Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 120 of 187
Found at i:35546214 original size:15 final size:15
Alignment explanation
Indices: 35546173--35546221 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
35546163 CCCCAACCCT
*
35546173 TAAACCACATAATCCA
1 TAAA-CACATAATCCC
*
35546189 TAATC-CATAATCCC
1 TAAACACATAATCCC
35546203 TAAACACATAATCCC
1 TAAACACATAATCCC
35546218 TAAA
1 TAAA
35546222 TTACCTTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 12 0.41
15 14 0.48
16 3 0.10
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACACATAATCCC
Found at i:35546626 original size:40 final size:40
Alignment explanation
Indices: 35546561--35546668 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
35546551 TGTTTTTTGT
35546561 GGCGTTTTTCAACAAA-CGCCGCTAATGCTTGATCTATAGC
1 GGCGTTTTTCAA-AAAGCGCCGCTAATGCTTGATCTATAGC
* *
35546601 GGCGTTTTTCAAAAAGCGCCACTAATGCTTGATCTATAGT
1 GGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATAGC
*
35546641 GGCGTTTTTCAAGAAGCGCCGCTAATGC
1 GGCGTTTTTCAAAAAGCGCCGCTAATGC
35546669 CACCAAAGCT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.05
40 60 0.95
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (40 bp):
GGCGTTTTTCAAAAAGCGCCGCTAATGCTTGATCTATAGC
Found at i:35546848 original size:94 final size:93
Alignment explanation
Indices: 35546688--35546867 Score: 281
Period size: 94 Copynumber: 1.9 Consensus size: 93
35546678 TCATGGCGTT
* * *
35546688 GTGCTTATTTTTTTTGTGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGATCTATAGCGGCGTTTT
1 GTGCTTATTTTTTTTGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTT
*
35546753 TCAAGAAGCGCCGCTAATGCCACCAAAG
66 TCAAAAAGCGCCGCTAATGCCACCAAAG
*
35546781 GTGCTTAATTTTTTTTTGCGGCGTTTTT-TAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTT
1 GTGCTT-A-TTTTTTTTGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTT
*
35546845 TTTCAAAAAGTGCCGCTAATGCC
64 TTTCAAAAAGCGCCGCTAATGCC
35546868 GATCTATAGC
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
93 6 0.08
94 55 0.70
95 18 0.23
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (93 bp):
GTGCTTATTTTTTTTGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTT
TCAAAAAGCGCCGCTAATGCCACCAAAG
Found at i:35546875 original size:39 final size:39
Alignment explanation
Indices: 35546798--35546907 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 39
35546788 ATTTTTTTTT
*
35546798 GCGGCGTTTTT-TAAAAGCGCCGCTAATGCTCGACCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGC-CGACCTATA
* *
35546837 GCGGCGTTTTTCAAAAAGTGCCGCTAATGCCGATCTATA
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCCGACCTATA
* *
35546876 GCGGTGTTTTTCAAGAAGCGCCGCTAATGCCG
1 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCCG
35546908 CCAAAGGTGC
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 48 0.75
40 16 0.25
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (39 bp):
GCGGCGTTTTTCAAAAAGCGCCGCTAATGCCGACCTATA
Found at i:35547039 original size:41 final size:40
Alignment explanation
Indices: 35546935--35547022 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
35546925 TTTTTGCGGC
*
35546935 GCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCG
1 GCGTTTTTCAAAAAACGCCGCTAATGCTCGACCTATAGCG
* *
35546975 GCGTTTTTCAAAAAACTCCGCTAATGGTCGACCTATAGCG
1 GCGTTTTTCAAAAAACGCCGCTAATGCTCGACCTATAGCG
35547015 GCGTTTTT
1 GCGTTTTT
35547023 TATCCAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.30
Consensus pattern (40 bp):
GCGTTTTTCAAAAAACGCCGCTAATGCTCGACCTATAGCG
Found at i:35548127 original size:18 final size:20
Alignment explanation
Indices: 35548102--35548145 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
35548092 TAAAAAAGTC
35548102 ATTA-AATTTATAAAAA-A-
1 ATTAGAATTTATAAAAATAT
35548119 ATTAGAATTTATAAAAATAT
1 ATTAGAATTTATAAAAATAT
35548139 ATTAGAA
1 ATTAGAA
35548146 ATTAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.17
18 12 0.50
19 1 0.04
20 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTAGAATTTATAAAAATAT
Found at i:35553059 original size:40 final size:39
Alignment explanation
Indices: 35552997--35553125 Score: 170
Period size: 40 Copynumber: 3.2 Consensus size: 39
35552987 GCTTTAGCAG
*
35552997 CATTAGCGGTGCTTTTTTAAAAACGCCGCTATAGGTCAAC
1 CATTAGCGGTGC-TATTTAAAAACGCCGCTATAGGTCAAC
*
35553037 CATTAGCGGTGCTATTTGAAAAA-GACCGCTATAGGTCGAC
1 CATTAGCGGTGCTATTT-AAAAACG-CCGCTATAGGTCAAC
** *
35553077 CATTAGCGGTGCTTATTTAAAAACGCCGCTATATATCAAG
1 CATTAGCGGTGC-TATTTAAAAACGCCGCTATAGGTCAAC
35553117 CATTAGCGG
1 CATTAGCGG
35553126 CACATCATGA
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
39 5 0.06
40 68 0.86
41 6 0.08
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (39 bp):
CATTAGCGGTGCTATTTAAAAACGCCGCTATAGGTCAAC
Found at i:35553539 original size:7 final size:7
Alignment explanation
Indices: 35553446--35553539 Score: 93
Period size: 7 Copynumber: 13.6 Consensus size: 7
35553436 ATAATTTAAT
*
35553446 GTTTAGA
1 GTTTAGG
*
35553453 GTTTAGT
1 GTTTAGG
*
35553460 GTTTACG
1 GTTTAGG
35553467 GTTTA-G
1 GTTTAGG
35553473 GTTGTA-G
1 GTT-TAGG
*
35553480 GTTTATG
1 GTTTAGG
*
35553487 GTTTAGT
1 GTTTAGG
35553494 GTTTAGG
1 GTTTAGG
35553501 GTTTAGG
1 GTTTAGG
35553508 GTTTAGG
1 GTTTAGG
**
35553515 GTTTATA
1 GTTTAGG
*
35553522 GTTTAGT
1 GTTTAGG
35553529 GTTTAGG
1 GTTTAGG
35553536 GTTT
1 GTTT
35553540 TAAACAAAAC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
6 6 0.08
7 68 0.92
ACGTcount: A:0.16, C:0.01, G:0.33, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:35561539 original size:26 final size:26
Alignment explanation
Indices: 35561510--35561561 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
35561500 ACAACTCTTA
35561510 TGAGTGTCCTGA-TATATGGCTCTCTG
1 TGAGTGTCCTGATTA-ATGGCTCTCTG
*
35561536 TGAGTTTCCTGATTAATGGCTCTCTG
1 TGAGTGTCCTGATTAATGGCTCTCTG
35561562 GAGCCTCTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.40
Consensus pattern (26 bp):
TGAGTGTCCTGATTAATGGCTCTCTG
Found at i:35561604 original size:25 final size:25
Alignment explanation
Indices: 35561572--35561630 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
35561562 GAGCCTCTCG
*
35561572 ATATGGCTCGCCTAAACTTCCCAAT
1 ATATGGCTCGCCGAAACTTCCCAAT
** *
35561597 ATATGGCTATCCGAAGCTTCCCAAT
1 ATATGGCTCGCCGAAACTTCCCAAT
35561622 -TAATGGCTC
1 AT-ATGGCTC
35561631 TTCGAAGCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (25 bp):
ATATGGCTCGCCGAAACTTCCCAAT
Found at i:35561636 original size:25 final size:25
Alignment explanation
Indices: 35561588--35561639 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
35561578 CTCGCCTAAA
35561588 CTTCCCAATATATGGCTATCCGAAG
1 CTTCCCAATATATGGCTATCCGAAG
* *
35561613 CTTCCCAAT-TAATGGCTCTTCGAAG
1 CTTCCCAATAT-ATGGCTATCCGAAG
35561638 CT
1 CT
35561640 AACCGTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (25 bp):
CTTCCCAATATATGGCTATCCGAAG
Found at i:35562970 original size:23 final size:23
Alignment explanation
Indices: 35562944--35562988 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
35562934 CCACAGTGAT
35562944 ATGTAGCCGAAGCTACCACTGAG
1 ATGTAGCCGAAGCTACCACTGAG
35562967 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
35562989 TCAATAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAG
Found at i:35563089 original size:8 final size:8
Alignment explanation
Indices: 35563076--35563104 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
35563066 ACCCGGGACT
35563076 CACTGTAA
1 CACTGTAA
35563084 CACTGTAA
1 CACTGTAA
35563092 CACTGTAA
1 CACTGTAA
35563100 CACTG
1 CACTG
35563105 ATCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:35569492 original size:67 final size:67
Alignment explanation
Indices: 35569225--35569492 Score: 353
Period size: 67 Copynumber: 4.0 Consensus size: 67
35569215 GTGGATTTCG
* * * * *
35569225 TTTT-TTGTCATAGCCTAGCTATGGTCTTACACATTATACCCTATGTTTGTTGTCTTGACAGATT
1 TTTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCTTGACAGACT
35569289 TC
66 TC
* *
35569291 CTTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCGTGACAGACT
1 TTTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCTTGACAGACT
35569356 TC
66 TC
* * * * *
35569358 ATTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTACTATCCT-AAAGGAC
1 TTTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCTTGACA-GAC
35569422 TTC
65 TTC
* * * *
35569425 TTTTGTTGCAATAGCCTAGCTATGGTCTTACAC-ATCATACTCCATGTTTATTGTCTTGGCGGAC
1 TTTTGTTGCCATAGCCTAGCTATGGTCTTACACAAT-ATACCCCATGTTTATTGTCTTGACAGAC
35569489 TTC
65 TTC
35569492 T
1 T
35569493 GATTTCATGG
Statistics
Matches: 177, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
66 7 0.04
67 170 0.96
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (67 bp):
TTTTGTTGCCATAGCCTAGCTATGGTCTTACACAATATACCCCATGTTTATTGTCTTGACAGACT
TC
Found at i:35577510 original size:39 final size:41
Alignment explanation
Indices: 35577415--35577598 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
35577405 TTGAATGATG
*
35577415 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
35577454 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
35577494 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
35577533 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
35577573 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35577599 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:35577550 original size:79 final size:81
Alignment explanation
Indices: 35577415--35577598 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
35577405 TTGAATGATG
35577415 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
35577478 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
35577493 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
35577554 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
35577573 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35577599 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:35577620 original size:79 final size:79
Alignment explanation
Indices: 35577467--35577631 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
35577457 GGACTAAGAT
* ** *
35577467 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
35577532 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
35577546 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
35577608 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
35577625 CCGAAGG
1 CCGAAGG
35577632 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:35581372 original size:117 final size:117
Alignment explanation
Indices: 35581164--35581385 Score: 338
Period size: 117 Copynumber: 1.9 Consensus size: 117
35581154 AAAGCTTTCT
*
35581164 ATTTCTACATCACCACTAACATTTCAAGTGCTAAATAACATAGAAATAAGCATATTTATACAAAT
1 ATTTCTACATCACCACTAACATTTCAAGTACTAAATAACATAGAAATAAGCATATTTATACAAAT
* *
35581229 TAATGTCCTAAGTACATGCCACAATATATAAATACACAAACTCTAGCATTCA
66 TAATGACCTAAGTACATGCCAAAATATATAAATACACAAACTCTAGCATTCA
* * * * *
35581281 ATTTCTACATCACCACTAACATTTTAGGTACTAACTAACATATG-AATAAGCTTATTTATACAAG
1 ATTTCTACATCACCACTAACATTTCAAGTACTAAATAACATA-GAAATAAGCATATTTATACAAA
* *
35581345 TTATTGACCTAAGTACATGCCAAAATATATAAATATACAAA
65 TTAATGACCTAAGTACATGCCAAAATATATAAATACACAAA
35581386 TTCCATACTC
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
117 93 0.99
118 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (117 bp):
ATTTCTACATCACCACTAACATTTCAAGTACTAAATAACATAGAAATAAGCATATTTATACAAAT
TAATGACCTAAGTACATGCCAAAATATATAAATACACAAACTCTAGCATTCA
Found at i:35582397 original size:40 final size:40
Alignment explanation
Indices: 35582352--35582455 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
35582342 GTTTGGACAA
* *
35582352 AAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTACA-C
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTAT-CAGC
* *
35582392 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTATCAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTATCAGC
*
35582432 AAAGCGCCGCTAAAAAT-GAGCATT
1 AAAACGCCGCTAAAAATCGAGCATT
35582456 TGTAAAAACG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 9 0.16
40 48 0.84
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTATCAGC
Found at i:35583059 original size:14 final size:14
Alignment explanation
Indices: 35583038--35583086 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
35583028 GGGTTGTGAT
35583038 TTAAGGGTTAAGGG-
1 TTAAGGGTT-AGGGA
*
35583052 TTAGGGGTTAGGGA
1 TTAAGGGTTAGGGA
*
35583066 TTAAGTGTTAGGGA
1 TTAAGGGTTAGGGA
35583080 TTTAAGG
1 -TTAAGG
35583087 TTTATGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 4 0.14
14 20 0.69
15 5 0.17
ACGTcount: A:0.27, C:0.00, G:0.41, T:0.33
Consensus pattern (14 bp):
TTAAGGGTTAGGGA
Found at i:35583254 original size:21 final size:21
Alignment explanation
Indices: 35583219--35583270 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
35583209 TATATTAAAT
* *
35583219 AAGGTTTAGGGGTTAGTAGTTA
1 AAGG-TTAAGGGTTAGGAGTTA
*
35583241 AAGGTTAAGGGTTAGGGGTTA
1 AAGGTTAAGGGTTAGGAGTTA
*
35583262 GAGGTTAAG
1 AAGGTTAAG
35583271 ACTTAGTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (21 bp):
AAGGTTAAGGGTTAGGAGTTA
Found at i:35583276 original size:21 final size:21
Alignment explanation
Indices: 35583237--35583276 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35583227 GGGGTTAGTA
**
35583237 GTTAAAGGTTAAGGGTTAGGG
1 GTTAAAGGTTAAGACTTAGGG
*
35583258 GTTAGAGGTTAAGACTTAG
1 GTTAAAGGTTAAGACTTAG
35583277 TGATTTAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.38, T:0.30
Consensus pattern (21 bp):
GTTAAAGGTTAAGACTTAGGG
Found at i:35584741 original size:3 final size:3
Alignment explanation
Indices: 35584733--35584767 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
35584723 CATTGAGCTG
35584733 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
35584768 TTGGTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:35588554 original size:27 final size:27
Alignment explanation
Indices: 35588524--35588579 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
35588514 AATTTTGAGG
*
35588524 TTTATAATTTATAATTTTTATTAATTA
1 TTTATAATTTATAACTTTTATTAATTA
** * *
35588551 TTTATGTTTTCTCACTTTTATTAATTA
1 TTTATAATTTATAACTTTTATTAATTA
35588578 TT
1 TT
35588580 ATTATTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTATAATTTATAACTTTTATTAATTA
Found at i:35588874 original size:42 final size:43
Alignment explanation
Indices: 35588769--35588908 Score: 158
Period size: 42 Copynumber: 3.3 Consensus size: 43
35588759 GATATGTTTT
* * * * * * *
35588769 TAGCGGTGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTA
* * *
35588811 TAGCAGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGGCCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTA
* *
35588854 TAGCGGCGTTTGTGGG-AAAGCGTCGCTAAAGGTCATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTA
35588896 TAGCGGCGTTTGT
1 TAGCGGCGTTTGT
35588909 TTCTAAAAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 63 0.77
43 19 0.23
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTA
Found at i:35598051 original size:27 final size:26
Alignment explanation
Indices: 35598021--35598078 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
35598011 AATTTTGAGG
*
35598021 TTTATAATTTATAATTTTTATTAATT
1 TTTATAATTTATAACTTTTATTAATT
** * *
35598047 ATTTATGTTTTCTCACTTTTATTAATT
1 -TTTATAATTTATAACTTTTATTAATT
35598074 TTTAT
1 TTTAT
35598079 TATTATTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTATAATTTATAACTTTTATTAATT
Found at i:35598369 original size:43 final size:43
Alignment explanation
Indices: 35598265--35598596 Score: 432
Period size: 43 Copynumber: 7.7 Consensus size: 43
35598255 GATATGTTTT
* * * * * * *
35598265 TAGCGGTGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * *
35598307 TAGCAGCATTTGTGGGAAAAGCGCCGCTAAAGGTCATGGCCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * * *
35598350 TAGCGGCGTTTGTGAGAAAAACGCCGCTAAAGATCATGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
*
35598393 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGCCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
35598436 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * *
35598479 TAGCGGCGTTTGTGGGAAGAGCGCCGCTAAAGCTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* **
35598522 TAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGGTTGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* *
35598565 TAGCGGCGTTTGTGGGAAAAGTGCCGCAAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
35598597 TTAGCGACGC
Statistics
Matches: 250, Mismatches: 39, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
42 27 0.11
43 223 0.89
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
Found at i:35601686 original size:20 final size:19
Alignment explanation
Indices: 35601654--35601692 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35601644 AACTTCTACA
35601654 AATAAGGAAAAAAAATCTG
1 AATAAGGAAAAAAAATCTG
35601673 AATAAGGAAAAAAAATCTG
1 AATAAGGAAAAAAAATCTG
35601692 A
1 A
35601693 TTTGTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.15, T:0.15
Consensus pattern (19 bp):
AATAAGGAAAAAAAATCTG
Found at i:35602273 original size:39 final size:39
Alignment explanation
Indices: 35602217--35602292 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
35602207 AACTATTACT
35602217 AAAATTCCTATTAGAAACCCAATTTTGTAACAAAATACA
1 AAAATTCCTATTAGAAACCCAATTTTGTAACAAAATACA
* *
35602256 AAAATTCCTATTGGAAACCCAATTTTGTAACCAAATA
1 AAAATTCCTATTAGAAACCCAATTTTGTAACAAAATA
35602293 TTTCGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (39 bp):
AAAATTCCTATTAGAAACCCAATTTTGTAACAAAATACA
Found at i:35602425 original size:20 final size:20
Alignment explanation
Indices: 35602402--35602454 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
35602392 TTTTTCAAAT
35602402 AAAAATTATAAAAATCAT-AA
1 AAAAATTATAAAAA-CATCAA
* ** *
35602422 AAAAACTATAAGTACATCAC
1 AAAAATTATAAAAACATCAA
35602442 AAAAATTATAAAA
1 AAAAATTATAAAA
35602455 TTACTTTTTG
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAATTATAAAAACATCAA
Found at i:35602559 original size:38 final size:39
Alignment explanation
Indices: 35602500--35602574 Score: 91
Period size: 38 Copynumber: 1.9 Consensus size: 39
35602490 TTTTCAAAAC
*
35602500 ATTTGGTTACAAAGTATGGTTT-CAATAAAAATTTTAAT
1 ATTTGGTTACAAAATATGGTTTCCAATAAAAATTTTAAT
* * *
35602538 ATTTGGTTATAAAAT-TGGGTTTCCAATAGATATTTTA
1 ATTTGGTTACAAAATAT-GGTTTCCAATAAAAATTTTA
35602575 CTAATAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
37 1 0.03
38 18 0.58
39 12 0.39
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (39 bp):
ATTTGGTTACAAAATATGGTTTCCAATAAAAATTTTAAT
Found at i:35602842 original size:18 final size:18
Alignment explanation
Indices: 35602819--35602858 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
35602809 AAAAAAAATA
35602819 TTTTATAATGT-TTATGAT
1 TTTTATAAT-TATTATGAT
35602837 TTTTATAATTATTATGAT
1 TTTTATAATTATTATGAT
35602855 TTTT
1 TTTT
35602859 CAACATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TTTTATAATTATTATGAT
Found at i:35614609 original size:22 final size:23
Alignment explanation
Indices: 35614572--35614615 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
35614562 GGGGGTAAGA
*
35614572 CAAAATTTGCATGAATTTTAAAG
1 CAAAATTTACATGAATTTTAAAG
35614595 CAAAA-TTACATGAATTTTAAA
1 CAAAATTTACATGAATTTTAAA
35614616 TTTTTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (23 bp):
CAAAATTTACATGAATTTTAAAG
Found at i:35614710 original size:12 final size:12
Alignment explanation
Indices: 35614693--35614734 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
35614683 AAAAGTTGTT
35614693 CATAAGTTTACA
1 CATAAGTTTACA
35614705 CATAAGTTTACA
1 CATAAGTTTACA
*
35614717 CATATGTTTACA
1 CATAAGTTTACA
35614729 CATAAG
1 CATAAG
35614735 CATGATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (12 bp):
CATAAGTTTACA
Found at i:35625451 original size:150 final size:150
Alignment explanation
Indices: 35625175--35625471 Score: 549
Period size: 150 Copynumber: 2.0 Consensus size: 150
35625165 TACTCATTTC
35625175 GTAATTCAACATTTACAGATATATAGATATAATTAAGATATTAAAGTATTAATTAAATTATTTAA
1 GTAATTCAACATTTACAGATATATAGATATAATTAAGATATTAAAGTATTAATTAAATTATTTAA
* * *
35625240 AGTAAATACATAGAGTTCGATTTCAAGGACTACAAACTTGCCTTAATCGAAACGGTTGTAAAATA
66 AGTAAATACATAGAGTTCGATTTCAAGGACTAAAAACTTACCTTAATCGAAACGGTCGTAAAATA
35625305 ACATTGGTAACTAATCCAAA
131 ACATTGGTAACTAATCCAAA
35625325 GTAATTCAACATTTACAGATATATAGATATAATTAAGATATTAAAGTATTAATTAAATTATTTAA
1 GTAATTCAACATTTACAGATATATAGATATAATTAAGATATTAAAGTATTAATTAAATTATTTAA
*
35625390 AGTAAATACATAGAGTTCGATTTTAAGGACTAAAAACTTACCTTAATCGAAACGGTCGTAAAATA
66 AGTAAATACATAGAGTTCGATTTCAAGGACTAAAAACTTACCTTAATCGAAACGGTCGTAAAATA
*
35625455 ACGTTGGTAACTAATCC
131 ACATTGGTAACTAATCC
35625472 GAAACTTTTG
Statistics
Matches: 142, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 142 1.00
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (150 bp):
GTAATTCAACATTTACAGATATATAGATATAATTAAGATATTAAAGTATTAATTAAATTATTTAA
AGTAAATACATAGAGTTCGATTTCAAGGACTAAAAACTTACCTTAATCGAAACGGTCGTAAAATA
ACATTGGTAACTAATCCAAA
Found at i:35629590 original size:15 final size:15
Alignment explanation
Indices: 35629570--35629599 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35629560 GCTCCCTCAT
35629570 ACTTGTTTTTTTCAA
1 ACTTGTTTTTTTCAA
35629585 ACTTGTTTTTTTCAA
1 ACTTGTTTTTTTCAA
35629600 GCTTACCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (15 bp):
ACTTGTTTTTTTCAA
Found at i:35630060 original size:12 final size:12
Alignment explanation
Indices: 35630043--35630140 Score: 56
Period size: 12 Copynumber: 8.1 Consensus size: 12
35630033 TTCAAAAAAG
35630043 AAGAAAAACAAA
1 AAGAAAAACAAA
35630055 AAGAAAAATCAAA
1 AAGAAAAA-CAAA
** **
35630068 ATCAAAGTCAAA
1 AAGAAAAACAAA
35630080 AAG-AAAA-AAA
1 AAGAAAAACAAA
35630090 AAGAAAAATCAAA
1 AAGAAAAA-CAAA
** *
35630103 ATCAAAATCAAA
1 AAGAAAAACAAA
* **
35630115 ATGAAAATGAAA
1 AAGAAAAACAAA
*
35630127 AAGAGAAAAGAAA
1 AAGA-AAAACAAA
35630140 A
1 A
35630141 GCAAAGAAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
10 6 0.09
11 6 0.09
12 30 0.45
13 24 0.36
ACGTcount: A:0.74, C:0.07, G:0.10, T:0.08
Consensus pattern (12 bp):
AAGAAAAACAAA
Found at i:35630068 original size:6 final size:6
Alignment explanation
Indices: 35630059--35630127 Score: 59
Period size: 6 Copynumber: 11.7 Consensus size: 6
35630049 AACAAAAAGA
* ** * **
35630059 AAAATC AAAATC AAAGTC AAAAAG AAAA-A AAAAGA AAAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
* *
35630106 AAAATC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAA
35630128 AGAGAAAAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
5 4 0.07
6 50 0.93
ACGTcount: A:0.72, C:0.09, G:0.07, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:35630090 original size:29 final size:30
Alignment explanation
Indices: 35630053--35630128 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 30
35630043 AAGAAAAACA
** *
35630053 AAAAGAAAAATCAAAATCAAAGTCAAAAAG
1 AAAAGAAAAAGAAAAATCAAAATCAAAAAG
**
35630083 AAAA-AAAAAGAAAAATCAAAATCAAAATC
1 AAAAGAAAAAGAAAAATCAAAATCAAAAAG
*
35630112 AAAATGAAAATGAAAAA
1 AAAA-GAAAAAGAAAAA
35630129 GAGAAAAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 24 0.63
30 4 0.11
31 10 0.26
ACGTcount: A:0.74, C:0.08, G:0.08, T:0.11
Consensus pattern (30 bp):
AAAAGAAAAAGAAAAATCAAAATCAAAAAG
Found at i:35630091 original size:35 final size:36
Alignment explanation
Indices: 35630047--35630135 Score: 126
Period size: 35 Copynumber: 2.4 Consensus size: 36
35630037 AAAAAGAAGA
*
35630047 AAAACAAAAAGAAAAATCAAAATCAAAGTCAAAAAG
1 AAAACAAAAAGAAAAATCAAAATCAAAATCAAAAAG
*
35630083 AAAA-AAAAAGAAAAATCAAAATCAAAATCAAAATG
1 AAAACAAAAAGAAAAATCAAAATCAAAATCAAAAAG
*
35630118 AAAATGAAAAAGAGAAAA
1 AAAA-CAAAAAGA-AAAA
35630136 GAAAAGCAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
35 33 0.69
36 4 0.08
37 7 0.15
38 4 0.08
ACGTcount: A:0.74, C:0.08, G:0.09, T:0.09
Consensus pattern (36 bp):
AAAACAAAAAGAAAAATCAAAATCAAAATCAAAAAG
Found at i:35630091 original size:41 final size:41
Alignment explanation
Indices: 35630037--35630128 Score: 114
Period size: 41 Copynumber: 2.3 Consensus size: 41
35630027 ACCCAATTCA
* *
35630037 AAAAAG-AAGAAAAACAAAAAGAAAAATCAAAATCAAAGTC
1 AAAAAGAAAAAAAAACAAAAAGAAAAATCAAAATCAAAATC
* ** *
35630077 AAAAAGAAAAAAAAAGAAAAATCAAAATCAAAATCAAAATG
1 AAAAAGAAAAAAAAACAAAAAGAAAAATCAAAATCAAAATC
*
35630118 AAAATGAAAAA
1 AAAAAGAAAAA
35630129 GAGAAAAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 6 0.14
41 38 0.86
ACGTcount: A:0.75, C:0.08, G:0.09, T:0.09
Consensus pattern (41 bp):
AAAAAGAAAAAAAAACAAAAAGAAAAATCAAAATCAAAATC
Found at i:35630110 original size:47 final size:47
Alignment explanation
Indices: 35630036--35630141 Score: 124
Period size: 47 Copynumber: 2.2 Consensus size: 47
35630026 GACCCAATTC
* *
35630036 AAAAAAGAAGAAAAACAAAAAGAAAAATCAAAATCAAAGTCAAAAAG
1 AAAAAAAAAGAAAAACAAAAAGAAAAATCAAAATCAAAATCAAAAAG
** * *
35630083 AAAAAAAAAGAAAAATC-AAAATCAAAATCAAAATGAAAATGAAAAAG
1 AAAAAAAAAGAAAAA-CAAAAAGAAAAATCAAAATCAAAATCAAAAAG
35630130 AGAAAAGAAAAG
1 A-AAAA-AAAAG
35630142 CAAAGAAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 40 0.80
48 5 0.10
49 5 0.10
ACGTcount: A:0.75, C:0.07, G:0.11, T:0.08
Consensus pattern (47 bp):
AAAAAAAAAGAAAAACAAAAAGAAAAATCAAAATCAAAATCAAAAAG
Found at i:35630515 original size:7 final size:7
Alignment explanation
Indices: 35630503--35630532 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
35630493 AAAAAAAGAG
35630503 ATGAAAA
1 ATGAAAA
35630510 ATG-AAA
1 ATGAAAA
35630516 ATGAAAA
1 ATGAAAA
35630523 ATGAAAA
1 ATGAAAA
35630530 ATG
1 ATG
35630533 GAGAGGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (7 bp):
ATGAAAA
Found at i:35630519 original size:13 final size:13
Alignment explanation
Indices: 35630503--35630529 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35630493 AAAAAAAGAG
35630503 ATGAAAAATGAAA
1 ATGAAAAATGAAA
35630516 ATGAAAAATGAAA
1 ATGAAAAATGAAA
35630529 A
1 A
35630530 ATGGAGAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:35632073 original size:87 final size:87
Alignment explanation
Indices: 35631745--35632632 Score: 1374
Period size: 87 Copynumber: 10.3 Consensus size: 87
35631735 ATAGATTAGC
* * *
35631745 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATAGAAAACAAAGTCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
* *
35631810 ATCGGTTGCAGTGGAGCTAGTT
66 ATCGGTTGTAGTGGAGCTGGTT
* *
35631832 AAAGA-AGCAGATCTTGCCTTCCCGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
*
35631896 ATCGGTTGTAGTGGAGTTGGTT
66 ATCGGTTGTAGTGGAGCTGGTT
* * *
35631918 AAAGA-AG-AAATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
35631981 ATCGGTTGTAGTGGAGCTGGTT
66 ATCGGTTGTAGTGGAGCTGGTT
* * *
35632003 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAATAAAGTCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
** *
35632068 ATCGGTTACAGTAGAGCTGGTT
66 ATCGGTTGTAGTGGAGCTGGTT
* * *
35632090 AAAGA-AGCAGATCTTGCCGTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCATTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
35632154 ATCGGTTGTAGTGGAGCTGGTT
66 ATCGGTTGTAGTGGAGCTGGTT
* * *
35632176 GAACATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
35632241 ATCGGTTGTAGTGGAGCTGGTT
66 ATCGGTTGTAGTGGAGCTGGTT
* * * *
35632263 GAACATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
*
35632328 ATCGGTTGTAGTGGAGCTAGTT
66 ATCGGTTGTAGTGGAGCTGGTT
* * *
35632350 AAAGA-AGCAGATCTTGCCTTCCTGCGTTAATAGCGAAGCAGATCGAAAACAAAGCTTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
35632414 ATCGGTTGTAGTGGAGCTGGTT
66 ATCGGTTGTAGTGGAGCTGGTT
* * * *
35632436 GAAGATAGCAGATCTTGCCTTCTTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCATCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
*
35632501 ATCGGTTGTAGTAGAGCTGGTT
66 ATCGGTTGTAGTGGAGCTGGTT
* *
35632523 CAAGATAGCAGAT-TTGCCTTCCTGCATTAACAGCGAAACAGATCGAAAACAAAGCCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
* *
35632587 ATCGGTTGCAGTGGAGCTGTTT
66 ATCGGTTGTAGTGGAGCTGGTT
35632609 AAAGATAGCAGATCTTGCCTTCCT
1 AAAGATAGCAGATCTTGCCTTCCT
35632633 AAGCACTAGC
Statistics
Matches: 735, Mismatches: 61, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
85 79 0.11
86 314 0.43
87 342 0.47
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCC
ATCGGTTGTAGTGGAGCTGGTT
Found at i:35632167 original size:173 final size:173
Alignment explanation
Indices: 35631745--35632632 Score: 1356
Period size: 173 Copynumber: 5.1 Consensus size: 173
35631735 ATAGATTAGC
* *
35631745 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATAGAAAACAAAGTCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG-CTTGCCTCC
* * * *
35631810 ATCGGTTGCAGTGGAGCTAGTTAAAGA-AGCAGATCTTGCCTTCCCGCGTTAACAGCGAAGCAGA
65 ATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
*
35631874 TCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGTTGGTT
130 TCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
* * *
35631918 AAAGA-AG-AAATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG-CTTGCCTCC
*
35631981 ATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGA
65 ATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
* * ** *
35632046 TCGAAAATAAAGTCTTGCCTCCATCGGTTACAGTAGAGCTGGTT
130 TCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
* *
35632090 AAAGA-AGCAGATCTTGCCGTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCATTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGC-TTGCCTCC
* *
35632154 ATCGGTTGTAGTGGAGCTGGTTGAACATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
65 ATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
*
35632219 TCGAAAACAAAGTCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
130 TCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
* * *
35632263 GAACATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG-CTTGCCTCC
* * *
35632328 ATCGGTTGTAGTGGAGCTAGTTAAAGA-AGCAGATCTTGCCTTCCTGCGTTAATAGCGAAGCAGA
65 ATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
*
35632392 TCGAAAACAAAGCTTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
130 TCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
* * * *
35632436 GAAGATAGCAGATCTTGCCTTCTTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCATCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAG-CTTGCCTCC
* * *
35632501 ATCGGTTGTAGTAGAGCTGGTTCAAGATAGCAGAT-TTGCCTTCCTGCATTAACAGCGAAACAGA
65 ATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
* *
35632565 TCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGTTT
130 TCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
35632609 AAAGATAGCAGATCTTGCCTTCCT
1 AAAGATAGCAGATCTTGCCTTCCT
35632633 AAGCACTAGC
Statistics
Matches: 653, Mismatches: 56, Indels: 12
0.91 0.08 0.02
Matches are distributed among these distances:
171 75 0.11
172 82 0.13
173 410 0.63
174 85 0.13
175 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (173 bp):
AAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCTTGCCTCCA
TCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAT
CGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
Found at i:35632304 original size:260 final size:260
Alignment explanation
Indices: 35631745--35632632 Score: 1478
Period size: 260 Copynumber: 3.4 Consensus size: 260
35631735 ATAGATTAGC
*
35631745 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATAGAAAACAAAGTCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCC
*
35631810 ATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCCGCGTTAACAGCGAAGCAGAT
66 ATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGAT
* * * *
35631875 CGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGTTGGTTAAAGA-AG-AAATCTTGCCTTC
131 CGAAAACAAAGCATTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTC
* *
35631938 CTGCGTTAACAGCGAAGCAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
196 CTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
*
35632003 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAATAAAGTCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCC
* * * *
35632068 ATCGGTTACAGTAGAGCTGGTTAAAGAAGCAGATCTTGCCGTCCTGCGTTAACAGCGAAGCAGAT
66 ATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGAT
*
35632133 CGAAAACAAAGCATTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAACATAGCAGATCTTGCCTTC
131 CGAAAACAAAGCATTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTC
*
35632198 CTGCATTAACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
196 CTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
* *
35632263 GAACATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCC
* *
35632328 ATCGGTTGTAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAATAGCGAAGCAGAT
66 ATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGAT
*
35632393 CGAAAACAAAGCTTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTC
131 CGAAAACAAAGCATTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTC
* * * *
35632458 TTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCATCCATCGGTTGTAGTAGAGCTGGTT
196 CTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
* * * *
35632523 CAAGATAGCAGAT-TTGCCTTCCTGCATTAACAGCGAAACAGATCGAAAACAAAGCCTTGCCTCC
1 AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCC
35632587 ATCGGTTGCAGTGGAGCT-GTTTAAAGATAGCAGATCTTGCCTTCCT
66 ATCGGTTGCAGTGGAGCTAG-TTAAAGA-AGCAGATCTTGCCTTCCT
35632633 AAGCACTAGC
Statistics
Matches: 589, Mismatches: 37, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
258 168 0.29
259 74 0.13
260 347 0.59
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (260 bp):
AAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGTCTTGCCTCC
ATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGAT
CGAAAACAAAGCATTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTC
CTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTT
Found at i:35632991 original size:44 final size:43
Alignment explanation
Indices: 35632879--35633037 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 43
35632869 TCGCATCGGG
* * *
35632879 TCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAGAAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-AAAACAAA
* *** *
35632923 TCTTATCCCCCTGAAGTCATAGTGGGGCAGACTGAAAAAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAA-CAAA
* * * **
35632967 TCTTATTTCCCTGAGGTTGCAGTGGAGCAGATTG-AATTCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAAC-A-AA
* *
35633011 TCTTATCTCCTTGAAGTTGTAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
35633038 TGGATCGAAG
Statistics
Matches: 90, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
42 1 0.01
43 7 0.08
44 82 0.91
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAAACAAA
Found at i:35645384 original size:40 final size:40
Alignment explanation
Indices: 35645286--35645548 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
35645276 TCCTCGTTCA
* * * ** *
35645286 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
35645325 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
35645365 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
35645405 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
35645445 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
35645485 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
35645525 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35645549 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:35653271 original size:40 final size:40
Alignment explanation
Indices: 35653227--35653494 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
35653217 GCAAACACAT
* *
35653227 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
35653267 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
35653307 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
35653347 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
35653387 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
35653427 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
35653467 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
35653495 TCCAATGCTC
Statistics
Matches: 221, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:35661186 original size:20 final size:20
Alignment explanation
Indices: 35661140--35661189 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
35661130 TATCATGGTC
35661140 TTTGCTT-CTTCTTTACTTA
1 TTTGCTTACTTCTTTACTTA
* *
35661159 -CTGTCTTACTTGTTTACTTA
1 TTTG-CTTACTTCTTTACTTA
35661179 TTTGCTTACTT
1 TTTGCTTACTT
35661190 AAATAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 18 0.72
21 2 0.08
ACGTcount: A:0.12, C:0.20, G:0.08, T:0.60
Consensus pattern (20 bp):
TTTGCTTACTTCTTTACTTA
Found at i:35661470 original size:50 final size:50
Alignment explanation
Indices: 35661393--35661537 Score: 170
Period size: 50 Copynumber: 2.9 Consensus size: 50
35661383 ATAATAAAAT
* * *
35661393 GCCAAAGCCATGTCCCAA-ACATGGTCTTACATGGGAGTTCTCATATCGGT
1 GCCAACGCCATGT-CCAAGACATGGTCTTACATGGGAGCTCTCATATCGGC
* * *
35661443 GCCCATGCCATGTCCAAGACATGGTCTTAC--GGGAGACCTCTCATCTCGGC
1 GCCAACGCCATGTCCAAGACATGGTCTTACATGGGAG--CTCTCATATCGGC
* *
35661493 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 GCCAACGCCATGTCCAAGACATGGTCTTACATGGGAGCTCTCATA
35661538 ACCTCAATAA
Statistics
Matches: 80, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
48 5 0.06
49 4 0.05
50 67 0.84
52 4 0.05
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (50 bp):
GCCAACGCCATGTCCAAGACATGGTCTTACATGGGAGCTCTCATATCGGC
Found at i:35661569 original size:56 final size:56
Alignment explanation
Indices: 35661494--35661645 Score: 250
Period size: 56 Copynumber: 2.7 Consensus size: 56
35661484 CATCTCGGCG
*
35661494 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATT
* **
35661550 CCAATTCCATGTCTTAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATT
* *
35661606 CGAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
35661646 TCCTCTTAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 87 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (56 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATAATT
Found at i:35664642 original size:21 final size:21
Alignment explanation
Indices: 35664618--35664657 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
35664608 AACTTGAAAA
35664618 CATAA-TATAAAAATAGAGTGT
1 CATAACTA-AAAAATAGAGTGT
35664639 CATAACTAAAAAATAGAGT
1 CATAACTAAAAAATAGAGT
35664658 TTCAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (21 bp):
CATAACTAAAAAATAGAGTGT
Found at i:35671243 original size:49 final size:50
Alignment explanation
Indices: 35671120--35671289 Score: 200
Period size: 50 Copynumber: 3.4 Consensus size: 50
35671110 TATCCCAAAT
** * * *
35671120 ATGGTCTTACATGGGAGTTCTCATAC-AGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCAT-CTCGGTGCCAACGCCATGTCCCAGAC
* ** *
35671170 ATGGTTTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCTC-GAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * *
35671219 ATGGTCTTACATGGGACCTATCATCTCGATGACAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
35671269 ATGGTCTTACATGGGATCTCT
1 ATGGTCTTACATGGGACCTCT
35671290 TTGCCCAAAT
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 43 0.43
50 57 0.57
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:35675681 original size:583 final size:585
Alignment explanation
Indices: 35674567--35675742 Score: 2149
Period size: 583 Copynumber: 2.0 Consensus size: 585
35674557 TGAATTCCAT
* *
35674567 TCTAGTATAGCCTAATTTTTTTTAGGATCTATCTTAATCCCATCTAGGGAGATGACATGGCCAAA
1 TCTAGCATAGCCTAAATTTTTTTAGGATCTATCTTAATCCCATCTAGGGAGATGACATGGCCAAA
*
35674632 AAAGTGAACATCCTTCAAGCAAAACTTACTATTGCTAAATTTGGTGTACAGTTTGTTTTTCTCGA
66 AAAGTGAACATCCTTCAAGCAAAACTCACTATTGCTAAATTTGGTGTACAGTTTGTTTTTCTCGA
* *
35674697 AGAACATTTAAAATTATCCGTAAGTGTTCCTCGTGCTCTGCCTCACTCTTCAAGTAAATCAAAAT
131 AGAACATTTAAAATTATCCGTAAGTGTTCCTCGTGCTCCGCCTCACTATTCAAGTAAATCAAAAT
* *
35674762 ATTATCAATGAAGATGAAAACACATCGATCGAGGTAAGGTTGGAATACTCTATTCATCAAATCTA
196 ATTATCAATGAAGACGAAAACACATCGATAGAGGTAAGGTTGGAATACTCTATTCATCAAATCTA
*
35674827 TGAACACTGCTAGCGTATTAGTCCAGCCAAAAGGCGTCCTAGAAATTCATAATGCCCGTAATGTG
261 TGAACACTGCTAGCGTATTAGTCCAGCCAAAAGGAGTCCTAGAAATTCATAATGCCCGTAATGTG
*
35674892 TGTGAAATGCAATCTTAGGAATATTATCCCCTTAGATCTTAACTTGATAATACCTCGACTATAGA
326 TGTGAAATGCAATCTTAGAAATATTATCCCCTTAGATCTTAACTTGATAATACCTCGACTATAGA
*
35674957 TCAATCTTTGAGAACACTCTGGCTCTACTCAGTTGATCAACCAAGTCCTCAATCCTAGGCAACAG
391 TCAATCTTTGAGAACACTCTGGCTCTACTCAGTTGATCAACCAAGTCCTCAATCCTAGGCAAAAG
* *
35675022 ATACTTATTCTTAATGGTAACCTTGTTCAGCTGCCTATAATCAATACACAATCGGAGGGTCTCAT
456 ATACTTATTCTTAATGGTAACCTTGTTCAGCTGCCTATAACCAATACACAATCAGAGGGTCTCAT
* *
35675087 CTTTTTTCTTAAAAGATAATATTGGCGTACCCCAAGGCGAAACACTTGGTCTAATGAACCCCTTA
521 CCTTTTTCTTAAAAAATAATATTGGCGTACCCCAAGGCGAAACACTTGGTCTAATGAACCCCTTA
35675152 TCTAGCATAGCCTAAATTTTTTTAGGATCTATCTTAATCCCATCTAGGGAGATGACATGGCCAAA
1 TCTAGCATAGCCTAAATTTTTTTAGGATCTATCTTAATCCCATCTAGGGAGATGACATGGCCAAA
*
35675217 AAGGTGAACATCCTTCAAGCAAAACTCACTATTGCTAAATTTGGTGTACAGTTTG-TTTTCTCGA
66 AAAGTGAACATCCTTCAAGCAAAACTCACTATTGCTAAATTTGGTGTACAGTTTGTTTTTCTCGA
*
35675281 AGAACATTT-AAATTATCCGTAAGTGTTCCTCGTGCTCCGCCTTACTATTCAAGTAAATCAAAAT
131 AGAACATTTAAAATTATCCGTAAGTGTTCCTCGTGCTCCGCCTCACTATTCAAGTAAATCAAAAT
*
35675345 ATTATCAATGAAGACGAAAACACATCGATAGAGGTAGGGTTGGAATACTCTATTCATCAAATCTA
196 ATTATCAATGAAGACGAAAACACATCGATAGAGGTAAGGTTGGAATACTCTATTCATCAAATCTA
35675410 TGAACACTGCTAGCGTATTAGTCCAGCCAAAAGGAGTCCTAGAAATTCATAATGCCCGTAATGTG
261 TGAACACTGCTAGCGTATTAGTCCAGCCAAAAGGAGTCCTAGAAATTCATAATGCCCGTAATGTG
*
35675475 TGTGAAATGCAGTCTTAGAAATATTATCCCCTTAGATCTTAACTTGATAATACCTCGACTATAGA
326 TGTGAAATGCAATCTTAGAAATATTATCCCCTTAGATCTTAACTTGATAATACCTCGACTATAGA
*
35675540 TCAATCTTTGAGAACACTCTGGCTCTACTTAGTTGATCAACCAAGTCCTCAATCCTAGGCAAAAG
391 TCAATCTTTGAGAACACTCTGGCTCTACTCAGTTGATCAACCAAGTCCTCAATCCTAGGCAAAAG
* *
35675605 ATACTTATTCTTAATGGTCACCTTGTTCAGTTGCCTATAACCAATACACAATCAGAGGGTCTCAT
456 ATACTTATTCTTAATGGTAACCTTGTTCAGCTGCCTATAACCAATACACAATCAGAGGGTCTCAT
35675670 CCTTTTTCTTAAAAAATAATATTGGCGTACCCCAAGGCGAAACACTTGGTCTAATGAACCCCTTA
521 CCTTTTTCTTAAAAAATAATATTGGCGTACCCCAAGGCGAAACACTTGGTCTAATGAACCCCTTA
35675735 TCTAGCAT
1 TCTAGCAT
35675743 TTTTTGCAAC
Statistics
Matches: 570, Mismatches: 21, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
583 436 0.76
584 18 0.03
585 116 0.20
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (585 bp):
TCTAGCATAGCCTAAATTTTTTTAGGATCTATCTTAATCCCATCTAGGGAGATGACATGGCCAAA
AAAGTGAACATCCTTCAAGCAAAACTCACTATTGCTAAATTTGGTGTACAGTTTGTTTTTCTCGA
AGAACATTTAAAATTATCCGTAAGTGTTCCTCGTGCTCCGCCTCACTATTCAAGTAAATCAAAAT
ATTATCAATGAAGACGAAAACACATCGATAGAGGTAAGGTTGGAATACTCTATTCATCAAATCTA
TGAACACTGCTAGCGTATTAGTCCAGCCAAAAGGAGTCCTAGAAATTCATAATGCCCGTAATGTG
TGTGAAATGCAATCTTAGAAATATTATCCCCTTAGATCTTAACTTGATAATACCTCGACTATAGA
TCAATCTTTGAGAACACTCTGGCTCTACTCAGTTGATCAACCAAGTCCTCAATCCTAGGCAAAAG
ATACTTATTCTTAATGGTAACCTTGTTCAGCTGCCTATAACCAATACACAATCAGAGGGTCTCAT
CCTTTTTCTTAAAAAATAATATTGGCGTACCCCAAGGCGAAACACTTGGTCTAATGAACCCCTTA
Found at i:35685605 original size:26 final size:25
Alignment explanation
Indices: 35685575--35685716 Score: 85
Period size: 26 Copynumber: 5.6 Consensus size: 25
35685565 AATTTAAAGC
35685575 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATGTAAAA-AAATTAAAAT
* * *
35685601 GAATAATAT-TCAAAGCAATTTAAAAAT
1 AAATAATATGT-AAA-AAAATT-AAAAT
* * * *
35685628 AAATAACATATAAAATAATT--TA-
1 AAATAATATGTAAAAAAATTAAAAT
**
35685650 AAATAATATGTAAAAAGTTTAAAAT
1 AAATAATATGTAAAAAAATTAAAAT
* *
35685675 AAATAATATGTCAAAAGAAATCTTAAGT
1 AAATAATATGT-AAAA-AAAT-TAAAAT
*
35685703 GAATAATATGTAAA
1 AAATAATATGTAAA
35685717 CAATTTTATT
Statistics
Matches: 86, Mismatches: 20, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
22 15 0.17
23 1 0.01
24 1 0.01
25 12 0.14
26 22 0.26
27 20 0.23
28 15 0.17
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (25 bp):
AAATAATATGTAAAAAAATTAAAAT
Found at i:35685670 original size:21 final size:22
Alignment explanation
Indices: 35685628--35685676 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
35685618 ATTTAAAAAT
35685628 AAATAACATATAAAATAATTTA
1 AAATAACATATAAAATAATTTA
* * *
35685650 AAATAATATGTAAAA-AGTTTA
1 AAATAACATATAAAATAATTTA
35685671 AAATAA
1 AAATAA
35685677 ATAATATGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (22 bp):
AAATAACATATAAAATAATTTA
Found at i:35685883 original size:26 final size:26
Alignment explanation
Indices: 35685845--35685912 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
35685835 TTAACATAGT
**
35685845 TTAAAATGCATAATATAT-GAAAAAAA
1 TTAAAATAAATAATATATAG-AAAAAA
* * *
35685871 TTAAAATATATAATA-ATAGAATAAT
1 TTAAAATAAATAATATATAGAAAAAA
35685896 TTAAAATAAATAATATA
1 TTAAAATAAATAATATA
35685913 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 20 0.57
26 15 0.43
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (26 bp):
TTAAAATAAATAATATATAGAAAAAA
Found at i:35685919 original size:21 final size:22
Alignment explanation
Indices: 35685871--35685936 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 22
35685861 ATGAAAAAAA
*
35685871 TTAAAATATATAATAATAGAATAAT
1 TTAAAATAAATAAT-ATA-AAT-AT
35685896 TTAAAATAAATAATATAAAT-T
1 TTAAAATAAATAATATAAATAT
35685917 TTAAAATAAATAA-ATAAATA
1 TTAAAATAAATAATATAAATA
35685937 AATAAATTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 6 0.15
21 14 0.36
23 3 0.08
24 3 0.08
25 13 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TTAAAATAAATAATATAAATAT
Found at i:35685951 original size:29 final size:29
Alignment explanation
Indices: 35685899--35685955 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
35685889 GAATAATTTA
**
35685899 AAATAAATAATATAAATTTTAAAATAAAT
1 AAATAAATAATATAAATTCAAAAATAAAT
35685928 AAATAAATAA-ATAAATTGCAAAAATAAA
1 AAATAAATAATATAAATT-CAAAAATAAA
35685956 GTGAAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (29 bp):
AAATAAATAATATAAATTCAAAAATAAAT
Found at i:35686863 original size:43 final size:43
Alignment explanation
Indices: 35686807--35686893 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
35686797 TTTGTGGTTA
35686807 TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCATGATT
1 TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCATGATT
*
35686850 TAGTCTTCTCCACTGCAACTTCAGGGAGATAAGACTCATGATT
1 TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCATGATT
35686893 T
1 T
35686894 TGACCTGCCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
TAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCATGATT
Found at i:35687183 original size:89 final size:89
Alignment explanation
Indices: 35687034--35687596 Score: 729
Period size: 89 Copynumber: 6.3 Consensus size: 89
35687024 CTTCAACCTA
* * * * * * * * *
35687034 CTCCACTGCAAACTCAGAGAGG-CAAGGTTGATGTTTTTGATATGCTTCACTGCCAGTACAGGAA
1 CTCCGCTGCAAACTCAGGGAGGTC-AGGCTGGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAA
* * * *
35687098 TACAAGATCTGTTGTTTTCAGTCTG
65 GACAAGATCTGCTATCTTCAGTCTG
* *
35687123 CTCCGCTGCAAACTTAGGAAGG-CGAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAA
1 CTCCGCTGCAAACTCAGGGAGGTC-AGGCTGGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAA
*
35687187 GACAAGATCTACTATCTTCAGTCTG
65 GACAAGATCTGCTATCTTCAGTCTG
* * * *
35687212 TTTCGCTGCAAACTTAGGGAGG-CGAGGCTGGTGTCTTCGATCTGCTTCGTTGCCAATACAGGAA
1 CTCCGCTGCAAACTCAGGGAGGTC-AGGCTGGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAA
*
35687276 GACAAGATTTGCTATCTTCAGTCTG
65 GACAAGATCTGCTATCTTCAGTCTG
* *
35687301 CTCCGCTGCAAACTCAGGGAGGTCAGGCTAGTGTCTTCGATCTACTTCGCTG-CAAGTACAGGAA
1 CTCCGCTGCAAACTCAGGGAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAA-TACAGGAA
*
35687365 AACAAGATCTGCTATCTTCAGTCTG
65 GACAAGATCTGCTATCTTCAGTCTG
*** * * *
35687390 CTCTATTGCAAACTCAGGGAGGTCAGGCTGATGTCCTCGATCTGCTTCGCTGCCAATATAGGAAG
1 CTCCGCTGCAAACTCAGGGAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAAG
*
35687455 ACAAGATCTGCTATCTTCAGTCTA
66 ACAAGATCTGCTATCTTCAGTCTG
* * *
35687479 CTCCGCTGCAAACTCAAGGAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGAAAG
1 CTCCGCTGCAAACTCAGGGAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAAG
*
35687544 ACAAGATCTGCTATCTTCAATCTG
66 ACAAGATCTGCTATCTTCAGTCTG
* *
35687568 CTCCCCTGCAAATTCAGGGAGGTCAGGCT
1 CTCCGCTGCAAACTCAGGGAGGTCAGGCT
35687597 AGATATGATG
Statistics
Matches: 416, Mismatches: 55, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
88 3 0.01
89 409 0.98
90 4 0.01
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (89 bp):
CTCCGCTGCAAACTCAGGGAGGTCAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAAG
ACAAGATCTGCTATCTTCAGTCTG
Found at i:35687219 original size:45 final size:45
Alignment explanation
Indices: 35687076--35687569 Score: 206
Period size: 45 Copynumber: 11.1 Consensus size: 45
35687066 GTTTTTGATA
* * * * * *
35687076 TGCTTCACTGCCAGTACAGGAATACAAGATCTGTTGTTTTCAGTC
1 TGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTC
* * * * * *
35687121 TGCTCCGCTG-CAA-ACTTAGGAAGGCGAG-GCTGGTGTCTTC-GATC
1 TGCTTCGCTGCCAATAC--AGGAAGACAAGATCTGCTATCTTCAG-TC
*
35687165 TGCTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTC
1 TGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTC
* * * * * * *
35687210 TGTTTCGCTG-CAA-ACTTAGGGAGGCGAG-GCTGGTGTCTTC-GATC
1 TGCTTCGCTGCCAATAC--AGGAAGACAAGATCTGCTATCTTCAG-TC
* *
35687254 TGCTTCGTTGCCAATACAGGAAGACAAGATTTGCTATCTTCAGTC
1 TGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTC
* * * * * *
35687299 TGCTCCGCTGCAAACT-CAGGGAGGTC-AG-GCTAG-TGTCTTC-GATC
1 TGCTTCGCTGCCAA-TACA-GGAAGACAAGATCT-GCTATCTTCAG-TC
* *
35687343 TACTTCGCTG-CAAGTACAGGAAAACAAGATCTGCTATCTTCAGTC
1 TGCTTCGCTGCCAA-TACAGGAAGACAAGATCTGCTATCTTCAGTC
** * * * * * * *
35687388 TGC-TCTATTGCAAACT-CAGGGAGGTC-AG-GCTGATGTCCTC-GATC
1 TGCTTC-GCTGCCAA-TACA-GGAAGACAAGATCTGCTATCTTCAG-TC
*
35687432 TGCTTCGCTGCCAATATAGGAAGACAAGATCTGCTATCTTCAGTC
1 TGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTC
* * * * * * * *
35687477 TACTCCGCTGCAAACT-CAAGGAGGTC-AG-GCTGGTGTCTTC-GATC
1 TGCTTCGCTGCCAA-TAC-AGGAAGACAAGATCTGCTATCTTCAG-TC
* * *
35687521 TGCTTCGCTGCCAGTACAGAAAGACAAGATCTGCTATCTTCAATC
1 TGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTC
35687566 TGCT
1 TGCT
35687570 CCCCTGCAAA
Statistics
Matches: 318, Mismatches: 92, Indels: 78
0.65 0.19 0.16
Matches are distributed among these distances:
43 28 0.09
44 129 0.41
45 133 0.42
46 28 0.09
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (45 bp):
TGCTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCAGTC
Found at i:35699227 original size:24 final size:23
Alignment explanation
Indices: 35699178--35699247 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
35699168 GAAACAAAAT
* ** *
35699178 AATATATAGAACAATTTGGAGTA
1 AATATATAAAACAATTTAAAGCA
35699201 AATAGTATAAAACAATTTAAAGCA
1 AATA-TATAAAACAATTTAAAGCA
*
35699225 AATAATATGTAAAACAAATTAAA
1 AAT-ATA--TAAAACAATTTAAA
35699248 ATGAATAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
23 4 0.11
24 20 0.53
25 1 0.03
26 13 0.34
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (23 bp):
AATATATAAAACAATTTAAAGCA
Found at i:35699301 original size:27 final size:26
Alignment explanation
Indices: 35699174--35699304 Score: 108
Period size: 26 Copynumber: 5.1 Consensus size: 26
35699164 AAACGAAACA
* ** *
35699174 AAATAATATATAGAACAATTTGGAGT
1 AAATAATATATAAAACAATTTAAAAT
* **
35699200 AAAT-A-GTATAAAACAATTTAAAGC
1 AAATAATATATAAAACAATTTAAAAT
* *
35699224 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
35699250 GAATAATAT-TCAAAGA-AATTTAAAAAT
1 AAATAATATAT-AAA-ACAATTT-AAAAT
*
35699277 AAATAACATATAAAACAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
35699303 AA
1 AA
35699305 TATGTAAAAG
Statistics
Matches: 84, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
24 18 0.21
25 3 0.04
26 41 0.49
27 21 0.25
28 1 0.01
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.27
Consensus pattern (26 bp):
AAATAATATATAAAACAATTTAAAAT
Found at i:35699542 original size:26 final size:26
Alignment explanation
Indices: 35699504--35699571 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
35699494 TTAACATAGT
**
35699504 TTAAAATGCATAATATAT-GAAAAAAC
1 TTAAAATAAATAATATATAG-AAAAAC
* *
35699530 TTAAAATAAATAATA-ATAGAATAAT
1 TTAAAATAAATAATATATAGAAAAAC
35699555 TTAAAATAAATAATATA
1 TTAAAATAAATAATATA
35699572 AAGTTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 21 0.58
26 15 0.42
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (26 bp):
TTAAAATAAATAATATATAGAAAAAC
Found at i:35699585 original size:21 final size:21
Alignment explanation
Indices: 35699525--35699593 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 21
35699515 AATATATGAA
*
35699525 AAAACTTAAAATAAATAATAAT
1 AAAATTTAAAATAAATAAT-AT
35699547 AGAATAATTTAAAATAAATAATAT
1 --AA-AATTTAAAATAAATAATAT
*
35699571 AAAGTTTAAAATAAATAA-AT
1 AAAATTTAAAATAAATAATAT
35699591 AAA
1 AAA
35699594 TAAATAAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.12
21 15 0.36
22 2 0.05
24 4 0.10
25 16 0.38
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.29
Consensus pattern (21 bp):
AAAATTTAAAATAAATAATAT
Found at i:35699601 original size:21 final size:21
Alignment explanation
Indices: 35699530--35699601 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 21
35699520 ATGAAAAAAC
35699530 TTAAAATAAATAATAATAGAATAA
1 TTAAAATAAAT-A-AATA-AATAA
35699554 TTTAAAATAAATAATATAAAGT--
1 -TTAAAATAAATAA-ATAAA-TAA
35699576 TTAAAATAAATAAATAAATAA
1 TTAAAATAAATAAATAAATAA
*
35699597 ATAAA
1 TTAAA
35699602 GTGAAATCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.02
20 5 0.12
21 17 0.40
23 3 0.07
24 5 0.12
25 11 0.26
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (21 bp):
TTAAAATAAATAAATAAATAA
Found at i:35702986 original size:29 final size:28
Alignment explanation
Indices: 35702954--35703014 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
35702944 AAAGGCCGGT
35702954 TTTTTTCAA-AATTTACCGAAATGGGCCGA
1 TTTTTT-AATAATTTACCGAAATGGGCC-A
* * *
35702983 TTTTTTAATTATTTACTGGAATGGGCCA
1 TTTTTTAATAATTTACCGAAATGGGCCA
35703011 TTTT
1 TTTT
35703015 CCGCGAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.44
Consensus pattern (28 bp):
TTTTTTAATAATTTACCGAAATGGGCCA
Found at i:35706897 original size:29 final size:28
Alignment explanation
Indices: 35706865--35706925 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
35706855 AAAGGCCGGT
35706865 TTTTTTCAA-AATTTACCGAAATGGGCCGA
1 TTTTTT-AATAATTTACCGAAATGGGCC-A
* * *
35706894 TTTTTTAATTATTTACTGGAATGGGCCA
1 TTTTTTAATAATTTACCGAAATGGGCCA
35706922 TTTT
1 TTTT
35706926 CCGCGAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.44
Consensus pattern (28 bp):
TTTTTTAATAATTTACCGAAATGGGCCA
Found at i:35718802 original size:27 final size:26
Alignment explanation
Indices: 35718745--35718804 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
35718735 TTTTAACTTT
* *
35718745 CTTTTTTTCTTCCTTATTTTCCATTCT
1 CTTTTTTTCTCCCTTATTTTCCA-TCC
35718772 CTTTTGTTTCTCCCTCTATTTTCC-TCC
1 CTTTT-TTTCTCCCT-TATTTTCCATCC
35718799 CTTTTT
1 CTTTTT
35718805 CATTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 1 0.03
27 12 0.41
28 8 0.28
29 8 0.28
ACGTcount: A:0.05, C:0.30, G:0.02, T:0.63
Consensus pattern (26 bp):
CTTTTTTTCTCCCTTATTTTCCATCC
Found at i:35725198 original size:22 final size:22
Alignment explanation
Indices: 35725172--35725214 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
35725162 TTTTTAATTT
* *
35725172 AAAAAAATTTATTGATTAAATCG
1 AAAAAAA-TTAATAATTAAATCG
35725195 AAAAAAATTAATAATTAAAT
1 AAAAAAATTAATAATTAAAT
35725215 TATCAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (22 bp):
AAAAAAATTAATAATTAAATCG
Found at i:35727285 original size:24 final size:24
Alignment explanation
Indices: 35727253--35727328 Score: 100
Period size: 24 Copynumber: 3.1 Consensus size: 24
35727243 TACTTTCTAA
35727253 TTAAGTGCTCTTCGGAGCTTCCCG
1 TTAAGTGCTCTTCGGAGCTTCCCG
*
35727277 TTAAGTGCTCTTCGGAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTTCCCG
* *
35727301 ATATAG-GCTCTTTGTGAGCTTCCCG
1 TTA-AGTGCTCTTCG-GAGCTTCCCG
35727326 TTA
1 TTA
35727329 TTAAGCCCGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
24 32 0.71
25 13 0.29
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.34
Consensus pattern (24 bp):
TTAAGTGCTCTTCGGAGCTTCCCG
Found at i:35733300 original size:54 final size:54
Alignment explanation
Indices: 35733207--35733333 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
35733197 GGTCCACATG
*
35733207 GGCACAGAGAGTTACACAGCCTGGCGACACGACCGTGTGACCCTGAGCTACAC-
1 GGCACAGAGAGTTACACAGCCTGGCGACACGACCATGTGACCCTGAGCTACACA
* * * * * * * *
35733260 GGTCACAGAGAGTTACACGGCGTGGTGTCATGGCCATGTGATCCTGAGTTACACA
1 GG-CACAGAGAGTTACACAGCCTGGCGACACGACCATGTGACCCTGAGCTACACA
35733315 GGCACAGTA-AGTTACACAG
1 GGCACAG-AGAGTTACACAG
35733334 TCTACGTACA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 2 0.03
54 56 0.92
55 3 0.05
ACGTcount: A:0.27, C:0.26, G:0.29, T:0.18
Consensus pattern (54 bp):
GGCACAGAGAGTTACACAGCCTGGCGACACGACCATGTGACCCTGAGCTACACA
Found at i:35736649 original size:25 final size:25
Alignment explanation
Indices: 35736621--35736668 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
35736611 CACAGCTCAA
*
35736621 ATGAGCTTCTCGTTATTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
*
35736646 ATGAGCTTCCCGTTATTTAGCTC
1 ATGAGCTTCCCGTTATTCAGCTC
35736669 AGAAGAGCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.38
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCGC
Found at i:35736676 original size:25 final size:25
Alignment explanation
Indices: 35736613--35736678 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
35736603 GGACTCACCA
*
35736613 CAGCTCA-AATGAGCTTCTCGTTATT
1 CAGCTCAGAA-GAGCTTCCCGTTATT
*
35736638 CAGCTC-GCATGAGCTTCCCGTTATT
1 CAGCTCAG-AAGAGCTTCCCGTTATT
*
35736663 TAGCTCAGAAGAGCTT
1 CAGCTCAGAAGAGCTT
35736679 ATTGTTTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 32 0.94
26 2 0.06
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (25 bp):
CAGCTCAGAAGAGCTTCCCGTTATT
Found at i:35738520 original size:2 final size:2
Alignment explanation
Indices: 35738513--35738550 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
35738503 TTACACCCTT
35738513 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
35738551 TATATATAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:35746799 original size:37 final size:37
Alignment explanation
Indices: 35746749--35746822 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
35746739 ATTGTCAAAG
35746749 TTAACCTTTGAGAGTAGTAAATTTCTACGCCCTAAAC
1 TTAACCTTTGAGAGTAGTAAATTTCTACGCCCTAAAC
35746786 TTAACCTTTGAGAGTAGTAAATTTCTACGCCCTAAAC
1 TTAACCTTTGAGAGTAGTAAATTTCTACGCCCTAAAC
35746823 AGTTGTCATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (37 bp):
TTAACCTTTGAGAGTAGTAAATTTCTACGCCCTAAAC
Found at i:35749151 original size:28 final size:29
Alignment explanation
Indices: 35749102--35749160 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
35749092 TTTCATGATT
35749102 ATAAATATATATTTTTATAATTATAAATA
1 ATAAATATATATTTTTATAATTATAAATA
*
35749131 ATAAAT-TATAATTTTTA-AATTTTAAATA
1 ATAAATATAT-ATTTTTATAATTATAAATA
35749159 AT
1 AT
35749161 TTTTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
ATAAATATATATTTTTATAATTATAAATA
Found at i:35749551 original size:17 final size:17
Alignment explanation
Indices: 35749526--35749569 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
35749516 TGAAATTTTT
35749526 ATATATAAAAAAGTAAA
1 ATATATAAAAAAGTAAA
* *
35749543 ATATTTAAAAATGTAAA
1 ATATATAAAAAAGTAAA
*
35749560 GAAATATAAA
1 -ATATATAAA
35749570 TTTCATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (17 bp):
ATATATAAAAAAGTAAA
Found at i:35750080 original size:87 final size:83
Alignment explanation
Indices: 35749982--35750140 Score: 237
Period size: 87 Copynumber: 1.9 Consensus size: 83
35749972 TTTGAAAATT
*
35749982 TTGAAGATCTTTTTGATACATTTTGAAAGTTCAAGTACTCAATTGAGTGAAAAAAACATAGGCTT
1 TTGAAAATCTTTTTGATACATTTTGAAAGTTCAAGTACTCAATTGAGTG-AAAAAA-A-AGGCTT
35750047 AATTACTTTTTTTGAAAAAAAA
63 AATTA-TTTTTTTGAAAAAAAA
** * *
35750069 TTGAAAATCTTTTTGATGTATTTTGAAAGTTTAAGTTCTCAATTGAGTGAAAAAAAAGGCTTAAT
1 TTGAAAATCTTTTTGATACATTTTGAAAGTTCAAGTACTCAATTGAGTGAAAAAAAAGGCTTAAT
35750134 TATTTTT
66 TATTTTT
35750141 AAAAAAAATT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
83 5 0.07
84 11 0.16
85 1 0.01
86 6 0.09
87 44 0.66
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.40
Consensus pattern (83 bp):
TTGAAAATCTTTTTGATACATTTTGAAAGTTCAAGTACTCAATTGAGTGAAAAAAAAGGCTTAAT
TATTTTTTTGAAAAAAAA
Found at i:35751182 original size:285 final size:285
Alignment explanation
Indices: 35750672--35751241 Score: 1131
Period size: 285 Copynumber: 2.0 Consensus size: 285
35750662 ATAAAAACAA
35750672 ACAACCCGAGACCCACCCCCTCCCGGGCAACCACCACTCTCGTCACTCGTCCATCCGGCCTCTCT
1 ACAACCCGAGACCCACCCCCTCCCGGGCAACCACCACTCTCGTCACTCGTCCATCCGGCCTCTCT
35750737 GACTCTCTGACTCTCTCAACCTCTCTTCACTCTTTAGTCTCCAATCTCCCTCCACCTTCCGGCTT
66 GACTCTCTGACTCTCTCAACCTCTCTTCACTCTTTAGTCTCCAATCTCCCTCCACCTTCCGGCTT
35750802 TCAGCCTCCAGTTCACCCGCCTTTAGCCGTCTGCTTCTTCGACGACCGTCCCTGCTGAAAAATGA
131 TCAGCCTCCAGTTCACCCGCCTTTAGCCGTCTGCTTCTTCGACGACCGTCCCTGCTGAAAAATGA
35750867 GAAAGTCAGAAAGACAGGTTTGGTGGTAAAGGACAAATGAGAATTGAAAAGAGTTAACGATAATA
196 GAAAGTCAGAAAGACAGGTTTGGTGGTAAAGGACAAATGAGAATTGAAAAGAGTTAACGATAATA
35750932 ATTTTTTAGGTTTTCGTACTTTATG
261 ATTTTTTAGGTTTTCGTACTTTATG
35750957 ACAACCCGAGACCCACCCCCTCCCGGGCAACCACCACTCTCGTCACTCGTCCATCCGGCCTCTCT
1 ACAACCCGAGACCCACCCCCTCCCGGGCAACCACCACTCTCGTCACTCGTCCATCCGGCCTCTCT
*
35751022 GACTCTCTGACTCTCTCAACCTCTCTTCACTCTTTAGTCTCCAATCTTCCTCCACCTTCCGGCTT
66 GACTCTCTGACTCTCTCAACCTCTCTTCACTCTTTAGTCTCCAATCTCCCTCCACCTTCCGGCTT
35751087 TCAGCCTCCAGTTCACCCGCCTTTAGCCGTCTGCTTCTTCGACGACCGTCCCTGCTGAAAAATGA
131 TCAGCCTCCAGTTCACCCGCCTTTAGCCGTCTGCTTCTTCGACGACCGTCCCTGCTGAAAAATGA
35751152 GAAAGTCAGAAAGACAGGTTTGGTGGTAAAGGACAAATGAGAATTGAAAAGAGTTAACGATAATA
196 GAAAGTCAGAAAGACAGGTTTGGTGGTAAAGGACAAATGAGAATTGAAAAGAGTTAACGATAATA
35751217 ATTTTTTAGGTTTTCGTACTTTATG
261 ATTTTTTAGGTTTTCGTACTTTATG
35751242 TTGGGTATGG
Statistics
Matches: 284, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
285 284 1.00
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.28
Consensus pattern (285 bp):
ACAACCCGAGACCCACCCCCTCCCGGGCAACCACCACTCTCGTCACTCGTCCATCCGGCCTCTCT
GACTCTCTGACTCTCTCAACCTCTCTTCACTCTTTAGTCTCCAATCTCCCTCCACCTTCCGGCTT
TCAGCCTCCAGTTCACCCGCCTTTAGCCGTCTGCTTCTTCGACGACCGTCCCTGCTGAAAAATGA
GAAAGTCAGAAAGACAGGTTTGGTGGTAAAGGACAAATGAGAATTGAAAAGAGTTAACGATAATA
ATTTTTTAGGTTTTCGTACTTTATG
Found at i:35755731 original size:30 final size:30
Alignment explanation
Indices: 35755697--35755753 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
35755687 TCAGGAGGTA
*
35755697 TCCCATCATGAAGTAGCTCATCAAGAAGAT
1 TCCCATCACGAAGTAGCTCATCAAGAAGAT
* * *
35755727 TCCCATCACGATGTTGCTCATCGAGAA
1 TCCCATCACGAAGTAGCTCATCAAGAA
35755754 CTATCCGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (30 bp):
TCCCATCACGAAGTAGCTCATCAAGAAGAT
Found at i:35757620 original size:17 final size:17
Alignment explanation
Indices: 35757598--35757632 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35757588 TCAAATGATT
**
35757598 ATTAAAAATTAAAAAGA
1 ATTAAAAAGAAAAAAGA
35757615 ATTAAAAAGAAAAAAGA
1 ATTAAAAAGAAAAAAGA
35757632 A
1 A
35757633 AAAAATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (17 bp):
ATTAAAAAGAAAAAAGA
Found at i:35758281 original size:18 final size:17
Alignment explanation
Indices: 35758239--35758281 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
35758229 TTTTTAAGTT
*
35758239 TGTAATATTTTATATTA
1 TGTAATTTTTTATATTA
* *
35758256 TATTATTTTTATATATTA
1 TGTAATTTTT-TATATTA
35758274 TGTAATTT
1 TGTAATTT
35758282 ATAACATATA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:35763077 original size:21 final size:21
Alignment explanation
Indices: 35763051--35763093 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
35763041 GTCATGAGTG
35763051 TAAGGAAATCACACATCAATA
1 TAAGGAAATCACACATCAATA
35763072 TAAGGAAATCACACATCAATA
1 TAAGGAAATCACACATCAATA
35763093 T
1 T
35763094 TTTTAACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.21
Consensus pattern (21 bp):
TAAGGAAATCACACATCAATA
Found at i:35766289 original size:23 final size:23
Alignment explanation
Indices: 35766259--35766325 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
35766249 CCTTTTTGAA
35766259 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
35766282 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
* *
35766305 ACATTACCATTTCGTACCAAA
1 CCATTTCCATTTCGTACCAAA
35766326 CCCAAACCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.36
Consensus pattern (23 bp):
CCATTTCCATTTCGTACCAAATT
Found at i:35766658 original size:15 final size:15
Alignment explanation
Indices: 35766638--35766667 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35766628 ATAGGTACGT
35766638 AAAAAAAGTTTGAAA
1 AAAAAAAGTTTGAAA
*
35766653 AAAAAAATTTTGAAA
1 AAAAAAAGTTTGAAA
35766668 TTCAAAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (15 bp):
AAAAAAAGTTTGAAA
Found at i:35766678 original size:22 final size:22
Alignment explanation
Indices: 35766650--35766700 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
35766640 AAAAAGTTTG
**
35766650 AAAAAAAAAAT-TTTGAAATTCA
1 AAAAAAAAAATATACGAAATT-A
35766672 AAAAAAAAAATATACGAAATTA
1 AAAAAAAAAATATACGAAATTA
35766694 AAAAAAA
1 AAAAAAA
35766701 GAAAAAAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (22 bp):
AAAAAAAAAATATACGAAATTA
Found at i:35766747 original size:23 final size:23
Alignment explanation
Indices: 35766650--35766747 Score: 76
Period size: 23 Copynumber: 4.2 Consensus size: 23
35766640 AAAAAGTTTG
** *
35766650 AAAAAAAAAATTTTGAAATTCAAA
1 AAAAAAAAAATCGTG-AATTAAAA
* *
35766674 AAAAAAAATATACG-AAATTAAAA
1 AAAAAAAAAAT-CGTGAATTAAAA
*
35766697 AAAAGAAAAAA--GTGAATTGAAAT
1 AAAA-AAAAAATCGTGAATT-AAAA
*
35766720 TAAAAAAAAATCGTGAATTAAAA
1 AAAAAAAAAATCGTGAATTAAAA
35766743 AAAAA
1 AAAAA
35766748 GGTGTTGTGA
Statistics
Matches: 57, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
21 1 0.02
22 10 0.18
23 24 0.42
24 22 0.39
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.19
Consensus pattern (23 bp):
AAAAAAAAAATCGTGAATTAAAA
Found at i:35768850 original size:19 final size:21
Alignment explanation
Indices: 35768821--35768864 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
35768811 CAAATGAGAG
35768821 AAAAAGAAAAGAAAA-ATGAA
1 AAAAAGAAAAGAAAACATGAA
*
35768841 AAAAAG-AAAGAAAACTTGAA
1 AAAAAGAAAAGAAAACATGAA
35768861 AAAA
1 AAAA
35768865 GAGAGTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (21 bp):
AAAAAGAAAAGAAAACATGAA
Found at i:35773085 original size:23 final size:23
Alignment explanation
Indices: 35773055--35773121 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
35773045 CCTTTTTGAA
35773055 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
35773078 CCATTTCCATTTCGTACCAAATT
1 CCATTTCCATTTCGTACCAAATT
* *
35773101 ACATTACCATTTCGTACCAAA
1 CCATTTCCATTTCGTACCAAA
35773122 CCCTAACCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.36
Consensus pattern (23 bp):
CCATTTCCATTTCGTACCAAATT
Found at i:35773739 original size:15 final size:15
Alignment explanation
Indices: 35773719--35773748 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35773709 GGCGAACTAA
35773719 GGGGTTCACCAAAAG
1 GGGGTTCACCAAAAG
*
35773734 GGGGTTCGCCAAAAG
1 GGGGTTCACCAAAAG
35773749 TGTATCAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.37, T:0.13
Consensus pattern (15 bp):
GGGGTTCACCAAAAG
Found at i:35784337 original size:17 final size:16
Alignment explanation
Indices: 35784315--35784348 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35784305 AGGGATGACG
35784315 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
35784332 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
35784348 T
1 T
35784349 CATAATGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:35791321 original size:19 final size:20
Alignment explanation
Indices: 35791285--35791322 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35791275 CTGCAGTTTG
* *
35791285 AAAATTTTCTATTTTTTCTA
1 AAAATTTTATATTATTTCTA
35791305 AAAATTTTATA-TATTTCT
1 AAAATTTTATATTATTTCT
35791323 GATTTAGCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (20 bp):
AAAATTTTATATTATTTCTA
Found at i:35805393 original size:47 final size:47
Alignment explanation
Indices: 35805339--35805449 Score: 125
Period size: 47 Copynumber: 2.4 Consensus size: 47
35805329 ACCAGTAATA
* * * *
35805339 CAGATAAACTACCACTTAATAATATTGTGGGCAAGCCACCACTTTTG
1 CAGATAAACTACCACATAAAAATATCGTGGACAAGCCACCACTTTTG
* * * *
35805386 CATATAAACTGCCACATAAAAATATCGTTGACAAGCCACCATTTTTG
1 CAGATAAACTACCACATAAAAATATCGTGGACAAGCCACCACTTTTG
*
35805433 TAGATAAAC-AGCCACAT
1 CAGATAAACTA-CCACAT
35805450 CTTCCACCTT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (47 bp):
CAGATAAACTACCACATAAAAATATCGTGGACAAGCCACCACTTTTG
Found at i:35823188 original size:28 final size:28
Alignment explanation
Indices: 35823157--35823225 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
35823147 AGTAACGGTC
* *
35823157 TGGGCCTAAGCCCTAAGCAGTTTCAGTG
1 TGGGCCTAAGCCCTAAGCAGTATCAATG
* *
35823185 TGGGCCAAAGCCCTAAGTAGTATCAATG
1 TGGGCCTAAGCCCTAAGCAGTATCAATG
*
35823213 TGGGCCTTAGCCC
1 TGGGCCTAAGCCC
35823226 AATACAGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (28 bp):
TGGGCCTAAGCCCTAAGCAGTATCAATG
Found at i:35823648 original size:27 final size:27
Alignment explanation
Indices: 35823575--35823780 Score: 218
Period size: 27 Copynumber: 7.6 Consensus size: 27
35823565 CATCTCTTAG
* * * *
35823575 GGGTATATCAGTCATTTAACCCTAT-AA
1 GGGTATTTCGGTCATTTTACCCT-TCGA
** * *
35823602 GGGTATTTTAGTTATTTTACCCTTTG-
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
35823628 GGCGTATTTCGGTCATCTTACCCTACGA
1 GG-GTATTTCGGTCATTTTACCCTTCGA
* * *
35823656 AGGCATTTCGGTCATTTTACCCTTTGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
35823683 GGGTATTTTGATCATTTTACCCTTTGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
35823710 GGGTATTTCGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
35823737 GGATATTTTGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
35823764 GGGTATTTCGGTCATTT
1 GGGTATTTCGGTCATTT
35823781 CCCCACGAAT
Statistics
Matches: 149, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.02
27 145 0.97
28 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTTCGA
Found at i:35823691 original size:81 final size:81
Alignment explanation
Indices: 35823585--35823780 Score: 245
Period size: 81 Copynumber: 2.4 Consensus size: 81
35823575 GGGTATATCA
* * * *
35823585 GTCATTTAACCCTATAAGGGTATTTT-AGTTATTTTACCCTTTG-GGCGTATTTCGGTCATCTTA
1 GTCATTTTACCCTTTGAGGGTATTTTGA-TCATTTTACCCTTTGAGG-GTATTTCGGTCATCTTA
35823648 CCCTACGAAGG-CATTTCG
64 CCCTACG-AGGACATTTCG
*
35823666 GTCATTTTACCCTTTGAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCCTTTGAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTCGGTCATCTTACC
* * *
35823731 CTTCGAGGATATTTTG
66 CTACGAGGACATTTCG
* * *
35823747 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTT
1 GTCATTTTACCCTTTGAGGGTATTTTGATCATTT
35823781 CCCCACGAAT
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
80 3 0.03
81 95 0.94
82 3 0.03
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCCTTTGAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTCGGTCATCTTACC
CTACGAGGACATTTCG
Found at i:35824490 original size:25 final size:25
Alignment explanation
Indices: 35824457--35824539 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
35824447 AAAAGGGAAT
35824457 GAGAGAAAAGGGAGGATTCGACAAA
1 GAGAGAAAAGGGAGGATTCGACAAA
* * * ** *
35824482 GAGGGAAAAAGAGAAGA-AAG-GAAA
1 GAGAG-AAAAGGGAGGATTCGACAAA
35824506 GAGAGAAAAGGGAGGATTCGACAAA
1 GAGAGAAAAGGGAGGATTCGACAAA
35824531 GAGAGAAAA
1 GAGAGAAAA
35824540 AGCAGAAAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
23 9 0.21
24 8 0.19
25 17 0.40
26 9 0.21
ACGTcount: A:0.54, C:0.05, G:0.36, T:0.05
Consensus pattern (25 bp):
GAGAGAAAAGGGAGGATTCGACAAA
Found at i:35824515 original size:49 final size:48
Alignment explanation
Indices: 35824440--35824549 Score: 175
Period size: 49 Copynumber: 2.2 Consensus size: 48
35824430 CGGCCAGTAG
* * *
35824440 AAAAGAGAAAAGGGAATGAGAGAAAAGGGAGGATTCGACAAAGAGGGA
1 AAAAGAGAAAAAGGAAAGAGAGAAAAGGGAGGATTCGACAAAGAGAGA
35824488 AAAAGAGAAGAAAGGAAAGAGAGAAAAGGGAGGATTCGACAAAGAGAGA
1 AAAAGAGAA-AAAGGAAAGAGAGAAAAGGGAGGATTCGACAAAGAGAGA
35824537 AAAAGCAGAAAAA
1 AAAAG-AGAAAAA
35824550 AAGCAAACAA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
48 9 0.16
49 44 0.77
50 4 0.07
ACGTcount: A:0.57, C:0.05, G:0.34, T:0.05
Consensus pattern (48 bp):
AAAAGAGAAAAAGGAAAGAGAGAAAAGGGAGGATTCGACAAAGAGAGA
Found at i:35824533 original size:23 final size:23
Alignment explanation
Indices: 35824458--35824534 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
35824448 AAAGGGAATG
35824458 AGAGAAAAGGGAGGATTCGACAA
1 AGAGAAAAGGGAGGATTCGACAA
* * ***
35824481 AGAGGGAAAAAGAGAAGAAAGGA-AA
1 AGA--G-AAAAGGGAGGATTCGACAA
35824506 GAGAGAAAAGGGAGGATTCGACAA
1 -AGAGAAAAGGGAGGATTCGACAA
35824530 AGAGA
1 AGAGA
35824535 GAAAAAGCAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
23 19 0.49
24 3 0.08
25 3 0.08
26 14 0.36
ACGTcount: A:0.53, C:0.05, G:0.36, T:0.05
Consensus pattern (23 bp):
AGAGAAAAGGGAGGATTCGACAA
Found at i:35829784 original size:17 final size:18
Alignment explanation
Indices: 35829751--35829784 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35829741 CAAGAGTCTC
*
35829751 CCTACAGTTTCTAGTTTT
1 CCTACAGTCTCTAGTTTT
35829769 CCTACAGTCT-TAGTTT
1 CCTACAGTCTCTAGTTT
35829785 ACTCTAACTA
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:0.18, C:0.24, G:0.12, T:0.47
Consensus pattern (18 bp):
CCTACAGTCTCTAGTTTT
Found at i:35831007 original size:27 final size:27
Alignment explanation
Indices: 35830977--35831067 Score: 119
Period size: 27 Copynumber: 3.4 Consensus size: 27
35830967 TCATCTCCTA
*
35830977 AGGGTATATCGGTCATTTTACCCTTTG
1 AGGGTATTTCGGTCATTTTACCCTTTG
*
35831004 AGGGTATTTCGGTTATTTTACCCTTTG
1 AGGGTATTTCGGTCATTTTACCCTTTG
* * * *
35831031 AGGGCATTTCAGTCATTTTATCCTTCG
1 AGGGTATTTCGGTCATTTTACCCTTTG
*
35831058 AGGATATTTC
1 AGGGTATTTC
35831068 AATTATTTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.43
Consensus pattern (27 bp):
AGGGTATTTCGGTCATTTTACCCTTTG
Found at i:35831766 original size:10 final size:10
Alignment explanation
Indices: 35831751--35831785 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
35831741 AGGATTCGAC
*
35831751 AAAGAGGGAA
1 AAAGAGAGAA
35831761 AAAGAGAGAA
1 AAAGAGAGAA
*
35831771 AAAGAGAAAA
1 AAAGAGAGAA
35831781 AAAGA
1 AAAGA
35831786 AAAGTGAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AAAGAGAGAA
Found at i:35834117 original size:32 final size:32
Alignment explanation
Indices: 35834081--35834144 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
35834071 AAATATGAGT
35834081 TAACTAAGAAATTGTATGGTATAGTGAGTATA
1 TAACTAAGAAATTGTATGGTATAGTGAGTATA
35834113 TAACTAAGAAATTGTATGGTATAGTGAGTATA
1 TAACTAAGAAATTGTATGGTATAGTGAGTATA
35834145 AGATTTTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (32 bp):
TAACTAAGAAATTGTATGGTATAGTGAGTATA
Found at i:35835587 original size:13 final size:13
Alignment explanation
Indices: 35835569--35835594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35835559 AGATATCAAG
35835569 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
35835582 TTGTGAAAAAAAA
1 TTGTGAAAAAAAA
35835595 GCTAGTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
TTGTGAAAAAAAA
Found at i:35838923 original size:25 final size:25
Alignment explanation
Indices: 35838892--35838958 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
35838882 AGCTTAGATC
*
35838892 AGTATGCTTACACGAGCTAAAAATT
1 AGTATGCTCACACGAGCTAAAAATT
* *
35838917 AGTATGCTCATACGAGCTATAAATT
1 AGTATGCTCACACGAGCTAAAAATT
* *
35838942 GGTATGCTCACAGGAGC
1 AGTATGCTCACACGAGC
35838959 GGTGGGTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (25 bp):
AGTATGCTCACACGAGCTAAAAATT
Found at i:35841994 original size:50 final size:50
Alignment explanation
Indices: 35841879--35842116 Score: 239
Period size: 50 Copynumber: 4.7 Consensus size: 50
35841869 ATGCCAAAAT
* * * *
35841879 CATGTCCCATACATGGTCTTACATGGGATG-TTTCATGTAC--TACCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGA-GCTCTCATAT-CGGTGCCAATGC
* * * *
35841928 CATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGC
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGC
* *
35841978 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCGTCTCGGTGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGC
* * * *
35842028 CATGTCGCAGACATGGTCTTACATAGGACCTCTCATGATCTCAAGGATGCCAATGT
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC--GG-TGCCAATGC
* *
35842084 CATGTCCCATACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGAGCTCT
35842117 TTACCCAAAT
Statistics
Matches: 157, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.01
49 31 0.20
50 83 0.53
53 2 0.01
55 2 0.01
56 37 0.24
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGC
Found at i:35842062 original size:100 final size:103
Alignment explanation
Indices: 35841879--35842116 Score: 263
Period size: 100 Copynumber: 2.3 Consensus size: 103
35841869 ATGCCAAAAT
* * *
35841879 CATGTCCCATACATGGTCTTACATGGGATG-TTTCATGTACTACCAATGCCATATCCCAGATATG
1 CATGTCCCATACATGGTCTTACATGGGA-GCTCTCATCTACTACCAATGCCATATCCCAGACATG
* ** *
35841943 GTCTTACATGGGAGTTCTCAT-A-TC-GG-TGCCCATGC
65 GTCTTACATAGGACCTCTCATGACTCAGGATGCCAATGC
* * * * *
35841978 CATGTCCCAGACATGGTCTTACATGGGAGCTCTCGTCT-CGGTGCCAATGCCATGTCGCAGACAT
1 CATGTCCCATACATGGTCTTACATGGGAGCTCTCATCTAC--TACCAATGCCATATCCCAGACAT
*
35842042 GGTCTTACATAGGACCTCTCATGATCTCAAGGATGCCAATGT
64 GGTCTTACATAGGACCTCTCATGA-CTC-AGGATGCCAATGC
*
35842084 CATGTCCCATACATGGTCTTACATGGGATCTCT
1 CATGTCCCATACATGGTCTTACATGGGAGCTCT
35842117 TTACCCAAAT
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
98 2 0.02
99 32 0.28
100 38 0.33
101 1 0.01
103 2 0.02
105 2 0.02
106 38 0.33
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (103 bp):
CATGTCCCATACATGGTCTTACATGGGAGCTCTCATCTACTACCAATGCCATATCCCAGACATGG
TCTTACATAGGACCTCTCATGACTCAGGATGCCAATGC
Found at i:35843445 original size:39 final size:39
Alignment explanation
Indices: 35843399--35843475 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
35843389 TGGAAGGATT
35843399 AGATTATTCCACTAACACTCATGATTTTTGTGATTAAGC
1 AGATTATTCCACTAACACTCATGATTTTTGTGATTAAGC
35843438 AGATTATTCCACTAACACTCATGATTTTTGTGATTAAG
1 AGATTATTCCACTAACACTCATGATTTTTGTGATTAAG
35843476 TGTGTTTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (39 bp):
AGATTATTCCACTAACACTCATGATTTTTGTGATTAAGC
Found at i:35844840 original size:13 final size:13
Alignment explanation
Indices: 35844824--35844866 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
35844814 ATACAACCAA
35844824 TTCATATAGCCAT
1 TTCATATAGCCAT
* *
35844837 TTCATATAACAAT
1 TTCATATAGCCAT
*
35844850 TTCATATGGCCAT
1 TTCATATAGCCAT
35844863 TTCA
1 TTCA
35844867 AAGTGTTAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.40
Consensus pattern (13 bp):
TTCATATAGCCAT
Found at i:35858688 original size:30 final size:30
Alignment explanation
Indices: 35858652--35858734 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
35858642 GTGTGCTAAA
* *
35858652 CGATGGTCGAAACCATCCCTTTTCCTTAAT
1 CGATGGTCAAAACCATCCCTTTTCATTAAT
*
35858682 CGATGGTCAAAACCATCCTTTTTCATTAAT
1 CGATGGTCAAAACCATCCCTTTTCATTAAT
*
35858712 CGATGATCAAAACCATCCCTTTT
1 CGATGGTCAAAACCATCCCTTTT
35858735 TATAGATGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.34
Consensus pattern (30 bp):
CGATGGTCAAAACCATCCCTTTTCATTAAT
Found at i:35862479 original size:30 final size:30
Alignment explanation
Indices: 35862445--35862541 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
35862435 TAAACTAAAA
*
35862445 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
35862475 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
35862505 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
35862534 ATGAGCTA
1 -TGAGCTA
35862542 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:35864737 original size:12 final size:12
Alignment explanation
Indices: 35864722--35864752 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35864712 TTCTTTTTGC
35864722 TTTTCAAAGGCT
1 TTTTCAAAGGCT
35864734 TTTTCAAAGGCT
1 TTTTCAAAGGCT
35864746 TTTTCAA
1 TTTTCAA
35864753 GTTCTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:35864810 original size:5 final size:5
Alignment explanation
Indices: 35864800--35864862 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
35864790 CTCTTGCCTC
*
35864800 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TC-TTT
35864848 TCTTT TCTTT TCTTT
1 TCTTT TCTTT TCTTT
35864863 GTTTTCTCTT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
4 4 0.08
5 29 0.58
6 12 0.24
7 5 0.10
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:35864826 original size:21 final size:21
Alignment explanation
Indices: 35864802--35864853 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
35864792 CTTGCCTCTC
*
35864802 TTTTCTTTTTATTTCATTTTCT
1 TTTTCTTTTT-TTGCATTTTCT
* *
35864824 TTTTCTTCTTTTGCTTTTTCT
1 TTTTCTTTTTTTGCATTTTCT
35864845 TTTTCTTTT
1 TTTTCTTTT
35864854 CTTTTCTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTCTTTTTTTGCATTTTCT
Found at i:35864829 original size:6 final size:6
Alignment explanation
Indices: 35864813--35864862 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
35864803 TTTCTTTTTA
*
35864813 TTTCAT TTTCTT TTTCTTCT TTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTC-T-T TTT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
35864862 T
1 T
35864863 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 18 0.46
7 5 0.13
8 5 0.13
9 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:35864844 original size:12 final size:11
Alignment explanation
Indices: 35864802--35864862 Score: 58
Period size: 12 Copynumber: 5.7 Consensus size: 11
35864792 CTTGCCTCTC
35864802 TTTTCTTTT-T
1 TTTTCTTTTCT
*
35864812 ATTTCATTTTCT
1 TTTTC-TTTTCT
35864824 TTTTC--TTCT
1 TTTTCTTTTCT
*
35864833 TTTGCTTTTTCT
1 TTTTC-TTTTCT
35864845 TTTTCTTTTC-
1 TTTTCTTTTCT
35864855 TTTTCTTT
1 TTTTCTTT
35864863 GTTTTCTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 8 0.19
10 12 0.29
11 9 0.21
12 13 0.31
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTCTTTTCT
Done.