAGTAAATTGATCG
32026639 GTCGGTCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 4 0.09
51 25 0.56
52 2 0.04
53 14 0.31
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (52 bp):
TTTTAAAGACAAAATCATATTATCATATTTGTAATAAGTAAATTGATCGATT
Found at i:32029842 original size:14 final size:14
Alignment explanation
Indices: 32029823--32029859 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
32029813 TCAAGCTACC
32029823 TCCACCTCCACCGA
1 TCCACCTCCACCGA
*
32029837 TCCACCTCCACCGG
1 TCCACCTCCACCGA
32029851 TCCACCTCC
1 TCCACCTCC
32029860 GGTCCTGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.16, C:0.59, G:0.08, T:0.16
Consensus pattern (14 bp):
TCCACCTCCACCGA
Found at i:32030690 original size:5 final size:5
Alignment explanation
Indices: 32030682--32030714 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
32030672 CTTTTTAGAT
*
32030682 TTTAA TTTAA TTTAA TTTAA TTTAA TTTTA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
32030715 CACTTTGTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (5 bp):
TTTAA
Found at i:32031307 original size:25 final size:25
Alignment explanation
Indices: 32031273--32031325 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
32031263 TTTTTTTAAG
*
32031273 AATTGATTGTTT-TAATTAAATTTCA
1 AATTAATTGTTTGTAATTAAA-TTCA
32031298 AATTAATTGTTTGTAATTAAATTCA
1 AATTAATTGTTTGTAATTAAATTCA
32031323 AAT
1 AAT
32031326 AAGTAATCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 18 0.69
26 8 0.31
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (25 bp):
AATTAATTGTTTGTAATTAAATTCA
Found at i:32037182 original size:14 final size:14
Alignment explanation
Indices: 32037163--32037191 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32037153 ATATTATATT
32037163 CATAACAAATAGGG
1 CATAACAAATAGGG
32037177 CATAACAAATAGGG
1 CATAACAAATAGGG
32037191 C
1 C
32037192 CTACGAGACC
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:0.48, C:0.17, G:0.21, T:0.14
Consensus pattern (14 bp):
CATAACAAATAGGG
Found at i:32039110 original size:22 final size:23
Alignment explanation
Indices: 32039080--32039129 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
32039070 ACCTACTTTC
* *
32039080 TTACTGTAGTAATTTTCG-GGTA
1 TTACAGTAGTAATTTTCGAGATA
32039102 TTACAGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGAGATA
32039125 TTACA
1 TTACA
32039130 ACAAGTGACC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.68
23 8 0.32
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:32039692 original size:18 final size:18
Alignment explanation
Indices: 32039633--32039692 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
32039623 AATCACACAG
* *
32039633 TTGCGAGCTCATCCAAAG
1 TTGCGAACTCATCCAAAT
*
32039651 TTACGAACTCATCCAAAT
1 TTGCGAACTCATCCAAAT
*
32039669 TCGCGAACTCATCCAAAT
1 TTGCGAACTCATCCAAAT
32039687 TTGCGA
1 TTGCGA
32039693 GCTTAGCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (18 bp):
TTGCGAACTCATCCAAAT
Found at i:32052263 original size:19 final size:18
Alignment explanation
Indices: 32052241--32052279 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
32052231 ATTACAAAAT
*
32052241 AATTCAAAATAATTTTTAA
1 AATTCAAAAT-ATTTATAA
*
32052260 AATTCCAAATATTTATAA
1 AATTCAAAATATTTATAA
32052278 AA
1 AA
32052280 ATATCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTCAAAATATTTATAA
Found at i:32052280 original size:19 final size:19
Alignment explanation
Indices: 32052258--32052295 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
32052248 AATAATTTTT
32052258 AAAAT-TCCAAATATTTATA
1 AAAATATCCAAAT-TTTATA
32052277 AAAATATCCAAATTTTATA
1 AAAATATCCAAATTTTATA
32052296 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATATCCAAATTTTATA
Found at i:32053762 original size:22 final size:20
Alignment explanation
Indices: 32053726--32053784 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
32053716 GGCCCGACCC
32053726 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
32053748 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
32053769 AAATATTTTAAAAATA
1 ATTTATTTTAAAAATA
32053785 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:32053793 original size:10 final size:11
Alignment explanation
Indices: 32053767--32053792 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32053757 AAAAATTAAA
32053767 AAAAATATTTT
1 AAAAATATTTT
32053778 AAAAATATTTT
1 AAAAATATTTT
32053789 AAAA
1 AAAA
32053793 TTAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:32070436 original size:72 final size:72
Alignment explanation
Indices: 32070345--32070516 Score: 231
Period size: 72 Copynumber: 2.4 Consensus size: 72
32070335 AAAATCACAT
* * *
32070345 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAACATAAATTCAATATCTAAA
1 ATAAACAACTATTAATAAAACTAATTTA-CACAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
32070409 GACCAAAC
65 AACCAAAC
*
32070417 ATAAACAACTATTAATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTAATAAAACTA-ATTTACACAAAAATAAGTAGAACATAAATTCAATATCCAAA
32070481 AACCAAAC
65 AACCAAAC
* *
32070489 ATAAATAACTATTGATTAAAACATAATT
1 ATAAACAACTATT-AATAAAAC-TAATT
32070517 CGCTTATGCC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
71 1 0.01
72 75 0.85
73 9 0.10
74 3 0.03
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (72 bp):
ATAAACAACTATTAATAAAACTAATTTACACAAAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:32070977 original size:18 final size:18
Alignment explanation
Indices: 32070956--32071003 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
32070946 TCCATCAATT
*
32070956 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
32070974 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
32070992 TGAACATCATTT
1 TGAACATCATTT
32071004 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:32073607 original size:23 final size:23
Alignment explanation
Indices: 32073573--32073616 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
32073563 GAGGGTAGAG
32073573 GAACAAAGAACCAGCAGAGGGAA
1 GAACAAAGAACCAGCAGAGGGAA
*
32073596 GAACAAATAACCAGCAGAGGG
1 GAACAAAGAACCAGCAGAGGG
32073617 CAGAGATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.18, G:0.30, T:0.02
Consensus pattern (23 bp):
GAACAAAGAACCAGCAGAGGGAA
Found at i:32084943 original size:18 final size:19
Alignment explanation
Indices: 32084920--32084958 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32084910 TACAAATACA
*
32084920 AACATT-ACATAATTATTT
1 AACATTCACATAATAATTT
*
32084938 AACATTCACATCATAATTT
1 AACATTCACATAATAATTT
32084957 AA
1 AA
32084959 TCTTATCGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (19 bp):
AACATTCACATAATAATTT
Found at i:32085500 original size:31 final size:31
Alignment explanation
Indices: 32085465--32085523 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
32085455 TTACAACATA
32085465 TTTCACATTCTATTTTCAATTCACTATCGTT
1 TTTCACATTCTATTTTCAATTCACTATCGTT
32085496 TTTCACATTCTATTTTCAATTCACTATC
1 TTTCACATTCTATTTTCAATTCACTATC
32085524 TCATATTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.51
Consensus pattern (31 bp):
TTTCACATTCTATTTTCAATTCACTATCGTT
Found at i:32085737 original size:218 final size:218
Alignment explanation
Indices: 32085359--32085798 Score: 835
Period size: 218 Copynumber: 2.0 Consensus size: 218
32085349 TGCTATATAT
*
32085359 AATAGTTTTCCACAATTTGTTCACATATCATTTAAACAATGGCACTATTCATTCCACGTTCAATT
1 AATAGTTTTCCACAATTTGTTCACATATCATTTAAACAATGGCACTATCCATTCCACGTTCAATT
32085424 CACGAGTATATAACTCGTGTATTCCATGTATTTACAACATATTTCACATTCTATTTTCAATTCAC
66 CACGAGTATATAACTCGTGTATTCCATGTATTTACAACATATTTCACATTCTATTTTCAATTCAC
32085489 TATCGTTTTTCACATTCTATTTTCAATTCACTATCTCATATTCTTAGCCCAAAGTAGATTTTATA
131 TATCGTTTTTCACATTCTATTTTCAATTCACTATCTCATATTCTTAGCCCAAAGTAGATTTTATA
*
32085554 GAACATACCGGATATACGGAACA
196 AAACATACCGGATATACGGAACA
32085577 AATAGTTTTCCACAATTTGTTCACATATCATTTAAACAATGGCACTATCCATTCCACGTTCAATT
1 AATAGTTTTCCACAATTTGTTCACATATCATTTAAACAATGGCACTATCCATTCCACGTTCAATT
*
32085642 CATGAGTATATAACTCGTGTATTCCATGTATTTACAACATATTTCACATTCTATTTTCAATTCAC
66 CACGAGTATATAACTCGTGTATTCCATGTATTTACAACATATTTCACATTCTATTTTCAATTCAC
* *
32085707 TGTCGTTTTTCACATTCTATTTTCAATTCACTATCTCATATTCTTAGTCCAAAGTAGATTTTATA
131 TATCGTTTTTCACATTCTATTTTCAATTCACTATCTCATATTCTTAGCCCAAAGTAGATTTTATA
32085772 AAACATACCGGATATACGGAACA
196 AAACATACCGGATATACGGAACA
32085795 AATA
1 AATA
32085799 CAGAGGTGCA
Statistics
Matches: 217, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
218 217 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.39
Consensus pattern (218 bp):
AATAGTTTTCCACAATTTGTTCACATATCATTTAAACAATGGCACTATCCATTCCACGTTCAATT
CACGAGTATATAACTCGTGTATTCCATGTATTTACAACATATTTCACATTCTATTTTCAATTCAC
TATCGTTTTTCACATTCTATTTTCAATTCACTATCTCATATTCTTAGCCCAAAGTAGATTTTATA
AAACATACCGGATATACGGAACA
Found at i:32085858 original size:22 final size:22
Alignment explanation
Indices: 32085827--32085917 Score: 62
Period size: 22 Copynumber: 4.0 Consensus size: 22
32085817 CACTAATGAA
*
32085827 CAGAGGGCACTGAAGTGCT-AT
1 CAGAGAGCACTGAAGTGCTAAT
* * *
32085848 ACAGTGAGCACAGATGTGCTAAT
1 -CAGAGAGCACTGAAGTGCTAAT
*
32085871 CAGAGAGCACT-AACATGCTAATAAT
1 CAGAGAGCACTGAA-GTGC---TAAT
32085896 CAGAGAGCACT-AACGTGCTAAT
1 CAGAGAGCACTGAA-GTGCTAAT
32085918 AATCAGAGAG
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
21 1 0.02
22 31 0.56
23 2 0.04
25 21 0.38
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (22 bp):
CAGAGAGCACTGAAGTGCTAAT
Found at i:32085928 original size:27 final size:25
Alignment explanation
Indices: 32085867--32085927 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
32085857 ACAGATGTGC
32085867 TAATCAGAGAGCACTAACATGCTAA
1 TAATCAGAGAGCACTAACATGCTAA
*
32085892 TAATCAGAGAGCACTAACGTGCTAA
1 TAATCAGAGAGCACTAACATGCTAA
32085917 TAATCAGAGAG
1 TAATCAGAGAG
32085928 AGCGCTAGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (25 bp):
TAATCAGAGAGCACTAACATGCTAA
Found at i:32088644 original size:15 final size:16
Alignment explanation
Indices: 32088624--32088653 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32088614 AAAATACTTT
32088624 ATTTAA-AATAAATAC
1 ATTTAATAATAAATAC
32088639 ATTTAATAATAAATA
1 ATTTAATAATAAATA
32088654 AAAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTTAATAATAAATAC
Found at i:32090972 original size:18 final size:18
Alignment explanation
Indices: 32090926--32090986 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
32090916 AGTTAGTGAT
*
32090926 TTAATATAA-ATATAAAA
1 TTAATATAATATATATAA
*
32090943 TTATCATTTAATATATATAA
1 TTA--ATATAATATATATAA
* *
32090963 TTAATATAATTTTTATAA
1 TTAATATAATATATATAA
32090981 TGTAAT
1 T-TAAT
32090987 GTATTGGACT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 3 0.09
18 13 0.37
19 9 0.26
20 10 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
TTAATATAATATATATAA
Found at i:32097812 original size:22 final size:21
Alignment explanation
Indices: 32097781--32097822 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
32097771 TTCCTGCAAA
*
32097781 AATAAAATAGTAAAAATAAAT
1 AATAAAATAGGAAAAATAAAT
*
32097802 AATAATAATAGGAAAATTAAA
1 AATAA-AATAGGAAAAATAAA
32097823 ATGTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (21 bp):
AATAAAATAGGAAAAATAAAT
Found at i:32106038 original size:19 final size:20
Alignment explanation
Indices: 32106004--32106046 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
32105994 AAAGTACTGT
32106004 TACTTTCCTTTAGGTATCGA
1 TACTTTCCTTTAGGTATCGA
* *
32106024 TACTTT-CTTTTGGTATTGA
1 TACTTTCCTTTAGGTATCGA
32106043 TACT
1 TACT
32106047 ATTTTTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (20 bp):
TACTTTCCTTTAGGTATCGA
Found at i:32108301 original size:34 final size:34
Alignment explanation
Indices: 32108263--32108330 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
32108253 AAATTACAAG
32108263 AAAATGACTTAATTTACTTACCAAATTGAATGAC
1 AAAATGACTTAATTTACTTACCAAATTGAATGAC
32108297 AAAATGACTTAATTTACTTACCAAATTGAATGAC
1 AAAATGACTTAATTTACTTACCAAATTGAATGAC
32108331 CTAATGTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (34 bp):
AAAATGACTTAATTTACTTACCAAATTGAATGAC
Found at i:32108506 original size:19 final size:19
Alignment explanation
Indices: 32108466--32108506 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
32108456 AATTAACTTA
*
32108466 TAATTAATCATAATTAGTT
1 TAATTAATCATAATTAGAT
32108485 TAATTAATCAATAATTA-AT
1 TAATTAATC-ATAATTAGAT
32108504 TAA
1 TAA
32108507 CATTAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATTAATCATAATTAGAT
Found at i:32116962 original size:19 final size:18
Alignment explanation
Indices: 32116940--32116990 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
32116930 GAAAATCACT
32116940 TAAAAATGTTAAAAAAAT-A
1 TAAAAATG--AAAAAAATAA
32116959 TAAAAATGAAAAAAATCAA
1 TAAAAATGAAAAAAAT-AA
32116978 TAAAAAT-AAAAAA
1 TAAAAATGAAAAAA
32116991 CTATAACGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.27
18 6 0.20
19 16 0.53
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
TAAAAATGAAAAAAATAA
Found at i:32117405 original size:20 final size:20
Alignment explanation
Indices: 32117380--32117417 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
32117370 TTTTTTTGGA
32117380 TTTTTTTGAAAATTATAATT
1 TTTTTTTGAAAATTATAATT
*
32117400 TTTTTTTTAAAATTATAA
1 TTTTTTTGAAAATTATAA
32117418 GTATTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTTTTGAAAATTATAATT
Found at i:32117452 original size:20 final size:19
Alignment explanation
Indices: 32117424--32117464 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
32117414 ATAAGTATTC
*
32117424 AAAACTTCAAACAAATTTTA
1 AAAAATTCAAA-AAATTTTA
*
32117444 AAAAATTCATAAAATTTTA
1 AAAAATTCAAAAAATTTTA
32117463 AA
1 AA
32117465 TACCTGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTCAAAAAATTTTA
Found at i:32117596 original size:20 final size:20
Alignment explanation
Indices: 32117554--32117599 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
32117544 ATGTTTTGCA
* *
32117554 TTTTTATGAATTTTTGACAT
1 TTTTTAAGAAATTTTGACAT
*
32117574 TTTTTAAGAAATTTTGA-GT
1 TTTTTAAGAAATTTTGACAT
32117593 TTTTTAA
1 TTTTTAA
32117600 AGTAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (20 bp):
TTTTTAAGAAATTTTGACAT
Found at i:32118583 original size:4 final size:4
Alignment explanation
Indices: 32118568--32118596 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
32118558 ATTTCAATAC
32118568 TTCT TT-T TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
32118597 TCCCCTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTCT
Found at i:32126034 original size:21 final size:21
Alignment explanation
Indices: 32126008--32126084 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 21
32125998 CAAAAAAAAT
32126008 AAAAAA-TCATTAAAATTATTA
1 AAAAAAGT-ATTAAAATTATTA
*
32126029 AAAAAAGTA-TAATAATGA-TA
1 AAAAAAGTATTAA-AATTATTA
* *
32126049 AAAAATATTTTTAAAATT-TTA
1 AAAAA-AGTATTAAAATTATTA
32126070 AAAAAAGTAATTAAA
1 AAAAAAGT-ATTAAA
32126085 TGCTGACCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
20 12 0.27
21 28 0.64
22 4 0.09
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (21 bp):
AAAAAAGTATTAAAATTATTA
Found at i:32127380 original size:13 final size:14
Alignment explanation
Indices: 32127362--32127391 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
32127352 GGGTCGTTTA
32127362 TTTATTTA-TTGGT
1 TTTATTTATTTGGT
32127375 TTTATTTATTTGGT
1 TTTATTTATTTGGT
32127389 TTT
1 TTT
32127392 GGGCCCGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTGGT
Found at i:32133263 original size:25 final size:26
Alignment explanation
Indices: 32133206--32133266 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
32133196 TTTTTATCAG
*
32133206 GGTAAAATCGTCAAAATTTTACCGAA
1 GGTAAAATTGTCAAAATTTTACCGAA
**
32133232 GGT-AAATTGTCAAAATTTTATTG-A
1 GGTAAAATTGTCAAAATTTTACCGAA
32133256 GGTAAAATTGT
1 GGTAAAATTGT
32133267 GGTGAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.13
25 24 0.77
26 3 0.10
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (26 bp):
GGTAAAATTGTCAAAATTTTACCGAA
Found at i:32138980 original size:58 final size:59
Alignment explanation
Indices: 32138890--32139007 Score: 220
Period size: 58 Copynumber: 2.0 Consensus size: 59
32138880 TAAAGCATAC
32138890 AATGAGTTGACACAAGAATTGAACAAGCCATGAATCTGAAGGTCA-GCAAAGCTCACTA
1 AATGAGTTGACACAAGAATTGAACAAGCCATGAATCTGAAGGTCAGGCAAAGCTCACTA
*
32138948 AATGAGTTGACACAAGAATTGAACAAGCCATGAATCTGACGGTCAGGCAAAGCTCACTA
1 AATGAGTTGACACAAGAATTGAACAAGCCATGAATCTGAAGGTCAGGCAAAGCTCACTA
32139007 A
1 A
32139008 TGCCGTGTCA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 44 0.76
59 14 0.24
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (59 bp):
AATGAGTTGACACAAGAATTGAACAAGCCATGAATCTGAAGGTCAGGCAAAGCTCACTA
Found at i:32155933 original size:24 final size:25
Alignment explanation
Indices: 32155893--32155941 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
32155883 TCCTCTCTCC
32155893 AACTTTCTCTCTCCTTC-TTCGTTT
1 AACTTTCTCTCTCCTTCTTTCGTTT
*
32155917 AACTCTTCT-TCTTCTTCTTTCGTTT
1 AACT-TTCTCTCTCCTTCTTTCGTTT
32155942 GTTGGTACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.08, C:0.31, G:0.04, T:0.57
Consensus pattern (25 bp):
AACTTTCTCTCTCCTTCTTTCGTTT
Found at i:32161656 original size:43 final size:43
Alignment explanation
Indices: 32161622--32162107 Score: 801
Period size: 43 Copynumber: 11.3 Consensus size: 43
32161612 GAATTGTACT
** * *
32161622 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
*
32161665 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
32161708 TTCAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
32161751 TTTAGCGACGTTTGTGGGAAAAGCGCCGTTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
*
32161794 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
32161837 TTTAGCGACGTTTGTGGGAAAAGCGCCGTTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
*
32161880 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
32161923 TTTAGCGACGTTTGTGGGAAAAGCGCCGTTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
32161966 TTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCATAGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
*
32162009 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
*
32162052 TTTAGCCGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
32162095 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
32162108 AGTTATAAAA
Statistics
Matches: 409, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 409 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:32164328 original size:21 final size:22
Alignment explanation
Indices: 32164287--32164329 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
32164277 TAAATTGATT
* *
32164287 CATTAAAATTGTAAAATATAAC
1 CATTAAAAATGTAAAACATAAC
32164309 CATTAAAAAT-TAAAACATAAC
1 CATTAAAAATGTAAAACATAAC
32164330 TAAAAAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (22 bp):
CATTAAAAATGTAAAACATAAC
Found at i:32167221 original size:12 final size:12
Alignment explanation
Indices: 32167204--32167228 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32167194 CAGAGGCTAT
32167204 TAACAATATTTA
1 TAACAATATTTA
32167216 TAACAATATTTA
1 TAACAATATTTA
32167228 T
1 T
32167229 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:32169429 original size:44 final size:44
Alignment explanation
Indices: 32169362--32170811 Score: 294
Period size: 44 Copynumber: 32.9 Consensus size: 44
32169352 ATACATCTTG
* *** * *
32169362 TAGCTTCAATCCACTCTGTTGTAA-CTCCAGGGGGATAGGAT-TAC
1 TAGCTTCAATCTACTCCACTGTAATCT-CAGGGAGATAAGATCT-C
32169406 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTC
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTC
* * *
32169450 TGGCTTCAATCTAATGTGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTT
1 TAGCTTCAATC-----T-A-CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT-CTC
* * ** *
32169505 TA-TTTTAATCCGCTCCACTGTAATCTCAGAGAGATAAGAT-TAC
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * *
32169548 TAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAA
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * ** *
32169593 AATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-C
1 TA-GCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTC
* * * * *** * * *
32169636 T-GATGCGATCAACTATGCTGTAA-CTTTAGAGAGATAAGATCTTT
1 TAGCTTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATC-TC
* * ** *
32169680 TA-TTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TAC
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* *
32169723 TAGCTTC-A---A-T---CTG--CTCTCA-GGAGATAGGAT-TAC
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * * * *
32169756 TATCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGA
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * ** * *
32169801 AATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGA-C-C
1 TA-GCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTC
* * * * ** * *
32169844 T-GATGCGATCCACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTT
1 TAGCTTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGAT-CTC
* * *** *
32169888 TA-TTTTAATCCGTTCCACTGTAATCTCAGGGAGATAGGATTACTATAGGATTAC
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-T-C--------T-C
* * * **
32169942 TAGTTTCAATCTGCTCCGCTGTAATCTCAAAGAGATAAGA-C-C
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTC
* * * * * *
32169984 T-GATACGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATT
1 TAGCTTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATC-TC
* * ** * * *
32170028 TA-TTTTAATCCGCTCTACTGTAATCTTAGGGAGATAGGAT-TAC
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * *
32170071 TAGCTTCAATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGA
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * ** ** *
32170116 AATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA-C-C
1 TA-GCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTC
* * * *
32170159 T-GGTGT-GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATC-C
1 TAGCT-TCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATCTC
* * * *
32170201 TTCA-TTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGAT-TAC
1 -T-AGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * * *
32170246 TAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGA
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * ** ** * *
32170291 AATCTTTCGGTCTGTTCCCCTGTAATCTCAGAGAGATAAGA-C-C
1 TAGC-TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTC
* * * ** *
32170334 T-GATGCGATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATC-C
1 TAGCTTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATCTC
* * * *
32170376 TTCA-TTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGAT-TAC
1 -T-AGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * * *
32170421 TATCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAATATCTGA
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* ** ** ** * *
32170466 AATTATTCGGTCTGTTCCACTGTAGTCTCAGGGAAATAAGA-C-C
1 TA-GCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTC
* * * *** * *
32170509 T-GGTGCGATCTACTCTGTTGTAA-CTTCAGAGAGAAAAGATCAT-
1 TAGCTTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATC-TC
* * * ** *
32170552 TCA-TTTTAATCCACTCCACTGTAATCTCAAAGAGATAGGAT-TAC
1 T-AGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * *
32170596 TAACTTTAATCTGCT-CAGCTGTAATCTCAGGGAGATAAGATCTGAC
1 TAGCTTCAATCTACTCCA-CTGTAATCTCAGGGAGATAAGATCT--C
* * ** ** *
32170642 -ATTCTGCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA-C-C
1 TA-GCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTC
* * ** * *
32170684 T-GACGT-GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCATT
1 TAG-CTTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATC-TC
* * ** *
32170728 TA-TTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TAC
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCT-C
* * *
32170771 TATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
1 TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGAT
32170812 TTGAAATCTT
Statistics
Matches: 1020, Mismatches: 269, Indels: 234
0.67 0.18 0.15
Matches are distributed among these distances:
33 20 0.02
34 6 0.01
36 3 0.00
38 1 0.00
39 1 0.00
40 7 0.01
41 186 0.18
42 18 0.02
43 24 0.02
44 455 0.45
45 36 0.04
46 188 0.18
47 4 0.00
49 1 0.00
50 1 0.00
51 2 0.00
52 2 0.00
53 3 0.00
54 29 0.03
55 33 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
TAGCTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCTC
Found at i:32169623 original size:46 final size:44
Alignment explanation
Indices: 32169517--32169633 Score: 135
Period size: 46 Copynumber: 2.6 Consensus size: 44
32169507 TTTTAATCCG
* ** *
32169517 CTCCACTGTAATCTCAGAGAGATAAGATTACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTAAAAGCTTCAATCTA
* * **
32169561 CTCCGCTGTAATCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGAT-TAAAA-GCTTCAATCTA
*
32169607 CTCCACTGTAACCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
32169634 CCTGATGCGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
44 26 0.43
45 3 0.05
46 32 0.52
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTAAAAGCTTCAATCTA
Found at i:32169748 original size:33 final size:34
Alignment explanation
Indices: 32169703--32169771 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
32169693 TCCACTGTAA
32169703 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
1 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
*
32169737 TCTCA-GGAGATAGGATTACTATCTTCAATCTGC
1 TCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
32169770 TC
1 TC
32169772 CGCTGTAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 29 0.85
34 5 0.15
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (34 bp):
TCTCAGGGAGATAGGATTACTAGCTTCAATCTGC
Found at i:32169907 original size:208 final size:209
Alignment explanation
Indices: 32169528--32169932 Score: 713
Period size: 208 Copynumber: 1.9 Consensus size: 209
32169518 TCCACTGTAA
*
32169528 TCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAA
1 TCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTAA
*
32169593 AATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCAACTATGCTGTA
66 AATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGATGCGATCAACTATGCTGTA
* *
32169658 ACTTTAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
131 ACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
32169723 TAGCTTCAATCTGC
196 TAGCTTCAATCTGC
* * *
32169737 TCTCAG-GAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGA
1 TCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTAA
* *
32169801 AATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGATGCGATCCACTCTGCTGTA
66 AATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGATGCGATCAACTATGCTGTA
*
32169866 ACTTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAGATAGGATTAC
131 ACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
32169931 TA
196 TA
32169933 TAGGATTACT
Statistics
Matches: 186, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
208 180 0.97
209 6 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (209 bp):
TCTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTAA
AATTCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGATGCGATCAACTATGCTGTA
ACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
TAGCTTCAATCTGC
Found at i:32170158 original size:175 final size:175
Alignment explanation
Indices: 32169951--32170818 Score: 1351
Period size: 175 Copynumber: 5.0 Consensus size: 175
32169941 CTAGTTTCAA
* * ** * * *
32169951 TCTGCTCCGCTGTAATCTCAAAGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
* * * * *
32170016 GATAAGATCATTTATTTTAATCCGCTCTACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAAT
66 GATAAGATCATTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
*
32170081 CTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
* * *
32170126 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGTGATCTACTCTACTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
*
32170191 GATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
66 GATAAGATCATTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
32170256 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAA-TCTTTCGG
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTC-TTCGG
* * *
32170301 TCTGTTCCCCTGTAATCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
* *
32170366 GATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAAT
66 GATAAGATCATTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
* * *
32170431 CTACTCCGCTGTAATCTCAGGGAGATAATATCTGAAATTATTCGG
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
* * *
32170476 TCTGTTCCACTGTAGTCTCAGGGAAATAAGACCTGGTGCGATCTACTCTGTTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
* ** *
32170541 GAAAAGATCATTCATTTTAATCCACTCCACTGTAATCTCAAAGAGATAGGATTACTAACTTTAAT
66 GATAAGATCATTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
* * *
32170606 CTGCTCAGCTGTAATCTCAGGGAGATAAGATCTGACATTCTGCGG
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
* *
32170651 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGTGATCTACTCTGCTGTAACTTCAGAGA
1 TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
* * *
32170716 GATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAAT
66 GATAAGATCATTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
*
32170781 CTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAAT
131 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
32170819 CTTTCAATCA
Statistics
Matches: 633, Mismatches: 58, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
174 2 0.00
175 630 1.00
176 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (175 bp):
TCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGA
GATAAGATCATTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAACTTCAAT
CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGG
Found at i:32170372 original size:350 final size:350
Alignment explanation
Indices: 32169464--32170818 Score: 1672
Period size: 350 Copynumber: 3.9 Consensus size: 350
32169454 TTCAATCTAA
* *
32169464 TGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAAT
1 TGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAAT
* *
32169529 CTCAGAGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAA
66 CTCAGAGAGATAAGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAA
* * * * *
32169594 ATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCAACTATGCTGTAA
131 ATTCTTCGGTCTGCTCCACTGTAATCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTAA
* *
32169659 CTTTAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACT
196 CTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACT
* * ** * *
32169724 AGCTTCAA--T-CT--GC-----TCTCA-GGAGATAGGAT-T--ACTATCTTCAATCTGCTCCGC
261 AGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTGTTCCAC
* * * *
32169775 TGTAACCTCAGGGAGATAAGATCTGAAAT
325 TGTAATCTCAGGGAAATAAGACCTG---G
* * * * * * * *** **
32169804 TCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGA-CC-TGA-TGCGATCCACTCTGCTGTA
1 T-GT-GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTA
* * * * * * * *
32169866 A-CTTCAGAGAGATAAGA-TCCTTTATTTTAATCCGTTCCACTGTAATCTCAGGGAGATAGGATT
64 ATC-TCAGAGAGATAAGATTAC-TAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-T
** * * *
32169929 ACT-ATAGGATTACTAGTTTCAATCTGCTCCGCTGTAATCTCAAAGAGATAAGACCTGATACGAT
126 -CTGA-A--ATT-C----TTCGGTCTGCTCCACTGTAATCTCAGAGAGATAAGACCTGATGCGAT
* * *
32169993 CTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCTACTGTAATCTTAGG
182 CTACTCTGCTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGG
*
32170058 GAGATAGGATTACTAGCTTCAATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTGAAATTCTT
247 GAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTT
32170123 CGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGG
312 CGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGG
32170162 TGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAAT
1 TGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAAT
* *
32170227 CTCAGGGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAA
66 CTCAGAGAGATAAGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAA
* *
32170292 A-TCTTTCGGTCTGTTCCCCTGTAATCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTA
131 ATTC-TTCGGTCTGCTCCACTGTAATCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTA
* * *
32170356 ACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTAC
195 ACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTAC
* * * *
32170421 TATCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAATATCTGAAATTATTCGGTCTGTTCCAC
260 TAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCAC
*
32170486 TGTAGTCTCAGGGAAATAAGACCTGG
325 TGTAATCTCAGGGAAATAAGACCTGG
* ** * *
32170512 TGCGATCTACTCTGTTGTAACTTCAGAGAGAAAAGATCATTCATTTTAATCCACTCCACTGTAAT
1 TGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAAT
* * * * *
32170577 CTCAAAGAGATAGGATTACTAACTTTAATCTGCTCAGCTGTAATCTCAGGGAGATAAGATCTGAC
66 CTCAGAGAGATAAGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAA
* * * * * *
32170642 ATTCTGCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGTGATCTACTCTGCTGTAA
131 ATTCTTCGGTCTGCTCCACTGTAATCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTAA
32170707 CTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACT
196 CTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACT
* *
32170772 ATCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAAT
261 AGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
32170819 CTTTCAATCA
Statistics
Matches: 870, Mismatches: 110, Indels: 60
0.84 0.11 0.06
Matches are distributed among these distances:
338 3 0.00
339 60 0.07
340 5 0.01
341 6 0.01
342 28 0.03
343 3 0.00
344 1 0.00
348 119 0.14
350 482 0.55
351 4 0.00
353 2 0.00
354 1 0.00
355 1 0.00
356 28 0.03
357 6 0.01
358 10 0.01
359 70 0.08
360 4 0.00
361 35 0.04
362 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (350 bp):
TGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACTCCACTGTAAT
CTCAGAGAGATAAGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAA
ATTCTTCGGTCTGCTCCACTGTAATCTCAGAGAGATAAGACCTGATGCGATCTACTCTGCTGTAA
CTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACT
AGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACT
GTAATCTCAGGGAAATAAGACCTGG
Found at i:32170934 original size:87 final size:87
Alignment explanation
Indices: 32170817--32171076 Score: 342
Period size: 87 Copynumber: 3.0 Consensus size: 87
32170807 AAGATTTGAA
* * * *
32170817 ATCTTTCAATCAGCTTCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTT
1 ATCTTT-AATCAGCTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCGATCTGCTTCGCTGTT
*
32170882 AACGCATGAAGGCAAGATCTACT
65 AACGCAGGAAGGCAAGATCTACT
* *
32170905 ATCTTTAATCAGCTCCACTACAACCGATGGAGACAAGGCTTTGTTTCCAATCTGCTTCGCTGTTA
1 ATCTTTAATCAGCTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCGATCTGCTTCGCTGTTA
* *
32170970 ACGCAGGAAGGCCAGATCTGCT
66 ACGCAGGAAGGCAAGATCTACT
* * * * * *
32170992 ATCTTCAAACAGTTCCACCACAACCGATGGAGACAAAGC-TTGTATCTTCGATCTGCTTCACTGT
1 ATCTTTAATCAGCTCCACTACAACCGATGGAGACAAGGCTTTGT-T-TTCGATCTGCTTCGCTGT
*
32171056 TAAGGCAGGAAGGCAAGATCT
64 TAACGCAGGAAGGCAAGATCT
32171077 GTTGTCTTTG
Statistics
Matches: 151, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
86 4 0.03
87 107 0.71
88 40 0.26
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (87 bp):
ATCTTTAATCAGCTCCACTACAACCGATGGAGACAAGGCTTTGTTTTCGATCTGCTTCGCTGTTA
ACGCAGGAAGGCAAGATCTACT
Found at i:32172229 original size:21 final size:21
Alignment explanation
Indices: 32172203--32172249 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
32172193 GGTATAGCAG
32172203 GATCACCACATGCCCAAATCT
1 GATCACCACATGCCCAAATCT
** * *
32172224 GATCACTTCATGCCCTATTCT
1 GATCACCACATGCCCAAATCT
32172245 GATCA
1 GATCA
32172250 ATATTTGAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.34, G:0.11, T:0.28
Consensus pattern (21 bp):
GATCACCACATGCCCAAATCT
Found at i:32172392 original size:20 final size:20
Alignment explanation
Indices: 32172344--32172391 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
32172334 CATTTTTACG
32172344 TTTTCA-TTTTT--TTCATT
1 TTTTCATTTTTTCATTCATT
32172361 TTTTCATTTTTTCATTCATT
1 TTTTCATTTTTTCATTCATT
32172381 TTTT-ATTTTTT
1 TTTTCATTTTTT
32172392 TTGACTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.21
18 5 0.18
19 7 0.25
20 10 0.36
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTCATTTTTTCATTCATT
Found at i:32172393 original size:9 final size:9
Alignment explanation
Indices: 32172344--32172392 Score: 57
Period size: 8 Copynumber: 5.4 Consensus size: 9
32172334 CATTTTTACG
32172344 TTTTCATTT
1 TTTTCATTT
32172353 TTTTCA-TT
1 TTTTCATTT
32172361 TTTTCA-TT
1 TTTTCATTT
32172369 TTTTCATTCAT
1 TTTTCATT--T
*
32172380 TTTTTATTT
1 TTTTCATTT
32172389 TTTT
1 TTTT
32172393 TGACTCAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 16 0.44
9 12 0.33
11 8 0.22
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTCATTT
Found at i:32173276 original size:23 final size:21
Alignment explanation
Indices: 32173250--32173313 Score: 85
Period size: 23 Copynumber: 2.9 Consensus size: 21
32173240 TTTTCTCTTA
32173250 TTTTTGACTTTGATTTTTTTGAT
1 TTTTTGA-TTTGATTTTTTT-AT
32173273 TTTTTGA-TTGATTTTTTTAT
1 TTTTTGATTTGATTTTTTTAT
32173293 TTGATTTGATTTGATTTTTTT
1 TT--TTTGATTTGATTTTTTT
32173314 TTGTTTTTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.11
21 11 0.29
22 5 0.13
23 18 0.47
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (21 bp):
TTTTTGATTTGATTTTTTTAT
Found at i:32173280 original size:17 final size:17
Alignment explanation
Indices: 32173258--32173312 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
32173248 TATTTTTGAC
32173258 TTTGATTTTTTTGATTT
1 TTTGATTTTTTTGATTT
*
32173275 TTTGATTGATTTTT--TTA
1 TTTGATT--TTTTTGATTT
*
32173292 TTTGATTTGATTTGATTT
1 TTTGATTT-TTTTGATTT
32173310 TTT
1 TTT
32173313 TTTGTTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
15 1 0.03
16 3 0.10
17 16 0.53
18 5 0.17
19 5 0.17
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.73
Consensus pattern (17 bp):
TTTGATTTTTTTGATTT
Found at i:32173283 original size:12 final size:13
Alignment explanation
Indices: 32173267--32173312 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
32173257 CTTTGATTTT
32173267 TTTGATTTTTTGA
1 TTTGATTTTTTGA
*
32173280 -TTGATTTTTTTA
1 TTTGATTTTTTGA
32173292 TTTGA---TTTGA
1 TTTGATTTTTTGA
32173302 TTTGATTTTTT
1 TTTGATTTTTT
32173313 TTTGTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 9 0.33
12 11 0.41
13 7 0.26
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (13 bp):
TTTGATTTTTTGA
Found at i:32173283 original size:27 final size:26
Alignment explanation
Indices: 32173263--32173315 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
32173253 TTGACTTTGA
32173263 TTTT-TTTGATTT-TTTGATTGATTT
1 TTTTATTTGATTTATTTGATTGATTT
32173287 TTTTATTTGATTTGATTTGATT--TTT
1 TTTTATTTGATTT-ATTTGATTGATTT
32173312 TTTT
1 TTTT
32173316 GTTTTTCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.15
25 15 0.58
27 7 0.27
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.75
Consensus pattern (26 bp):
TTTTATTTGATTTATTTGATTGATTT
Found at i:32173316 original size:21 final size:21
Alignment explanation
Indices: 32173252--32173316 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
32173242 TTCTCTTATT
*
32173252 TTTGACTTTGATTTTTTTGATT-T
1 TTTGA-TTTGATTTTTTT--TTGA
32173275 TTTGA-TTGATTTTTTTATTTGA
1 TTTGATTTGA-TTTTTT-TTTGA
32173297 TTTGATTTGATTTTTTTTTG
1 TTTGATTTGATTTTTTTTTG
32173317 TTTTTCGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
21 10 0.27
22 17 0.46
23 10 0.27
ACGTcount: A:0.14, C:0.02, G:0.14, T:0.71
Consensus pattern (21 bp):
TTTGATTTGATTTTTTTTTGA
Done.