Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 39 of 332
Found at i:11940219 original size:15 final size:15
Alignment explanation
Indices: 11940199--11940253 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
11940189 GTCTGCTTTA
11940199 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
*
11940214 TGTTTCTGTACCATGTTT-
1 TGTTTC--T-CTAT-TTTC
11940232 TGTTTCTCTATTTTC
1 TGTTTCTCTATTTTC
11940247 TGTTTCT
1 TGTTTCT
11940254 GTACCATGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 3 0.09
15 16 0.48
16 1 0.03
17 1 0.03
18 9 0.27
19 3 0.09
ACGTcount: A:0.07, C:0.18, G:0.11, T:0.64
Consensus pattern (15 bp):
TGTTTCTCTATTTTC
Found at i:11940236 original size:33 final size:33
Alignment explanation
Indices: 11940199--11940333 Score: 176
Period size: 33 Copynumber: 4.3 Consensus size: 33
11940189 GTCTGCTTTA
11940199 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
11940232 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
* * *
11940265 TGTTCCT-TATTTTCTGTAGT-GGT----T-TTT
1 TGTTTCTCTATTTTCTGT-TTCTGTACCATGTTT
11940292 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
1 TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
*
11940325 TGTTCCTCT
1 TGTTTCTCT
11940334 TGCCATTTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
27 10 0.11
28 13 0.15
32 13 0.15
33 51 0.59
ACGTcount: A:0.08, C:0.18, G:0.13, T:0.61
Consensus pattern (33 bp):
TGTTTCTCTATTTTCTGTTTCTGTACCATGTTT
Found at i:11940237 original size:18 final size:18
Alignment explanation
Indices: 11940214--11940268 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
11940204 CTCTATTTTC
11940214 TGTTTCTGTACCATGTTT
1 TGTTTCTGTACCATGTTT
*
11940232 TGTTTC--T-CTAT-TTT
1 TGTTTCTGTACCATGTTT
11940246 CTGTTTCTGTACCATGTTT
1 -TGTTTCTGTACCATGTTT
11940265 TGTT
1 TGTT
11940269 CCTTATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 9 0.30
16 1 0.03
17 1 0.03
18 13 0.43
19 3 0.10
ACGTcount: A:0.09, C:0.16, G:0.15, T:0.60
Consensus pattern (18 bp):
TGTTTCTGTACCATGTTT
Found at i:11940265 original size:20 final size:20
Alignment explanation
Indices: 11940209--11940265 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 20
11940199 TGTTTCTCTA
11940209 TTTTCTGTTTCTGTACCATG
1 TTTTCTGTTTCTGTACCATG
*
11940229 -TTT-TGTTTC--T--C-TA
1 TTTTCTGTTTCTGTACCATG
11940242 TTTTCTGTTTCTGTACCATG
1 TTTTCTGTTTCTGTACCATG
11940262 TTTT
1 TTTT
11940266 GTTCCTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
13 1 0.04
14 4 0.14
15 6 0.21
16 1 0.04
17 1 0.04
18 6 0.21
19 4 0.14
20 5 0.18
ACGTcount: A:0.09, C:0.18, G:0.12, T:0.61
Consensus pattern (20 bp):
TTTTCTGTTTCTGTACCATG
Found at i:11941431 original size:21 final size:22
Alignment explanation
Indices: 11941405--11941460 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
11941395 AGTTTCCCCC
11941405 GTTTGCAGTGGCTATACAA-TT
1 GTTTGCAGTGGCTATACAATTT
*
11941426 GTTTGCAGTGGCTATATAATTT
1 GTTTGCAGTGGCTATACAATTT
*
11941448 ATTTGCAGTGGCT
1 GTTTGCAGTGGCT
11941461 CCATCTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.41
Consensus pattern (22 bp):
GTTTGCAGTGGCTATACAATTT
Found at i:11944642 original size:18 final size:17
Alignment explanation
Indices: 11944614--11944648 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11944604 ATTATTAAGA
*
11944614 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11944631 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11944649 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11944669 original size:120 final size:120
Alignment explanation
Indices: 11944523--11945025 Score: 988
Period size: 120 Copynumber: 4.2 Consensus size: 120
11944513 TTTTCAAGTT
*
11944523 ATATATTTAATAATTATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
11944588 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
11944643 ATATATTTAATAATAATTATGTTAATTTATATTTTGCAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
11944708 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
11944763 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
11944828 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
11944883 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
11944948 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
11945003 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
11945026 TAAATATGAT
Statistics
Matches: 380, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 380 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:11944762 original size:18 final size:17
Alignment explanation
Indices: 11944734--11944768 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11944724 ATTATTAAGA
*
11944734 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11944751 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11944769 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11944882 original size:18 final size:17
Alignment explanation
Indices: 11944854--11944888 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11944844 ATTATTAAGA
*
11944854 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11944871 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11944889 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11945002 original size:18 final size:17
Alignment explanation
Indices: 11944974--11945008 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11944964 ATTATTAAGA
*
11944974 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
11944991 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
11945009 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:11945265 original size:16 final size:16
Alignment explanation
Indices: 11945244--11945311 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
11945234 GATTTGCTAT
11945244 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11945260 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
11945276 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
11945292 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
11945308 TACA
1 TACA
11945312 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:11947642 original size:63 final size:63
Alignment explanation
Indices: 11947567--11947729 Score: 238
Period size: 63 Copynumber: 2.6 Consensus size: 63
11947557 TGAGCCACAC
* * * * *
11947567 GGCCGTGTAACTCGCTATTTTAGAATTAGAGTCACACGGGCCAGGGACATGGGCGTGTGTCCA
1 GGCCGTGTAACTCACTATTTTAGAATTAGAGTCACACGGCCCAGGGACAAGAGCATGTGTCCA
* * *
11947630 GGCTGTGTAACTCACTATTTTGGAATTTGAGTCACACGGCCCAGGGACAAGAGCATGTGTCCA
1 GGCCGTGTAACTCACTATTTTAGAATTAGAGTCACACGGCCCAGGGACAAGAGCATGTGTCCA
11947693 GGCCGTGTAACTCAACT-TTTTAGAATTAGAGTCACAC
1 GGCCGTGTAACTC-ACTATTTTAGAATTAGAGTCACAC
11947730 AAGCGTGTGC
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
63 85 0.97
64 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (63 bp):
GGCCGTGTAACTCACTATTTTAGAATTAGAGTCACACGGCCCAGGGACAAGAGCATGTGTCCA
Found at i:11948391 original size:12 final size:12
Alignment explanation
Indices: 11948374--11948406 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11948364 CCAGCCACAC
11948374 ATATTAATTTTT
1 ATATTAATTTTT
11948386 ATATT-ATTTTT
1 ATATTAATTTTT
11948397 ATA-TAATTTT
1 ATATTAATTTT
11948407 CAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11948568 original size:30 final size:30
Alignment explanation
Indices: 11948534--11948596 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11948524 ACTTAACAAG
11948534 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
11948564 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
11948594 CAA
1 CAA
11948597 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:11950773 original size:133 final size:136
Alignment explanation
Indices: 11950531--11950775 Score: 286
Period size: 133 Copynumber: 1.8 Consensus size: 136
11950521 GGAAATTGCT
* * * * *
11950531 ACCCAGCACGATAGGGTACTATTCCCCGAATTGCCAAACATCGAACACTTCTTTCGTTTTAAATG
1 ACCCAGCACGATAGGGTACGATTCCCCAAATCGCCAAACATCGAACACTCCTTTCGTTTTAAATA
* * * * *
11950596 GCTTTTAGAAAACGTGAATGAAATTCCGAAGGGATCTTCAATTGTTTAGACCAAATGAAAAAAAA
66 GCTTTTAGAAAACATGAATGAAATACCAAAGGAATATTCAATTGTTTAGACCAAATGAAAAAAAA
11950661 AGCGCA
131 AGCGCA
*
11950667 ACCCAGCACGATAGGGTACGATT-CTCAAATCGCCAAACATCGAACA-TCCTTT-GTTTTGAAA-
1 ACCCAGCACGATAGGGTACGATTCCCCAAATCGCCAAACATCGAACACTCCTTTCGTTTT-AAAT
* * * *
11950728 AGTTTTTA-ATAAATATGAGTGAAA-ACCTAAAGGAATATTCGATTGTTT
65 AGCTTTTAGA-AAACATGAATGAAATACC-AAAGGAATATTCAATTGTTT
11950776 TGAGCAAACG
Statistics
Matches: 91, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
132 3 0.03
133 38 0.42
134 8 0.09
135 20 0.22
136 22 0.24
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (136 bp):
ACCCAGCACGATAGGGTACGATTCCCCAAATCGCCAAACATCGAACACTCCTTTCGTTTTAAATA
GCTTTTAGAAAACATGAATGAAATACCAAAGGAATATTCAATTGTTTAGACCAAATGAAAAAAAA
AGCGCA
Found at i:11951752 original size:19 final size:21
Alignment explanation
Indices: 11951728--11951771 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
11951718 TAAAATGGGT
*
11951728 AATAAATAAA-AAATTTTAA-
1 AATAAATAAATAAAGTTTAAG
11951747 AATAAATAAATAAAGTTTAAG
1 AATAAATAAATAAAGTTTAAG
11951768 AATA
1 AATA
11951772 TATTTATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 8 0.36
21 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AATAAATAAATAAAGTTTAAG
Found at i:11951903 original size:34 final size:33
Alignment explanation
Indices: 11951864--11951928 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
11951854 GATATATGAA
*
11951864 TAATATATATAAAAAAG-TTAAAGATAGATAATGT
1 TAATATATACAAAAAAGTTTAAA-ATA-ATAATGT
*
11951898 TAATATATACATAAAAGTTTAAAATAATAAT
1 TAATATATACAAAAAAGTTTAAAATAATAAT
11951929 ATACAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 5 0.18
34 18 0.64
35 5 0.18
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (33 bp):
TAATATATACAAAAAAGTTTAAAATAATAATGT
Found at i:11952083 original size:19 final size:19
Alignment explanation
Indices: 11952056--11952102 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11952046 TTAATACAAA
* * *
11952056 GTTTAAAATAACTAAAATG
1 GTTTTAAATAAATAAAAAG
11952075 GTTTTAAATAAATAAAAAG
1 GTTTTAAATAAATAAAAAG
11952094 G-TTTAAATA
1 GTTTTAAATA
11952103 TATACGAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (19 bp):
GTTTTAAATAAATAAAAAG
Found at i:11953800 original size:131 final size:131
Alignment explanation
Indices: 11953564--11954105 Score: 836
Period size: 131 Copynumber: 4.1 Consensus size: 131
11953554 GCGGCTTCGA
* * * *
11953564 GGAGATAAGACCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGA-TGGTGGATT
1 GGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACT--T-GCTT
*
11953628 AAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTGCAACT
63 AAATCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACT
11953693 TCAG
128 TCAG
* * *
11953697 GGAGACAAGATGTACAATATTTAGCCTACTTCACTACAACTTTAGGGAGCTAGGACTTGCTTAAA
1 GGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAA
*
11953762 TCTGATTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACTTCA
66 TCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACTTCA
11953827 G
131 G
*
11953828 GGAGACAAGATCTACAATATTCAGCCTACTCCACTACATCTTTAGGGAGCTAGGACTTGCTTAAA
1 GGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAA
* * ** *
11953893 TCTGCTTCATTGCAACTTCAAGAAGCCAAGATTCGTCGTCTTCGATTCACCCCACTATAACATT-
66 TCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAAC-TTC
11953957 AG
130 AG
* * *
11953959 GGAGACAAGATCTACAATATCCAGTCTACTCCACTACATCTTTAGGGAGCTAGGACTTGCTTAAA
1 GGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAA
* * * *
11954024 TCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGACGTCTTTGATTTGCCCCACTGCAACTTCA
66 TCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACTTCA
11954089 G
131 G
11954090 GGAGACAAGATCTACA
1 GGAGACAAGATCTACA
11954106 TTCTGTTTCA
Statistics
Matches: 376, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
130 2 0.01
131 321 0.85
132 3 0.01
133 49 0.13
134 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (131 bp):
GGAGACAAGATCTACAATATTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGACTTGCTTAAA
TCTGCTTCACTGCAACTTCAGGAAGCCAAGATTCGTCGTCTTCGATTTGCCCCACTACAACTTCA
G
Found at i:11955922 original size:16 final size:15
Alignment explanation
Indices: 11955901--11955933 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
11955891 CTAATCTCCC
11955901 TTTTTTCTTTTTCTTT
1 TTTTTTCTTTTT-TTT
11955917 TTTTTTCTTTTTTTT
1 TTTTTTCTTTTTTTT
11955932 TT
1 TT
11955934 GAAGTTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTTTCTTTTTTTT
Found at i:11955927 original size:9 final size:10
Alignment explanation
Indices: 11955903--11955932 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
11955893 AATCTCCCTT
11955903 TTTTCTTTTTC
1 TTTT-TTTTTC
11955914 TTTTTTTTTC
1 TTTTTTTTTC
11955924 TTTTTTTTT
1 TTTTTTTTT
11955933 TGAAGTTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:11956673 original size:43 final size:42
Alignment explanation
Indices: 11956624--11956709 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 42
11956614 AAAGAATGAT
* * ** *
11956624 TCTAAGGATGATTATTTGTATGGTATGATCATGAATAAAAGAA
1 TCTAAGGATAATCATTTGTACAGTATGA-AATGAATAAAAGAA
11956667 TCTAAGGATAATCATTTGTACAGTATGAAATGAATAAAAGAA
1 TCTAAGGATAATCATTTGTACAGTATGAAATGAATAAAAGAA
11956709 T
1 T
11956710 ATTTACTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
42 14 0.37
43 24 0.63
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.33
Consensus pattern (42 bp):
TCTAAGGATAATCATTTGTACAGTATGAAATGAATAAAAGAA
Found at i:11957975 original size:19 final size:20
Alignment explanation
Indices: 11957946--11957995 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
11957936 TTGGGAAACT
11957946 CTAAT-CAAATGATGCAATG
1 CTAATGCAAATGATGCAATG
11957965 -TAATGCAAATGATGCAATG
1 CTAATGCAAATGATGCAATG
*
11957984 CAAATGCAAATG
1 CTAATGCAAATG
11957996 CATGGGCTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 4 0.14
19 14 0.50
20 10 0.36
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (20 bp):
CTAATGCAAATGATGCAATG
Found at i:11961105 original size:19 final size:19
Alignment explanation
Indices: 11961078--11961124 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11961068 TTAATACAAA
* * *
11961078 GTTTAAAATAACTAAAATG
1 GTTTTAAATAAATAAAAAG
11961097 GTTTTAAATAAATAAAAAG
1 GTTTTAAATAAATAAAAAG
11961116 G-TTTAAATA
1 GTTTTAAATA
11961125 TATACGAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (19 bp):
GTTTTAAATAAATAAAAAG
Found at i:11962417 original size:18 final size:18
Alignment explanation
Indices: 11962402--11962454 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 18
11962392 TATAAAATGA
11962402 AATAATTATTTCAAATAT
1 AATAATTATTTCAAATAT
* * *
11962420 AATTATTATTTTTATATAT
1 AATAATTA-TTTCAAATAT
11962439 AA-AA-TATTTCAAATAT
1 AATAATTATTTCAAATAT
11962455 CATTGTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
16 8 0.29
17 2 0.07
18 8 0.29
19 10 0.36
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (18 bp):
AATAATTATTTCAAATAT
Found at i:11964216 original size:20 final size:20
Alignment explanation
Indices: 11964193--11964234 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
11964183 ATTAAAATTG
11964193 ATATCCTAA-AACTAAAAATA
1 ATAT-CTAATAACTAAAAATA
* *
11964213 ATATTTAATAACTAAAATTA
1 ATATCTAATAACTAAAAATA
11964233 AT
1 AT
11964235 CAAACTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATCTAATAACTAAAAATA
Found at i:11973966 original size:68 final size:68
Alignment explanation
Indices: 11973857--11973992 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
11973847 TTTCGAAGTT
11973857 GTCCCATAGATCAAATTCTTTTTCACCTTAAACTTTCACCCTTACAACTTTATCTTTGGGATATT
1 GTCCCATAGATCAAATTCTTTTTCACCTTAAACTTTCACCCTTACAACTTTATCTTTGGGATATT
11973922 GAA
66 GAA
11973925 GTCCCATAGATCAAATTCTTTTTCACCTTAAACTTTCACCCTTACAACTTTATCTTTGGGATATT
1 GTCCCATAGATCAAATTCTTTTTCACCTTAAACTTTCACCCTTACAACTTTATCTTTGGGATATT
11973990 GAA
66 GAA
11973993 AGATTCAATC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (68 bp):
GTCCCATAGATCAAATTCTTTTTCACCTTAAACTTTCACCCTTACAACTTTATCTTTGGGATATT
GAA
Found at i:11974702 original size:21 final size:21
Alignment explanation
Indices: 11974678--11974732 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
11974668 TCTGCTGCCA
11974678 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
* *
11974699 TCGCTGTTGCCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
**
11974720 TCTTTGCTGCCTC
1 TCGCTGCTGCCTC
11974733 CACTCTGAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.20, T:0.33
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:11980996 original size:37 final size:37
Alignment explanation
Indices: 11980946--11981024 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
11980936 TTATTACGAA
* *
11980946 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
11980983 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
11981020 GTCTT
1 GTCTT
11981025 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:11981220 original size:47 final size:47
Alignment explanation
Indices: 11981142--11981677 Score: 928
Period size: 47 Copynumber: 11.4 Consensus size: 47
11981132 CCCTTCGGGA
* * * * * * *
11981142 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
11981189 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
11981236 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
11981283 CTTATTACATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11981330 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
11981377 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11981424 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
11981471 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11981518 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11981565 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
11981612 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11981659 CTTATCACATATATACACT
1 CTTATCACATATATACACT
11981678 GTCTTGGCTG
Statistics
Matches: 465, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 465 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:11983906 original size:9 final size:9
Alignment explanation
Indices: 11983888--11984052 Score: 82
Period size: 9 Copynumber: 19.0 Consensus size: 9
11983878 TAAGTATAAT
11983888 TAAGTTATG
1 TAAGTTATG
*
11983897 TAAGTCATG
1 TAAGTTATG
11983906 T-A-TTATG
1 TAAGTTATG
11983913 TAAGTTATG
1 TAAGTTATG
11983922 T-A-TTATG
1 TAAGTTATG
11983929 TAAGTTATG
1 TAAGTTATG
*
11983938 TAAATTATG
1 TAAGTTATG
* *
11983947 TAAATCATG
1 TAAGTTATG
* *
11983956 -AATTTTGATCTT
1 TAA-GTT-A--TG
*
11983968 TAAATTATG
1 TAAGTTATG
11983977 TAAGTTATG
1 TAAGTTATG
11983986 T-A-TTATG
1 TAAGTTATG
11983993 TAAGTTATG
1 TAAGTTATG
*
11984002 -AAATT-TG
1 TAAGTTATG
* **
11984009 -AACTTTAAA
1 TAA-GTTATG
*
11984018 TTA-TTATG
1 TAAGTTATG
11984026 TAAGTTATG
1 TAAGTTATG
*
11984035 TAAATTATG
1 TAAGTTATG
*
11984044 TAACTTATG
1 TAAGTTATG
11984053 AAATTTGGTC
Statistics
Matches: 121, Mismatches: 20, Indels: 30
0.71 0.12 0.18
Matches are distributed among these distances:
7 21 0.17
8 19 0.16
9 73 0.60
10 2 0.02
11 1 0.01
12 3 0.02
13 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:11983998 original size:16 final size:16
Alignment explanation
Indices: 11983892--11984001 Score: 107
Period size: 16 Copynumber: 6.9 Consensus size: 16
11983882 TATAATTAAG
*
11983892 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
11983908 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
11983924 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
* * *
11983942 TTATGTAAATCATGAA
1 TTATGTAAGTTATGTA
* ** **
11983958 TTTTG-ATCTT-TAAA
1 TTATGTAAGTTATGTA
11983972 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
11983988 TTATGTAAGTTATG
1 TTATGTAAGTTATG
11984002 AAATTTGAAC
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
14 7 0.09
15 5 0.07
16 51 0.67
18 13 0.17
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:11984100 original size:30 final size:30
Alignment explanation
Indices: 11984036--11984102 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
11984026 TAAGTTATGT
** *
11984036 AAATTATGTAACTTATGAAATTTGGTCTTT
1 AAATTATGTAACTTATGAAATTTGAACTTC
*
11984066 AAATTATGTAAGTTATGAAATTTGAACTTC
1 AAATTATGTAACTTATGAAATTTGAACTTC
11984096 AAATTAT
1 AAATTAT
11984103 TATGTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (30 bp):
AAATTATGTAACTTATGAAATTTGAACTTC
Found at i:11984115 original size:9 final size:9
Alignment explanation
Indices: 11984101--11984235 Score: 59
Period size: 9 Copynumber: 14.8 Consensus size: 9
11984091 ACTTCAAATT
11984101 ATTATGTAA
1 ATTATGTAA
11984110 ATTATGTAA
1 ATTATGTAA
*
11984119 CTTATG-AA
1 ATTATGTAA
*
11984127 ATTTGATCTTTAA
1 A-TT-A--TGTAA
11984140 ATTATGTAA
1 ATTATGTAA
*
11984149 GTTATGT--
1 ATTATGTAA
*
11984156 ATCATGTAA
1 ATTATGTAA
*
11984165 GTTATG-AA
1 ATTATGTAA
*
11984173 ATTTGATCTTTAA
1 A-TT-A--TGTAA
11984186 ATTATGTAA
1 ATTATGTAA
* *
11984195 GTCATGT--
1 ATTATGTAA
11984202 ATTATGTAA
1 ATTATGTAA
*
11984211 GTTCA-GTAA
1 ATT-ATGTAA
11984220 ATTATGTAA
1 ATTATGTAA
11984229 ATTATGT
1 ATTATGT
11984236 GAGTTGCTGG
Statistics
Matches: 92, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
7 10 0.11
8 5 0.05
9 60 0.65
10 3 0.03
11 2 0.02
12 6 0.07
13 6 0.07
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.45
Consensus pattern (9 bp):
ATTATGTAA
Found at i:11984155 original size:81 final size:81
Alignment explanation
Indices: 11983981--11984156 Score: 209
Period size: 81 Copynumber: 2.2 Consensus size: 81
11983971 ATTATGTAAG
* *
11983981 TTATGT-ATTATGTAAGTTATGAAATTTGAACTTTAAATTATTATGTAAGTTATGTAAATTATGT
1 TTATGTAATTATGTAAGTTATGAAATTTGAACTTCAAATTATTATGTAAATTATGTAAATTATGT
* **
11984045 AACTTATGAAATTTGG
66 AAATTATGAAATTTAA
*
11984061 TCT-T-TAAATTATGTAAGTTATGAAATTTGAACTTCAAATTATTATGTAAATTATGTAACTTAT
1 T-TATGT-AATTATGTAAGTTATGAAATTTGAACTTCAAATTATTATGTAAATTATGTAAATTAT
**
11984124 G-AAATT-TGATCTTTAAA
64 GTAAATTATGAAATTT-AA
11984141 TTATGTAAGTTATGTA
1 TTATGTAA-TTATGTA
11984157 TCATGTAAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
79 8 0.10
80 10 0.12
81 63 0.78
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (81 bp):
TTATGTAATTATGTAAGTTATGAAATTTGAACTTCAAATTATTATGTAAATTATGTAAATTATGT
AAATTATGAAATTTAA
Found at i:11984174 original size:46 final size:46
Alignment explanation
Indices: 11984068--11984213 Score: 201
Period size: 46 Copynumber: 3.3 Consensus size: 46
11984058 TGGTCTTTAA
* * * *
11984068 ATTATGTAAGTTATGAAATTTGAACTTCAAATTAT-TATG-TA--A
1 ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
*
11984110 ATTATGTAACTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
1 ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
* *
11984156 ATCATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTCATGT
1 ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
11984202 ATTATGTAAGTT
1 ATTATGTAAGTT
11984214 CAGTAAATTA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
42 32 0.35
43 3 0.03
44 2 0.02
46 54 0.59
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (46 bp):
ATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGT
Found at i:11985697 original size:14 final size:13
Alignment explanation
Indices: 11985678--11985707 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
11985668 CAATATAATT
11985678 TTACTTCATATATA
1 TTACTTCATATA-A
11985692 TTACTTCATATAA
1 TTACTTCATATAA
11985705 TTA
1 TTA
11985708 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:11988701 original size:28 final size:28
Alignment explanation
Indices: 11988650--11988746 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
11988640 CAAAACTCTA
*
11988650 AACCTTAAACCATTAAACTATATCCCCAT
1 AACCTTAAACCACTAAACTATATCCCC-T
11988679 AACCTTAAACC-CTAAACTATATCCCCT
1 AACCTTAAACCACTAAACTATATCCCCT
* * * *
11988706 AACCATAAACCACAAAACAATAACCCCT
1 AACCTTAAACCACTAAACTATATCCCCT
11988734 AAGCCTT-AACCAC
1 AA-CCTTAAACCAC
11988747 AAAATGTATG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 11 0.18
28 35 0.58
29 14 0.23
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (28 bp):
AACCTTAAACCACTAAACTATATCCCCT
Found at i:11988883 original size:100 final size:100
Alignment explanation
Indices: 11988768--11989109 Score: 279
Period size: 100 Copynumber: 3.4 Consensus size: 100
11988758 ATTAATCATA
11988768 ACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACACTAATTAATCAATACTCTAA
1 ACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACACTAATTAATCAATACTCTAA
*
11988833 ACCTTAAACCATTAAACTATATCCCCTACTAACGT
66 ACCTTAAACCACTAAACTATATCCCCTACTAACGT
* * * * * * * * *
11988868 ACCTTAAACTATATCCGTTAAACCCTGAACTATATCCCCTAACCATAA-ACCACAAAATAAT-AA
1 ACCCTAAACTATATCCCTT-AATCCT----TA-AACCAC-AA-AATAATAACACTAATTAATCAA
* * * * * ** * *
11988931 -CCCCTAAGCCTT-AACCACCAAA-TGTAT---GAATTAATCAT
58 TACTCTAAACCTTAAACCACTAAACTATATCCCCTACTAA-CGT
* * *
11988969 AACCCTAAACTATAT-CCTCTGATTCTTAAATCACAAAATAATAACACTAATTAATCAATACTCT
1 -ACCCTAAACTATATCCCT-TAATCCTTAAACCACAAAATAATAACACTAATTAATCAATACTCT
* * *
11989033 AAACCTTAATCCAGTAAACTATATCCCCTACTAAAGT
64 AAACCTTAAACCACTAAACTATATCCCCTACTAACGT
* *
11989070 ACCCTAAACTATATCCCGTAAACCTTAAACCACAAAATAA
1 ACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAA
11989110 AAACCCCTAA
Statistics
Matches: 174, Mismatches: 48, Indels: 40
0.66 0.18 0.15
Matches are distributed among these distances:
94 4 0.02
95 12 0.07
96 5 0.03
97 11 0.06
98 7 0.04
99 4 0.02
100 53 0.30
101 15 0.09
102 18 0.10
103 4 0.02
104 8 0.05
105 11 0.06
106 6 0.03
107 12 0.07
108 4 0.02
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (100 bp):
ACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACACTAATTAATCAATACTCTAA
ACCTTAAACCACTAAACTATATCCCCTACTAACGT
Found at i:11989029 original size:202 final size:203
Alignment explanation
Indices: 11988683--11989099 Score: 705
Period size: 202 Copynumber: 2.1 Consensus size: 203
11988673 CCCCATAACC
11988683 TTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCTTAACCACA
1 TTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCTTAACCACA
11988748 AAATGTATGAATTAATCATAACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACA
66 AAATGTATGAATTAATCATAACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACA
* * *
11988813 CTAATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCCCTACTAACGTACCTTAAACT
131 CTAATTAATCAATACTCTAAACCTTAAACCAGTAAACTATATCCCCTACTAAAGTACCCTAAACT
11988878 ATAT-CCG
196 ATATCCCG
* * *
11988885 TTAAACCCTGAACTATATCCCCTAACCATAAACCACAAAATAATAACCCCTAAGCCTTAACCACC
1 TTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCTTAACCACA
* * *
11988950 AAATGTATGAATTAATCATAACCCTAAACTATAT-CCTCTGATTCTTAAATCACAAAATAATAAC
66 AAATGTATGAATTAATCATAACCCTAAACTATATCCCT-TAATCCTTAAACCACAAAATAATAAC
*
11989014 ACTAATTAATCAATACTCTAAACCTTAATCCAGTAAACTATATCCCCTACTAAAGTACCCTAAAC
130 ACTAATTAATCAATACTCTAAACCTTAAACCAGTAAACTATATCCCCTACTAAAGTACCCTAAAC
11989079 TATATCCCG
195 TATATCCCG
*
11989088 -TAAACCTTAAAC
1 TTAAACCCTAAAC
11989100 CACAAAATAA
Statistics
Matches: 201, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
201 3 0.01
202 195 0.97
203 3 0.01
ACGTcount: A:0.43, C:0.28, G:0.03, T:0.26
Consensus pattern (203 bp):
TTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAGCCTTAACCACA
AAATGTATGAATTAATCATAACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACA
CTAATTAATCAATACTCTAAACCTTAAACCAGTAAACTATATCCCCTACTAAAGTACCCTAAACT
ATATCCCG
Found at i:11989152 original size:7 final size:7
Alignment explanation
Indices: 11989140--11989206 Score: 73
Period size: 7 Copynumber: 9.4 Consensus size: 7
11989130 CTAAACCATT
11989140 TAACCCA
1 TAACCCA
11989147 TAACCCA
1 TAACCCA
11989154 TAACCCA
1 TAACCCA
*
11989161 TAAACCCC
1 T-AACCCA
11989169 TAA-CCA
1 TAACCCA
11989175 CTAACCCA
1 -TAACCCA
*
11989183 TAACCCT
1 TAACCCA
*
11989190 TAAACCA
1 TAACCCA
*
11989197 TAAGCCA
1 TAACCCA
11989204 TAA
1 TAA
11989207 ACATAATCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
6 2 0.04
7 40 0.78
8 9 0.18
ACGTcount: A:0.43, C:0.39, G:0.01, T:0.16
Consensus pattern (7 bp):
TAACCCA
Found at i:11989207 original size:14 final size:14
Alignment explanation
Indices: 11989124--11989237 Score: 81
Period size: 14 Copynumber: 7.9 Consensus size: 14
11989114 CCCTAAGCAT
*
11989124 TAACCCCTAAACCA
1 TAACCCATAAACCA
*
11989138 TTTAACCCATAACCCA
1 --TAACCCATAAACCA
*
11989154 TAACCCATAAACCCC
1 TAACCCATAAA-CCA
*
11989169 TAA-CCACTAACCCA
1 TAACCCA-TAAACCA
*
11989183 TAACCCTTAAACCA
1 TAACCCATAAACCA
*
11989197 TAAGCCATAAA-CA
1 TAACCCATAAACCA
* *
11989210 TAATCCTTAAACCCA
1 TAACCCATAAA-CCA
11989225 TAAACCC-TAAACC
1 T-AACCCATAAACC
11989238 TTTAAATAGT
Statistics
Matches: 79, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
13 11 0.14
14 35 0.44
15 17 0.22
16 16 0.20
ACGTcount: A:0.43, C:0.38, G:0.01, T:0.18
Consensus pattern (14 bp):
TAACCCATAAACCA
Found at i:11989237 original size:7 final size:8
Alignment explanation
Indices: 11989141--11989237 Score: 56
Period size: 7 Copynumber: 13.5 Consensus size: 8
11989131 TAAACCATTT
11989141 AACCCAT-
1 AACCCATA
11989148 AACCCAT-
1 AACCCATA
11989155 AACCCATA
1 AACCCATA
*
11989163 AACCCCT-
1 AACCCATA
11989170 AA-CCACT-
1 AACCCA-TA
11989177 AACCCAT-
1 AACCCATA
*
11989184 AACCCTTA
1 AACCCATA
11989192 AA-CCAT-
1 AACCCATA
*
11989198 AAGCCATA
1 AACCCATA
11989206 AA--CAT-
1 AACCCATA
* *
11989211 AATCCTTA
1 AACCCATA
11989219 AACCCATA
1 AACCCATA
11989227 AACCC-TA
1 AACCCATA
11989234 AACC
1 AACC
11989238 TTTAAATAGT
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
5 2 0.03
6 7 0.09
7 41 0.55
8 24 0.32
ACGTcount: A:0.44, C:0.38, G:0.01, T:0.16
Consensus pattern (8 bp):
AACCCATA
Found at i:11990423 original size:15 final size:14
Alignment explanation
Indices: 11990405--11990444 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
11990395 ATTTAGATGT
11990405 TTAAAATTTTGATTA
1 TTAAAATTTTG-TTA
*
11990420 TTAAATTTTTGTTA
1 TTAAAATTTTGTTA
11990434 TTAAATATTTT
1 TTAAA-ATTTT
11990445 TAAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (14 bp):
TTAAAATTTTGTTA
Found at i:11992963 original size:30 final size:30
Alignment explanation
Indices: 11992928--11992996 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
11992918 ACTATAAGGG
11992928 ACACACGGCCATGCTACCTGGCCATGTGTC
1 ACACACGGCCATGCTACCTGGCCATGTGTC
11992958 ACACACGGCCATGCTACCTGGCCATGTGTC
1 ACACACGGCCATGCTACCTGGCCATGTGTC
11992988 ACACACGGC
1 ACACACGGC
11992997 TGAGACACAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.22, C:0.38, G:0.23, T:0.17
Consensus pattern (30 bp):
ACACACGGCCATGCTACCTGGCCATGTGTC
Found at i:11992969 original size:17 final size:17
Alignment explanation
Indices: 11992947--11992996 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
11992937 CATGCTACCT
11992947 GGCCATGTGTCACACAC
1 GGCCATGTGTCACACAC
* *
11992964 GGCCATG-CT-AC-C-T
1 GGCCATGTGTCACACAC
11992977 GGCCATGTGTCACACAC
1 GGCCATGTGTCACACAC
11992994 GGC
1 GGC
11992997 TGAGACACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
13 7 0.28
14 2 0.08
15 4 0.16
16 2 0.08
17 10 0.40
ACGTcount: A:0.20, C:0.36, G:0.26, T:0.18
Consensus pattern (17 bp):
GGCCATGTGTCACACAC
Found at i:12001462 original size:11 final size:11
Alignment explanation
Indices: 12001446--12001470 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12001436 TTCTGGGCTC
12001446 AAACCAAAAAT
1 AAACCAAAAAT
12001457 AAACCAAAAAT
1 AAACCAAAAAT
12001468 AAA
1 AAA
12001471 AAATAACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (11 bp):
AAACCAAAAAT
Found at i:12002723 original size:4 final size:4
Alignment explanation
Indices: 12002708--12002738 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
12002698 TTATATTTGT
*
12002708 TTTA TCTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
12002739 GTTATTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:12002899 original size:142 final size:139
Alignment explanation
Indices: 12002716--12003141 Score: 531
Period size: 142 Copynumber: 3.0 Consensus size: 139
12002706 GTTTTATCTA
* * * * *
12002716 TTTATTTATTTATTTATTTATTTGTTATTCTTTTACATTTTAAATA-TTAAATTTGATATTACTT
1 TTTATTTATTTATTT-TTT-TATATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTT
* *
12002780 ATATTTGTATTATCTATTTATTTATTTGTTATTATTTTACTTTTTAAACATTTTAAATTTGATAT
64 ATATTT-TATTATCTATTTATTTATTTATTATTATTTTACTTTTTAAATA-TTTAAATTTGATAT
12002845 TATTTATATTTGT
127 TATTTATATTTGT
*
12002858 TTTATTTGTTTATTTTTTTAGCTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTT
1 TTTATTTATTTATTTTTTTA--TATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTA-TT
* * *
12002923 ATATTTATTTTATCTATCTATTTATTTATTTACTATTCA-TTTACTTTTTAAATACTTAAATTTA
63 -TA--TATTTTAT-TATCTATTTATTTATTTATTATT-ATTTTACTTTTTAAATATTTAAATTTG
12002987 ATATTATTTATATTTGT
123 ATATTATTTATATTTGT
* * * *
12003004 TTTATCTATTTA-TCTATT-TATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTTTTTAT
1 TTTATTTATTTATTTTTTTATATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTAT
* * *
12003067 A-TTT-TTATCTAGTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTACT
66 ATTTTATTATCTATTTATTTATTTATTATTATTTTACTTTTTAAATATTTAAATTTGATATTATT
*
12003130 TATATTTCT
131 TATATTTGT
12003139 TTT
1 TTT
12003142 TCATTATCCA
Statistics
Matches: 251, Mismatches: 23, Indels: 27
0.83 0.08 0.09
Matches are distributed among these distances:
135 62 0.25
136 1 0.00
137 3 0.01
138 2 0.01
140 3 0.01
141 5 0.02
142 75 0.30
143 14 0.06
144 1 0.00
145 6 0.02
146 38 0.15
147 40 0.16
148 1 0.00
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (139 bp):
TTTATTTATTTATTTTTTTATATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTAT
ATTTTATTATCTATTTATTTATTTATTATTATTTTACTTTTTAAATATTTAAATTTGATATTATT
TATATTTGT
Found at i:12002934 original size:73 final size:70
Alignment explanation
Indices: 12002720--12003141 Score: 500
Period size: 73 Copynumber: 6.0 Consensus size: 70
12002710 TATCTATTTA
* * * * *
12002720 TTTATTTATTTATTTA-TTTGTTATTCTTTTACATTTTAAATA-TTAAATTTGATATTACTTATA
1 TTTATCTATTTATTTATTTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATA
12002783 TTTGT
66 TTTGT
* * * * * *
12002788 ATTATCTATTTATTTA-TTTGTTATTATTTTACTTTTTAAACATTTTAAATTTGATATTATTTAT
1 TTTATCTATTTATTTATTTTATTATTCTTTTACTTTTTAAATA-CTTAAATTTAATATTATTTAT
12002852 ATTTGT
65 ATTTGT
* * *
12002858 TTTATTTGTTTATTTTTTTAGCTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTT
1 TTTATCTATTTATTTATTT---TATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTT
*
12002923 ATATTTAT
63 ATATTTGT
* * *
12002931 TTTATCTATCTATTTATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAATATTATTT
1 TTTATCTATTTATTTA--T-TTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTT
12002996 ATATTTGT
63 ATATTTGT
*
12003004 TTTATCTATTTATCTA-TTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATT-TTT-TA
1 TTTATCTATTTATTTATTTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATA
*
12003066 TAT-T
66 TTTGT
* * * *
12003070 TTTATCTAGTTATTTA-TTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTACTTATA
1 TTTATCTATTTATTTATTTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATA
*
12003134 TTTCT
66 TTTGT
12003139 TTT
1 TTT
12003142 TCATTATCCA
Statistics
Matches: 308, Mismatches: 34, Indels: 23
0.84 0.09 0.06
Matches are distributed among these distances:
66 54 0.18
67 6 0.02
68 44 0.14
69 43 0.14
70 37 0.12
71 2 0.01
73 98 0.32
74 21 0.07
75 1 0.00
76 2 0.01
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (70 bp):
TTTATCTATTTATTTATTTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATA
TTTGT
Found at i:12002964 original size:15 final size:15
Alignment explanation
Indices: 12002917--12002965 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
12002907 AAATTTAATA
12002917 TTATTTA-TATTTATT
1 TTATTTACTATTTA-T
*
12002932 TTATCTATCTATTTAT
1 TTATTTA-CTATTTAT
*
12002948 TTATTTACTATTCAT
1 TTATTTACTATTTAT
12002963 TTA
1 TTA
12002966 CTTTTTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 16 0.55
16 7 0.24
17 6 0.21
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTTACTATTTAT
Found at i:12003036 original size:216 final size:207
Alignment explanation
Indices: 12002716--12003141 Score: 557
Period size: 216 Copynumber: 2.0 Consensus size: 207
12002706 GTTTTATCTA
* * ** * *
12002716 TTTATTTATTTATTTATTTATTTGTTATTCTTTTACATTTTAAATATTAAATTTGATATTACTTA
1 TTTATCTATCTATTTATTTATTTACTATTCATTTACATTTTAAATATTAAATTTAATATTACTTA
* * * *
12002781 TATTTGTATTATCTATTTATTTATTTGTTATTATTTTACTTTTTAAACATTTTAAATTTGATATT
66 TATTTGTATTATCTATTTATCTATTTATTATTATTTTACTTTTTAAACA-CTTAAATTTAATATT
* * *
12002846 ATTTATATTTGTTTTAT-TTGTTTATTTTTTTAGCTATTATTCTTTTACTTTTTAAATACTTAAA
130 -TTT-TATAT-TTTTATCTAG-TTA-TTTATT---TATTATTCTTTTACTTTTTAAATACTTAAA
*
12002910 TTTAATATTATTTATATTTAT
187 TTTAATATTACTTATATTTAT
* *
12002931 TTTATCTATCTATTTATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAATATTATTT
1 TTTATCTATCTATTTATTTATTTACTATTCATTTACATTTTAAATA-TTAAATTTAATATTACTT
* * *
12002996 ATATTTGTTTTATCTATTTATCTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATT
65 ATATTTGTATTATCTATTTATCTATTTATTATTATTTTACTTTTTAAACACTTAAATTTAATATT
* *
12003061 TTTTATATTTTTATCTAGTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
130 TTTTATATTTTTATCTAGTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATAT
*
12003126 TACTTATATTTCT
195 TACTTATATTTAT
12003139 TTT
1 TTT
12003142 TCATTATCCA
Statistics
Matches: 187, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
208 50 0.27
211 5 0.03
212 9 0.05
213 6 0.03
214 3 0.02
215 53 0.28
216 61 0.33
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (207 bp):
TTTATCTATCTATTTATTTATTTACTATTCATTTACATTTTAAATATTAAATTTAATATTACTTA
TATTTGTATTATCTATTTATCTATTTATTATTATTTTACTTTTTAAACACTTAAATTTAATATTT
TTTATATTTTTATCTAGTTATTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATT
ACTTATATTTAT
Found at i:12003074 original size:58 final size:59
Alignment explanation
Indices: 12003003--12003136 Score: 144
Period size: 66 Copynumber: 2.2 Consensus size: 59
12002993 TTTATATTTG
* *
12003003 TTTTATCTATTTATC-TATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATT
1 TTTTATATTTTTATCTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATT
* *
12003061 TTTTATATTTTTATCTAGTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
1 TTTTATATTTTTATC-------TTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATAT
12003126 T
59 T
**
12003127 ACTTATATTT
1 TTTTATATTT
12003137 CTTTTTCATT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
58 13 0.21
66 49 0.79
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.63
Consensus pattern (59 bp):
TTTTATATTTTTATCTTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATT
Found at i:12003126 original size:135 final size:138
Alignment explanation
Indices: 12002880--12003156 Score: 404
Period size: 135 Copynumber: 2.0 Consensus size: 138
12002870 TTTTTTTAGC
*
12002880 TATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATATTTATTTTATCTATCTATT
1 TATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATA-TTATTTTATCTATCTAGT
* *
12002945 TATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAATATTATTTATATTTGTTTTATC
65 TATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAATATTACTTATATTTCTTTT-TC
*
12003010 TATTTATCTATT
129 -A-TTATCCATT
12003022 TATTATTCTTTTACTTTTTAAATACTTAAATTTAATATT-TTT-TA-TA-TTT-T-TATCTAGTT
1 TATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATATTATTTTATCTATCTAGTT
* * * *
12003081 ATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTACTTATATTTCTTTTTCAT
66 ATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAATATTACTTATATTTCTTTTTCAT
12003146 TATCCATT
131 TATCCATT
12003154 TAT
1 TAT
12003157 ATATATATAT
Statistics
Matches: 127, Mismatches: 8, Indels: 10
0.88 0.06 0.07
Matches are distributed among these distances:
132 11 0.09
133 1 0.01
134 2 0.02
135 63 0.50
136 1 0.01
137 3 0.02
138 2 0.02
140 2 0.02
141 3 0.02
142 39 0.31
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (138 bp):
TATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTTATATTATTTTATCTATCTAGTT
ATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAATATTACTTATATTTCTTTTTCAT
TATCCATT
Found at i:12003196 original size:135 final size:134
Alignment explanation
Indices: 12002720--12003156 Score: 362
Period size: 135 Copynumber: 3.2 Consensus size: 134
12002710 TATCTATTTA
* ** * * * * **
12002720 TTTATTTATTTATTTATTTGTTATTCTTTTACATT-TTAAATATTAAATTTGATATTACTTATAT
1 TTTATCTATTTATCCATTTATTATTATTTTAC-TTATTAAATACTAAATTTAATATTTTTTATA-
* ** * * * *
12002784 TTGTATTATCTATTTATTTATTTGTTATT-ATTTTACTTTTTAAACATTTTAAATTTGATATTAT
64 TT-T-TTATCTAGTTATTTATTTACTATTCA-TTTACTTTTTAAATA-CTTAAATTTAATATTAC
*
12002848 TTATATTTGT
125 TTATATTTCT
* * *** * *
12002858 TTTATTTGTTTATTTTTTTAGCTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTATTT
1 TTTATCTATTTA-TCCATT---TATTATTATTTTACTTATTAAATAC-TAAATTTAATATT-TTT
*
12002923 ATATTTATTTTATCTATCTATTTATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAA
60 -TA--TA-TTT-T-TATCTAGTTATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAA
* *
12002988 TATTATTTATATTTGT
119 TATTACTTATATTTCT
* * *
12003004 TTTATCTATTTATCTATTTATTATTCTTTTACTTTTTAAATACTTAAATTTAATATTTTTTATAT
1 TTTATCTATTTATCCATTTATTATTATTTTACTTATTAAATAC-TAAATTTAATATTTTTTATAT
* * * *
12003069 TTTTATCTAGTTATTTATTTATTATTCTTTTACTTTTTAAATATTTAAATTTGATATTACTTATA
65 TTTTATCTAGTTATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAATATTACTTATA
12003134 TTTCT
130 TTTCT
12003139 TTT-TC-A-TTATCCATTTAT
1 TTTATCTATTTATCCATTTAT
12003157 ATATATATAT
Statistics
Matches: 263, Mismatches: 24, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
132 11 0.04
133 1 0.00
134 2 0.01
135 63 0.24
136 1 0.00
137 3 0.01
138 13 0.05
139 5 0.02
140 2 0.01
141 5 0.02
142 59 0.22
143 12 0.05
144 1 0.00
145 6 0.02
146 38 0.14
147 40 0.15
148 1 0.00
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.63
Consensus pattern (134 bp):
TTTATCTATTTATCCATTTATTATTATTTTACTTATTAAATACTAAATTTAATATTTTTTATATT
TTTATCTAGTTATTTATTTACTATTCATTTACTTTTTAAATACTTAAATTTAATATTACTTATAT
TTCT
Found at i:12003792 original size:26 final size:26
Alignment explanation
Indices: 12003735--12003797 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
12003725 CTAATGCCGT
* *
12003735 CGGAGTGTTTGAGTTGGCTTGGGCGC
1 CGGAGTGTTTGAGTTGGCTTGGGAGA
*
12003761 CGGAGTGTTTGAGTTGGCTTGGGATA
1 CGGAGTGTTTGAGTTGGCTTGGGAGA
*
12003787 CTGAGTGTTTG
1 CGGAGTGTTTG
12003798 CAACAACTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.11, C:0.11, G:0.43, T:0.35
Consensus pattern (26 bp):
CGGAGTGTTTGAGTTGGCTTGGGAGA
Found at i:12015573 original size:34 final size:35
Alignment explanation
Indices: 12015530--12015607 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 35
12015520 TGACTGCTAT
12015530 TGATACTGTGATGGGCTAAGGCCCTAATGCATA-C
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATATC
* *
12015564 TGATACTGTGATGGGCTAAGGCCCTACTGCATATT
1 TGATACTGTGATGGGCTAAGGCCCTAATGCATATC
12015599 TGATACTGT
1 TGATACTGT
12015608 ATTGAGATGG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 32 0.78
35 9 0.22
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (35 bp):
TGATACTGTGATGGGCTAAGGCCCTAATGCATATC
Found at i:12016488 original size:16 final size:17
Alignment explanation
Indices: 12016456--12016489 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12016446 ATATATACTG
*
12016456 AAAACTGTAGTTAAACT
1 AAAACTATAGTTAAACT
12016473 AAAACTATAG-TAAACT
1 AAAACTATAGTTAAACT
12016489 A
1 A
12016490 CTAGAGACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (17 bp):
AAAACTATAGTTAAACT
Found at i:12019130 original size:20 final size:21
Alignment explanation
Indices: 12019105--12019145 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
12019095 TTATTCCTCA
12019105 AAACTTTTTA-TTTTC-CCCTT
1 AAAC-TTTTACTTTTCACCCTT
12019125 AAACTTTTACTTTTCACCCTT
1 AAACTTTTACTTTTCACCCTT
12019146 GACTCTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (21 bp):
AAACTTTTACTTTTCACCCTT
Found at i:12022210 original size:21 final size:20
Alignment explanation
Indices: 12022158--12022215 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
12022148 TACTTCGCTT
12022158 AAAGTATTGATACTTTTTTC
1 AAAGTATTGATACTTTTTTC
*
12022178 AAA-TAATCGATACCTTTTTTC
1 AAAGT-ATTGATA-CTTTTTTC
12022199 AAAGTATTGATACTTTT
1 AAAGTATTGATACTTTT
12022216 ATTCTGTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 1 0.03
20 14 0.42
21 17 0.52
22 1 0.03
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (20 bp):
AAAGTATTGATACTTTTTTC
Found at i:12022756 original size:15 final size:17
Alignment explanation
Indices: 12022736--12022774 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
12022726 GCAAAACAGG
*
12022736 AGCAAAAAA-ATAG-AA
1 AGCAAAAAAGAAAGCAA
12022751 AGCAAAAAAGAAAGCAA
1 AGCAAAAAAGAAAGCAA
12022768 AGCAAAA
1 AGCAAAA
12022775 CAGTAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 3 0.14
17 9 0.43
ACGTcount: A:0.72, C:0.10, G:0.15, T:0.03
Consensus pattern (17 bp):
AGCAAAAAAGAAAGCAA
Found at i:12025074 original size:127 final size:126
Alignment explanation
Indices: 12024879--12025159 Score: 388
Period size: 127 Copynumber: 2.2 Consensus size: 126
12024869 AAATTTGGGA
12024879 AATCGTGCCCTACCGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTAG
1 AATCGTGCCCTA-CGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTAG
* * *
12024944 AATTTCACACGTGTT-TTCCAAATTCTAAAACAAGGCAATGCTCAAGGTTTGGAAATTC-AGGG
65 AATTTCACACGTATTCTT-CAAATTCTAAAACAAAGCAATGCTCAAGGTTTGGAAATTCGA-AG
* *
12025006 AATCGTGCCCTATCGTGCTGGGTTTCGATTT-CTCGTTTGTTCAAAATAATCGAATATTCTTTTA
1 AATCGTGCCCTA-CGTGCTGGGTTTCGATTTCCT-GTTTGTTCAAAACAATCGAATATTCCTTTA
** * * * *
12025070 GAATTTCATTCGTATTCTTTAAATTCTAAAACAAAGCAATGTTCAATGTTTGGAAGTTCGAAG
64 GAATTTCACACGTATTCTTCAAATTCTAAAACAAAGCAATGCTCAAGGTTTGGAAATTCGAAG
12025133 AATCGTGCCCTACAGTGCTGGGTTTCG
1 AATCGTGCCCTAC-GTGCTGGGTTTCG
12025160 GTTTTTTTGT
Statistics
Matches: 138, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
126 3 0.02
127 132 0.96
128 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (126 bp):
AATCGTGCCCTACGTGCTGGGTTTCGATTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTAGA
ATTTCACACGTATTCTTCAAATTCTAAAACAAAGCAATGCTCAAGGTTTGGAAATTCGAAG
Found at i:12036564 original size:44 final size:43
Alignment explanation
Indices: 12036515--12036862 Score: 165
Period size: 41 Copynumber: 7.7 Consensus size: 43
12036505 ACGGCGAATG
*
12036515 TTATCTTCCTGAAGTTGCAGT-GAAGCAGATTAAAATCATCAATC
1 TTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAAT-ATCAATC
* * *
12036559 TTATCTCCCTG-AGATTGCAGTGGAACAGGTTGAAAT-TGTAGATC
1 TTATCTCCCTGAAG-TTGCAGTGGAACAGATTAAAATAT-CA-ATC
* * * *
12036603 TTATCTCCCTGAAGTTGTAGTGGAATAGATCAAAAATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAACAGAT-TAAAATATC-AATC
* * * *
12036648 TTATTTCCCTGAAGTTTCAGTGAAATAGATTGAAGCTATATACTACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATT-AA---A-ATA-T-CA-ATC
* * * *
12036699 TTATCTCTCTGAAGTTGCAGTAGAGCACG--TCAAA-A-CAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAACA-GATTAAAATATCAA-TC
*
12036740 TTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAACTATAAACTACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATT-AAA--AT--A-T-CA-ATC
* * * * * *
12036791 CTATCTCTCTGAAGTTGCAGTAGAACAGGTCAAAACA--AATC
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAATATCAATC
* * * *
12036832 TTGTTTCCCTGAAGTTGCAGTAGAATAGATT
1 TTATCTCCCTGAAGTTGCAGTGGAACAGATT
12036863 GAAGCTATAA
Statistics
Matches: 230, Mismatches: 44, Indels: 63
0.68 0.13 0.19
Matches are distributed among these distances:
40 2 0.01
41 54 0.23
42 3 0.01
43 5 0.02
44 54 0.23
45 42 0.18
46 3 0.01
48 3 0.01
49 4 0.02
50 5 0.02
51 53 0.23
52 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAATATCAATC
Found at i:12036770 original size:92 final size:91
Alignment explanation
Indices: 12036646--12036958 Score: 401
Period size: 92 Copynumber: 3.4 Consensus size: 91
12036636 AAATAGCAAA
* * * *
12036646 TCTTATTTCCCTGAAGTTTCAGTGAAATAGATTGAAGCTATATACTACAGATCTTATCTCTCTGA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATA-ACTACAGATCCTATCTCTCTGA
*
12036711 AGTTGCAGTAGAGCACGTCAAAACAAG
65 AGTTGCAGTAGAGCAGGTCAAAACAAG
*
12036738 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAACTATAAACTACAGATCCTATCTCTCTGA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAT-AACTACAGATCCTATCTCTCTGA
* *
12036803 AGTTGCAGTAGAACAGGTCAAAACAAA
65 AGTTGCAGTAGAGCAGGTCAAAACAAG
* * *
12036830 TCTTGTTTCCCTGAAGTTGCAGTAGAATAGATTGAAGCTATAAGCTACAGATCCTATCTCTCTGA
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAA-CTACAGATCCTATCTCTCTGA
** * *
12036895 AGTTGTTGTAGGGTAGGTCAAAACAAG
65 AGTTGCAGTAGAGCAGGTCAAAACAAG
* * * * * * *
12036922 CCTTATCTCTCTGATGTTGTAGTGGAGCAGACTGAAG
1 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
12036959 ATAGCAAATC
Statistics
Matches: 191, Mismatches: 28, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
91 2 0.01
92 188 0.98
93 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (91 bp):
TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAACTACAGATCCTATCTCTCTGAA
GTTGCAGTAGAGCAGGTCAAAACAAG
Found at i:12037541 original size:14 final size:14
Alignment explanation
Indices: 12037519--12037559 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
12037509 CTAGGCCTGC
*
12037519 AAAACAGAAGCAAA
1 AAAAGAGAAGCAAA
12037533 AAAAGAGAAAGC-AA
1 AAAAGAG-AAGCAAA
12037547 AAAAGA-AAGCAAA
1 AAAAGAGAAGCAAA
12037560 GCAAAACAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.17
13 2 0.08
14 14 0.58
15 4 0.17
ACGTcount: A:0.73, C:0.10, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAGAGAAGCAAA
Found at i:12037560 original size:17 final size:15
Alignment explanation
Indices: 12037526--12037565 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
12037516 TGCAAAACAG
*
12037526 AAGCAAAAAAAGAGA
1 AAGCAAAAAAAAAGA
12037541 AAGCAAAAAAGAAAGCA
1 AAGCAAAAAA-AAAG-A
12037558 AAGCAAAA
1 AAGCAAAA
12037566 CAGTAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.45
16 3 0.14
17 9 0.41
ACGTcount: A:0.72, C:0.10, G:0.17, T:0.00
Consensus pattern (15 bp):
AAGCAAAAAAAAAGA
Found at i:12039066 original size:2 final size:2
Alignment explanation
Indices: 12039059--12039086 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12039049 TTAAAATTTC
12039059 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
12039087 GTTACTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12039838 original size:127 final size:127
Alignment explanation
Indices: 12039673--12039968 Score: 398
Period size: 127 Copynumber: 2.3 Consensus size: 127
12039663 AGTGTTTGAT
* *
12039673 GTTTGGAAATTCGGGAAATCGTGCCCTACCGTGCTGGGTTTCGATTTC-CTGTTTGTTCAAAACA
1 GTTTGGAAATTCGGGGAATCGTGCCTTACCGTGCTGGGTTTCGATTTCTC-GTTTGTTCAAAACA
* *
12039737 ATCGAATATTCCTTTAGAATTTCACACGTGTT-TTTCAAATTCTAAAACAAGGCAATGCTCAAG
65 ATCGAATATTCCTTTAGAATTTCACACGTATTCTTT-AAATTCTAAAACAAAGCAATGCTCAAG
* * *
12039800 GTTTGGAAATTCGGGGAATCGTGCCTTATCGTGTTGGGTTTCGATTTCTCGTTTGTTCAAAATAA
1 GTTTGGAAATTCGGGGAATCGTGCCTTACCGTGCTGGGTTTCGATTTCTCGTTTGTTCAAAACAA
* **** * *
12039865 TCGAATATTCTTTTAGAATTTCGTTTGTATTCTTTAAATTCTAAAACAAAGCAATGTTCAAT
66 TCGAATATTCCTTTAGAATTTCACACGTATTCTTTAAATTCTAAAACAAAGCAATGCTCAAG
* ** *
12039927 GTTTGGAAGTTCGAAGAATCGTGCCTTACCGTGCTAGGTTTC
1 GTTTGGAAATTCGGGGAATCGTGCCTTACCGTGCTGGGTTTC
12039969 AGTTTTTTTG
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
127 143 0.97
128 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (127 bp):
GTTTGGAAATTCGGGGAATCGTGCCTTACCGTGCTGGGTTTCGATTTCTCGTTTGTTCAAAACAA
TCGAATATTCCTTTAGAATTTCACACGTATTCTTTAAATTCTAAAACAAAGCAATGCTCAAG
Found at i:12040710 original size:16 final size:16
Alignment explanation
Indices: 12040689--12040719 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12040679 GTTACAAAAT
*
12040689 AATATGTAAAGCTTAA
1 AATATGTAAAACTTAA
12040705 AATATGTAAAACTTA
1 AATATGTAAAACTTA
12040720 TATTAATAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (16 bp):
AATATGTAAAACTTAA
Found at i:12044854 original size:40 final size:39
Alignment explanation
Indices: 12044791--12044877 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 39
12044781 TGCAGTACCT
* *
12044791 TATGGTGTGTAGGATTGGATGGGTCGATTATATCCACATA
1 TATGGTGTGCAGGATTGGATGGGTCAATTATATCCACA-A
* * *
12044831 TATGGTGTGCAGGGA-TGGGTGGGTCAATTTTATCCCCAA
1 TATGGTGTGCA-GGATTGGATGGGTCAATTATATCCACAA
12044870 -ATGGTGTG
1 TATGGTGTG
12044878 ATGGGTTGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
38 8 0.20
39 1 0.02
40 29 0.71
41 3 0.07
ACGTcount: A:0.22, C:0.11, G:0.33, T:0.33
Consensus pattern (39 bp):
TATGGTGTGCAGGATTGGATGGGTCAATTATATCCACAA
Found at i:12062618 original size:21 final size:21
Alignment explanation
Indices: 12062594--12062635 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12062584 TTGAAAAGCA
12062594 CAAG-AAAGTAAGAAACAAAAT
1 CAAGAAAAG-AAGAAACAAAAT
*
12062615 CAAGAAAAGAAGAAAGAAAAT
1 CAAGAAAAGAAGAAACAAAAT
12062636 TAAAGTCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.69, C:0.07, G:0.17, T:0.07
Consensus pattern (21 bp):
CAAGAAAAGAAGAAACAAAAT
Found at i:12064434 original size:26 final size:26
Alignment explanation
Indices: 12064398--12064450 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
12064388 TTGGCATATT
12064398 AATAATAATAAGCAATTTAATTAACA
1 AATAATAATAAGCAATTTAATTAACA
12064424 AATAATAATAAGCAATTTAATTAACA
1 AATAATAATAAGCAATTTAATTAACA
12064450 A
1 A
12064451 TATTATCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (26 bp):
AATAATAATAAGCAATTTAATTAACA
Found at i:12074579 original size:18 final size:18
Alignment explanation
Indices: 12074556--12074594 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
12074546 GTGACCCTTA
12074556 TTTTCC-AAATTTTCATGT
1 TTTTCCAAAATTTT-ATGT
12074574 TTTTCCAAAATTTTATGT
1 TTTTCCAAAATTTTATGT
12074592 TTT
1 TTT
12074595 GTTTCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTCCAAAATTTTATGT
Found at i:12078817 original size:8 final size:8
Alignment explanation
Indices: 12078804--12078839 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
12078794 AATCATGATT
*
12078804 AAAATTCG
1 AAAATTTG
*
12078812 AAAATTTA
1 AAAATTTG
12078820 AAAATTTG
1 AAAATTTG
12078828 AAAATTTG
1 AAAATTTG
12078836 AAAA
1 AAAA
12078840 GAATAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (8 bp):
AAAATTTG
Found at i:12086158 original size:34 final size:35
Alignment explanation
Indices: 12086118--12086190 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 35
12086108 TTTTTAAGGT
12086118 TTTAAAGGTTAGGATT-TTGCTAAAATAATTTA-GG
1 TTTAAAGGTTAGG-TTATTGCTAAAATAATTTAGGG
* *
12086152 TTTAAAGTTTAGGTTATTGTTAAAATAATTTAGGG
1 TTTAAAGGTTAGGTTATTGCTAAAATAATTTAGGG
12086187 TTTA
1 TTTA
12086191 GGGTTTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 2 0.06
34 27 0.77
35 6 0.17
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.45
Consensus pattern (35 bp):
TTTAAAGGTTAGGTTATTGCTAAAATAATTTAGGG
Found at i:12086253 original size:36 final size:35
Alignment explanation
Indices: 12086233--12086327 Score: 115
Period size: 34 Copynumber: 2.7 Consensus size: 35
12086223 TTTAGTGTTA
*
12086233 TTTTATAA-AAATTAATTAAATTAGGGTTTATGATT
1 TTTTA-AATAAATTAAGTAAATTAGGGTTTATGATT
*
12086268 TTTTAAATAAATTAAGTAAATTAGGGTTTA--ATGG
1 TTTTAAATAAATTAAGTAAATTAGGGTTTATGAT-T
* *
12086302 TTTTAAATAAATAAAATAAATTAGGG
1 TTTTAAATAAATTAAGTAAATTAGGG
12086328 ATTAGGGTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
33 2 0.04
34 26 0.48
35 26 0.48
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (35 bp):
TTTTAAATAAATTAAGTAAATTAGGGTTTATGATT
Found at i:12086595 original size:127 final size:128
Alignment explanation
Indices: 12086418--12086793 Score: 571
Period size: 127 Copynumber: 3.0 Consensus size: 128
12086408 TTTACCCCGC
* *
12086418 AAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACA
1 AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCA-A
* * *
12086483 -GTCAACAAAATTACTGAAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGTAGTTCTTG-A
65 TGTCAACAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAA
* * * *
12086545 AAAAATAATTTTGAGAAGACATTTCTGAACAAATAATGTCAGAAACGCTTCAAGCAGGACGCAAT
1 AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAAT
* * *
12086610 ATCAACAAAATTTCT-AAAAAAAGCTCCCATGTGGGCGCTCTTTTTCTACAGTAGTTCCTGAA
66 GTCAACAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAA
* **
12086672 AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAATATGCAAT
1 AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAAT
*
12086737 GTCAGCAAAATTTCTG-AAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
66 GTCAACAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
12086794 ATGTTTGGCC
Statistics
Matches: 223, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
126 42 0.19
127 181 0.81
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (128 bp):
AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAAT
GTCAACAAAATTTCTGAAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAA
Found at i:12089593 original size:289 final size:289
Alignment explanation
Indices: 12089074--12089653 Score: 723
Period size: 289 Copynumber: 2.0 Consensus size: 289
12089064 AGTATATGAT
* * * *
12089074 GACGGCCTACGATATGGTCATATGACCATAAACCTAGCTAAAAGCATAATTTTTGTTCTAAAAGG
1 GACGGCCTACGATATGGTCATATGACCACAAACCTAGCTAAAAGCATAAATTCTGTTATAAAAGG
* * * * * * *
12089139 AATACGTCATTTGTCGACAACCTCAGTTGTATGAGAGACATATTTTTGTTTGGCTATACTATTTC
66 AACACATCATTTGCCGACAACCTCAGTTGTACGAGAAACATATTTTCGTTTGGCTACACTATTTC
*** * * * *
12089204 CAATGTGAGTAGCAAGTCGTAAAGGCTAAATGCAAGGAGGTCATGTATGGTTCCAGAAGGTATGG
131 CAAAACGAGCAGCAAGTCGTAAAGGCCAAATGCAAGGAAGTCATGTATAGTTCCAGAAGGTATGG
* *
12089269 CAAGAAATTAACAAGGCGAAGGTGCGGGCCAACACCATGCACACAGTGTGTCACGACCACGA-AA
196 CAAGAAATTAACAAGGCGAAAGCGCGGGCCAACACCATGCACACAGTGTGTCACGACCACGACAA
* *
12089333 ACATATGGTTTTGTGTGATAGAGTTTGACA
261 AC-TATGGTTTTGTGTGACAAAGTTTGACA
* * *
12089363 GACGGCCTACGATATGGTCATATGACCACAAGCCTGGCTGAAAGCATAAATTCTGTTATAAAAGG
1 GACGGCCTACGATATGGTCATATGACCACAAACCTAGCTAAAAGCATAAATTCTGTTATAAAAGG
* * ** * *
12089428 AACGCATCATTTGCCGATAACCTTGGTTGTGCGAGAAATATATTTTCGTTTGG-TGACACTATTT
66 AACACATCATTTGCCGACAACCTCAGTTGTACGAGAAACATATTTTCGTTTGGCT-ACACTATTT
** * * * ** *
12089492 CCAAAACGAGCAGTGAGTTGTAAAGGCCAAATGCAGGGAAGTCATTTATAGTTCTGGAAGGTATT
130 CCAAAACGAGCAGCAAGTCGTAAAGGCCAAATGCAAGGAAGTCATGTATAGTTCCAGAAGGTATG
* * * * *
12089557 GTAAGAAATTAATAAGGCGAAAGCGCGGGCCAACACCATGCACATAGTGTGTCACGATCGCGACA
195 GCAAGAAATTAACAAGGCGAAAGCGCGGGCCAACACCATGCACACAGTGTGTCACGACCACGACA
*
12089622 AGCTATGGTTTTGTGTGACAAAGTTTGACA
260 AACTATGGTTTTGTGTGACAAAGTTTGACA
12089652 GA
1 GA
12089654 TCGAACTAAT
Statistics
Matches: 244, Mismatches: 45, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
288 1 0.00
289 240 0.98
290 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (289 bp):
GACGGCCTACGATATGGTCATATGACCACAAACCTAGCTAAAAGCATAAATTCTGTTATAAAAGG
AACACATCATTTGCCGACAACCTCAGTTGTACGAGAAACATATTTTCGTTTGGCTACACTATTTC
CAAAACGAGCAGCAAGTCGTAAAGGCCAAATGCAAGGAAGTCATGTATAGTTCCAGAAGGTATGG
CAAGAAATTAACAAGGCGAAAGCGCGGGCCAACACCATGCACACAGTGTGTCACGACCACGACAA
ACTATGGTTTTGTGTGACAAAGTTTGACA
Found at i:12090459 original size:24 final size:24
Alignment explanation
Indices: 12090415--12090460 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
12090405 GAATGTGGAG
* *
12090415 GTGTTTGCATCACCTACGGCGAAT
1 GTGTTTGAATCACCTAAGGCGAAT
12090439 GTGTTTGAATC-CCATAAGGCGA
1 GTGTTTGAATCACC-TAAGGCGA
12090461 TAGGGATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (24 bp):
GTGTTTGAATCACCTAAGGCGAAT
Found at i:12090637 original size:18 final size:18
Alignment explanation
Indices: 12090610--12090647 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12090600 GGAAAATGAA
* *
12090610 ACATATAAGGGTTAGGAT
1 ACATAGAAGGGCTAGGAT
12090628 ACATAGAAGGGCTAGGAT
1 ACATAGAAGGGCTAGGAT
12090646 AC
1 AC
12090648 GCACCTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (18 bp):
ACATAGAAGGGCTAGGAT
Found at i:12091253 original size:21 final size:21
Alignment explanation
Indices: 12091235--12091277 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12091225 TTATATACAT
*
12091235 AATACTAAATATTAAATACTA
1 AATACTAAATATGAAATACTA
12091256 AATACTAAATATGAAATGACTA
1 AATACTAAATATGAAAT-ACTA
12091278 TTTTATGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (21 bp):
AATACTAAATATGAAATACTA
Found at i:12091272 original size:7 final size:7
Alignment explanation
Indices: 12091235--12091266 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
12091225 TTATATACAT
12091235 AATACTA
1 AATACTA
*
12091242 AATATTA
1 AATACTA
12091249 AATACTA
1 AATACTA
12091256 AATACTA
1 AATACTA
12091263 AATA
1 AATA
12091267 TGAAATGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (7 bp):
AATACTA
Found at i:12092240 original size:20 final size:20
Alignment explanation
Indices: 12092212--12092278 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 20
12092202 ATTAATTAAA
*
12092212 ATTACATAAATGAAAAAAAT
1 ATTAAATAAATGAAAAAAAT
*
12092232 ATTAAAT-AAT-ATTAAAAA-
1 ATTAAATAAATGA-AAAAAAT
*
12092250 ATTACATAAATGAAAAAAAT
1 ATTAAATAAATGAAAAAAAT
12092270 ATTAAATAA
1 ATTAAATAA
12092279 TATTCAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
18 7 0.18
19 16 0.42
20 15 0.39
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (20 bp):
ATTAAATAAATGAAAAAAAT
Found at i:12092257 original size:38 final size:38
Alignment explanation
Indices: 12092209--12092291 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
12092199 CAAATTAATT
12092209 AAAATTACATAAATGAAAAAAATATTAAATAATATTAA
1 AAAATTACATAAATGAAAAAAATATTAAATAATATTAA
*
12092247 AAAATTACATAAATGAAAAAAATATTAAATAATATTCA
1 AAAATTACATAAATGAAAAAAATATTAAATAATATTAA
12092285 AAAATTA
1 AAAATTA
12092292 AAATTAACCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (38 bp):
AAAATTACATAAATGAAAAAAATATTAAATAATATTAA
Found at i:12092282 original size:10 final size:10
Alignment explanation
Indices: 12092229--12092282 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
12092219 AAATGAAAAA
12092229 AATATTAAAT
1 AATATTAAAT
12092239 AATATTAAA-
1 AATATTAAAT
*
12092248 AA-ATTACAT
1 AATATTAAAT
* *
12092257 AA-ATGAAAAA
1 AATAT-TAAAT
12092267 AATATTAAAT
1 AATATTAAAT
12092277 AATATT
1 AATATT
12092283 CAAAAATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 5 0.14
9 6 0.17
10 22 0.63
11 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
AATATTAAAT
Found at i:12092287 original size:20 final size:19
Alignment explanation
Indices: 12092226--12092293 Score: 70
Period size: 18 Copynumber: 3.6 Consensus size: 19
12092216 CATAAATGAA
12092226 AAAAATATTAAATAATATT
1 AAAAATATTAAATAATATT
* *
12092245 AAAAA-ATTACATAA-ATGAA
1 AAAAATATTAAATAATAT--T
12092264 AAAAATATTAAATAATATT
1 AAAAATATTAAATAATATT
*
12092283 CAAAA-ATTAAA
1 AAAAATATTAAA
12092294 ATTAACCCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
17 2 0.05
18 14 0.35
19 14 0.35
20 8 0.20
21 2 0.05
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.29
Consensus pattern (19 bp):
AAAAATATTAAATAATATT
Found at i:12092487 original size:21 final size:21
Alignment explanation
Indices: 12092454--12092503 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
12092444 TAAAGAAAGC
* *
12092454 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAGATTTAAGGAGAAA
* *
12092475 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAGATTTAAGGAGAAA
*
12092496 TTTTAGAG
1 TTTGAGAG
12092504 TTTTTTGCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (21 bp):
TTTGAGAGATTTAAGGAGAAA
Found at i:12093995 original size:4 final size:4
Alignment explanation
Indices: 12093986--12094010 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12093976 TCTTTTTAAT
12093986 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
12094011 GTTAATCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:12099818 original size:40 final size:40
Alignment explanation
Indices: 12099764--12099875 Score: 154
Period size: 39 Copynumber: 2.8 Consensus size: 40
12099754 AATTATGTTT
* *
12099764 ATCGAGCATCAGTGGCGTTTTTTGAAAAACGCCGCTATAG
1 ATCGAGCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAG
* *
12099804 ATTGAGCATTAGTGGCGCTTTTT-AAAAACACCGCTATAG
1 ATCGAGCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAG
* * *
12099843 GTCGACCATTAGCGGCGCTTTTTGAAAAACGCC
1 ATCGAGCATTAGTGGCGCTTTTTGAAAAACGCC
12099876 ACAAAAAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 34 0.55
40 28 0.45
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (40 bp):
ATCGAGCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAG
Found at i:12100025 original size:14 final size:14
Alignment explanation
Indices: 12100008--12100075 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
12099998 AATTTATGGG
12100008 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* **
12100022 TTATGGATTAAAGT
1 TTATGGTTTAGGGT
* * *
12100036 TTAGGGCTTAGAGT
1 TTATGGTTTAGGGT
12100050 TTATGGTTT-GGGAT
1 TTATGGTTTAGGG-T
12100064 TTATGGTTTAGG
1 TTATGGTTTAGG
12100076 ATTTGGGATT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
13 2 0.05
14 39 0.91
15 2 0.05
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:12100072 original size:21 final size:22
Alignment explanation
Indices: 12099999--12100086 Score: 71
Period size: 21 Copynumber: 4.2 Consensus size: 22
12099989 AATTAATTTA
*
12099999 ATTTATGGGTTATGGTTTAGGG
1 ATTTATGGTTTATGGTTTAGGG
* **
12100021 -TTTATGGATTAAAGTTTAGGG
1 ATTTATGGTTTATGGTTTAGGG
*
12100042 -CTTA-GAGTTTATGGTTT-GGG
1 ATTTATG-GTTTATGGTTTAGGG
12100062 ATTTATGGTTTA-GGATTT-GGG
1 ATTTATGGTTTATGG-TTTAGGG
12100083 ATTT
1 ATTT
12100087 GAAGGTTGGG
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
20 6 0.11
21 47 0.87
22 1 0.02
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.47
Consensus pattern (22 bp):
ATTTATGGTTTATGGTTTAGGG
Found at i:12100943 original size:20 final size:20
Alignment explanation
Indices: 12100920--12100977 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
12100910 TCCCTTGTAA
*
12100920 TATATATTTAGGGTTTAGGG
1 TATACATTTAGGGTTTAGGG
** **
12100940 TATAGGTTTATAGTTTAGGG
1 TATACATTTAGGGTTTAGGG
*
12100960 TTTAACATTTAGGGTTTA
1 TAT-ACATTTAGGGTTTA
12100978 TTGTTAGAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.47
Consensus pattern (20 bp):
TATACATTTAGGGTTTAGGG
Found at i:12101205 original size:17 final size:18
Alignment explanation
Indices: 12101183--12101216 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12101173 TATTTATTTT
12101183 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
12101200 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
12101217 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:12104118 original size:35 final size:34
Alignment explanation
Indices: 12104079--12104144 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
12104069 TAATTGTGTT
*
12104079 ATTAATTTATTAT-TTTAGATTCTAAATTTAAATTC
1 ATTAATTT-TTATATTTAG-TTCTAAAGTTAAATTC
*
12104114 ATTAATTTTTATATTTAGTTTTAAAGTTAAA
1 ATTAATTTTTATATTTAGTTCTAAAGTTAAA
12104145 ATTTTAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (34 bp):
ATTAATTTTTATATTTAGTTCTAAAGTTAAATTC
Found at i:12104147 original size:35 final size:35
Alignment explanation
Indices: 12104079--12104147 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
12104069 TAATTGTGTT
*
12104079 ATTAATTTATTATTTTAGATTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAGATTCTAAATTAAAATTC
*
12104114 ATTAATTT-TTATATTTAG-TTTTAAAGTTAAAATT
1 ATTAATTTATTAT-TTTAGATTCTAAA-TTAAAATT
12104148 TTAATAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 10 0.33
35 20 0.67
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (35 bp):
ATTAATTTATTATTTTAGATTCTAAATTAAAATTC
Found at i:12104363 original size:42 final size:42
Alignment explanation
Indices: 12104302--12104454 Score: 191
Period size: 42 Copynumber: 3.6 Consensus size: 42
12104292 CTTTAGCGGT
*
12104302 GTTTATGGGAAAAGCGCCGCTAAAGGTCTATTTTATAGTGGC
1 GTTTGTGGGAAAAGCGCCGCTAAAGGTCTATTTTATAGTGGC
* * * *
12104344 GTTTGTGGAAAAAACGCCGCTAAAGGTCTGTTCTATAGTGGC
1 GTTTGTGGGAAAAGCGCCGCTAAAGGTCTATTTTATAGTGGC
* * * * *
12104386 GTTTGTGGGAAAAGTGCTGCTAAAGGT-TATGTTCTTTAGCGGT
1 GTTTGTGGGAAAAGCGCCGCTAAAGGTCTAT-TT-TATAGTGGC
12104429 GTTTGTGGGAAAAGCGCCGCTAAAGG
1 GTTTGTGGGAAAAGCGCCGCTAAAGG
12104455 CCATGTTCTC
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.02
42 61 0.66
43 30 0.32
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (42 bp):
GTTTGTGGGAAAAGCGCCGCTAAAGGTCTATTTTATAGTGGC
Found at i:12104419 original size:43 final size:43
Alignment explanation
Indices: 12104287--12104510 Score: 229
Period size: 43 Copynumber: 5.3 Consensus size: 43
12104277 TTTAAAGATC
* * *
12104287 ATGTTCTTTAGCGGTGTTTATGGGAAAAGCGCCGCTAAAGGTCT
1 ATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-T
* * *
12104331 AT-TT-TATAGTGGCGTTTGTGGAAAAAACGCCGCTAAAGG-T
1 ATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTT
* * * *
12104371 CTGTTCTATAGTGGCGTTTGTGGGAAAAGTGCTGCTAAAGGTT
1 ATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTT
* * **
12104414 ATGTTCTTTAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAGGCC
1 ATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTT
* * * * * * *
12104457 ATGTTCTCTAACGACATTTGTTGTAAAAGCGCCGCTAAATGTT
1 ATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTT
12104500 ATGTTCTATAG
1 ATGTTCTATAG
12104511 TAGCGTTTTT
Statistics
Matches: 146, Mismatches: 31, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 60 0.41
43 80 0.55
44 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (43 bp):
ATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTT
Found at i:12104892 original size:10 final size:10
Alignment explanation
Indices: 12104879--12104912 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
12104869 CTCCCTCCAA
12104879 TTTCCTCTTC
1 TTTCCTCTTC
12104889 TTTCCTCTTC
1 TTTCCTCTTC
*
12104899 TTTCCTTTTC
1 TTTCCTCTTC
12104909 TTTC
1 TTTC
12104913 TCAGCCATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTCCTCTTC
Found at i:12105270 original size:61 final size:62
Alignment explanation
Indices: 12105201--12105328 Score: 188
Period size: 62 Copynumber: 2.1 Consensus size: 62
12105191 CTTCCTTTAA
12105201 TTTTCAATCGTCTTA-AAAT-TTTAGAAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
1 TTTTCAATCGTCTTAGAAATATTT-GAAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
** ** *
12105262 TTTTCAATCGTCTTAGAAATATTTGATTTTTTTGTTTGGGTTTTTTATTTCTATTATATTAG
1 TTTTCAATCGTCTTAGAAATATTTGAAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
12105324 TTTTC
1 TTTTC
12105329 TAGTTTCCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
61 15 0.25
62 42 0.70
63 3 0.05
ACGTcount: A:0.23, C:0.08, G:0.11, T:0.58
Consensus pattern (62 bp):
TTTTCAATCGTCTTAGAAATATTTGAAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
Found at i:12106313 original size:27 final size:27
Alignment explanation
Indices: 12106281--12106339 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
12106271 TTTTTTGAGT
12106281 CAATTCTCTCTTATTTTTGCATTTTTG
1 CAATTCTCTCTTATTTTTGCATTTTTG
12106308 CAATTCTCTCTTATTTTTGCATTTTTG
1 CAATTCTCTCTTATTTTTGCATTTTTG
12106335 CAATT
1 CAATT
12106340 TAATGGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.17, C:0.19, G:0.07, T:0.58
Consensus pattern (27 bp):
CAATTCTCTCTTATTTTTGCATTTTTG
Found at i:12108839 original size:23 final size:23
Alignment explanation
Indices: 12108735--12108837 Score: 170
Period size: 23 Copynumber: 4.5 Consensus size: 23
12108725 ATGGTTGCTG
*
12108735 GTGTTTAAATGCTGTAAATTGCA
1 GTGTTTAAATGCTGTAAATTGAA
12108758 GTGTTTAAATGCTGTAAATTGAA
1 GTGTTTAAATGCTGTAAATTGAA
*
12108781 GTATTTAAATGCTGTAAATTGAA
1 GTGTTTAAATGCTGTAAATTGAA
* *
12108804 GTATTTAAATGTTGTAAATTGAA
1 GTGTTTAAATGCTGTAAATTGAA
12108827 GTGTTTAAATG
1 GTGTTTAAATG
12108838 TTCTTTGTGT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 76 1.00
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.41
Consensus pattern (23 bp):
GTGTTTAAATGCTGTAAATTGAA
Found at i:12109428 original size:42 final size:42
Alignment explanation
Indices: 12109322--12109473 Score: 96
Period size: 42 Copynumber: 3.6 Consensus size: 42
12109312 TGATATGGTC
* * ** *
12109322 TTTAGTGGCGTTTTTGGGGAAAGCGTCACTAAAGGTCATGTC
1 TTTAGCGGCGTTTTTGAGGAAAGCGTCACTAAAAATCATGTA
* * *
12109364 TTTAACGACG--TTTGAGGAGAAAGCG-CAGTTAAAAATCATGTA
1 TTTAGCGGCGTTTTTGA-G-GAAAGCGTCA-CTAAAAATCATGTA
** ** *
12109406 TTTAGCGGCGTTTTTGAGGAAAGCACCACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTTTGAGGAAAGCGTCACTAAAAATCATG-TA
**
12109449 TTTAGCGGTTTTTTTTGA-GAAAGCG
1 TTTAGCGG-CGTTTTTGAGGAAAGCG
12109474 CCGGTAAAGG
Statistics
Matches: 84, Mismatches: 18, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
40 4 0.05
41 3 0.04
42 47 0.56
43 18 0.21
44 12 0.14
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTGAGGAAAGCGTCACTAAAAATCATGTA
Found at i:12124426 original size:43 final size:42
Alignment explanation
Indices: 12124254--12124471 Score: 125
Period size: 43 Copynumber: 4.9 Consensus size: 42
12124244 TTATGTAAAA
* * ** *
12124254 AAACGCCGTTAAAGAATGTGA-CTTTCAATGGCGCTTTCTTGA-
1 AAACGCCGCTAAAGAACGTGACCTTT-AGCGGCGCTTT-TTCAC
* * *
12124296 AAATGTCGCTAAAAAACGTGACCTTTAGCGGCGCTTTTTTGTACAAGCAC
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGC--TTTT-T-----CAC
* * *** *
12124346 AAAGCGCCGCTAAAGAACATGGCCTTTAGCAATGCTTTTTGTAC
1 AAA-CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTT-CAC
* *
12124390 AAACGCTGCTAAAGAACGTGACCTTTAGTGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTT-TCAC
* * * *
12124433 AAATGCCGCTAAAGAATGTGACTTTTAGCGGCACTTTTT
1 AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTT
12124472 TTGCAAATAC
Statistics
Matches: 133, Mismatches: 31, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
42 23 0.17
43 67 0.50
44 11 0.08
48 1 0.01
49 5 0.04
50 3 0.02
51 23 0.17
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTTCAC
Found at i:12124479 original size:43 final size:43
Alignment explanation
Indices: 12124397--12124484 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
12124387 TACAAACGCT
* * *
12124397 GCTAAAGAACGTGACCTTTAGTGGCGCTTTTATCACAAATGCC
1 GCTAAAGAACGTGACCTTTAGCGGCACTTTTATCACAAATACC
* * * **
12124440 GCTAAAGAATGTGACTTTTAGCGGCACTTTTTTTGCAAATACC
1 GCTAAAGAACGTGACCTTTAGCGGCACTTTTATCACAAATACC
12124483 GC
1 GC
12124485 AAAATGTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
GCTAAAGAACGTGACCTTTAGCGGCACTTTTATCACAAATACC
Found at i:12124658 original size:47 final size:47
Alignment explanation
Indices: 12124581--12124674 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
12124571 AATCCTTCCT
*
12124581 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATATTTCAA
1 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
* *
12124628 GCAATATCAAATCCAACCAATAACAGCAAATCTAAATGATACTTCAA
1 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
12124675 AAATTCAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.21
Consensus pattern (47 bp):
GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
Found at i:12125309 original size:13 final size:14
Alignment explanation
Indices: 12125283--12125311 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
12125273 ACTACCGACG
12125283 AATTAAACCATTAT
1 AATTAAACCATTAT
12125297 AATTAAA-CATTAT
1 AATTAAACCATTAT
12125310 AA
1 AA
12125312 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:12130458 original size:9 final size:9
Alignment explanation
Indices: 12130441--12130543 Score: 102
Period size: 9 Copynumber: 11.6 Consensus size: 9
12130431 TATTTAAGTA
12130441 TTATGTAAG
1 TTATGTAAG
*
12130450 TTATTTAAG
1 TTATGTAAG
*
12130459 TTATGATATG
1 TTATG-TAAG
* * *
12130469 ATATAT-AT
1 TTATGTAAG
12130477 TTATGTAAG
1 TTATGTAAG
12130486 TTATGTAAG
1 TTATGTAAG
* *
12130495 TTATAT-AT
1 TTATGTAAG
*
12130503 TTATCTAAG
1 TTATGTAAG
*
12130512 TTATATAAG
1 TTATGTAAG
12130521 TTATGTAAG
1 TTATGTAAG
12130530 TTATGTAAG
1 TTATGTAAG
12130539 TTATG
1 TTATG
12130544 ATATGATATA
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
8 10 0.13
9 59 0.79
10 6 0.08
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:12130506 original size:26 final size:27
Alignment explanation
Indices: 12130450--12130559 Score: 125
Period size: 26 Copynumber: 4.1 Consensus size: 27
12130440 ATTATGTAAG
* *
12130450 TTATTTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGATAAGATATATAT
*
12130477 TTATGTAAGTTATG-TAAGTTATATAT
1 TTATGTAAGTTATGATAAGATATATAT
* * * *
12130503 TTATCTAAGTTAT-ATAAGTTATGTAAG
1 TTATGTAAGTTATGATAAGATATAT-AT
*
12130530 TTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGATAAGATATATAT
12130557 TTA
1 TTA
12130560 ACATTAAGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 31 0.45
27 30 0.43
28 8 0.12
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (27 bp):
TTATGTAAGTTATGATAAGATATATAT
Found at i:12130525 original size:35 final size:36
Alignment explanation
Indices: 12130441--12130555 Score: 122
Period size: 44 Copynumber: 3.0 Consensus size: 36
12130431 TATTTAAGTA
* *
12130441 TTATGTAAGTTATTTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAG
* *
12130477 TTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAG
1 TTATGTAAGTTATGTAAGTTAT-GA--TA--T--GATATAT-AG
12130521 TTATGTAAGTTATGTAAGTTATGATATGATATATA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATA
12130556 TTTAACATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
36 22 0.34
37 7 0.11
39 3 0.05
41 3 0.05
43 7 0.11
44 23 0.35
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.48
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAG
Found at i:12131034 original size:22 final size:20
Alignment explanation
Indices: 12130995--12131034 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
12130985 AAAACATTAA
*
12130995 AAATATTAAATATTAAAATC
1 AAATATTAAATATAAAAATC
12131015 AAATATTATTAATATAAAAA
1 AAATATTA--AATATAAAAA
12131035 ATTAGTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATTAAATATAAAAATC
Found at i:12131736 original size:25 final size:25
Alignment explanation
Indices: 12131708--12131759 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
12131698 TTGGAGAAGC
12131708 AGCAGAGGGATACCGACGGA-GATGT
1 AGCAGAGGGATACCGAC-GACGATGT
* * *
12131733 AGCATAGGGCTGCCGACGACGATGT
1 AGCAGAGGGATACCGACGACGATGT
12131758 AG
1 AG
12131760 AGGACTACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.29, C:0.19, G:0.38, T:0.13
Consensus pattern (25 bp):
AGCAGAGGGATACCGACGACGATGT
Found at i:12132429 original size:91 final size:92
Alignment explanation
Indices: 12132225--12132431 Score: 269
Period size: 94 Copynumber: 2.2 Consensus size: 92
12132215 TTCTTTGATG
* * *
12132225 ATAACAGTTAAAGCAATCCTATTTACACTCATCATATATATAAACAAACAAGTGCAAGCTCACAC
1 ATAACAGTTAAAGCAATCCCATTTACACTCACCATATATATAAACAAACAAGTGCAAGCACACAC
12132290 ACACACATATACATGAAAAACTTTCCACA
66 ACACACATATACATGAAAAA--TTCCACA
* *
12132319 ATAACAGTTAAAGCGATCCCATTTACACTCACCATATATATAAACAAACATGTGTGCAA-CACAC
1 ATAACAGTTAAAGCAATCCCATTTACACTCACCATATATATAAACAAACA--AGTGCAAGCACAC
* *
12132383 ACACACACATGTGA-AT-AATAA-TCCACA
64 ACACACACATAT-ACATGAAAAATTCCACA
*
12132410 ATAACAGTTAATGCAATCCCAT
1 ATAACAGTTAAAGCAATCCCAT
12132432 AATTCCCATT
Statistics
Matches: 101, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
91 26 0.26
94 51 0.50
95 17 0.17
96 7 0.07
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.23
Consensus pattern (92 bp):
ATAACAGTTAAAGCAATCCCATTTACACTCACCATATATATAAACAAACAAGTGCAAGCACACAC
ACACACATATACATGAAAAATTCCACA
Found at i:12134440 original size:20 final size:21
Alignment explanation
Indices: 12134393--12134444 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
12134383 GAATGAGCTG
* *
12134393 AAACGAGCTAAATGCGAGCTC
1 AAACGAGCTGAATGCGAACTC
12134414 AAACGAGCTGAAT-CGAACTC
1 AAACGAGCTGAATGCGAACTC
*
12134434 AAGCGAGCTGA
1 AAACGAGCTGA
12134445 TGGAAACTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.13
Consensus pattern (21 bp):
AAACGAGCTGAATGCGAACTC
Found at i:12146650 original size:42 final size:42
Alignment explanation
Indices: 12146525--12146650 Score: 119
Period size: 42 Copynumber: 3.0 Consensus size: 42
12146515 CTCTGTCCCT
* * * **
12146525 GACAGGGTCTTACACGAAATCTAATA-CGATGTCGATGTCCCA
1 GACATGGTCTTACACGAAATCTCATATCGATGTCAATGT-TTA
* * * * *
12146567 GACATGGTCTTACACGTAAATCTCAAATCAAAGCCTATGTTTA
1 GACATGGTCTTACACG-AAATCTCATATCGATGTCAATGTTTA
* *
12146610 GACATGGTCTTACACGATATCTCCTATCGATGTCAATGTTT
1 GACATGGTCTTACACGAAATCTCATATCGATGTCAATGTTT
12146651 CTTTAGAAAC
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
42 33 0.50
43 25 0.38
44 8 0.12
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (42 bp):
GACATGGTCTTACACGAAATCTCATATCGATGTCAATGTTTA
Found at i:12155367 original size:68 final size:66
Alignment explanation
Indices: 12155295--12155466 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
12155285 CATCATGTGT
* * * *
12155295 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
12155358 TGTAG
62 TGTAG
** * *
12155363 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
12155428 AG
65 AG
* * * *
12155430 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
12155467 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:12155400 original size:64 final size:64
Alignment explanation
Indices: 12155319--12155498 Score: 195
Period size: 67 Copynumber: 2.8 Consensus size: 64
12155309 AGACATTATG
* * *
12155319 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
12155383 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
12155448 AA
63 AA
* * *
12155450 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGA
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGA
12155499 AAGCCGAACT
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 15 0.16
64 25 0.26
66 21 0.22
67 33 0.35
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:12159684 original size:20 final size:18
Alignment explanation
Indices: 12159647--12159697 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
12159637 CTACAGCAAC
12159647 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
12159664 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
12159684 TTACAACTTTACAA
1 TCACAA-TTTACAA
12159698 AATAACCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:12161248 original size:44 final size:44
Alignment explanation
Indices: 12161179--12161267 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
12161169 ATATCAAATG
*
12161179 TAATCTCTACGAATATTCTAATTTCAACCAAAAGTTATTATTAT
1 TAATCTCTACAAATATTCTAATTTCAACCAAAAGTTATTATTAT
* * *
12161223 TAATCTTTACAAATGTTCTATTTTCAACCAAAAGTTATTATTAT
1 TAATCTCTACAAATATTCTAATTTCAACCAAAAGTTATTATTAT
12161267 T
1 T
12161268 TTAAACGCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (44 bp):
TAATCTCTACAAATATTCTAATTTCAACCAAAAGTTATTATTAT
Found at i:12165677 original size:43 final size:42
Alignment explanation
Indices: 12165581--12165698 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
12165571 AATTTGAGAT
*
12165581 TTACGTGTAAGACCATGTCTAGGACATTGGCATCGTATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGGCATCGTATTTGA
* * * *
12165623 TTTCGTTTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA
1 TTACGTGTAAGACCATGTCTAGGACAGTGGCATCG-TATTTGA
* *
12165666 TTACATGTAAGACCAAGTCTAGGAC-GTTGGCAT
1 TTACGTGTAAGACCATGTCTAGGACAG-TGGCAT
12165699 TGTACAAGCT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTAGGACAGTGGCATCGTATTTGA
Found at i:12169954 original size:11 final size:11
Alignment explanation
Indices: 12169938--12169968 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
12169928 ACTTTAGCTT
12169938 TAAGAATTAAA
1 TAAGAATTAAA
12169949 TAAGAATTAAA
1 TAAGAATTAAA
*
12169960 TGAGAATTA
1 TAAGAATTA
12169969 CTTATCAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
TAAGAATTAAA
Done.