Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 103 of 313
Found at i:33985989 original size:20 final size:20
Alignment explanation
Indices: 33985964--33986004 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
33985954 AAGTTTTACC
33985964 TAAATTAGAATTTAACTAAT
1 TAAATTAGAATTTAACTAAT
*
33985984 TAAATTAGAATTTAATTAAT
1 TAAATTAGAATTTAACTAAT
33986004 T
1 T
33986005 GTTTTCTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (20 bp):
TAAATTAGAATTTAACTAAT
Found at i:34001448 original size:172 final size:172
Alignment explanation
Indices: 34001162--34001507 Score: 638
Period size: 172 Copynumber: 2.0 Consensus size: 172
34001152 TGCAAGTTCA
* *
34001162 CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATTTTGATGCTCAATCTCTCTTCCC
1 CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATATTGACGCTCAATCTCTCTTCCC
* *
34001227 TAGCGTTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTGTCAAAATAAACT
66 TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAAAATAAACT
34001292 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
131 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
*
34001334 CACTGCCTCCCTGCCACGCCCGTGCGCCGCTTCCCACTCCATATTGACGCTCAATCTCTCTTCCC
1 CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATATTGACGCTCAATCTCTCTTCCC
*
34001399 TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAACATAAACT
66 TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAAAATAAACT
34001464 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
131 TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
34001506 CA
1 CA
34001508 TTTAATTTGC
Statistics
Matches: 168, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 168 1.00
ACGTcount: A:0.18, C:0.29, G:0.10, T:0.43
Consensus pattern (172 bp):
CACTGCCTCACTGCCACGCCCGTGCGCCGCTTCCCACTCCATATTGACGCTCAATCTCTCTTCCC
TAGCATTTGTTTACTCCTTTCACTTCTGTTTTACTTATTTTTAATGCTTAGTATCAAAATAAACT
TCATATCTTTTGACCTATTTTTTATTTTGCTCATTATTCTAT
Found at i:34001799 original size:18 final size:17
Alignment explanation
Indices: 34001776--34001811 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
34001766 GTTTACCTAT
34001776 TATTATTATTCATTTATC
1 TATTATTATTC-TTTATC
34001794 TATTATTATTCTTTATC
1 TATTATTATTCTTTATC
34001811 T
1 T
34001812 TATAGGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATTATTCTTTATC
Found at i:34009584 original size:7 final size:7
Alignment explanation
Indices: 34009572--34009609 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
34009562 AAATGTATCG
34009572 TAGGGTT
1 TAGGGTT
34009579 TAGGGTT
1 TAGGGTT
34009586 TAGGGTT
1 TAGGGTT
*
34009593 TAGAGTT
1 TAGGGTT
*
34009600 TAAGGTT
1 TAGGGTT
34009607 TAG
1 TAG
34009610 CGTTGGGATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (7 bp):
TAGGGTT
Found at i:34011163 original size:19 final size:19
Alignment explanation
Indices: 34011129--34011167 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
34011119 GATTTTGTAC
*
34011129 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
34011149 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
34011167 T
1 T
34011168 CTTTCGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:34014956 original size:19 final size:19
Alignment explanation
Indices: 34014922--34014960 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
34014912 GATTTTGTAC
*
34014922 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
34014942 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
34014960 T
1 T
34014961 CTTTCGCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:34022130 original size:8 final size:8
Alignment explanation
Indices: 34022119--34022178 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
34022109 AAAAAATGTA
34022119 AAAATTAT
1 AAAATTAT
34022127 AAAA-TATT
1 AAAATTA-T
**
34022135 AATTTTTAT
1 AAAAT-TAT
34022144 AAAATTAT
1 AAAATTAT
34022152 AAAA-TAT
1 AAAATTAT
*
34022159 ATAATTAT
1 AAAATTAT
*
34022167 AAAATTCT
1 AAAATTAT
34022175 AAAA
1 AAAA
34022179 ATTTGTTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
7 8 0.20
8 27 0.66
9 4 0.10
10 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
AAAATTAT
Found at i:34022159 original size:15 final size:15
Alignment explanation
Indices: 34022141--34022171 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34022131 TATTAATTTT
34022141 TATAAAATTATAAAA
1 TATAAAATTATAAAA
*
34022156 TATATAATTATAAAA
1 TATAAAATTATAAAA
34022171 T
1 T
34022172 TCTAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTATAAAA
Found at i:34022249 original size:20 final size:19
Alignment explanation
Indices: 34022222--34022280 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
34022212 TGAAATTTAA
34022222 ATAC-TTTTTTTAATTTTT
1 ATACATTTTTTTAATTTTT
*
34022240 ATAACATTTTTCTAATTTTT
1 AT-ACATTTTTTTAATTTTT
*
34022260 ATATATTATTTTTAATTTTT
1 ATACATT-TTTTTAATTTTT
34022280 A
1 A
34022281 AAATTTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.06
19 6 0.17
20 27 0.77
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
ATACATTTTTTTAATTTTT
Found at i:34022288 original size:20 final size:20
Alignment explanation
Indices: 34022228--34022288 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
34022218 TTAAATACTT
34022228 TTTTTAATTTTTATAACA-TT-
1 TTTTTAATTTTTA-AA-ATTTA
* *
34022248 TTTCTAATTTTT-ATATATTA
1 TTTTTAATTTTTAAAAT-TTA
34022268 TTTTTAATTTTTAAAATTTA
1 TTTTTAATTTTTAAAATTTA
34022288 T
1 T
34022289 AATTATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 2 0.06
20 26 0.79
21 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTAATTTTTAAAATTTA
Found at i:34022494 original size:21 final size:21
Alignment explanation
Indices: 34022445--34022494 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
34022435 CTAGTCAACG
34022445 CCAATCAACAATGGTCAACAT
1 CCAATCAACAATGGTCAACAT
** *
34022466 CCGGTCAACATTGGTCAACAAT
1 CCAATCAACAATGGTCAAC-AT
34022488 -CAATCAA
1 CCAATCAA
34022495 AGTAAAAGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (21 bp):
CCAATCAACAATGGTCAACAT
Found at i:34022665 original size:26 final size:26
Alignment explanation
Indices: 34022624--34022675 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
34022614 TTTATAATTA
34022624 TATATTTTAAAATTTTATAGAAAAAAT
1 TATATTTTAAAATTTTATA-AAAAAAT
* *
34022651 TATA-TTTAAACTTTTTTAAAAAAAT
1 TATATTTTAAAATTTTATAAAAAAAT
34022676 ACAGTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 12 0.52
27 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (26 bp):
TATATTTTAAAATTTTATAAAAAAAT
Found at i:34024190 original size:17 final size:17
Alignment explanation
Indices: 34024168--34024200 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34024158 AAAGTTATCT
34024168 ATTCCTCTGTTTTGTTG
1 ATTCCTCTGTTTTGTTG
*
34024185 ATTCCTCTTTTTTGTT
1 ATTCCTCTGTTTTGTT
34024201 CTTTAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.18, G:0.12, T:0.64
Consensus pattern (17 bp):
ATTCCTCTGTTTTGTTG
Found at i:34024798 original size:25 final size:26
Alignment explanation
Indices: 34024724--34024799 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 26
34024714 AATTTTCTCG
* * * *
34024724 AAATTTTATCAGAGGTAAAATCGACAAA
1 AAATTTTACCAGGGGTAAAATTGTC--A
34024752 AAATTTTACCAGGGGTAAAATTGTCA
1 AAATTTTACCAGGGGTAAAATTGTCA
*
34024778 AAATTTTACTA-GGGTAAAATTG
1 AAATTTTACCAGGGGTAAAATTG
34024800 GGGTGAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.26
26 11 0.26
28 21 0.49
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (26 bp):
AAATTTTACCAGGGGTAAAATTGTCA
Found at i:34028579 original size:18 final size:18
Alignment explanation
Indices: 34028556--34028613 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
34028546 TCCTTTAAAT
34028556 AAAATATCATAGTTATAA
1 AAAATATCATAGTTATAA
** *
34028574 AAAATAAAGAAAG-TA-AA
1 AAAAT-ATCATAGTTATAA
34028591 TAAAATATCATAGTTATAA
1 -AAAATATCATAGTTATAA
34028610 AAAA
1 AAAA
34028614 ATAAAGAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
17 6 0.20
18 18 0.60
19 6 0.20
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.26
Consensus pattern (18 bp):
AAAATATCATAGTTATAA
Found at i:34028598 original size:36 final size:37
Alignment explanation
Indices: 34028551--34028630 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
34028541 CAATATCCTT
34028551 TAAATAAAATATCATAGTTAT-AAAAAATAAAGAAAG
1 TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
34028587 TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
1 TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
34028624 TAAATAA
1 TAAATAA
34028631 TCCCAAAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 21 0.49
37 22 0.51
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (37 bp):
TAAATAAAATATCATAGTTATAAAAAAATAAAGAAAG
Found at i:34029542 original size:13 final size:13
Alignment explanation
Indices: 34029524--34029548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34029514 ATGTCCATTT
34029524 CAGATACAGATAA
1 CAGATACAGATAA
34029537 CAGATACAGATA
1 CAGATACAGATA
34029549 TGTAGATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (13 bp):
CAGATACAGATAA
Found at i:34031594 original size:44 final size:43
Alignment explanation
Indices: 34031542--34031700 Score: 148
Period size: 44 Copynumber: 3.7 Consensus size: 43
34031532 TATGTGTCAT
34031542 CGTGTAAGACCATGTCTGGGACATTGGCATCGACTTATGTTTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGA-TTATGTTTTA
* * * *
34031586 CGTATAAGACAATGTTTGGGACGTTGGCATCGTATT-TGATTTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATTATG-TTTTA
* * *
34031629 -GTGTAAGACCATGTCTGGGATAGTGGCATTGA-TAT-TTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATTATGTT--TTA
* * *
34031671 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
34031701 TTTCCGAGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 4 0.04
42 24 0.26
43 26 0.28
44 34 0.37
45 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATTATGTTTTA
Found at i:34031701 original size:43 final size:43
Alignment explanation
Indices: 34031542--34031700 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
34031532 TATGTGTCAT
*
34031542 CGTGTAAGACCATGTCTGGGACATTGGCATCGACTTATGTT--TTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGA--TAT-TTGATTA
* * * *
34031586 CGTATAAGACAATGTTTGGGACGTTGGCATCG-TATTTGATTT
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTA
* * *
34031628 TGTGTAAGACCATGTCTGGGATAG-TGGCATTGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGA-CGTTGGCATCGATATTTGATTA
* *
34031671 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
34031701 TTTCCGAGCT
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 27 0.29
43 34 0.36
44 28 0.30
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTA
Found at i:34034119 original size:34 final size:34
Alignment explanation
Indices: 34034053--34034120 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
34034043 TATATATATA
* *
34034053 TATTTAATTTACTTTTTGGAATAATTATAATAAT
1 TATTTAATTTACTTTTTGAAATAATTAGAATAAT
* *
34034087 TATTTATTTTA-TTTCTTGAAATAATTGGAATAAT
1 TATTTAATTTACTTT-TTGAAATAATTAGAATAAT
34034121 ATGTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 3 0.10
34 26 0.90
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (34 bp):
TATTTAATTTACTTTTTGAAATAATTAGAATAAT
Found at i:34035774 original size:20 final size:20
Alignment explanation
Indices: 34035746--34035783 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34035736 ACTCTTTGTA
34035746 ATTTGTAATTTAATTGATTG
1 ATTTGTAATTTAATTGATTG
*
34035766 ATTTTTAATTTAATTGAT
1 ATTTGTAATTTAATTGAT
34035784 ATCGTTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (20 bp):
ATTTGTAATTTAATTGATTG
Found at i:34038518 original size:93 final size:93
Alignment explanation
Indices: 34038359--34038545 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
34038349 TCCCTCTCTC
34038359 AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
1 AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
34038424 ACCCATCATTTTGTTTTGTTTTTCTTTG
66 ACCCATCATTTTGTTTTGTTTTTCTTTG
*
34038452 AAATCAGTTTCGTTTTCTTCTTCTCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
1 AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
34038517 ACCCATCATTTTGTTTTGTTTTTCTTTG
66 ACCCATCATTTTGTTTTGTTTTTCTTTG
34038545 A
1 A
34038546 GTTTCTTATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.55
Consensus pattern (93 bp):
AAATCAGTTTCGTTTTCTTCTTCCCAATTTTCAGATTTTTATTGTTTTTACCACTATACTTATTC
ACCCATCATTTTGTTTTGTTTTTCTTTG
Found at i:34038908 original size:17 final size:17
Alignment explanation
Indices: 34038876--34038910 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34038866 CAACCCATAT
*
34038876 AGGCATGTGCTACACAC
1 AGGCATGTGCCACACAC
*
34038893 AGGCATGTGCCGCACAC
1 AGGCATGTGCCACACAC
34038910 A
1 A
34038911 AGTGGTCTAC
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:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (17 bp):
AGGCATGTGCCACACAC
Found at i:34039113 original size:21 final size:21
Alignment explanation
Indices: 34039089--34039129 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34039079 TGTAACCCAG
34039089 TCACACGA-GCGTGTCCCTCAA
1 TCACA-GAGGCGTGTCCCTCAA
34039110 TCACAGAGGCGTGTCCCTCA
1 TCACAGAGGCGTGTCCCTCA
34039130 GTCATATGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.22, C:0.37, G:0.22, T:0.20
Consensus pattern (21 bp):
TCACAGAGGCGTGTCCCTCAA
Found at i:34040305 original size:30 final size:30
Alignment explanation
Indices: 34040256--34040313 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34040246 CACGGGCTGG
* * * *
34040256 CACATGGGCGTGTGGCCAACCCGTGTGGCT
1 CACACGGGCATGTGCCCAACCCATGTGGCT
34040286 CACACGGGCATGTGCCCAACCCATGTGG
1 CACACGGGCATGTGCCCAACCCATGTGG
34040314 AAGTGCCCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (30 bp):
CACACGGGCATGTGCCCAACCCATGTGGCT
Found at i:34042133 original size:6 final size:5
Alignment explanation
Indices: 34042115--34042180 Score: 60
Period size: 6 Copynumber: 11.6 Consensus size: 5
34042105 GAAGTCTAAA
34042115 AAAAT AACAAT AAACAT AAAAAT AGAAAT AAAACT AGAAAT AAAAAT AAAAAT
1 AAAAT AA-AAT AAA-AT -AAAAT A-AAAT AAAA-T A-AAAT -AAAAT -AAAAT
34042168 AAAAT AAAAT AAA
1 AAAAT AAAAT AAA
34042181 TGGATTTAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
5 20 0.37
6 27 0.50
7 7 0.13
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:34042135 original size:18 final size:16
Alignment explanation
Indices: 34042115--34042180 Score: 69
Period size: 18 Copynumber: 3.8 Consensus size: 16
34042105 GAAGTCTAAA
*
34042115 AAAATAACAATAAACAT
1 AAAATAA-AATAAAAAT
*
34042132 AAAAATAGAAATAAAACT
1 -AAAATA-AAATAAAAAT
34042150 AGAAATAAAAATAAAAAT
1 A-AAAT-AAAATAAAAAT
34042168 AAAATAAAATAAA
1 AAAATAAAATAAA
34042181 TGGATTTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.19
17 5 0.12
18 27 0.64
19 2 0.05
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:34042157 original size:24 final size:22
Alignment explanation
Indices: 34042114--34042180 Score: 89
Period size: 24 Copynumber: 2.9 Consensus size: 22
34042104 AGAAGTCTAA
34042114 AAAAATAACAATAAACATAAAAAT
1 AAAAATAA-AATAAA-ATAAAAAT
*
34042138 AGAAATAAAACTAGAAATAAAAAT
1 AAAAATAAAA-TA-AAATAAAAAT
34042162 AAAAATAAAATAAAATAAA
1 AAAAATAAAATAAAATAAA
34042181 TGGATTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.18
23 4 0.10
24 26 0.67
25 2 0.05
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (22 bp):
AAAAATAAAATAAAATAAAAAT
Found at i:34046966 original size:6 final size:6
Alignment explanation
Indices: 34046957--34047000 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
34046947 CCTTAAAACT
* *
34046957 AAAATA AAAATA AAAATA AAGAGA AAAATA AAAGAT- AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA AA
34047001 TGGACTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 2 0.06
6 28 0.88
7 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:34048837 original size:18 final size:19
Alignment explanation
Indices: 34048814--34048851 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
34048804 TAAATAAATG
34048814 AATAAAGAAA-TAAAATAA
1 AATAAAGAAAGTAAAATAA
34048832 AATAAAGAAAGTAAAATAA
1 AATAAAGAAAGTAAAATAA
34048851 A
1 A
34048852 TGAAGAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (19 bp):
AATAAAGAAAGTAAAATAA
Found at i:34048852 original size:18 final size:17
Alignment explanation
Indices: 34048805--34048857 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
34048795 AACCAAAAAT
*
34048805 AAAT-AAATGAATAAAG
1 AAATAAAATAAATAAAG
34048821 AAATAAAATAAAATAAAG
1 AAATAAAAT-AAATAAAG
*
34048839 AAAGTAAAATAAATGAAG
1 AAA-TAAAATAAATAAAG
34048857 A
1 A
34048858 GAATGGGGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 18 0.56
19 6 0.19
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (17 bp):
AAATAAAATAAATAAAG
Found at i:34053670 original size:30 final size:30
Alignment explanation
Indices: 34053635--34053692 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34053625 CACAGCCATG
* *
34053635 ACACACGGGCGTGTGGCCTACCCGTGTGTC
1 ACACACGGGCGTGTAGACTACCCGTGTGTC
* *
34053665 ACACACGGGTGTGTAGATTACCCGTGTG
1 ACACACGGGCGTGTAGACTACCCGTGTG
34053693 AAAGTGCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTAGACTACCCGTGTGTC
Found at i:34066982 original size:19 final size:18
Alignment explanation
Indices: 34066958--34067008 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
34066948 TCCTAGAAGC
34066958 AAACAAAATAAAAATTAGA
1 AAACAAAATAAAAATTA-A
*
34066977 AAACAAAA-ATTAAATTAA
1 AAACAAAATA-AAAATTAA
34066995 AAACATAAATAAAA
1 AAACA-AAATAAAA
34067009 TGCAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 7 0.26
19 19 0.70
20 1 0.04
ACGTcount: A:0.75, C:0.06, G:0.02, T:0.18
Consensus pattern (18 bp):
AAACAAAATAAAAATTAA
Found at i:34066999 original size:18 final size:19
Alignment explanation
Indices: 34066958--34067009 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
34066948 TCCTAGAAGC
34066958 AAAC-AAAATAAAAATTAGA
1 AAACAAAAAT-AAAATTAGA
*
34066977 AAACAAAAATTAAATTA-A
1 AAACAAAAATAAAATTAGA
*
34066995 AAACATAAATAAAAT
1 AAACAAAAATAAAAT
34067010 GCAATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 14 0.48
19 10 0.34
20 5 0.17
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (19 bp):
AAACAAAAATAAAATTAGA
Found at i:34075036 original size:16 final size:17
Alignment explanation
Indices: 34075017--34075055 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
34075007 TTTTAATCAT
34075017 TTTTTAAAT-TTATTTA
1 TTTTTAAATATTATTTA
34075033 -TTTTAAATATTATTTA
1 TTTTTAAATATTATTTA
34075049 TTATTTA
1 TT-TTTA
34075056 TACATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.40
16 7 0.35
17 1 0.05
18 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTAAATATTATTTA
Found at i:34075038 original size:15 final size:16
Alignment explanation
Indices: 34075018--34075050 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34075008 TTTAATCATT
34075018 TTTTAAAT-TTATTTA
1 TTTTAAATATTATTTA
34075033 TTTTAAATATTATTTA
1 TTTTAAATATTATTTA
34075049 TT
1 TT
34075051 ATTTATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAAATATTATTTA
Found at i:34075049 original size:20 final size:20
Alignment explanation
Indices: 34075024--34075117 Score: 59
Period size: 20 Copynumber: 4.5 Consensus size: 20
34075014 CATTTTTTAA
34075024 ATTTATTTATTTTAAATATT
1 ATTTATTTATTTTAAATATT
**
34075044 ATTTA-TTATTTATACATATAAAA
1 ATTTATTTATTT-TA-A-AT-ATT
*
34075067 ATTTATTTA-TTTATATATT
1 ATTTATTTATTTTAAATATT
* *
34075086 ATTTTTGTTATTTTCAAGTA-T
1 ATTTAT-TTATTTT-AAATATT
*
34075107 ATTTATATATT
1 ATTTATTTATT
34075118 ATATTATTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
19 12 0.21
20 16 0.29
21 10 0.18
22 7 0.12
23 8 0.14
24 3 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTATTTATTTTAAATATT
Found at i:34075122 original size:5 final size:5
Alignment explanation
Indices: 34075104--34075240 Score: 62
Period size: 5 Copynumber: 29.0 Consensus size: 5
34075094 TATTTTCAAG
* * *
34075104 TATAT T-TA- TATAT TATAT TAT-T TAT-T AATA- TATAT TATTT TACAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * *
34075149 T-T-T TATAT TATTAT ATATAT TATAT TATCT TATGT TTTAA TATA- CAT-T
1 TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * *
34075197 ATATAT TATAT TATTT TATTT TATAT TTTAT CATA- TAT-T TATAT
1 -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
34075241 CTTATTACAT
Statistics
Matches: 99, Mismatches: 20, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
3 3 0.03
4 22 0.22
5 65 0.66
6 7 0.07
7 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:34075151 original size:52 final size:52
Alignment explanation
Indices: 34075069--34075181 Score: 126
Period size: 52 Copynumber: 2.2 Consensus size: 52
34075059 ATATAAAAAT
**
34075069 TTATTTATTTATATATTATTTTTGTTATTTTCAAGTA-TATT-TATATATTATA
1 TTATTTATTTATATATTATTTTTGACATTTT-AA-TATTATTATATATATTATA
*
34075121 TTATTTATTAATATATATTA-TTTT-ACATTTTTATATTATTATATATATTATA
1 TTATTTATT--TATATATTATTTTTGACATTTTAATATTATTATATATATTATA
34075173 TTATCTTAT
1 TTAT-TTAT
34075182 GTTTTAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
50 2 0.04
51 5 0.09
52 29 0.55
53 8 0.15
54 9 0.17
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (52 bp):
TTATTTATTTATATATTATTTTTGACATTTTAATATTATTATATATATTATA
Found at i:34075220 original size:10 final size:10
Alignment explanation
Indices: 34075068--34075223 Score: 63
Period size: 10 Copynumber: 14.8 Consensus size: 10
34075058 CATATAAAAA
34075068 TTTAT-TTAT
1 TTTATATTAT
34075077 TTATATATTAT
1 TT-TATATTAT
*
34075088 TTT-TGTTAT
1 TTTATATTAT
34075097 TTTCA-AGTATAT
1 TTT-ATA-T-TAT
34075109 TTATATATTAT
1 TT-TATATTAT
*
34075120 ATTAT-TTAT
1 TTTATATTAT
34075129 TAATATATATTAT
1 T--T-TATATTAT
*
34075142 TTTACA-T-T
1 TTTATATTAT
34075150 TTTATATTAT
1 TTTATATTAT
34075160 TATATATATTAT
1 T-T-TATATTAT
* *
34075172 ATTATCTTATGT
1 TTTATATTA--T
*
34075184 TTTAATATACAT
1 TTT-ATAT-TAT
*
34075196 TATATATTAT
1 TTTATATTAT
* *
34075206 ATTATTTTAT
1 TTTATATTAT
34075216 TTTATATT
1 TTTATATT
34075224 TTATCATATA
Statistics
Matches: 109, Mismatches: 18, Indels: 39
0.66 0.11 0.23
Matches are distributed among these distances:
8 6 0.06
9 16 0.15
10 33 0.30
11 19 0.17
12 24 0.22
13 10 0.09
14 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTATATTAT
Found at i:34075391 original size:19 final size:17
Alignment explanation
Indices: 34075369--34075410 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
34075359 TTTTATATTT
*
34075369 TATATGTTATTTTATTATA
1 TATAT-TTATATTATTA-A
34075388 TATATTTATATTATTAA
1 TATATTTATATTATTAA
34075405 TATATT
1 TATATT
34075411 ATTACACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 10 0.45
19 5 0.23
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATTAA
Found at i:34075465 original size:22 final size:23
Alignment explanation
Indices: 34075439--34075489 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
34075429 TTATAAATTA
* *
34075439 TTATTAAGCAT-TA-TATTTATG
1 TTATTAAACATGTAGTATGTATG
34075460 TGTATTAAACATGTAGTATGTATG
1 T-TATTAAACATGTAGTATGTATG
34075484 TTATTA
1 TTATTA
34075490 TAAAGTTCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (23 bp):
TTATTAAACATGTAGTATGTATG
Found at i:34086881 original size:17 final size:18
Alignment explanation
Indices: 34086850--34086888 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
34086840 CGTGTGACAT
34086850 GCCCGTATAGGCCCACAC
1 GCCCGTATAGGCCCACAC
*
34086868 GCCCGTAT-GGCCCACAT
1 GCCCGTATAGGCCCACAC
34086885 GCCC
1 GCCC
34086889 AACTTGGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (18 bp):
GCCCGTATAGGCCCACAC
Found at i:34088116 original size:38 final size:38
Alignment explanation
Indices: 34088061--34088136 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
34088051 CGATAGATAG
* *
34088061 AAATGTGTGCAAACCACTAGAAAATATAGATCATTAAA
1 AAATATGTGCAAACCACTAGAAAATACAGATCATTAAA
*
34088099 AAATATGTGCACACCACTAGAAAATACAGATCATTAAA
1 AAATATGTGCAAACCACTAGAAAATACAGATCATTAAA
34088137 CTACCATAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (38 bp):
AAATATGTGCAAACCACTAGAAAATACAGATCATTAAA
Found at i:34090539 original size:20 final size:19
Alignment explanation
Indices: 34090497--34090540 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
34090487 GAAAATAGTG
* *
34090497 ATAAATTTATTTTCTAAGT
1 ATAAATTTATTATCTAAGA
*
34090516 ATAAATTCTATTATCTAGGA
1 ATAAATT-TATTATCTAAGA
34090536 ATAAA
1 ATAAA
34090541 AATTCTATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (19 bp):
ATAAATTTATTATCTAAGA
Found at i:34093083 original size:40 final size:41
Alignment explanation
Indices: 34093032--34093140 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
34093022 AGTTTGGAAC
* **
34093032 CCAATGCCTCATCGGAT-AATTTGAAGTAGTAAATTGACAA
1 CCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGACAA
* * *
34093072 CCAGTGTCTCATCGAATAAATCCGAAGTAGTAAATTGACAC
1 CCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGACAA
* *
34093113 CCAATGTCTCATCGGTTAAA-CCAAAGTA
1 CCAATGTCTCATCGGATAAATCCGAAGTA
34093141 AATTGGCACC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 21 0.36
41 37 0.64
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (41 bp):
CCAATGTCTCATCGGATAAATCCGAAGTAGTAAATTGACAA
Found at i:34093101 original size:41 final size:40
Alignment explanation
Indices: 34093054--34093164 Score: 138
Period size: 41 Copynumber: 2.8 Consensus size: 40
34093044 CGGATAATTT
*
34093054 GAAGTAGTAAATTGACAACCAGTGTCTCATCGAATAAATCC
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGAATAAA-CC
* **
34093095 GAAGTAGTAAATTGACACCCAATGTCTCATCGGTTAAACC
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGAATAAACC
* *
34093135 -AA--AGTAAATTGGCACCCAGTGCCTCATCGA
1 GAAGTAGTAAATTGACACCCAGTGTCTCATCGA
34093165 CTCGAAGTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
37 24 0.39
39 2 0.03
40 2 0.03
41 34 0.55
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (40 bp):
GAAGTAGTAAATTGACACCCAGTGTCTCATCGAATAAACC
Found at i:34093380 original size:50 final size:51
Alignment explanation
Indices: 34093316--34093421 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 51
34093306 ATATATATAT
34093316 ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
1 ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
* *
34093367 ATTC-TTTCAATTGAAATAATTAATACATTCATAATATATCACTTCAATCC
1 ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
34093417 ATTCA
1 ATTCA
34093422 ATCAACTTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 48 0.92
51 4 0.08
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.38
Consensus pattern (51 bp):
ATTCATTTCAATTGAAATAATCAATACATTCATAATATATCACTACAATCC
Found at i:34093420 original size:24 final size:24
Alignment explanation
Indices: 34093336--34093421 Score: 68
Period size: 24 Copynumber: 3.5 Consensus size: 24
34093326 ATTGAAATAA
34093336 TCAATACATTCATAATATATCACT
1 TCAATACATTCATAATATATCACT
* * * * *
34093360 ACAATCCATTCTTTCAATTGAAAT-AAT
1 TCAATACATTC-AT-AA-T-ATATCACT
34093387 T-AATACATTCATAATATATCACT
1 TCAATACATTCATAATATATCACT
*
34093410 TCAATCCATTCA
1 TCAATACATTCA
34093422 ATCAACTTTA
Statistics
Matches: 45, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
22 3 0.07
23 4 0.09
24 20 0.44
25 2 0.04
26 10 0.22
27 3 0.07
28 3 0.07
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (24 bp):
TCAATACATTCATAATATATCACT
Found at i:34094121 original size:21 final size:22
Alignment explanation
Indices: 34094092--34094133 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
34094082 CTAGCCTTGT
34094092 CTTTCTCTTTTCTTT-CTTTCC
1 CTTTCTCTTTTCTTTCCTTTCC
*
34094113 CTTTTTCTTTTCTTTCCTTTC
1 CTTTCTCTTTTCTTTCCTTTC
34094134 TATTTCGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
CTTTCTCTTTTCTTTCCTTTCC
Found at i:34094144 original size:21 final size:20
Alignment explanation
Indices: 34094097--34094144 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
34094087 CTTGTCTTTC
*
34094097 TCTTTTCTTTCTTTCCCTTTT
1 TCTTTTCTTTCTTT-CCTATT
34094118 TCTTTTCTTTCCTTT-CTATT
1 TCTTTTCTTT-CTTTCCTATT
34094138 TCGTTTT
1 TC-TTTT
34094145 AGCTTCTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 14 0.58
22 4 0.17
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTCTTTCCTATT
Found at i:34101585 original size:55 final size:55
Alignment explanation
Indices: 34101464--34101600 Score: 159
Period size: 55 Copynumber: 2.5 Consensus size: 55
34101454 GACATGGCCA
* * * ** *
34101464 TGGGCGAACCTGCCAAAACAACAGGGGCGTGCGACACGTCCATGCCTTGAAACTG
1 TGGGCGAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAACCG
* * * * *
34101519 T-GGCTGGACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGCAACCG
1 TGGGC-GAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAACCG
34101574 TGGGCGAACCTGCCAAAATAACACGGG
1 TGGGCGAACCTGCCAAAATAACACGGG
34101601 TGTGATACCT
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
54 3 0.05
55 60 0.91
56 3 0.05
ACGTcount: A:0.27, C:0.30, G:0.29, T:0.14
Consensus pattern (55 bp):
TGGGCGAACCTGCCAAAATAACACGGGCGTGCGACACGCCCATGCCAAGAAACCG
Found at i:34107258 original size:18 final size:18
Alignment explanation
Indices: 34107231--34107266 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
34107221 TTCAGCTATG
34107231 AAAATATTTCA-AATAAC
1 AAAATATTTCATAATAAC
34107248 AAAACTATTTCATAATAAC
1 AAAA-TATTTCATAATAAC
34107267 TTTCACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATTTCATAATAAC
Found at i:34108713 original size:16 final size:15
Alignment explanation
Indices: 34108693--34108722 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34108683 ATAACCAAAA
34108693 AAAAAACCCAAAATT
1 AAAAAACCCAAAATT
*
34108708 AAAAAACCCACAATT
1 AAAAAACCCAAAATT
34108723 TTTTTTTAAA
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:0.63, C:0.23, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAAAACCCAAAATT
Found at i:34109943 original size:2 final size:2
Alignment explanation
Indices: 34109936--34109971 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
34109926 ATATCAAAGA
34109936 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34109972 GAGTGGTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34111079 original size:60 final size:59
Alignment explanation
Indices: 34111009--34111125 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 59
34110999 TTTTCATAAG
*
34111009 ATGATTATTATTCTAAAGTAGT-TCATAAACTTAAAAATATTTTAATTATATTCTTAAATT
1 ATGATCATTATTCTAAAGTAGTCT-ATAAACTTAAAAATA-TTTAATTATATTCTTAAATT
* * * * * *
34111069 ATGATCATTATTTTAAATTAGTCTTTAAATTTTAAAATATTTAATTATATTTTTAAA
1 ATGATCATTATTCTAAAGTAGTCTATAAACTTAAAAATATTTAATTATATTCTTAAA
34111126 ACTATCGATC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 17 0.35
60 31 0.63
61 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (59 bp):
ATGATCATTATTCTAAAGTAGTCTATAAACTTAAAAATATTTAATTATATTCTTAAATT
Found at i:34112735 original size:45 final size:45
Alignment explanation
Indices: 34112662--34112751 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
34112652 TTTCCAATAT
*
34112662 TTTTTCTTTCTTTCTTTCTTTCTTCTTCT-TCTTACTTTTGTTTTC
1 TTTTTCTTCCTTTCTTTCTTTCTTCTTCTCT-TTACTTTTGTTTTC
*
34112707 TTTTTCTTCCTTT-TTT-TTTCTTTGCTTCTCTTTTCTTTTGTTTTC
1 TTTTTCTTCCTTTCTTTCTTTC-TT-CTTCTCTTTACTTTTGTTTTC
34112752 CATTCGGTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
43 4 0.10
44 5 0.12
45 30 0.75
46 1 0.03
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.74
Consensus pattern (45 bp):
TTTTTCTTCCTTTCTTTCTTTCTTCTTCTCTTTACTTTTGTTTTC
Found at i:34112739 original size:20 final size:19
Alignment explanation
Indices: 34112661--34112745 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 19
34112651 CTTTCCAATA
34112661 TTTTTTCTTTCTT-TCTTT
1 TTTTTTCTTTCTTCTCTTT
*
34112679 CTTTCTTC-TTCTTCTTACTTT
1 -TTTTTTCTTTCTTC-T-CTTT
*
34112700 TGTTTTCTTT-TTCTTCCTTT
1 TTTTTTCTTTCTTC-T-CTTT
34112720 TTTTTTCTTTGCTTCTCTTT
1 TTTTTTCTTT-CTTCTCTTT
34112740 TCTTTT
1 T-TTTT
34112746 GTTTTCCATT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
18 5 0.09
19 6 0.11
20 29 0.54
21 11 0.20
22 3 0.06
ACGTcount: A:0.01, C:0.21, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTCTTTCTTCTCTTT
Found at i:34127934 original size:50 final size:50
Alignment explanation
Indices: 34127869--34128003 Score: 191
Period size: 50 Copynumber: 2.7 Consensus size: 50
34127859 CACATATCAA
*
34127869 TGCTGATGCCATATCCCAGATATGGTCTTACACTGGCTCTCATATGTCGAG
1 TGCTGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATGTCG-G
* * * *
34127920 -GCTGATGCCATATCCTAGACATGGTCTTACACTAGCTCTTATCTGTCGG
1 TGCTGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATGTCGG
* *
34127969 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 TGCTGATGCCATATCCCAGACATGGTCTTACACTG
34128004 ACACATATCA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
49 1 0.01
50 73 0.99
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
TGCTGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATGTCGG
Found at i:34135524 original size:50 final size:49
Alignment explanation
Indices: 34135466--34135606 Score: 184
Period size: 50 Copynumber: 3.0 Consensus size: 49
34135456 GAGAAATCTT
* * *
34135466 ACACATATCGATGCCGATGCCATATCCCAGATATGGTCTTACACTGGTTG
1 ACACATATCGAAGCCGATGCCATGTCCCAGACATGGTCTTACACTGG-TG
* * *
34135516 TCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACAC---TG
1 ACACATATCGAAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTG
34135562 ACACATATC-AAG-CGATGCCATGTCCCAGACATGGTCTTACACTGG
1 ACACATATCGAAGCCGATGCCATGTCCCAGACATGGTCTTACACTGG
34135607 CTCACATAAC
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
44 30 0.38
45 2 0.03
46 9 0.11
50 39 0.49
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (49 bp):
ACACATATCGAAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTG
Found at i:34138935 original size:10 final size:10
Alignment explanation
Indices: 34138920--34138945 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34138910 ATAGAAGATA
34138920 TTATTTAGTT
1 TTATTTAGTT
34138930 TTATTTAGTT
1 TTATTTAGTT
34138940 TTATTT
1 TTATTT
34138946 TTTATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (10 bp):
TTATTTAGTT
Found at i:34139513 original size:35 final size:35
Alignment explanation
Indices: 34139474--34139545 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
34139464 TGTATTCAGA
34139474 TTTTCGAGAACAAATCGAGGAAGAGGTGATCGAGT
1 TTTTCGAGAACAAATCGAGGAAGAGGTGATCGAGT
34139509 TTTTCGAGAACAAATCGAGGAAGAGGTGATCGAGT
1 TTTTCGAGAACAAATCGAGGAAGAGGTGATCGAGT
34139544 TT
1 TT
34139546 AAACGACCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (35 bp):
TTTTCGAGAACAAATCGAGGAAGAGGTGATCGAGT
Found at i:34142245 original size:21 final size:22
Alignment explanation
Indices: 34142202--34142256 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
34142192 TTTAAATTAC
34142202 TTATTATTTAAGTAAATAGATAT
1 TTATTA-TTAAGTAAATAGATAT
34142225 TTATTATTAAGTAAA-AGATAT
1 TTATTATTAAGTAAATAGATAT
34142246 TTATTAATTAA
1 TTATT-ATTAA
34142257 ATAATTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.35
22 14 0.45
23 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
TTATTATTAAGTAAATAGATAT
Found at i:34143579 original size:18 final size:18
Alignment explanation
Indices: 34143556--34143622 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
34143546 TAAACTAATG
34143556 TACTGAATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
34143574 TACTGAATAACTAAATTGCT
1 TACTGAATAA-TTGATAG-T
*
34143594 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
*
34143613 TATTGAATAA
1 TACTGAATAA
34143623 CTAAACTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 20 0.51
19 5 0.13
20 5 0.13
21 9 0.23
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:34143602 original size:39 final size:39
Alignment explanation
Indices: 34143554--34143694 Score: 201
Period size: 39 Copynumber: 3.6 Consensus size: 39
34143544 GGTAAACTAA
*
34143554 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTGC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
* * *
34143593 TGTATTGAATAATTGATAGTTATTGAATAACTAAACTAC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
* * * *
34143632 TGCACTGAATATTTGATAGTTATTGAATGACTAAATTAC
1 TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
*
34143671 TGTACTGAATAATTGATTGTTACT
1 TGTACTGAATAATTGATAGTTACT
34143695 AATTAAATAT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (39 bp):
TGTACTGAATAATTGATAGTTACTGAATAACTAAATTAC
Found at i:34143674 original size:78 final size:78
Alignment explanation
Indices: 34143546--34143692 Score: 222
Period size: 78 Copynumber: 1.9 Consensus size: 78
34143536 TTAATAGGGG
* * *
34143546 TAAACTAATGTACTGAATAATTGATAGTTACTGAATAACTAAATTGCTGTATTGAATAATTGATA
1 TAAACTAATGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
34143611 GTTATTGAATAAC
66 GTTATTGAATAAC
* * * * *
34143624 TAAACTACTGCACTGAATATTTGATAGTTATTGAATGACTAAATTACTGTACTGAATAATTGATT
1 TAAACTAATGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
34143689 GTTA
66 GTTA
34143693 CTAATTAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 61 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (78 bp):
TAAACTAATGCACTGAATAATTGATAGTTACTGAATAACTAAATTACTGTACTGAATAATTGATA
GTTATTGAATAAC
Found at i:34150853 original size:19 final size:19
Alignment explanation
Indices: 34150816--34150853 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
34150806 ACCTGTCAGA
*
34150816 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
34150835 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
34150854 TAAATTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:34156646 original size:34 final size:33
Alignment explanation
Indices: 34156586--34156651 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
34156576 GTTTTAGTCA
* *
34156586 GGGCCTTAGCCCATTACAATATCAGTATCAGTGT
1 GGGCCTGAGCCCATTACAATAACAGTA-CAGTGT
*
34156620 GGGCCTGAGCCCATCT-CAGTAACAGTACAGTG
1 GGGCCTGAGCCCAT-TACAATAACAGTACAGTG
34156652 CATATATGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 5 0.18
34 22 0.79
35 1 0.04
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (33 bp):
GGGCCTGAGCCCATTACAATAACAGTACAGTGT
Found at i:34157126 original size:18 final size:17
Alignment explanation
Indices: 34157100--34157133 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34157090 CCATATTACG
34157100 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
34157118 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
34157134 TAGCCTAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:34161173 original size:17 final size:18
Alignment explanation
Indices: 34161151--34161185 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34161141 AGTAGTTTTA
*
34161151 ATAAAATTTTAAA-AAAT
1 ATAAAATTATAAATAAAT
34161168 ATAAAATTATAAATAAAT
1 ATAAAATTATAAATAAAT
34161186 GTTTTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAATTATAAATAAAT
Found at i:34162412 original size:3 final size:3
Alignment explanation
Indices: 34162404--34162447 Score: 61
Period size: 3 Copynumber: 13.7 Consensus size: 3
34162394 CTGTAATATA
34162404 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT AAAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT -AAT AAT AA
34162448 AAGGTAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 30 0.77
4 8 0.21
5 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:34162415 original size:15 final size:15
Alignment explanation
Indices: 34162397--34162447 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
34162387 TAAAAGCCTG
34162397 TAATATAAATAATAA
1 TAATATAAATAATAA
34162412 TAATA-ATAATAATAA
1 TAATATA-AATAATAA
34162427 TAATAGATAAATAAATAA
1 TAAT--ATAAAT-AATAA
34162445 TAA
1 TAA
34162448 AAGGTAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.03
15 17 0.55
17 4 0.13
18 9 0.29
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (15 bp):
TAATATAAATAATAA
Found at i:34162455 original size:18 final size:18
Alignment explanation
Indices: 34162422--34162460 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
34162412 TAATAATAAT
* *
34162422 AATAATAATAGATAAATA
1 AATAATAAAAGATAAAGA
*
34162440 AATAATAAAAGGTAAAGA
1 AATAATAAAAGATAAAGA
34162458 AAT
1 AAT
34162461 TCGAAGAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (18 bp):
AATAATAAAAGATAAAGA
Found at i:34172323 original size:9 final size:9
Alignment explanation
Indices: 34172309--34172333 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34172299 AACTCGAGCA
34172309 CCTCCACGG
1 CCTCCACGG
34172318 CCTCCACGG
1 CCTCCACGG
34172327 CCTCCAC
1 CCTCCAC
34172334 AGCGGCCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.60, G:0.16, T:0.12
Consensus pattern (9 bp):
CCTCCACGG
Found at i:34176012 original size:28 final size:28
Alignment explanation
Indices: 34175981--34176036 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
34175971 TTTCTAATTA
* *
34175981 AATTTAATTTTAAT-CGTTTTTATATTTT
1 AATTTAATTTAAATAC-TTTATATATTTT
*
34176009 AATTTACTTTAAATACTTTATATATTTT
1 AATTTAATTTAAATACTTTATATATTTT
34176037 TATAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 23 0.96
29 1 0.04
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
AATTTAATTTAAATACTTTATATATTTT
Found at i:34176132 original size:14 final size:14
Alignment explanation
Indices: 34176087--34176151 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
34176077 TTATTTTATC
*
34176087 ATATATTTTATCTAT
1 ATATATTTTAT-TTT
* * *
34176102 AAATTATATTATATT
1 ATA-TATTTTATTTT
34176117 ATATATTTTATTTT
1 ATATATTTTATTTT
*
34176131 ATATA-TTT-CTTT
1 ATATATTTTATTTT
34176143 ATATATTTT
1 ATATATTTT
34176152 TATAAAATTG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.20
13 6 0.15
14 14 0.35
15 5 0.12
16 7 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:34176495 original size:21 final size:21
Alignment explanation
Indices: 34176471--34176511 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34176461 TTTCTTATAT
*
34176471 TTTTATATATTATTTATTTTG
1 TTTTATATACTATTTATTTTG
*
34176492 TTTTTTATACTATTTATTTT
1 TTTTATATACTATTTATTTT
34176512 ACTATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATATACTATTTATTTTG
Found at i:34177681 original size:21 final size:21
Alignment explanation
Indices: 34177643--34177682 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34177633 CTCCCGTTTT
* **
34177643 CATTTTTCTAAAGTCGATTCC
1 CATTTTTCAAAACCCGATTCC
34177664 CATTTTTCAAAACCCGATT
1 CATTTTTCAAAACCCGATT
34177683 AAAAAATGGT
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:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (21 bp):
CATTTTTCAAAACCCGATTCC
Found at i:34194771 original size:39 final size:39
Alignment explanation
Indices: 34194717--34194796 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
34194707 ACTCAGTGTG
* *
34194717 TAACCCAACAGAATTAGACATGCAAAACATACAGAGTCA
1 TAACCCAACAAAATTAGACATGCAAAACATACAGAATCA
*
34194756 TAACCTAACAAAATTAGACATGCAAAACATACAGAATCA
1 TAACCCAACAAAATTAGACATGCAAAACATACAGAATCA
34194795 TA
1 TA
34194797 CACACAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.17
Consensus pattern (39 bp):
TAACCCAACAAAATTAGACATGCAAAACATACAGAATCA
Found at i:34201091 original size:61 final size:61
Alignment explanation
Indices: 34201026--34201211 Score: 363
Period size: 61 Copynumber: 3.0 Consensus size: 61
34201016 TAGTACTGAC
*
34201026 TTATAAGTACATAAATTCTATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
1 TTATAAGTACATAAATTATATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
34201087 TTATAAGTACATAAATTATATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
1 TTATAAGTACATAAATTATATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
34201148 TTATAAGTACATAAATTATATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
1 TTATAAGTACATAAATTATATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
34201209 TTA
1 TTA
34201212 GTTATGCTGT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 124 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (61 bp):
TTATAAGTACATAAATTATATTAAAAATTATTTAGTAATATAGTAAAATTTAAGTATCGAA
Found at i:34217766 original size:29 final size:29
Alignment explanation
Indices: 34217734--34217831 Score: 76
Period size: 29 Copynumber: 3.3 Consensus size: 29
34217724 AGTGGTGCCA
34217734 AAAATGCAAACACGGAAGACCCAAGGACT
1 AAAATGCAAACACGGAAGACCCAAGGACT
** ** * *
34217763 AAAATGCAATGAAAGAGAGA---AATGGTGCCA
1 AAAATGCAAACACGGA-AGACCCAA--G-GACT
*
34217793 AAAATGCAAACACGGAAGACCCAATGACT
1 AAAATGCAAACACGGAAGACCCAAGGACT
34217822 AAAATGCAAA
1 AAAATGCAAA
34217832 AGAAGAGATT
Statistics
Matches: 49, Mismatches: 13, Indels: 14
0.64 0.17 0.18
Matches are distributed among these distances:
27 2 0.04
29 28 0.57
30 17 0.35
32 2 0.04
ACGTcount: A:0.51, C:0.18, G:0.20, T:0.10
Consensus pattern (29 bp):
AAAATGCAAACACGGAAGACCCAAGGACT
Found at i:34217838 original size:59 final size:59
Alignment explanation
Indices: 34217708--34217839 Score: 214
Period size: 59 Copynumber: 2.3 Consensus size: 59
34217698 ATGGGCCAAC
*
34217708 ATGCAAAA-AAGAGAGAAGTGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
1 ATGCAAAAGAAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
* *
34217766 ATGC-AATGAAAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAATGACTAAA
1 ATGCAAAAG-AAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
34217825 ATGCAAAAGAAGAGA
1 ATGCAAAAGAAGAGA
34217840 TTTTATAGCA
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
57 2 0.03
58 4 0.06
59 58 0.87
60 3 0.04
ACGTcount: A:0.51, C:0.16, G:0.23, T:0.10
Consensus pattern (59 bp):
ATGCAAAAGAAGAGAGAAATGGTGCCAAAAATGCAAACACGGAAGACCCAAGGACTAAA
Found at i:34217935 original size:10 final size:10
Alignment explanation
Indices: 34217920--34217969 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
34217910 TAATTTTAGG
34217920 ATTTAT-TTT
1 ATTTATCTTT
34217929 CATTTATCTTT
1 -ATTTATCTTT
34217940 ATTTATCTTT
1 ATTTATCTTT
34217950 ATTTAT-TTGT
1 ATTTATCTT-T
34217960 ATTTATCTTT
1 ATTTATCTTT
34217970 TAGAATTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:34218719 original size:17 final size:18
Alignment explanation
Indices: 34218686--34218720 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34218676 TTTTGCTCAT
*
34218686 TTTAATTTCTGCAATTTC
1 TTTAATTTCTACAATTTC
34218704 TTTAATTTC-ACAATTTC
1 TTTAATTTCTACAATTTC
34218721 AATTCACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.17, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAATTTCTACAATTTC
Found at i:34223427 original size:15 final size:16
Alignment explanation
Indices: 34223396--34223435 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
34223386 TAATTGGAGT
*
34223396 TTTAAAAAATAAAATA
1 TTTATAAAATAAAATA
34223412 TTTATAAAAT-AAATA
1 TTTATAAAATAAAATA
34223427 TTT-TAAAAT
1 TTTATAAAAT
34223436 TATAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 8 0.35
16 9 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTTATAAAATAAAATA
Found at i:34223453 original size:25 final size:21
Alignment explanation
Indices: 34223413--34223470 Score: 55
Period size: 25 Copynumber: 2.5 Consensus size: 21
34223403 AATAAAATAT
34223413 TTATAAAATA-AATATTTTAAAA
1 TTATAAAATATAATA--TTAAAA
34223435 TTATAAAATATGAATTATTAAAA
1 TTATAAAATAT-AA-TATTAAAA
34223458 TAATATAAAATAT
1 T--TATAAAATAT
34223471 CTTAAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 10 0.32
23 7 0.23
24 2 0.06
25 12 0.39
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTATAAAATATAATATTAAAA
Found at i:34232910 original size:217 final size:218
Alignment explanation
Indices: 34232512--34232928 Score: 674
Period size: 217 Copynumber: 1.9 Consensus size: 218
34232502 TGTAGGGTCG
* * *
34232512 GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTGTTAGACTAATTTGATTAGGATA
1 GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTATTAGACTAATCTAATTAGGATA
* * *
34232577 CTAATGTATGCCTGATTATACTAATATATGTGTATCTGTTATTTGTATAAAACATTTTGAGCATG
66 CTAATGTATGCCTGATTATACTAATATATGTGTATCTATTAGTTGTATAAAACATGTTGAGCATG
* * * *
34232642 TTTAGTCTGATAAATCTGTATCTGATATCTGCATCTGTTCTGGGTTGGGTTTTATATATATGT-G
131 TTTAGTCTAATAAATATGTATCTGATATCTGCATCTGGTCTGGGGTGGGTTTTATATATATGTGG
34232706 AGGAACCCACACTTCTAGAGTCA
196 AGGAACCCACACTTCTAGAGTCA
* * *
34232729 GTAAGGGCTAATTAAACTCCTATCTGTATGCTATGAAATTCTATTAGACTAATCTAATTAGGGTA
1 GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTATTAGACTAATCTAATTAGGATA
* *
34232794 CTAATGTATGCCTGATTATACTGATATATGTGTATCTATTAGTTGTATAAAGCATGTTGAGCATG
66 CTAATGTATGCCTGATTATACTAATATATGTGTATCTATTAGTTGTATAAAACATGTTGAGCATG
* *
34232859 TTTAGTCTAATAAATATGTATCTGATATTTGCATTTGGTCTGGGGTGGGTTTTATATATATGTGG
131 TTTAGTCTAATAAATATGTATCTGATATCTGCATCTGGTCTGGGGTGGGTTTTATATATATGTGG
34232924 AGGAA
196 AGGAA
34232929 GTGTTCTGTA
Statistics
Matches: 182, Mismatches: 17, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
217 176 0.97
218 6 0.03
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.39
Consensus pattern (218 bp):
GTAAGGGCTAATTAAACCCCTATCTATATGCTATGAAATTCTATTAGACTAATCTAATTAGGATA
CTAATGTATGCCTGATTATACTAATATATGTGTATCTATTAGTTGTATAAAACATGTTGAGCATG
TTTAGTCTAATAAATATGTATCTGATATCTGCATCTGGTCTGGGGTGGGTTTTATATATATGTGG
AGGAACCCACACTTCTAGAGTCA
Found at i:34234163 original size:33 final size:33
Alignment explanation
Indices: 34234126--34234194 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
34234116 CAATCTTATA
34234126 TCAGTTATTGTTGTTCTTATAAGAATCTAGAGG
1 TCAGTTATTGTTGTTCTTATAAGAATCTAGAGG
34234159 TCAGTTATTGTTGTTCTTATAAGAATCTAGAGG
1 TCAGTTATTGTTGTTCTTATAAGAATCTAGAGG
34234192 TCA
1 TCA
34234195 TGAGCTTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (33 bp):
TCAGTTATTGTTGTTCTTATAAGAATCTAGAGG
Found at i:34234521 original size:26 final size:26
Alignment explanation
Indices: 34234474--34234524 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
34234464 TCTTCGTAAA
*
34234474 TTTAAAATTTAATTTTTATACTTTTT
1 TTTAAAATTTAATATTTATACTTTTT
*
34234500 TTTAAGAATTTAGTATTT-TACTTTT
1 TTTAA-AATTTAATATTTATACTTTT
34234525 CAAATTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (26 bp):
TTTAAAATTTAATATTTATACTTTTT
Found at i:34234656 original size:186 final size:190
Alignment explanation
Indices: 34234361--34234736 Score: 498
Period size: 186 Copynumber: 2.0 Consensus size: 190
34234351 TTTATACAAG
* *
34234361 AAAAAGTTAAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTATGTATTATCTTGTTTGAATA
1 AAAAAGTTAAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTA-GCATAATCTTGTTTGAATA
* * * * **
34234426 GATAAAATTAGTAAACAAAAAGAAATTAGTCGACGTACTCTTCGTAAATTTAAAATTTAATTTTT
65 GACAAAAATAGTAAACAAAAAGAAATTAGTCCACGTACTCTTCGTAAATTTAAAATTT-AGTAAT
* *
34234491 A-TACTT-T-TTTTTAAGAATTTAGT-ATTTTACTTTT-CAAATTTCAAAATTCAAGTTTAAA
129 AGTACTTATATTTTTAAGAATTTAGTCATTCTA-TTTTGCAAATTTCAAAATTCAAGCTTAAA
*
34234549 AAAAAGTTAAAATTAGTAAACCAAAACAATGAAAAGGAAATGATTA-CA-AATCTTGTTTGAATA
1 AAAAAGTT-AAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTAGCATAATCTTGTTTGAATA
* * ** *
34234612 GACAAAAATAGTAAACAAAAGGAAATTAG-CCTCTGTGTTCTTCGTAAATTTAGAATTTAGTAAT
65 GACAAAAATAGTAAACAAAAAGAAATTAGTCCAC-GTACTCTTCGTAAATTTAAAATTTAGTAAT
*
34234676 AGTACTTATATTTTTAGGAATTTAGTCATTCTATTTTGCAAATTTCAAAATTCAAGCTTAA
129 AGTACTTATATTTTTAAGAATTTAGTCATTCTATTTTGCAAATTTCAAAATTCAAGCTTAA
34234737 CTGTTAACAC
Statistics
Matches: 164, Mismatches: 17, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
185 6 0.04
186 66 0.40
187 2 0.01
188 27 0.16
189 63 0.38
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (190 bp):
AAAAAGTTAAATTAGTAAACCAAAACAAAGAAAAGGAAATGATTAGCATAATCTTGTTTGAATAG
ACAAAAATAGTAAACAAAAAGAAATTAGTCCACGTACTCTTCGTAAATTTAAAATTTAGTAATAG
TACTTATATTTTTAAGAATTTAGTCATTCTATTTTGCAAATTTCAAAATTCAAGCTTAAA
Found at i:34235385 original size:20 final size:20
Alignment explanation
Indices: 34235343--34235385 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
34235333 ATTAACTCTA
* **
34235343 TTAAATAGTAAATGATATTT
1 TTAAACAGTAAATGATAACT
*
34235363 TTAAACAGTAAATGTTAACT
1 TTAAACAGTAAATGATAACT
34235383 TTA
1 TTA
34235386 TTCCAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (20 bp):
TTAAACAGTAAATGATAACT
Found at i:34243645 original size:21 final size:21
Alignment explanation
Indices: 34243591--34243645 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
34243581 GTGGAGGTCT
* *
34243591 ACACGCCCATATGGAGGCCAC
1 ACACGCCCATGTGAAGGCCAC
* *
34243612 ACACACCCATGTGAAGGCCCC
1 ACACGCCCATGTGAAGGCCAC
*
34243633 ACACGCCCGTGTG
1 ACACGCCCATGTG
34243646 GATGGGGCAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.40, G:0.24, T:0.11
Consensus pattern (21 bp):
ACACGCCCATGTGAAGGCCAC
Found at i:34244003 original size:19 final size:19
Alignment explanation
Indices: 34243975--34244017 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
34243965 TGGTAGCCTG
*
34243975 CAAAACGTGCCTTTGATAT
1 CAAAAAGTGCCTTTGATAT
*
34243994 CAAAAAGTGCCTTTGATGT
1 CAAAAAGTGCCTTTGATAT
34244013 CAAAA
1 CAAAA
34244018 CAATCCCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (19 bp):
CAAAAAGTGCCTTTGATAT
Found at i:34256743 original size:17 final size:18
Alignment explanation
Indices: 34256702--34256747 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
34256692 CTTAAAAATA
*
34256702 AATATAATTAAATTTATTT
1 AATATAATTAAA-TTATTG
34256721 AATATAATTAAA-TATTG
1 AATATAATTAAATTATTG
*
34256738 ATTATAATTA
1 AATATAATTA
34256748 TTTTTTGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 13 0.52
19 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AATATAATTAAATTATTG
Found at i:34256869 original size:16 final size:16
Alignment explanation
Indices: 34256848--34256891 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
34256838 ATTTATGTTT
34256848 AATATTTATTTTTAAA
1 AATATTTATTTTTAAA
34256864 AATA--T-TTTTT-AA
1 AATATTTATTTTTAAA
*
34256876 AATTTTTATTTTTAAA
1 AATATTTATTTTTAAA
34256892 GTTTTCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 2 0.09
15 5 0.22
16 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATATTTATTTTTAAA
Found at i:34258714 original size:63 final size:63
Alignment explanation
Indices: 34258637--34258891 Score: 273
Period size: 62 Copynumber: 4.1 Consensus size: 63
34258627 GTGCAGGGTT
* * * * * *
34258637 CACATGGCCAGGGACACAAGTGTGTGCCTAGGCCGTGTAACTCACTGTTTGGGGTATAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
* * ** *
34258700 CATACGGCCAGGGACACGGGCGTGTGCCCAAGCCATGTAACTTGCTATTT-GGGTATAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
* ** * *
34258762 CACACAGCCAGGGACATGGGCATGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
* * * * * * *
34258825 CACAAGACC-GGGACACAGGTGTGTGCCCAAGCCGTGTAATTCACTGTTTGTGCT-TAAAAAC
1 CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
*
34258886 GACACG
1 CACACG
34258892 ACCAAGGCAC
Statistics
Matches: 158, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
61 11 0.07
62 90 0.57
63 57 0.36
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (63 bp):
CACACGGCCAGGGACACAGGCGTGTGCCCAAGCCATGTAACTCACTGTTTGGGGTATAAAAAC
Found at i:34258908 original size:125 final size:125
Alignment explanation
Indices: 34258659--34258918 Score: 321
Period size: 125 Copynumber: 2.1 Consensus size: 125
34258649 GACACAAGTG
* * * * * *
34258659 TGTGCCTAGGCCGTGTAACTCACTGTTTGGGGTATAAAAACCATACGGCCAGGGACACGGGCGTG
1 TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACCAGGGACACAGGCGTG
* * * *
34258724 TGCCCAAGCCATGTAACTTGCTATTTGGGTATAAAAACCACACAGCCAGGGACATGGGCA
66 TGCCCAAGCCATGTAACTTACTATTTGGCTATAAAAACCACACAGCCAGGCACACGGGCA
*
34258784 TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACC-GGGACACAGGTGTG
1 TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACCAGGGACACAGGCGTG
* * *
34258848 TGCCCAAGCCGTGTAA-TTCACTGTTTGTGCT-TAAAAACGACAC-GACCAAGGCACACGGGCA
66 TGCCCAAGCCATGTAACTT-ACTATTTG-GCTATAAAAACCACACAG-CC-AGGCACACGGGCA
*
34258909 TGTGGCCAGG
1 TGTGCCCAGG
34258919 AAGTGTTACA
Statistics
Matches: 116, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
123 3 0.03
124 46 0.40
125 67 0.58
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (125 bp):
TGTGCCCAGGCCATGTAACTCACTGTTTGGGGTATAAAAACCACAAGACCAGGGACACAGGCGTG
TGCCCAAGCCATGTAACTTACTATTTGGCTATAAAAACCACACAGCCAGGCACACGGGCA
Found at i:34261386 original size:16 final size:16
Alignment explanation
Indices: 34261365--34261401 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
34261355 TCCATATTAT
34261365 GCTCTCATTGATATTG
1 GCTCTCATTGATATTG
34261381 GCTCTCATTGATATTG
1 GCTCTCATTGATATTG
34261397 GCTCT
1 GCTCT
34261402 ACTCACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (16 bp):
GCTCTCATTGATATTG
Found at i:34262623 original size:13 final size:13
Alignment explanation
Indices: 34262605--34262629 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34262595 ATGAATTCGT
34262605 AAATATTTATTAG
1 AAATATTTATTAG
34262618 AAATATTTATTA
1 AAATATTTATTA
34262630 AGCTAGTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
AAATATTTATTAG
Found at i:34271311 original size:63 final size:62
Alignment explanation
Indices: 34271235--34271432 Score: 236
Period size: 63 Copynumber: 3.2 Consensus size: 62
34271225 ATGCAGGGTT
* *
34271235 CACACGGCCAGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACTGTTTAGGGTATAAAAAC
1 CACACGGCCAGGGACACAGACGTGTGCCCAGGCCGTGTAACTCACTGTTT-GGGTATAAAAAC
* * * ** * * *
34271298 CACACGACCAGGGACACAGATGTGTACGTAAGCCATGTAACTCACTATTTGGGGTATAAAAAC
1 CACACGGCCAGGGACACAGACGTGTGCCCAGGCCGTGTAACTCACTGTTT-GGGTATAAAAAC
* * * *
34271361 CACACGGTCAAGGACACAGACGTGTGCCCAGGCCGCGTAACTCACTGTTTGTGCT-TAAAAAC
1 CACACGGCCAGGGACACAGACGTGTGCCCAGGCCGTGTAACTCACTGTTTG-GGTATAAAAAC
34271423 CACACGGCCA
1 CACACGGCCA
34271433 AGGCACACGG
Statistics
Matches: 110, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
62 17 0.15
63 93 0.85
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.18
Consensus pattern (62 bp):
CACACGGCCAGGGACACAGACGTGTGCCCAGGCCGTGTAACTCACTGTTTGGGTATAAAAAC
Found at i:34276902 original size:30 final size:30
Alignment explanation
Indices: 34276868--34276924 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
34276858 TAACTCAAAA
34276868 TTTTGAAAAATTACAATTTTGCCCCTAAAC
1 TTTTGAAAAATTACAATTTTGCCCCTAAAC
* * * *
34276898 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
34276925 GGCTCGGGAA
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:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:34278919 original size:19 final size:18
Alignment explanation
Indices: 34278897--34278944 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
34278887 ATTTTACATC
*
34278897 ATTATTTTTATATTATT-
1 ATTATTTATATATTATTA
34278914 A-TA-TTATATATTTATTA
1 ATTATTTATATA-TTATTA
34278931 ATTATTTATATATT
1 ATTATTTATATATT
34278945 GTTCTTACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
15 6 0.23
16 7 0.27
17 2 0.08
18 4 0.15
19 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTATTTATATATTATTA
Found at i:34278928 original size:27 final size:28
Alignment explanation
Indices: 34278843--34278929 Score: 79
Period size: 33 Copynumber: 3.0 Consensus size: 28
34278833 TACGATTTTA
34278843 TTATATTATTAT-TTATTATATATTATTT
1 TTATATTATTATATTA-TATATATTATTT
* * *
34278871 TTCACAAATTATTATTATTTTACATCATTATTT
1 TT---ATATTATTA-TATTATATAT-ATTATTT
34278904 TTATATTATTATATTATATAT-TTATT
1 TTATATTATTATATTATATATATTATT
34278930 AATTATTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
27 5 0.11
28 2 0.04
29 8 0.17
30 8 0.17
31 8 0.17
32 5 0.11
33 11 0.23
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATATTATTATATTATATATATTATTT
Found at i:34278944 original size:15 final size:16
Alignment explanation
Indices: 34278843--34278944 Score: 56
Period size: 16 Copynumber: 6.6 Consensus size: 16
34278833 TACGATTTTA
34278843 TTATATTATTAT-TTA-
1 TTATA-TATTATATTAT
34278858 TTATATATTAT-TT-T
1 TTATATATTATATTAT
* * *
34278872 TCACAAATTATTATTAT
1 TTATATATTA-TATTAT
* *
34278889 TT-TACATCATTATT-T
1 TTATATATTA-TATTAT
34278904 TTATATTATTATATTAT
1 TTATA-TATTATATTAT
* *
34278921 ATATTTATTA-ATTAT
1 TTATATATTATATTAT
34278936 TTATATATT
1 TTATATATT
34278945 GTTCTTACAT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
14 15 0.22
15 21 0.31
16 22 0.33
17 9 0.13
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATATATTATATTAT
Found at i:34279193 original size:15 final size:15
Alignment explanation
Indices: 34279175--34279225 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
34279165 TAATTATTTA
34279175 TTTATTATGTATTAT
1 TTTATTATGTATTAT
**
34279190 TTTAAAATGATATT-T
1 TTTATTATG-TATTAT
*
34279205 TTATATTATGTGTTAT
1 TT-TATTATGTATTAT
34279221 TTTAT
1 TTTAT
34279226 AAATTCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (15 bp):
TTTATTATGTATTAT
Found at i:34279212 original size:31 final size:32
Alignment explanation
Indices: 34279169--34279229 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
34279159 AATTATTAAT
34279169 TATTTATTTATTATGTATTATTTTA-AAATGA
1 TATTTATTTATTATGTATTATTTTATAAATGA
*
34279200 TATTT-TTATATTATGTGTTATTTTATAAAT
1 TATTTATT-TATTATGTATTATTTTATAAAT
34279230 TCTTTTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (32 bp):
TATTTATTTATTATGTATTATTTTATAAATGA
Found at i:34280181 original size:118 final size:118
Alignment explanation
Indices: 34280049--34280284 Score: 454
Period size: 118 Copynumber: 2.0 Consensus size: 118
34280039 TTATTGGGTT
34280049 GCGACTTTTCTCGTTGAGTTCGAATAATCAAGTACCCTTCTAAGTTTTGACGGTTTTCAAAATGT
1 GCGACTTTTCTCGTTGAGTTCGAATAATCAAGTACCCTTCTAAGTTTTGACGGTTTTCAAAATGT
* *
34280114 GAGCAACTGTCTTGGAATTGCAAAGTAATATGTCCTAACTTACTGGATGTAGC
66 AAGCAACTATCTTGGAATTGCAAAGTAATATGTCCTAACTTACTGGATGTAGC
34280167 GCGACTTTTCTCGTTGAGTTCGAATAATCAAGTACCCTTCTAAGTTTTGACGGTTTTCAAAATGT
1 GCGACTTTTCTCGTTGAGTTCGAATAATCAAGTACCCTTCTAAGTTTTGACGGTTTTCAAAATGT
34280232 AAGCAACTATCTTGGAATTGCAAAGTAATATGTCCTAACTTACTGGATGTAGC
66 AAGCAACTATCTTGGAATTGCAAAGTAATATGTCCTAACTTACTGGATGTAGC
34280285 ATTTTGTTGC
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (118 bp):
GCGACTTTTCTCGTTGAGTTCGAATAATCAAGTACCCTTCTAAGTTTTGACGGTTTTCAAAATGT
AAGCAACTATCTTGGAATTGCAAAGTAATATGTCCTAACTTACTGGATGTAGC
Found at i:34291407 original size:44 final size:44
Alignment explanation
Indices: 34291351--34291565 Score: 181
Period size: 44 Copynumber: 4.9 Consensus size: 44
34291341 TTAGCATGGC
* *
34291351 ATCCTTGTGTTTATAGGGAACAAGTTGAAGATAACAGATTTGGA
1 ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
* * *
34291395 ATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCT-GA
1 ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
* * * * * ** *
34291438 CA-CTCCTGTGCTTACAGCGATGC-AGATCGAGGATTTCAGCA--TGGC
1 -ATC-CCTGTGTTTATAGGGA-ACAAG-TCGAAGATAACAG-ATTTGGA
* * *
34291483 ATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGC
1 ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
*
34291527 ATCCCTATGTTTATAGGGAAC-AGATCGAAGATAACAGAT
1 ATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAACAGAT
34291566 CTGACACTCA
Statistics
Matches: 135, Mismatches: 25, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
42 1 0.01
43 15 0.11
44 105 0.78
45 13 0.10
46 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (44 bp):
ATCCCTGTGTTTATAGGGAACAAGTCGAAGATAACAGATTTGGA
Found at i:34291492 original size:132 final size:132
Alignment explanation
Indices: 34291246--34291666 Score: 682
Period size: 132 Copynumber: 3.2 Consensus size: 132
34291236 ATGTAGATCA
*
34291246 AAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAGGATAGCAGATCTGACACT
1 AAGATAAC-AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACT
* * * * *
34291310 CCTGTGCTTACAGCGAAGTAGATTGAAGATTTTAGCATGGCATCCTTGTGTTTATAGGGAACAAG
65 CCTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAG
34291375 TTG
130 TTG
*
34291378 AAGATAACAGATTTGGAATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
*
34291443 CTGTGCTTACAGCGATGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
66 CTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
34291508 TG
131 TG
* * * *
34291510 AAGATAGCAGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTC
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
* *
34291575 ATGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCGTGTGTTTATAGGGAACAAGT
66 CTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
34291640 TG
131 TG
* *
34291642 AAGATAGCAGATTTGGCATCTCTGT
1 AAGATAACAGATTTGGCATCCCTGT
34291667 ATTGTCAGAG
Statistics
Matches: 270, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 267 0.99
133 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (132 bp):
AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTC
CTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGT
TG
Found at i:34291633 original size:88 final size:86
Alignment explanation
Indices: 34291258--34291653 Score: 252
Period size: 88 Copynumber: 4.5 Consensus size: 86
34291248 GAAACAAGAT
* *
34291258 TTGGCATCCCTGTGTTTATAGGGAACAAATCGAGGATAGCAGATCTGACA-CTCCTGTGCTTACA
1 TTGGCATCCCTGTGTTTATAGGGAAC-AATCGAAGATAACAGATCTGACATC-CCTGTGCTTACA
* * ***
34291322 GCGAAGTAGATTGAAGATTTTAGCA
64 GCGAA-CAGATCGAAGATAGCAG-A
* * * * *
34291347 -TGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATAACAGATTTGGA-ATCCCTGTGTTTATA
1 TTGGCATCCCTGTGTTTATAGGGAACAA-TCGAAGATAACAGATCT-GACATCCCTGTGCTTACA
* *
34291410 GGGAACAAATCGAAGATAGCAGA
64 GCGAACAGATCGAAGATAGCAGA
* * * * * * ** * *
34291433 TCTGACA-CTCCTGTGCTTACAGCGATGCAGATCGAGGATTTCAG--CATGGCATCCCTGTGTTT
1 T-TGGCATC-CCTGTGTTTATAGGGA-ACA-ATCGAAGATAACAGATC-TGACATCCCTGTGCTT
* * *
34291495 ATAGGGAACA-AGTTGAAGATAGCAGA
61 ACAGCGAACAGA-TCGAAGATAGCAGA
* *
34291521 TTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAACAGATCTGACA-CTCATGTGCTTAC
1 -TTGGCATCCCTGTGTTTATAGGGAACA-ATCGAAGATAACAGATCTGACATC-CCTGTGCTTAC
* **
34291585 AGCGAAGCAGATCGAGGATTTCAGCA
63 AGCGAA-CAGATCGAAGATAGCAG-A
* * *
34291611 -TGGCATCCGTGTGTTTATAGGGAACAAGTTGAAGATAGCAGAT
1 TTGGCATCCCTGTGTTTATAGGGAACAA-TCGAAGATAACAGAT
34291654 TTGGCATCTC
Statistics
Matches: 238, Mismatches: 49, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
86 1 0.00
87 32 0.13
88 174 0.73
89 28 0.12
90 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (86 bp):
TTGGCATCCCTGTGTTTATAGGGAACAATCGAAGATAACAGATCTGACATCCCTGTGCTTACAGC
GAACAGATCGAAGATAGCAGA
Found at i:34292077 original size:198 final size:201
Alignment explanation
Indices: 34291730--34292205 Score: 697
Period size: 198 Copynumber: 2.4 Consensus size: 201
34291720 GAGCAGATCG
* * *
34291730 AAGACATAGCTGATTTGGCTTTCACATGCTTACGTTGAAACAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
* *
34291795 TGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCGATGGAGGGCAGACACATAGCAG
66 TGTATTGT---AG-ACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGGGCAGACACATAGCAG
* *
34291860 ATCCAAACTTCAGATGTTTATACTAAAGCAAATCCAAGATGGTTTGGTATCCTTGTGCTTACAAG
127 ATCCAAACTTCAAATGTTTATACTAAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAG
34291925 GAACAAATCA
192 GAACAAATCA
* *
34291935 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCCTCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
*
34292000 TGTATT-T-G-CAAATCGAAGTCTGGCATCTCCACTTCAATGGAGGGCAGACACATAGCAGATTC
66 TGTATTGTAGACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGGGCAGACACATAGCAGATCC
* * * *
34292062 AAACTTCAAATGTTTATACTCAAGTAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGC
131 AAACTTCAAATGTTTATACTAAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAC
* *
34292127 GAATCG
196 AAATCA
* * ** * *
34292133 AAGACATATCCGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATGAGTCATCTT
1 AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
34292198 TGTATTGT
66 TGTATTGT
34292206 CAGAGAACGA
Statistics
Matches: 246, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
198 177 0.72
199 1 0.00
200 1 0.00
204 1 0.00
205 66 0.27
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (201 bp):
AAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
TGTATTGTAGACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGGGCAGACACATAGCAGATCC
AAACTTCAAATGTTTATACTAAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAAC
AAATCA
Found at i:34293922 original size:30 final size:30
Alignment explanation
Indices: 34293880--34293961 Score: 78
Period size: 33 Copynumber: 2.6 Consensus size: 30
34293870 ATTTTATTAT
34293880 ATTATTATTTATTATATATTATTTTTCACA-A
1 ATTATTA-TTATTATATATTATTTTT-ACATA
* * *
34293911 ATTATTATTATTTTACATCATTATTTTTATATT
1 ATTATTATTA--TTATAT-ATTATTTTTACATA
34293944 ATTATTA-TATTATATATT
1 ATTATTATTATTATATATT
34293962 TATTAATTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
29 3 0.07
30 8 0.19
31 7 0.16
32 9 0.21
33 16 0.37
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (30 bp):
ATTATTATTATTATATATTATTTTTACATA
Found at i:34293964 original size:19 final size:19
Alignment explanation
Indices: 34293938--34293980 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
34293928 TCATTATTTT
34293938 TATA-TTATT-ATTATATTA
1 TATATTTATTAATTA-ATTA
*
34293956 TATATTTATTAATTACTTA
1 TATATTTATTAATTAATTA
34293975 TATATT
1 TATATT
34293981 GTTCTTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 14 0.64
20 4 0.18
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TATATTTATTAATTAATTA
Found at i:34293965 original size:11 final size:11
Alignment explanation
Indices: 34293879--34293977 Score: 57
Period size: 11 Copynumber: 9.0 Consensus size: 11
34293869 GATTTTATTA
34293879 TATTATTAT-T
1 TATTATTATAT
34293889 TATTA-TATAT
1 TATTATTATAT
* *
34293899 TATTTTTCACA-
1 TATTATT-ATAT
*
34293910 AATTATTATTAT
1 TATTATTA-TAT
*
34293922 T-TTA-CATCAT
1 TATTATTAT-AT
*
34293932 TATTTTTATAT
1 TATTATTATAT
34293943 TATTATTATAT
1 TATTATTATAT
34293954 TATATATT-TAT
1 TAT-TATTATAT
34293965 TAATTACTTATAT
1 T-ATTA-TTATAT
34293978 ATTGTTCTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 21
0.68 0.10 0.21
Matches are distributed among these distances:
9 4 0.06
10 15 0.22
11 33 0.49
12 12 0.18
13 3 0.04
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTATTATAT
Found at i:34293965 original size:30 final size:29
Alignment explanation
Indices: 34293876--34293961 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 29
34293866 TACGATTTTA
34293876 TTATATTATTATT-TATTATATATTATTT
1 TTATATTATTATTATATTATATATTATTT
* * *
34293904 TTCACAAATTATTATTATTTTACATCATTATTT
1 TT---ATATTATTATTATATTATAT-ATTATTT
34293937 TTATATTATTATTATATTATATATT
1 TTATATTATTATTATATTATATATT
34293962 TATTAATTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
28 2 0.04
29 3 0.06
30 17 0.36
31 10 0.21
32 6 0.13
33 9 0.19
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.62
Consensus pattern (29 bp):
TTATATTATTATTATATTATATATTATTT
Found at i:34294229 original size:15 final size:15
Alignment explanation
Indices: 34294211--34294261 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
34294201 TAATTATTTA
34294211 TTTATTATGTATTAT
1 TTTATTATGTATTAT
**
34294226 TTTAAAATGATATT-T
1 TTTATTATG-TATTAT
*
34294241 TTATATTATGTGTTAT
1 TT-TATTATGTATTAT
34294257 TTTAT
1 TTTAT
34294262 AAATTCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 16 0.57
16 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (15 bp):
TTTATTATGTATTAT
Found at i:34294248 original size:31 final size:32
Alignment explanation
Indices: 34294205--34294265 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
34294195 AATTATTAAT
34294205 TATTTATTTATTATGTATTATTTTA-AAATGA
1 TATTTATTTATTATGTATTATTTTATAAATGA
*
34294236 TATTT-TTATATTATGTGTTATTTTATAAAT
1 TATTTATT-TATTATGTATTATTTTATAAAT
34294266 TCTTTTACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 2 0.07
31 21 0.78
32 4 0.15
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (32 bp):
TATTTATTTATTATGTATTATTTTATAAATGA
Found at i:34297376 original size:22 final size:22
Alignment explanation
Indices: 34297322--34297385 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
34297312 TAATAACATG
*
34297322 ATTA-ATAATATCT-TTTTTAT
1 ATTATATAATATTTATTTTTAT
*
34297342 AATTAT-CAA-ATTTATTTTTAT
1 -ATTATATAATATTTATTTTTAT
*
34297363 ATTATATAATATTTAATTTTAT
1 ATTATATAATATTTATTTTTAT
34297385 A
1 A
34297386 AAATGCACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.23
21 15 0.43
22 12 0.34
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTATATAATATTTATTTTTAT
Found at i:34304758 original size:18 final size:19
Alignment explanation
Indices: 34304735--34304779 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
34304725 AATATATTTA
*
34304735 AAAACATAAAAA-AATATT
1 AAAACATAAAAATAATACT
34304753 AAAACAAATAAAAATAATACT
1 AAAAC--ATAAAAATAATACT
34304774 AAAACA
1 AAAACA
34304780 ATTCTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 5 0.22
19 1 0.04
20 7 0.30
21 10 0.43
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (19 bp):
AAAACATAAAAATAATACT
Found at i:34304763 original size:20 final size:21
Alignment explanation
Indices: 34304740--34304780 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34304730 ATTTAAAAAC
*
34304740 ATAAAAA-AATATTAAAACAA
1 ATAAAAATAATACTAAAACAA
34304760 ATAAAAATAATACTAAAACAA
1 ATAAAAATAATACTAAAACAA
34304781 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (21 bp):
ATAAAAATAATACTAAAACAA
Done.