Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 270 of 292
Found at i:77648694 original size:24 final size:24
Alignment explanation
Indices: 77648662--77648714 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
77648652 AACAGCCCAA
77648662 TTGTTGACCTTCGATTTCATTATT
1 TTGTTGACCTTCGATTTCATTATT
77648686 TTGTTGACCTTCGATTTCATTATT
1 TTGTTGACCTTCGATTTCATTATT
77648710 TTGTT
1 TTGTT
77648715 CTGAAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.57
Consensus pattern (24 bp):
TTGTTGACCTTCGATTTCATTATT
Found at i:77649810 original size:24 final size:24
Alignment explanation
Indices: 77649783--77649830 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
77649773 GATGCAGTTA
77649783 CAAGCAATCATGTAAGGTAGTTCT
1 CAAGCAATCATGTAAGGTAGTTCT
77649807 CAAGCAATCATGTAAGGTAGTTCT
1 CAAGCAATCATGTAAGGTAGTTCT
77649831 TATCTTATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (24 bp):
CAAGCAATCATGTAAGGTAGTTCT
Found at i:77665507 original size:33 final size:33
Alignment explanation
Indices: 77665469--77665535 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
77665459 ATAATTAAGT
77665469 TATTCAAGAGGTTAGGGTAGATTATATTGGTGG
1 TATTCAAGAGGTTAGGGTAGATTATATTGGTGG
77665502 TATTCAAGAGGTTAGGGTAGATTATATTGGTGG
1 TATTCAAGAGGTTAGGGTAGATTATATTGGTGG
77665535 T
1 T
77665536 TAATCACATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.03, G:0.33, T:0.37
Consensus pattern (33 bp):
TATTCAAGAGGTTAGGGTAGATTATATTGGTGG
Found at i:77667500 original size:2 final size:2
Alignment explanation
Indices: 77667493--77667520 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
77667483 AAGTAATCTT
77667493 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
77667521 AAATATACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77680194 original size:6 final size:6
Alignment explanation
Indices: 77680183--77680212 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
77680173 TGCTATGTCC
77680183 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
77680213 TTCCTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:77680945 original size:31 final size:31
Alignment explanation
Indices: 77680907--77680965 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
77680897 TACATCCAAG
*
77680907 TGACTTAAAT-AGAAATTTTTAAATAATTCAA
1 TGACTTAAATGA-AAACTTTTAAATAATTCAA
*
77680938 TGACTTAAATGAAAACTTTTGAATAATT
1 TGACTTAAATGAAAACTTTTAAATAATT
77680966 TAGTGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTTAAATAATTCAA
Found at i:77686918 original size:15 final size:14
Alignment explanation
Indices: 77686879--77686926 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
77686869 ATTAACAACA
77686879 TTTAGATTA-TTTAT
1 TTTA-ATTATTTTAT
77686893 TTTAA-TATTTTAAT
1 TTTAATTATTTT-AT
77686907 TTTAATTATTTTGAT
1 TTTAATTATTTT-AT
77686922 TTTAA
1 TTTAA
77686927 AATATTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 2 0.07
13 4 0.13
14 11 0.37
15 13 0.43
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (14 bp):
TTTAATTATTTTAT
Found at i:77687174 original size:21 final size:21
Alignment explanation
Indices: 77687150--77687209 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
77687140 CGTTATTTTT
*
77687150 AATCTCACCGCTACAGTATTC
1 AATCTCACCGCTACAGTATCC
* *
77687171 AATCTCATCGCTACAATATCC
1 AATCTCACCGCTACAGTATCC
* *
77687192 AATCTGACCACTACAGTA
1 AATCTCACCGCTACAGTA
77687210 ATTAATTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.32, G:0.08, T:0.27
Consensus pattern (21 bp):
AATCTCACCGCTACAGTATCC
Found at i:77687596 original size:26 final size:24
Alignment explanation
Indices: 77687562--77687610 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
77687552 TAAATAAAAA
* *
77687562 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
77687588 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
77687611 TTAAAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:77688123 original size:22 final size:23
Alignment explanation
Indices: 77688085--77688142 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
77688075 TAACAATCTA
* *
77688085 ATAAATATATAA-TTTTATTATC
1 ATAAATATAAAAGTTTAATTATC
*
77688107 ATAAATATAAAAGTTTAATTATT
1 ATAAATATAAAAGTTTAATTATC
*
77688130 ATTTAATATAAAA
1 A-TAAATATAAAA
77688143 TAATTTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 11 0.37
23 9 0.30
24 10 0.33
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATAAATATAAAAGTTTAATTATC
Found at i:77688167 original size:33 final size:34
Alignment explanation
Indices: 77688125--77688192 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
77688115 AAAAGTTTAA
*
77688125 TTATTATTTAATAT-AA-AATAATTTAAATATATT
1 TTATTATTTAATATGAACAA-AATTTAAAAATATT
*
77688158 TTATTATTTATTATGAACAAAATTTAAAAATATT
1 TTATTATTTAATATGAACAAAATTTAAAAATATT
77688192 T
1 T
77688193 AAATTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 13 0.42
34 16 0.52
35 2 0.06
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (34 bp):
TTATTATTTAATATGAACAAAATTTAAAAATATT
Found at i:77688438 original size:13 final size:13
Alignment explanation
Indices: 77688412--77688483 Score: 94
Period size: 13 Copynumber: 5.6 Consensus size: 13
77688402 TTAGGGCCAG
77688412 TTTGAAAA-TGCT
1 TTTGAAAAGTGCT
77688424 TTTGAAAAGTGCT
1 TTTGAAAAGTGCT
77688437 TTTGAAAAGTGC-
1 TTTGAAAAGTGCT
*
77688449 TGTGAAAAAGTGCT
1 TTTG-AAAAGTGCT
* *
77688463 GTGGAAAAGTGCT
1 TTTGAAAAGTGCT
77688476 TTTGAAAA
1 TTTGAAAA
77688484 ATTTAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
12 11 0.22
13 39 0.76
14 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (13 bp):
TTTGAAAAGTGCT
Found at i:77692806 original size:36 final size:36
Alignment explanation
Indices: 77692764--77692835 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
77692754 AAAAGTTAAC
* *
77692764 AGTTGTTAATTTTACTGATGTGTCATATATGTGGAT
1 AGTTGTTAATTTTACTGACGTGTCATACATGTGGAT
**
77692800 AGTTGTTAATTTTGTTGACGTGTCATACATGTGGAT
1 AGTTGTTAATTTTACTGACGTGTCATACATGTGGAT
77692836 TGTCACATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.46
Consensus pattern (36 bp):
AGTTGTTAATTTTACTGACGTGTCATACATGTGGAT
Found at i:77692921 original size:16 final size:17
Alignment explanation
Indices: 77692900--77692947 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 17
77692890 TGATAATATT
77692900 TATTTTTAATTTTT-TA
1 TATTTTTAATTTTTATA
*
77692916 TATTTTTAATATTTTAATT
1 TATTTTTAAT-TTTT-ATA
77692935 TATTTTTAATTTT
1 TATTTTTAATTTT
77692948 AAAAATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 10 0.36
17 4 0.14
18 3 0.11
19 11 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTTAATTTTTATA
Found at i:77692940 original size:19 final size:17
Alignment explanation
Indices: 77692896--77692947 Score: 70
Period size: 16 Copynumber: 3.0 Consensus size: 17
77692886 AATATGATAA
77692896 TATTTATTTTTAATTTT
1 TATTTATTTTTAATTTT
*
77692913 T-TATATTTTTAATATTT
1 TATTTATTTTTAAT-TTT
77692930 TAATTTATTTTTAATTTT
1 T-ATTTATTTTTAATTTT
77692948 AAAAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 11 0.37
17 5 0.17
18 3 0.10
19 11 0.37
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTATTTTTAATTTT
Found at i:77696661 original size:3 final size:3
Alignment explanation
Indices: 77696647--77696676 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
77696637 TAACTCAGCG
*
77696647 TCA TCT TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
77696677 ATGTATGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:77697877 original size:19 final size:18
Alignment explanation
Indices: 77697831--77697916 Score: 64
Period size: 19 Copynumber: 4.5 Consensus size: 18
77697821 TATTTTTAAG
* *
77697831 ATTATAAAAAATTATTAA
1 ATTATAAAAAATAATAAA
* * *
77697849 ATCAATAAAAGATGATAAA
1 AT-TATAAAAAATAATAAA
*
77697868 ATTATAAAAAAATTATAAA
1 ATTAT-AAAAAATAATAAA
*
77697887 AATATAATAAAATAATAAAA
1 ATTATAA-AAAATAAT-AAA
77697907 ATTATTAAAA
1 ATTA-TAAAA
77697917 CTTTAGAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
18 6 0.11
19 36 0.68
20 8 0.15
21 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (18 bp):
ATTATAAAAAATAATAAA
Found at i:77697881 original size:11 final size:11
Alignment explanation
Indices: 77697865--77697898 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
77697855 AAAAGATGAT
77697865 AAAATTATAAA
1 AAAATTATAAA
77697876 AAAATTATAAA
1 AAAATTATAAA
* *
77697887 AATATAATAAA
1 AAAATTATAAA
77697898 A
1 A
77697899 TAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:77697908 original size:39 final size:38
Alignment explanation
Indices: 77697865--77697955 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 38
77697855 AAAAGATGAT
* *
77697865 AAAATTATAAAAAAATTA-TAAAAATATAATAAAATAATA
1 AAAATTATTAAAAAATTAGAAAAAATATAAT-AAA-AATA
** *
77697904 AAAATTATTAAAACTTTAGAAAAAATATCATAAAAATA
1 AAAATTATTAAAAAATTAGAAAAAATATAATAAAAATA
77697942 AAAAGTTATTAAAA
1 AAAA-TTATTAAAA
77697956 GTATAGAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
38 8 0.18
39 27 0.60
40 10 0.22
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (38 bp):
AAAATTATTAAAAAATTAGAAAAAATATAATAAAAATA
Found at i:77697916 original size:48 final size:47
Alignment explanation
Indices: 77697831--77698025 Score: 123
Period size: 48 Copynumber: 4.0 Consensus size: 47
77697821 TATTTTTAAG
** *
77697831 ATTATAAAAAATTATTAAATCAATAAAAGATGA-TAAAA-TTATAAAAAA
1 ATTATAAAAAA-TAAAAAAT-AATAAAA-ATTATTAAAACTTATAAAAAA
77697879 ATTATAAAAATATAATAAAATAATAAAAATTATTAAAACTT-TAGAAAAA
1 ATTATAAAAA-ATAA-AAAATAATAAAAATTATTAAAACTTATA-AAAAA
* * * * * * *
77697928 A-TATCATAAAAATAAAAAGTTATTAAAAGTATAGAAAAGTTGTAAAAAA
1 ATTAT-A-AAAAATAAAAAATAATAAAAATTAT-TAAAACTTATAAAAAA
* * * *
77697977 TATTATAAAATATCAAACAT-ATAGAAAATTATTAAAA-TTATAAATAA
1 -ATTATAAAAAATAAAAAATAATA-AAAATTATTAAAACTTATAAAAAA
77698024 AT
1 AT
77698026 AAATAAAGAG
Statistics
Matches: 117, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
46 2 0.02
47 11 0.09
48 48 0.41
49 45 0.38
50 8 0.07
51 3 0.03
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.30
Consensus pattern (47 bp):
ATTATAAAAAATAAAAAATAATAAAAATTATTAAAACTTATAAAAAA
Found at i:77697963 original size:39 final size:40
Alignment explanation
Indices: 77697884--77697965 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 40
77697874 AAAAAATTAT
*
77697884 AAAAATATAATAAAATAATAAAAATTATTAAAACTTTAGA
1 AAAAATATAATAAAATAATAAAAATTATTAAAACTATAGA
* *
77697924 AAAAATATCAT-AAA-AATAAAAAGTTATTAAAAGTATAGA
1 AAAAATATAATAAAATAATAAAAA-TTATTAAAACTATAGA
77697963 AAA
1 AAA
77697966 GTTGTAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 8 0.21
39 20 0.53
40 10 0.26
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (40 bp):
AAAAATATAATAAAATAATAAAAATTATTAAAACTATAGA
Found at i:77698026 original size:48 final size:46
Alignment explanation
Indices: 77697864--77698026 Score: 127
Period size: 48 Copynumber: 3.4 Consensus size: 46
77697854 TAAAAGATGA
77697864 TAAAA-TTATAAAAAA-ATTATAAAAATATAATAAAATAATAAAAATTAT
1 TAAAACTTATAAAAAATATTAT-AAAATAT-A-AAAAT-ATAAAAATTAT
* * * *
77697912 TAAAACTTTAGAAAAAATATCATAAAA-ATAAAAAGTTATTAAAAGTAT
1 TAAAAC-TTATAAAAAATATTATAAAATATAAAAA--TATAAAAATTAT
* * * *
77697960 AGAAAAGTTGTAAAAAATATTATAAAATATCAAACATATAGAAAATTAT
1 -TAAAACTTATAAAAAATATTATAAAATAT-AAAAATATA-AAAATTAT
77698009 TAAAA-TTATAAATAAATA
1 TAAAACTTATAAA-AAATA
77698027 AATAAAGAGT
Statistics
Matches: 91, Mismatches: 14, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
47 10 0.11
48 44 0.48
49 16 0.18
50 17 0.19
51 4 0.04
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (46 bp):
TAAAACTTATAAAAAATATTATAAAATATAAAAATATAAAAATTAT
Found at i:77698465 original size:17 final size:16
Alignment explanation
Indices: 77698430--77698468 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
77698420 TTTTAAAGTA
77698430 TATTTTTTATATTTTT
1 TATTTTTTATATTTTT
77698446 TATTATTTTA-ATTTTAT
1 TATT-TTTTATATTTT-T
77698463 TATTTT
1 TATTTT
77698469 GCCACGTACG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTTATATTTTT
Found at i:77698537 original size:18 final size:18
Alignment explanation
Indices: 77698514--77698624 Score: 95
Period size: 18 Copynumber: 6.2 Consensus size: 18
77698504 CTTTAAAATC
77698514 TATATTTTTTTATATTTT
1 TATATTTTTTTATATTTT
*
77698532 TATATTTTATTATATTTT
1 TATATTTTTTTATATTTT
77698550 T-TATATTTTTTATATTTTT
1 TATAT-TTTTTTATA-TTTT
* * * *
77698569 TATACTTTTTTAAAATCT
1 TATATTTTTTTATATTTT
77698587 TA-A-TTTTTTA-ATTTT
1 TATATTTTTTTATATTTT
* *
77698602 TAATAAATTTTTAATATTTT
1 T-AT-ATTTTTTTATATTTT
77698622 TAT
1 TAT
77698625 TATATTTATT
Statistics
Matches: 76, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.05
16 8 0.11
17 4 0.05
18 31 0.41
19 21 0.28
20 8 0.11
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (18 bp):
TATATTTTTTTATATTTT
Found at i:77698555 original size:9 final size:9
Alignment explanation
Indices: 77698514--77698580 Score: 100
Period size: 9 Copynumber: 7.2 Consensus size: 9
77698504 CTTTAAAATC
77698514 TATATTTTT
1 TATATTTTT
77698523 T-TATATTTT
1 TATAT-TTTT
77698532 TATATTTTAT
1 TATATTTT-T
77698542 TATATTTTT
1 TATATTTTT
77698551 TATATTTTT
1 TATATTTTT
77698560 TATATTTTT
1 TATATTTTT
77698569 TATACTTTTT
1 TATA-TTTTT
77698579 TA
1 TA
77698581 AAATCTTAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
8 3 0.06
9 32 0.59
10 19 0.35
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (9 bp):
TATATTTTT
Found at i:77698612 original size:19 final size:19
Alignment explanation
Indices: 77698588--77698642 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
77698578 TTAAAATCTT
77698588 AATTTTTTAATTTTTAATA
1 AATTTTTTAATTTTTAATA
* *
77698607 AATTTTTAATATTTTTATTA
1 AATTTTTTA-ATTTTTAATA
* * *
77698627 TATTTATTCATTTTTA
1 AATTTTTTAATTTTTA
77698643 TCATTTTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
AATTTTTTAATTTTTAATA
Found at i:77698620 original size:9 final size:9
Alignment explanation
Indices: 77698519--77698642 Score: 69
Period size: 9 Copynumber: 13.7 Consensus size: 9
77698509 AAATCTATAT
*
77698519 TTTTTTATA
1 TTTTTAATA
77698528 TTTTT-ATA
1 TTTTTAATA
*
77698536 TTTTATTATA
1 TTTT-TAATA
*
77698546 TTTTTTATA
1 TTTTTAATA
*
77698555 TTTTTTATA
1 TTTTTAATA
*
77698564 TTTTTTATA
1 TTTTTAATA
77698573 CTTTTTTAA-A
1 --TTTTTAATA
* *
77698583 ATCTTAAT-
1 TTTTTAATA
77698591 TTTTT-A-A
1 TTTTTAATA
77698598 TTTTTAATAAA
1 TTTTTAAT--A
77698609 TTTTTAATA
1 TTTTTAATA
*
77698618 TTTTTATTA
1 TTTTTAATA
* *
77698627 TATTTATTCA
1 TTTTTAAT-A
77698637 TTTTTA
1 TTTTTA
77698643 TCATTTTCAT
Statistics
Matches: 96, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
7 6 0.06
8 16 0.17
9 45 0.47
10 14 0.15
11 15 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTAATA
Found at i:77698643 original size:72 final size:72
Alignment explanation
Indices: 77698505--77698641 Score: 165
Period size: 74 Copynumber: 1.9 Consensus size: 72
77698495 AAAAAAAAAC
* * * *
77698505 TTTAAAATCTATATTTTTTTATATTTTTATATTTTATTATATTTTTTATATTTTTTATATTTTTT
1 TTTAAAATCTATAATTTTTTATATTTTTATATTTTAATATATTTTTTATATTTATTACATTTTTT
77698570 ATACTTT
66 ATACTTT
77698577 TTTAAAATCT-TAATTTTTTA-ATTTTTAATAAATTTTTAATAT-TTTTATTATATTTATT-CAT
1 TTTAAAATCTATAATTTTTTATATTTTT-AT--A-TTTTAATATATTTT-TTATATTTATTACAT
77698638 TTTT
61 TTTT
77698642 ATCATTTTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
70 6 0.11
71 11 0.20
72 10 0.18
73 11 0.20
74 18 0.32
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (72 bp):
TTTAAAATCTATAATTTTTTATATTTTTATATTTTAATATATTTTTTATATTTATTACATTTTTT
ATACTTT
Found at i:77699099 original size:13 final size:13
Alignment explanation
Indices: 77699055--77699099 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
77699045 AGTTCTTCAT
*
77699055 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
* *
77699068 TGCTGTGGAGAAG
1 TGCTTTTGAGAAG
*
77699081 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
77699094 TGCTTT
1 TGCTTT
77699100 GAAAAAATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:77704974 original size:18 final size:18
Alignment explanation
Indices: 77704951--77704987 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
77704941 ACCAAATACT
*
77704951 CCATGAAAACAAATTTTA
1 CCATGAAAACAAAATTTA
*
77704969 CCATGAAAAGAAAATTTA
1 CCATGAAAACAAAATTTA
77704987 C
1 C
77704988 ATTTTTCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (18 bp):
CCATGAAAACAAAATTTA
Found at i:77705414 original size:18 final size:19
Alignment explanation
Indices: 77705379--77705434 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
77705369 AAATTTTATG
77705379 AAATTTTTATAATAATTTA
1 AAATTTTTATAATAATTTA
77705398 AAATTTTT-TGAAT-ATTTA
1 AAATTTTTAT-AATAATTTA
* *
77705416 ATTATTTTTA-AATTATTTA
1 A-AATTTTTATAATAATTTA
77705435 TTAATGTGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 10 0.31
19 22 0.69
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AAATTTTTATAATAATTTA
Found at i:77706240 original size:20 final size:20
Alignment explanation
Indices: 77706212--77706253 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
77706202 TTTTTATACA
*
77706212 TTTAAAATTTCTATATTTTT
1 TTTAAAATTTCTAGATTTTT
* *
77706232 TTTATAATTTTTAGATTTTT
1 TTTAAAATTTCTAGATTTTT
77706252 TT
1 TT
77706254 AATCTCGCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTAAAATTTCTAGATTTTT
Found at i:77709614 original size:15 final size:16
Alignment explanation
Indices: 77709583--77709615 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
77709573 ATTATATTTA
*
77709583 TATTTTTTTTCATTTT
1 TATTTTTTTTCAGTTT
77709599 TATTTTTTTT-AGTTT
1 TATTTTTTTTCAGTTT
77709614 TA
1 TA
77709616 GAATATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (16 bp):
TATTTTTTTTCAGTTT
Found at i:77709614 original size:16 final size:16
Alignment explanation
Indices: 77709578--77709608 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
77709568 TTAATATTAT
*
77709578 ATTTATATTTTTTTTC
1 ATTTTTATTTTTTTTC
77709594 ATTTTTATTTTTTTT
1 ATTTTTATTTTTTTT
77709609 AGTTTTAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTTTATTTTTTTTC
Found at i:77709675 original size:22 final size:21
Alignment explanation
Indices: 77709649--77709692 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
77709639 ATAATTCGAA
77709649 TAATAATTAGAA-TAATAATATT
1 TAATAATTA-AATTAA-AATATT
*
77709671 TAATATTTAAATTAAAATATT
1 TAATAATTAAATTAAAATATT
77709692 T
1 T
77709693 TATCCAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATAATTAAATTAAAATATT
Found at i:77713111 original size:16 final size:18
Alignment explanation
Indices: 77713077--77713114 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
77713067 ATCATTATTT
*
77713077 AAATAAAATATAATGGTA
1 AAATAAAATATAATAGTA
77713095 AAATAAAATA-AA-AGTA
1 AAATAAAATATAATAGTA
77713111 AAAT
1 AAAT
77713115 TCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 10 0.53
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (18 bp):
AAATAAAATATAATAGTA
Found at i:77716421 original size:49 final size:49
Alignment explanation
Indices: 77716349--77716447 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
77716339 TTTCAAAAGA
77716349 AGTAGTTTTGACAGTTTAAGAAAAACAGTGATGGTTCTTTTGTGTATCT
1 AGTAGTTTTGACAGTTTAAGAAAAACAGTGATGGTTCTTTTGTGTATCT
77716398 AGTAGTTTTGACAGTTTAAGAAAAACAGTGATGGTTCTTTTGTGTATCT
1 AGTAGTTTTGACAGTTTAAGAAAAACAGTGATGGTTCTTTTGTGTATCT
77716447 A
1 A
77716448 CTTCTTTATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.40
Consensus pattern (49 bp):
AGTAGTTTTGACAGTTTAAGAAAAACAGTGATGGTTCTTTTGTGTATCT
Found at i:77719604 original size:212 final size:212
Alignment explanation
Indices: 77719217--77719610 Score: 659
Period size: 212 Copynumber: 1.9 Consensus size: 212
77719207 CTATTTTTGG
*
77719217 AAAATAATATGTTATTTGGAAAATAACTATGATTGTAATGAGATACATGTTTTATTAGGTATAAG
1 AAAACAATATGTTATTTGGAAAATAACTATGATTGTAATGAGATACATGTTTTATTAGGTATAAG
77719282 TATTTAAATTTTTATTTTTGTAATGTGATACATGCGTAAATATATATATATAGAATCACATTAGT
66 TATTTAAATTTTTATTTTTGTAATGTGATACATGCGTAAATATATATATATAGAATCACATTAGT
* * *
77719347 GAATCTCTTAATACATATTTCATCCGGATAAAGTGTGCATTATTAAAATTAAATTAAAATAGTAA
131 GAATCTCTTAATACATACTTCATCCGAATAAAGTATGCATTATTAAAATTAAATTAAAATAGTAA
77719412 ATAAGAAATAAAATTAT
196 ATAAGAAATAAAATTAT
*
77719429 AAAACAATATGTTATTT-GAAAATAACTATTATTGTAATGAGATACATGTTTTATTAGGTATAAG
1 AAAACAATATGTTATTTGGAAAATAACTATGATTGTAATGAGATACATGTTTTATTAGGTATAAG
* * *
77719493 TATTTAAA-TTTTGTTTTTGTAATGTGATACATGCGTAAATATCTATATATATATAATCATATTA
66 TATTTAAATTTTTATTTTTGTAATGTGATACATGCGTAAATA--TATATATATAGAATCACATTA
*
77719557 GTTAATCTGC-TAATACATACTTCATCCGAATAAAGTATGCATTATTAAAATTAA
129 GTGAATCT-CTTAATACATACTTCATCCGAATAAAGTATGCATTATTAAAATTAA
77719611 TGGTTTGTTT
Statistics
Matches: 170, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
210 32 0.19
211 54 0.32
212 83 0.49
213 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (212 bp):
AAAACAATATGTTATTTGGAAAATAACTATGATTGTAATGAGATACATGTTTTATTAGGTATAAG
TATTTAAATTTTTATTTTTGTAATGTGATACATGCGTAAATATATATATATAGAATCACATTAGT
GAATCTCTTAATACATACTTCATCCGAATAAAGTATGCATTATTAAAATTAAATTAAAATAGTAA
ATAAGAAATAAAATTAT
Found at i:77719920 original size:16 final size:17
Alignment explanation
Indices: 77719899--77719940 Score: 70
Period size: 16 Copynumber: 2.6 Consensus size: 17
77719889 CCATTTTGGT
77719899 ACTTAATTTTTGAAAC-
1 ACTTAATTTTTGAAACA
77719915 ACTTAATTTTTGAAACA
1 ACTTAATTTTTGAAACA
77719932 ACTT-ATTTT
1 ACTTAATTTT
77719941 AGTATTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.48
Consensus pattern (17 bp):
ACTTAATTTTTGAAACA
Found at i:77722304 original size:24 final size:25
Alignment explanation
Indices: 77722277--77722325 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
77722267 CTTTTTTTAT
*
77722277 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
77722301 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
77722326 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:77722318 original size:25 final size:23
Alignment explanation
Indices: 77722289--77722353 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
77722279 AATAAAAAAC
*
77722289 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
77722314 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
77722335 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
77722354 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:77722352 original size:19 final size:20
Alignment explanation
Indices: 77722315--77722353 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
77722305 TCAAATACAT
77722315 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
77722335 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
77722354 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:77723701 original size:27 final size:27
Alignment explanation
Indices: 77723623--77723701 Score: 149
Period size: 27 Copynumber: 2.9 Consensus size: 27
77723613 TAAAATAGGG
*
77723623 GTGGAGGGTACCCCACAGGCGGCAACA
1 GTGGAGGGTACCCCACAGGCGGCACCA
77723650 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
77723677 GTGGAGGGTACCCCACAGGCGGCAC
1 GTGGAGGGTACCCCACAGGCGGCAC
77723702 TGGTCTCTCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.23, C:0.32, G:0.38, T:0.08
Consensus pattern (27 bp):
GTGGAGGGTACCCCACAGGCGGCACCA
Found at i:77723876 original size:3 final size:3
Alignment explanation
Indices: 77723844--77723888 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
77723834 AAGAAAGGGG
* *
77723844 GAA GGA GAA G-A GAA AAA GAA GAA -AA G-A GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
77723889 AAAGGAGGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:77723929 original size:6 final size:6
Alignment explanation
Indices: 77723918--77723951 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
77723908 TTGGTGAGGG
*
77723918 AAGAAA AAGAAA AAGAAA AAGAGA AAGAAA AAGA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGA
77723952 GAAGGAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:77723952 original size:12 final size:12
Alignment explanation
Indices: 77723918--77723987 Score: 70
Period size: 12 Copynumber: 5.7 Consensus size: 12
77723908 TTGGTGAGGG
*
77723918 AAGAAAAAGAAA
1 AAGAAAAAGAGA
77723930 AAGAAAAAGAGA
1 AAGAAAAAGAGA
77723942 AAGAAAAAGAGA
1 AAGAAAAAGAGA
*
77723954 AGGAGAAGAAGA-A
1 A--AGAAAAAGAGA
*
77723967 GAAGAGAAAGAGA
1 -AAGAAAAAGAGA
*
77723980 AGGAAAAA
1 AAGAAAAA
77723988 AAAGGTAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
12 37 0.77
13 2 0.04
14 9 0.19
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAGA
Found at i:77723965 original size:20 final size:20
Alignment explanation
Indices: 77723919--77723991 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
77723909 TGGTGAGGGA
* *
77723919 AGAAAAAGAAAAAGAAAAAG
1 AGAAGAAGAAAAAGAGAAAG
*
77723939 AG-A-AAGAAAAAGAGAAGG
1 AGAAGAAGAAAAAGAGAAAG
*
77723957 AGAAGAAGAAGAAGAGAAAG
1 AGAAGAAGAAAAAGAGAAAG
*
77723977 AGAAGGAAAAAAAAG
1 AGAA-GAAGAAAAAG
77723992 GTAATATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 15 0.34
19 2 0.05
20 19 0.43
21 8 0.18
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AGAAGAAGAAAAAGAGAAAG
Found at i:77723965 original size:26 final size:26
Alignment explanation
Indices: 77723917--77723989 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
77723907 ATTGGTGAGG
*
77723917 GAAGAAAAAGA-AA-AAGAAAAAG-A
1 GAAGAAAAAGAGAAGGAGAAAAAGAA
*
77723940 GAAAGAAAAAGAGAAGGAGAAGAAGAA
1 G-AAGAAAAAGAGAAGGAGAAAAAGAA
* *
77723967 GAAGAGAAAGAGAAGGAAAAAAA
1 GAAGAAAAAGAGAAGGAGAAAAA
77723990 AGGTAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.02
24 10 0.24
25 2 0.05
26 26 0.63
27 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (26 bp):
GAAGAAAAAGAGAAGGAGAAAAAGAA
Found at i:77724754 original size:286 final size:281
Alignment explanation
Indices: 77724405--77725156 Score: 982
Period size: 286 Copynumber: 2.6 Consensus size: 281
77724395 TAGTATATTT
*
77724405 AAAAAAATATA-TTTT-AAAAAATCCGAAAATAAAAT-AAAAAAGGCCAAAATCAGAGGTTTTTT
1 AAAATAATATATTTTTAAAAAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGA-GTTTTTT
*
77724467 ACTAAATTAATATAAATATACTAAAATAATATATATGAAACATTATGTACTAAAATAATAAAAAA
65 ACTAAATTAATATAAA-AAACTAAAATAATATATATGAAACATTATGTACTAAAATAATAAAAAA
* *
77724532 ATAAAATACGAAAATAGTATATTTTGGAAAATAAAATCCGAAAATAAAATAAAAAACAAACGGCT
129 ATAAAATACGAAAATAGTATATTTT-AAAAATAAAATCCGAAAATAAAATAAAAAA-AAACGGCC
77724597 AAAATCAGAAATTTTTACTAAATTAATATAAAAAAACCAAAATAATACATTTGAAACATTATGTA
192 AAAATCAGAAATTTTTACTAAATTAATATAAAAAAACCAAAATAATACA--TGAAACATTATGTA
77724662 CTAAAATAATATAAAAAATAAAATACG
255 CTAAAATAATATAAAAAATAAAATACG
* * * *
77724689 AAAATAGTATATTTTTAAAAAAATCCGAAAACAAAATAAAAAAAGGCCAAAATCACAGATTTTTA
1 AAAATAATATATTTTTAAAAAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTA
* * *
77724754 CTAAATTAATATAAAAAAACAAAAAT-A-ATACATGGAACATTATGTACTAAAATAATATAAAAA
66 CTAAATTAATAT-AAAAAACTAAAATAATATATATGAAACATTATGTACTAAAAT-A-ATAAAAA
* * * * *
77724817 AATAAAATACGAAAATAATATATCTTAAAAAATAAAATCC-AAAA-ATAA-AAATAAAAAGGGCC
128 AATAAAATACGAAAATAGTATAT-TTTAAAAATAAAATCCGAAAATAAAATAAAAAAAAACGGCC
*** * * *
77724879 AAAATCAGGGTTTTTTTCTAAATTAATATAAAAAAACTAAAATAATGCATGAAACATTATGTACT
192 AAAATCAGAAATTTTTACTAAATTAATATAAAAAAACCAAAATAATACATGAAACATTATGTACT
* *
77724944 AAAATAATATAAATAATAAAATATG
257 AAAATAATATAAAAAATAAAATACG
* * *
77724969 AAAATAATAAATTTTAAAAAATAAAATCCGAAAATAAAA-ATAAAAAAGACCAAAATCAGAGTTT
1 AAAATAATATATTTT--TAAA-AAAATCCGAAAATAAAATA-AAAAAAGGCCAAAATCAGAG-TT
* * *
77725033 TTTTTCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATA
61 TTTTACTAAATTAATATAAAAAACTAAAATAATATATATGAAACATTATGTACTAAAATAATA-A
* *
77725098 AAAGAATAAAATATGAAAATAGTATATTTTAAAAATTTAAAATCTGAAAATAAAATAAA
125 AAA-AATAAAATACGAAAATAGTATATTTTAAAAA--TAAAATCCGAAAATAAAATAAA
77725157 TACCAAAATA
Statistics
Matches: 405, Mismatches: 42, Indels: 37
0.84 0.09 0.08
Matches are distributed among these distances:
280 52 0.13
282 53 0.13
283 54 0.13
284 66 0.16
285 53 0.13
286 94 0.23
287 27 0.07
288 3 0.01
289 3 0.01
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (281 bp):
AAAATAATATATTTTTAAAAAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTA
CTAAATTAATATAAAAAACTAAAATAATATATATGAAACATTATGTACTAAAATAATAAAAAAAT
AAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATAAAATAAAAAAAAACGGCCAAAA
TCAGAAATTTTTACTAAATTAATATAAAAAAACCAAAATAATACATGAAACATTATGTACTAAAA
TAATATAAAAAATAAAATACG
Found at i:77724975 original size:16 final size:16
Alignment explanation
Indices: 77724954--77725005 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
77724944 AAAATAATAT
77724954 AAATAATAAAATATGA
1 AAATAATAAAATATGA
* *
77724970 AAATAAT-AAATTTTA
1 AAATAATAAAATATGA
**
77724985 AAA-AATAAAATCCGA
1 AAATAATAAAATATGA
77725000 AAATAA
1 AAATAA
77725006 AAATAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 3 0.10
15 17 0.59
16 9 0.31
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (16 bp):
AAATAATAAAATATGA
Found at i:77724992 original size:30 final size:29
Alignment explanation
Indices: 77724953--77725009 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
77724943 TAAAATAATA
* *
77724953 TAAATAATAAAATATGAAAATAATAAATTT
1 TAAAAAATAAAATACGAAAATAA-AAATTT
*
77724983 TAAAAAATAAAATCCGAAAATAAAAAT
1 TAAAAAATAAAATACGAAAATAAAAAT
77725010 AAAAAAGACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (29 bp):
TAAAAAATAAAATACGAAAATAAAAATTT
Found at i:77725004 original size:141 final size:141
Alignment explanation
Indices: 77724422--77725156 Score: 964
Period size: 142 Copynumber: 5.2 Consensus size: 141
77724412 TATATTTTAA
* *
77724422 AAAATCCGAAAAT-AAAATAAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAATAT
1 AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAG-GGTTTTTTACTAAATTAATATAAAAAA
*
77724486 ACTAAAATAATATATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAGT
65 ACTAAAAT-A-ATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
**
77724550 ATATTTTGGAAAAT
128 ATATTTTAAAAAAT
* * ***
77724564 AAAATCCGAAAATAAAATAAAAAACAAACGGCTAAAATCAGAAATTTTTACTAAATTAATATAAA
1 AAAATCCGAAAAT-AAA-AATAAA-AAA-GGCCAAAATCAGGGTTTTTTACTAAATTAATATAAA
*
77724629 AAAACCAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
62 AAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
*
77724694 AGTATATTTT--TAAA-
125 AGTATATTTTAAAAAAT
* ** *
77724708 AAAATCCGAAAA-CAAAATAAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAA
1 AAAATCCGAAAATAAAAAT-AAAAAAGGCCAAAATCAGGGTTTTTTACTAAATTAATATAAAAAA
* * *
77724772 ACAAAAATAATACATGGAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAATA
65 ACTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTA
*
77724837 TATCTTAAAAAAT
129 TATTTTAAAAAAT
* * *
77724850 AAAATCCAAAAATAAAAATAAAAAGGGCCAAAATCAGGGTTTTTTTCTAAATTAATATAAAAAAA
1 AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGGGTTTTTTACTAAATTAATATAAAAAAA
* * * * *
77724915 CTAAAATAATGCATGAAACATTATGTACTAAAATAATATAAATAATAAAATATGAAAATAATAAA
66 CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA
77724980 TTTTAAAAAAT
131 TTTTAAAAAAT
* * *
77724991 AAAATCCGAAAATAAAAATAAAAAAGACCAAAATCAGAGTTTTTTTTCTAAATTAATAT-AAAAA
1 AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAG-GGTTTTTTACTAAATTAATATAAAAAA
*
77725055 ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATATGAAAATAG
65 ACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATAG
*
77725120 TATATTTTAAAAATTT
127 TATATTTTAAAAA-AT
*
77725136 AAAATCTGAAAAT-AAAATAAA
1 AAAATCCGAAAATAAAAATAAA
77725157 TACCAAAATA
Statistics
Matches: 530, Mismatches: 44, Indels: 36
0.87 0.07 0.06
Matches are distributed among these distances:
138 25 0.05
139 28 0.05
140 49 0.09
141 93 0.18
142 126 0.24
143 34 0.06
144 55 0.10
145 22 0.04
146 57 0.11
147 41 0.08
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.27
Consensus pattern (141 bp):
AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGGGTTTTTTACTAAATTAATATAAAAAAA
CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA
TTTTAAAAAAT
Found at i:77730469 original size:35 final size:35
Alignment explanation
Indices: 77730425--77730591 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
77730415 TCCTCATTGA
** *
77730425 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
77730460 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
77730500 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
77730535 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
77730570 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
77730592 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:77730508 original size:75 final size:73
Alignment explanation
Indices: 77730420--77730591 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
77730410 GGTTTTCCTC
** * * **
77730420 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
77730484 TCAGTATGG
65 TCAGTATGG
*
77730493 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
77730558 CTCAGTATGG
64 CTCAGTATGG
77730568 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
77730592 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:77737963 original size:35 final size:35
Alignment explanation
Indices: 77737919--77738085 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
77737909 TCCTCATTGA
** *
77737919 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
77737954 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
77737994 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
77738029 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
77738064 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
77738086 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:77738002 original size:75 final size:73
Alignment explanation
Indices: 77737914--77738085 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
77737904 GGTTTTCCTC
** * * **
77737914 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
77737978 TCAGTATGG
65 TCAGTATGG
*
77737987 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
77738052 CTCAGTATGG
64 CTCAGTATGG
77738062 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
77738086 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:77741552 original size:21 final size:21
Alignment explanation
Indices: 77741506--77741546 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
77741496 TAAATTACTT
*
77741506 TTTCTTTTTTTCTTCTTCTAC
1 TTTCTTTCTTTCTTCTTCTAC
77741527 TTTCTTTCTTTCTATCTTCT
1 TTTCTTTCTTTCT-TCTTCT
77741547 TCTTCTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTCTTTCTTTCTTCTTCTAC
Found at i:77741667 original size:27 final size:27
Alignment explanation
Indices: 77741637--77741695 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
77741627 GAGAAGGGCA
77741637 CCACCGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
77741664 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
77741691 TCACC
1 CCACC
77741696 CTTATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.08, C:0.41, G:0.31, T:0.20
Consensus pattern (27 bp):
CCACCGGTGCCGCCTGTGGGGTACCCT
Found at i:77742334 original size:19 final size:18
Alignment explanation
Indices: 77742293--77742334 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
77742283 GGTTAATACG
* *
77742293 ATTATATAAAAAATTTCA
1 ATTAAATAAAAAATTTAA
77742311 A-TAAATAAAAAATATTAA
1 ATTAAATAAAAAAT-TTAA
77742329 ATTAAA
1 ATTAAA
77742335 ATAATATAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 11 0.55
18 5 0.25
19 4 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTAAATAAAAAATTTAA
Found at i:77745906 original size:6 final size:6
Alignment explanation
Indices: 77745895--77745923 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
77745885 CCCTCCTTCT
77745895 ACCCAA ACCCAA ACCCAA ACCCAA ACCCA
1 ACCCAA ACCCAA ACCCAA ACCCAA ACCCA
77745924 TTCCCCCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCAA
Found at i:77751379 original size:21 final size:19
Alignment explanation
Indices: 77751336--77751382 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
77751326 TTAAATAAGA
77751336 AATAATAATTTAATAATAT
1 AATAATAATTTAATAATAT
77751355 AATAATATATGTT-ATAATAAT
1 AATAATA-AT-TTAATAAT-AT
77751376 AATAATA
1 AATAATA
77751383 GAATAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 7 0.28
21 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AATAATAATTTAATAATAT
Found at i:77753166 original size:20 final size:20
Alignment explanation
Indices: 77753141--77753181 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
77753131 GCCCCATGGC
*
77753141 CATGTCCCAAGCCACACGGG
1 CATGTCCCAAGACACACGGG
*
77753161 CATGTCCCAGGACACACGGG
1 CATGTCCCAAGACACACGGG
77753181 C
1 C
77753182 GTGTGCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.39, G:0.27, T:0.10
Consensus pattern (20 bp):
CATGTCCCAAGACACACGGG
Found at i:77755659 original size:18 final size:18
Alignment explanation
Indices: 77755609--77755660 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
77755599 TTGGCTTACT
*
77755609 ATTTCCTGGCTTACGAAA
1 ATTTTCTGGCTTACGAAA
*
77755627 A-TTT-T--ATTA-GAAA
1 ATTTTCTGGCTTACGAAA
77755640 ATTTTCTGGCTTACGAAA
1 ATTTTCTGGCTTACGAAA
77755658 ATT
1 ATT
77755661 GAGTTCGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 10
0.67 0.08 0.26
Matches are distributed among these distances:
13 5 0.19
14 6 0.23
15 1 0.04
16 1 0.04
17 5 0.19
18 8 0.31
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (18 bp):
ATTTTCTGGCTTACGAAA
Found at i:77765204 original size:21 final size:21
Alignment explanation
Indices: 77765178--77765218 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
77765168 CACCATCATC
77765178 ATCAATATCAGCAGCAGCAGT
1 ATCAATATCAGCAGCAGCAGT
*
77765199 ATCAATATCATCAGCAGCAG
1 ATCAATATCAGCAGCAGCAG
77765219 CAGCAACAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCAATATCAGCAGCAGCAGT
Found at i:77775646 original size:2 final size:2
Alignment explanation
Indices: 77775641--77775667 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
77775631 TATATTACAA
77775641 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
77775668 ATGAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77779355 original size:22 final size:22
Alignment explanation
Indices: 77779314--77779372 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
77779304 ATAATAAATC
* *
77779314 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
77779334 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
77779356 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
77779373 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:77779449 original size:15 final size:16
Alignment explanation
Indices: 77779419--77779451 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
77779409 AAATAGTTAT
77779419 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
77779436 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
77779451 A
1 A
77779452 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:77780948 original size:16 final size:15
Alignment explanation
Indices: 77780920--77780949 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
77780910 ATGACTATAT
77780920 ATAAAATTATAATAA
1 ATAAAATTATAATAA
77780935 ATAAAATATATAATA
1 ATAAAAT-TATAATA
77780950 CTATTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAAATTATAATAA
Found at i:77781155 original size:6 final size:6
Alignment explanation
Indices: 77781146--77781173 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
77781136 TGCATATAAA
77781146 AAATTT AAATTT AAATTT AAATTT AAAT
1 AAATTT AAATTT AAATTT AAATTT AAAT
77781174 ATTTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:77787437 original size:22 final size:22
Alignment explanation
Indices: 77787391--77787441 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
77787381 ATCATCAATT
77787391 AATTAATTATTAAAATTTTTAAA
1 AATTAATTA-TAAAATTTTTAAA
*
77787414 AATTAATTA-AAAATATTTTTAA
1 AATTAATTATAAAAT-TTTTAAA
77787436 AATTAA
1 AATTAA
77787442 AAATAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 12 0.46
23 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTAATTATAAAATTTTTAAA
Found at i:77795396 original size:30 final size:31
Alignment explanation
Indices: 77795347--77795415 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
77795337 TTATTTACAT
*
77795347 TTAA-TTATAAAATATATATT-TATTGATTTA
1 TTAATTTAAAAAATATATATTATATT-ATTTA
77795377 TTAATTTAAAAAATA-ATATTATATTATTTA
1 TTAATTTAAAAAATATATATTATATTATTTA
77795407 -TATATTTAA
1 TTA-ATTTAA
77795416 CATAAAATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 2 0.06
30 20 0.57
31 13 0.37
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (31 bp):
TTAATTTAAAAAATATATATTATATTATTTA
Found at i:77799224 original size:27 final size:28
Alignment explanation
Indices: 77799204--77799258 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
77799194 CACAATTTTG
77799204 TTATATGGAGCCTGTGTCAC-ATTCTAC
1 TTATATGGAGCCTGTGTCACAATTCTAC
77799231 TTATATGGAGCCTGTGTCAC-ATTCTAC
1 TTATATGGAGCCTGTGTCACAATTCTAC
77799258 T
1 T
77799259 AAGGTTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (28 bp):
TTATATGGAGCCTGTGTCACAATTCTAC
Found at i:77804640 original size:22 final size:23
Alignment explanation
Indices: 77804597--77804640 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
77804587 TTGAATTATT
*
77804597 AATTGAATTCGAAAATTCAATTC
1 AATTGAATTCGAAAATTAAATTC
77804620 AATTG-ATTC-AAAATTTAAATT
1 AATTGAATTCGAAAA-TTAAATT
77804641 TTTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
AATTGAATTCGAAAATTAAATTC
Found at i:77807341 original size:20 final size:20
Alignment explanation
Indices: 77807304--77807375 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
77807294 ATTTCCAAAA
*
77807304 ATTTATCAAA-ATATCTAACG
1 ATTTA-CAAATATAACTAACG
* *
77807324 ATTTACTAATATAACTAAAG
1 ATTTACAAATATAACTAACG
* * * *
77807344 ATTTACCAATATACCTAGCA
1 ATTTACAAATATAACTAACG
77807364 ATTTACAAATAT
1 ATTTACAAATAT
77807376 TTCTAATGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 3 0.07
20 39 0.93
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (20 bp):
ATTTACAAATATAACTAACG
Found at i:77807552 original size:20 final size:21
Alignment explanation
Indices: 77807529--77807567 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
77807519 TTACCAATGA
77807529 ATCTAAAGATTTA-CTAAAAT
1 ATCTAAAGATTTACCTAAAAT
*
77807549 ATCTAATGATTTACCTAAA
1 ATCTAAAGATTTACCTAAA
77807568 GATTGACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (21 bp):
ATCTAAAGATTTACCTAAAAT
Found at i:77807567 original size:32 final size:32
Alignment explanation
Indices: 77807531--77807591 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
77807521 ACCAATGAAT
* * *
77807531 CTAAAGATTTACTAAAATATCTAATGATTTAC
1 CTAAAGATTGACCAAAATATCAAATGATTTAC
*
77807563 CTAAAGATTGACCAAATTATCAAATGATT
1 CTAAAGATTGACCAAAATATCAAATGATT
77807592 AACCATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.34
Consensus pattern (32 bp):
CTAAAGATTGACCAAAATATCAAATGATTTAC
Found at i:77807646 original size:20 final size:20
Alignment explanation
Indices: 77807609--77807700 Score: 64
Period size: 20 Copynumber: 4.6 Consensus size: 20
77807599 ATTTCTAATA
* *
77807609 ATTTACCAA-AATATTTAACC
1 ATTTACCAATATTA-TTAAGC
*
77807629 ATTTACCAATATTATTAAGG
1 ATTTACCAATATTATTAAGC
*
77807649 ATTTATCAATA-TATCTAA-C
1 ATTTACCAATATTAT-TAAGC
* * *
77807668 ATTTTACTAATATTTTTAAGG
1 A-TTTACCAATATTATTAAGC
*
77807689 ATTTACTAATAT
1 ATTTACCAATAT
77807701 ATCTAACATT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
19 4 0.07
20 48 0.83
21 6 0.10
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.43
Consensus pattern (20 bp):
ATTTACCAATATTATTAAGC
Found at i:77807653 original size:40 final size:39
Alignment explanation
Indices: 77807609--77807711 Score: 134
Period size: 40 Copynumber: 2.6 Consensus size: 39
77807599 ATTTCTAATA
* *
77807609 ATTTACCAAAATATTTAACCATTTACCAATATTATTAAGG
1 ATTTACCAATATATCTAA-CATTTACCAATATTATTAAGG
* * *
77807649 ATTTATCAATATATCTAACATTTTACTAATATTTTTAAGG
1 ATTTACCAATATATCTAACA-TTTACCAATATTATTAAGG
*
77807689 ATTTACTAATATATCTAACATTT
1 ATTTACCAATATATCTAACATTT
77807712 TATCAGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
39 5 0.09
40 50 0.91
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.44
Consensus pattern (39 bp):
ATTTACCAATATATCTAACATTTACCAATATTATTAAGG
Found at i:77807713 original size:20 final size:20
Alignment explanation
Indices: 77807656--77807713 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
77807646 AGGATTTATC
77807656 AATATATCTAACATTTTACT
1 AATATATCTAACATTTTACT
* * *
77807676 AATATTTTTAAGGA-TTTACT
1 AATATATCTAA-CATTTTACT
77807696 AATATATCTAACATTTTA
1 AATATATCTAACATTTTA
77807714 TCAGTATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (20 bp):
AATATATCTAACATTTTACT
Found at i:77807732 original size:40 final size:40
Alignment explanation
Indices: 77807648--77807734 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
77807638 TATTATTAAG
** *
77807648 GATTTATCAATATATCTAACATTTTACTAATATTTTTAAG
1 GATTTATCAATATATCTAACATTTTACTAATATTTCAAAA
*
77807688 GATTTA-CTAATATATCTAACATTTTA-TCAGTATTTCAAAA
1 GATTTATC-AATATATCTAACATTTTACT-AATATTTCAAAA
77807728 GATTTAT
1 GATTTAT
77807735 AAAAAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (40 bp):
GATTTATCAATATATCTAACATTTTACTAATATTTCAAAA
Found at i:77807815 original size:20 final size:20
Alignment explanation
Indices: 77807738--77807816 Score: 54
Period size: 20 Copynumber: 4.0 Consensus size: 20
77807728 GATTTATAAA
* *
77807738 AAAATATCTAACGA-TTTATC
1 AAAATTTCTAA-GATTTTACC
* *
77807758 AAAATTTCTATTG-TTTTGCC
1 AAAATTTCTA-AGATTTTACC
* * * *
77807778 AATATTTATGAGAATTTACC
1 AAAATTTCTAAGATTTTACC
77807798 AAAATTTCTAAGATTTTAC
1 AAAATTTCTAAGATTTTAC
77807817 TAACATTTTC
Statistics
Matches: 42, Mismatches: 14, Indels: 6
0.68 0.23 0.10
Matches are distributed among these distances:
19 1 0.02
20 41 0.98
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAATTTCTAAGATTTTACC
Found at i:77807914 original size:20 final size:20
Alignment explanation
Indices: 77807891--77808060 Score: 89
Period size: 20 Copynumber: 8.6 Consensus size: 20
77807881 TATTAAAACA
77807891 TCTAACGATTTACCAATATT
1 TCTAACGATTTACCAATATT
* * * ** *
77807911 TCTAAGGGTTCATAAATAGT
1 TCTAACGATTTACCAATATT
*
77807931 ACTAACGATTTACCAATATT
1 TCTAACGATTTACCAATATT
* **
77807951 TCT-A-G-TTTCACAAATAAA
1 TCTAACGATTT-ACCAATATT
* * *
77807969 TCTAACAATTTACTAAAATT
1 TCTAACGATTTACCAATATT
* *
77807989 TCTAA-AATTTTACCAATACT
1 TCTAACGA-TTTACCAATATT
* * *
77808009 TATAAGGGTTTACCAATATAT
1 TCTAACGATTTACCAATAT-T
* **
77808030 TC-AAAGATTTACCAATAAA
1 TCTAACGATTTACCAATATT
77808049 TCTAACGATTTA
1 TCTAACGATTTA
77808061 TCAAAATTTT
Statistics
Matches: 107, Mismatches: 35, Indels: 16
0.68 0.22 0.10
Matches are distributed among these distances:
17 3 0.03
18 10 0.09
19 6 0.06
20 83 0.78
21 5 0.05
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (20 bp):
TCTAACGATTTACCAATATT
Found at i:77807980 original size:38 final size:38
Alignment explanation
Indices: 77807890--77807992 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
77807880 TTATTAAAAC
*
77807890 ATCTAACGATTTACCAATATTTCTAAGGGTTCATAAATA
1 ATCTAACGATTTACCAATATTTCT-AGGGTTCACAAATA
* *
77807929 GTACTAACGATTTACCAATATTTCTA-GTTTCACAAATAA
1 AT-CTAACGATTTACCAATATTTCTAGGGTTCACAAAT-A
* * *
77807968 ATCTAACAATTTACTAAAATTTCTA
1 ATCTAACGATTTACCAATATTTCTA
77807993 AAATTTTACC
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
38 29 0.53
39 4 0.07
40 22 0.40
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (38 bp):
ATCTAACGATTTACCAATATTTCTAGGGTTCACAAATA
Found at i:77808121 original size:80 final size:79
Alignment explanation
Indices: 77807940--77808123 Score: 194
Period size: 80 Copynumber: 2.3 Consensus size: 79
77807930 TACTAACGAT
* *
77807940 TTACCAATATTTCTAG-TTTCACAAATAAATCTAACAATTTACTAAAATTTCTAAAATTTTACCA
1 TTACCAATATTTCTAGATTTTACCAATAAATCTAACAATTTACTAAAATTTCTAAAATTTTACCA
***
77808004 ATACTTATAAGGGT
66 ATACTTATAAGACC
* * * ***
77808018 TTACCAATATATTCAAAGA-TTTACCAATAAATCTAACGATTTA-TCAAAATTTTTACTGTTTTA
1 TTACCAATAT-TTC-TAGATTTTACCAATAAATCTAACAATTTACT-AAAATTTCTAAAATTTTA
*
77808081 CCAATACTTATTAGACC
63 CCAATACTTATAAGACC
*
77808098 TTACCAAAATTTCTTAGATTTTACCA
1 TTACCAATATTTC-TAGATTTTACCA
77808124 TTATTTTCAA
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
78 10 0.12
79 10 0.12
80 66 0.77
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (79 bp):
TTACCAATATTTCTAGATTTTACCAATAAATCTAACAATTTACTAAAATTTCTAAAATTTTACCA
ATACTTATAAGACC
Found at i:77808227 original size:40 final size:39
Alignment explanation
Indices: 77808183--77808310 Score: 105
Period size: 40 Copynumber: 3.2 Consensus size: 39
77808173 TTTTTGTGAT
* * * *
77808183 TTTACAAAAATATATAAAAATTAACTAATATTTCTAAGGA
1 TTTACAAAAAAATATAAAAATT-ACCAATATATCTAACGA
* * *
77808223 TTTACAAAAAAATTTAACAACTTACCAATATATGTAACGA
1 TTTACAAAAAAATATAA-AAATTACCAATATATCTAACGA
* * * * *
77808263 TTTACTAAAAGATATAAAAATTTATCAAAATATTTAAC-A
1 TTTACAAAAAAATATAAAAA-TTACCAATATATCTAACGA
77808302 GTTTACAAA
1 -TTTACAAA
77808311 TATTTCTAAG
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
39 3 0.04
40 63 0.90
41 4 0.06
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.34
Consensus pattern (39 bp):
TTTACAAAAAAATATAAAAATTACCAATATATCTAACGA
Found at i:77814640 original size:20 final size:20
Alignment explanation
Indices: 77814593--77814645 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
77814583 AGATAGGGGC
* * *
77814593 ACACGCCCGTGTGGCTTGGG
1 ACACGCCTGTGTGGCCTGGA
77814613 ACACGCCTGTGTGGCCTGGA
1 ACACGCCTGTGTGGCCTGGA
*
77814633 ACATGCCTGTGTG
1 ACACGCCTGTGTG
77814646 CTGCAGCCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.13, C:0.28, G:0.36, T:0.23
Consensus pattern (20 bp):
ACACGCCTGTGTGGCCTGGA
Found at i:77815550 original size:60 final size:52
Alignment explanation
Indices: 77815440--77815590 Score: 169
Period size: 52 Copynumber: 2.8 Consensus size: 52
77815430 TCTTACACAG
* ** * * * *
77815440 ATCACATATCATACTGATGCCATATTCCAGATATGGTCTTATAC-GAAATCACATT
1 ATCACAT-T-ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CGCA-A
* *
77815495 ATCACATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACGCAA
1 ATCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACGCAA
*
77815547 ATCACATTGTACCGATGCCATAGCCCAGCTATGGTCTTATACGG
1 ATCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
77815591 AAGTATATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
52 41 0.49
53 32 0.39
54 3 0.04
55 7 0.08
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (52 bp):
ATCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACGCAA
Found at i:77822463 original size:25 final size:26
Alignment explanation
Indices: 77822435--77822489 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
77822425 TGATTTTTGA
77822435 ATTTGATCCCCTA-AATGATGAATAT
1 ATTTGATCCCCTATAATGATGAATAT
* ***
77822460 ATTTTATTGGCTATAATGATGAATAT
1 ATTTGATCCCCTATAATGATGAATAT
77822486 ATTT
1 ATTT
77822490 TATTGGCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.44
Consensus pattern (26 bp):
ATTTGATCCCCTATAATGATGAATAT
Found at i:77822478 original size:26 final size:26
Alignment explanation
Indices: 77822448--77822499 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
77822438 TGATCCCCTA
77822448 AATGATGAATATATTTTATTGGCTAT
1 AATGATGAATATATTTTATTGGCTAT
77822474 AATGATGAATATATTTTATTGGCTAT
1 AATGATGAATATATTTTATTGGCTAT
77822500 GGATTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (26 bp):
AATGATGAATATATTTTATTGGCTAT
Found at i:77826133 original size:2 final size:2
Alignment explanation
Indices: 77826126--77826155 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
77826116 AAACAGCTTT
77826126 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
77826156 AAAGATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:77831809 original size:40 final size:40
Alignment explanation
Indices: 77831751--77831832 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
77831741 GAGAGAAAGA
77831751 AAACAAGCGATGGAAGTTGCCGTTTGAACCATGACATGAG
1 AAACAAGCGATGGAAGTTGCCGTTTGAACCATGACATGAG
* * *
77831791 AAACAAGGGATGGTAGTTGCCGTTTGAACTATGACATGAG
1 AAACAAGCGATGGAAGTTGCCGTTTGAACCATGACATGAG
77831831 AA
1 AA
77831833 TACGTATTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (40 bp):
AAACAAGCGATGGAAGTTGCCGTTTGAACCATGACATGAG
Found at i:77834073 original size:30 final size:30
Alignment explanation
Indices: 77834025--77834098 Score: 98
Period size: 30 Copynumber: 2.4 Consensus size: 30
77834015 AATGTATATC
*
77834025 TTTATAATTTTT-AAAAAATTAAATTA-AAT
1 TTTAT-ATTTTTAAAAAAATTAAAATATAAT
77834054 TTGTATATTTTTAAAAAAATTAAAATATAAT
1 TT-TATATTTTTAAAAAAATTAAAATATAAT
77834085 TTTATATTTATTAA
1 TTTATATTT-TTAA
77834099 TTTAAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
29 8 0.20
30 23 0.57
31 9 0.22
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
TTTATATTTTTAAAAAAATTAAAATATAAT
Found at i:77839522 original size:43 final size:43
Alignment explanation
Indices: 77839468--77839654 Score: 196
Period size: 43 Copynumber: 4.3 Consensus size: 43
77839458 GCGTTTTTTA
* * * *
77839468 AAAAAAGCCGCTAAAGGTCCTGACCTTTCGCGACGCTTTTCCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCC
* * ***
77839511 ACAAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTTTA
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCC
* ** * *
77839554 AAAAATGCCGCTAAAGACCAGGACCTTTAGATGG-GCTTTTCCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAG-CGGCGCTTTTCCC
* * * *
77839597 ACAAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTACT
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCC
77839640 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
77839655 AATATGACCT
Statistics
Matches: 113, Mismatches: 29, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 2 0.02
43 109 0.96
44 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCC
Found at i:77839556 original size:86 final size:86
Alignment explanation
Indices: 77839452--77839654 Score: 270
Period size: 86 Copynumber: 2.4 Consensus size: 86
77839442 GCCGCAAAAA
* * * *
77839452 TTAGTGGCG-TTTTTTAAAAAAAGCCGCTAAAGGTCC-TGACCTTTCG-CGACGCTTTTCCCACA
1 TTAGCGGCGCTTTTTTAAAAAAAGCCGCTAAA-GACCAGGACCTTTAGACG-CGCTTTTCCCACA
77839514 AACGCCGCTAAAGGTCATGACTT
64 AACGCCGCTAAAGGTCATGACTT
* * *
77839537 TTAGCGGCGCTTTTTTAAAAAATGCCGCTAAAGACCAGGACCTTTAGATGGGCTTTTCCCACAAA
1 TTAGCGGCGCTTTTTTAAAAAAAGCCGCTAAAGACCAGGACCTTTAGACGCGCTTTTCCCACAAA
77839602 CGCCGCTAAAGGTCATGACTT
66 CGCCGCTAAAGGTCATGACTT
* *
77839623 TTAGCGGCGCTTTTACT-AAAAACGCCGCTAAA
1 TTAGCGGCGCTTTT-TTAAAAAAAGCCGCTAAA
77839655 AATATGACCT
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
85 11 0.10
86 92 0.88
87 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (86 bp):
TTAGCGGCGCTTTTTTAAAAAAAGCCGCTAAAGACCAGGACCTTTAGACGCGCTTTTCCCACAAA
CGCCGCTAAAGGTCATGACTT
Found at i:77845008 original size:7 final size:7
Alignment explanation
Indices: 77844996--77845130 Score: 78
Period size: 7 Copynumber: 19.1 Consensus size: 7
77844986 ACTAATTAAT
77844996 CTAAACC
1 CTAAACC
77845003 CTAAACC
1 CTAAACC
*
77845010 TCTTAACCC
1 -C-TAAACC
*
77845019 CT-ATCC
1 CTAAACC
*
77845025 CATAAACA
1 C-TAAACC
*
77845033 CTAAACT
1 CTAAACC
77845040 CTAAACC
1 CTAAACC
*
77845047 CTTAACC
1 CTAAACC
*
77845054 CTTAACC
1 CTAAACC
*
77845061 CCAAACC
1 CTAAACC
* *
77845068 ATTACACC
1 -CTAAACC
* *
77845076 TTAAACT
1 CTAAACC
77845083 CT-AACC
1 CTAAACC
77845089 CT-AACC
1 CTAAACC
*
77845095 CTAACCC
1 CTAAACC
77845102 CTAAACC
1 CTAAACC
*
77845109 CTAAATC
1 CTAAACC
* *
77845116 ATAATCC
1 CTAAACC
77845123 CTAAACC
1 CTAAACC
77845130 C
1 C
77845131 ATAATTCATC
Statistics
Matches: 98, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
6 15 0.15
7 69 0.70
8 9 0.09
9 5 0.05
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:77845199 original size:21 final size:21
Alignment explanation
Indices: 77845173--77845257 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
77845163 ACTCCTAAAC
*
77845173 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* * *
77845194 CTTAAACTATAGTTAACTCATAAAC
1 CTTAAACCATA---AAC-CATATAT
*
77845219 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
77845240 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
77845258 AACTATAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 31 0.61
22 3 0.06
24 3 0.06
25 14 0.27
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:77845210 original size:46 final size:46
Alignment explanation
Indices: 77845157--77845246 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
77845147 CTTCAAATAC
*
77845157 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACTA
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
77845203 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
1 TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAAC
77845247 CATAAACCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACTA
Found at i:77845226 original size:7 final size:7
Alignment explanation
Indices: 77845212--77845265 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
77845202 ATAGTTAACT
77845212 CATAAAC
1 CATAAAC
*
77845219 CTTAAAC
1 CATAAAC
*
77845226 CCTAAAC
1 CATAAAC
* *
77845233 CATATAT
1 CATAAAC
*
77845240 CTTAAAC
1 CATAAAC
77845247 CATAAAC
1 CATAAAC
77845254 CATAAAC
1 CATAAAC
*
77845261 TATAA
1 CATAA
77845266 TGATAATTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:77845473 original size:41 final size:41
Alignment explanation
Indices: 77845422--77845518 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
77845412 GTTATATGAC
* **
77845422 TTTTAACGGCGTTTTTGGTAAAA-CGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTT-CCAAAAGCGCCGCTAATGCTCTGGT
77845463 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
77845504 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
77845519 GTTTTTAGTG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 4 0.08
41 48 0.92
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:77845524 original size:17 final size:17
Alignment explanation
Indices: 77845502--77845535 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
77845492 TAATGCTCTG
77845502 GTTTTTAGCGGCGTTTT
1 GTTTTTAGCGGCGTTTT
*
77845519 GTTTTTAGTGGCGTTTT
1 GTTTTTAGCGGCGTTTT
77845536 TGGTAAAACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.29, T:0.56
Consensus pattern (17 bp):
GTTTTTAGCGGCGTTTT
Found at i:77845603 original size:11 final size:11
Alignment explanation
Indices: 77845589--77845614 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
77845579 CGTTTTTTGA
77845589 TAAAACGCCGC
1 TAAAACGCCGC
77845600 TAAAACGCCGC
1 TAAAACGCCGC
77845611 TAAA
1 TAAA
77845615 GCCCTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.31, G:0.15, T:0.12
Consensus pattern (11 bp):
TAAAACGCCGC
Found at i:77847222 original size:42 final size:41
Alignment explanation
Indices: 77847160--77847273 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 41
77847150 TTCGTTTTCT
** * *
77847160 TGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
77847202 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
77847243 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 T-GATGCCATAGCCCAGCTATGGTCTTACAC
77847274 GAATCACATA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 2 0.03
42 64 0.97
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (41 bp):
TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:77847347 original size:47 final size:46
Alignment explanation
Indices: 77847244--77847367 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 46
77847234 ATTCATATAT
* * * * *
77847244 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * **
77847290 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCTTATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
77847337 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
77847368 GAAATCACTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:77847408 original size:31 final size:31
Alignment explanation
Indices: 77847390--77847538 Score: 253
Period size: 31 Copynumber: 4.8 Consensus size: 31
77847380 CACTTGTCTC
77847390 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
77847421 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
77847452 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
***
77847483 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
77847514 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
77847539 TGTCATTTGT
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 113 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:77847620 original size:50 final size:51
Alignment explanation
Indices: 77847514--77847639 Score: 193
Period size: 50 Copynumber: 2.5 Consensus size: 51
77847504 CACTGATCAG
* * *
77847514 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
77847565 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
77847615 GTAGCCGAAGCTATCACTTATCACT
1 GTAGCCGAAGCTATCACTTATCACT
77847640 CATGGTCTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:77849112 original size:10 final size:10
Alignment explanation
Indices: 77849097--77849126 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
77849087 GCTGATGAAT
77849097 ATGAAGAGAA
1 ATGAAGAGAA
77849107 ATGAAGAGAA
1 ATGAAGAGAA
77849117 ATGAAGAGAA
1 ATGAAGAGAA
77849127 TTTTAGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.10
Consensus pattern (10 bp):
ATGAAGAGAA
Found at i:77852782 original size:30 final size:30
Alignment explanation
Indices: 77852741--77852798 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
77852731 ATCTTCAATT
*
77852741 TGCTTTCTTGCTACCTTAGCAAGATAAGAC
1 TGCTCTCTTGCTACCTTAGCAAGATAAGAC
**
77852771 TGCTCTCTTGCTACCTTAGGGAGATAAG
1 TGCTCTCTTGCTACCTTAGCAAGATAAG
77852799 GCTGGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (30 bp):
TGCTCTCTTGCTACCTTAGCAAGATAAGAC
Found at i:77852953 original size:43 final size:45
Alignment explanation
Indices: 77852877--77852971 Score: 133
Period size: 43 Copynumber: 2.2 Consensus size: 45
77852867 AACTTCAAGG
* *
77852877 AGATAAGATCTTCAATTTTCAATCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATTTTCAACCTGCTCTCTTGCTACCTCAGAA
*
77852922 AGATAAGA-C-TC-ATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATT-TTCAACCTGCTCTCTTGCTACCTCAGAA
77852965 AGATAAG
1 AGATAAG
77852972 GCTGATGGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
42 3 0.07
43 34 0.74
44 1 0.02
45 8 0.17
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (45 bp):
AGATAAGATCTTCAATTTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:77853388 original size:177 final size:177
Alignment explanation
Indices: 77853072--77853640 Score: 663
Period size: 177 Copynumber: 3.2 Consensus size: 177
77853062 CTTGGGGCTT
* * * * * **
77853072 AAATCTACTTCATTGCCGATACACGAAGATAAGATTTGCC-TCTTTCGATCTAATCCGCTT-CTG
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATC-TTCGATCTGTTCCG-TTACTG
* * * * *
77853135 -TTCAGGGAAATAAGATCTTCAATCTTTAGTCTGCTTCCTTGCTACCTTAGGAAGATAATACTA-
64 CTT-AGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAT
**
77853198 CAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTCAATAGCTA
128 C-ATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTCAATAGCTA
* *
77853249 AAATCTGCTCCATCGCCGATACATGGAGATAAGATTCGCCATCCTCGATCTGTTCCGTTACTGCT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGTTACTGCT
77853314 TAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATCAT
66 TAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATCAT
* *
77853379 CTTCAACCTGTTCTCTTGCTACCTCAGAGAGATAAGGTCAATGGCTA
131 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTCAATAGCTA
* ** *
77853426 AAATTTGCTCCATTATCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGCTACTGCT
1 AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGTTACTGCT
* * * *
77853491 TAGGGAGATAAGATCTTTCAATCTTCAGTCTGCTTTCTTGCTACTTCAGAAAGATAAGACTAT-A
66 TAGGGAGATAAGAT-ATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATCA
* * * * ** *
77853555 CCTTGAACCTGCTC-CACTG-TAACTTCAGAGAGATAAGG-CTGGT-GACTT
130 TCTTCAACCTGCTCTC-TTGCT-ACCTCAGAGAGATAAGGTC-AATAG-CTA
* *
77853603 AAATCCGCTCCATTGCCTG-TATATGGAGATAAGATTCG
1 AAATCTGCTCCATTGCC-GATACATGGAGATAAGATTCG
77853641 TTGTCTTTGG
Statistics
Matches: 341, Mismatches: 41, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
176 6 0.02
177 285 0.84
178 50 0.15
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (177 bp):
AAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCGTTACTGCT
TAGGGAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATCAT
CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTCAATAGCTA
Found at i:77853397 original size:44 final size:45
Alignment explanation
Indices: 77853318--77853414 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 45
77853308 ACTGCTTAGG
**
77853318 GAGATAAGATATTCAATCTTCAGTCTGCTTCCTTGCTACCTCAG-
1 GAGATAAGATATTCAATCTTCAACCTGCTTCCTTGCTACCTCAGA
77853362 GAAGATAAGACTA-TC-ATCTTCAACCTG-TTCTCTTGCTACCTCAGA
1 G-AGATAAGA-TATTCAATCTTCAACCTGCTTC-CTTGCTACCTCAGA
77853407 GAGATAAG
1 GAGATAAG
77853415 GTCAATGGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
43 3 0.06
44 31 0.66
45 11 0.23
46 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (45 bp):
GAGATAAGATATTCAATCTTCAACCTGCTTCCTTGCTACCTCAGA
Found at i:77853991 original size:64 final size:64
Alignment explanation
Indices: 77853885--77854072 Score: 295
Period size: 64 Copynumber: 2.9 Consensus size: 64
77853875 TGTATCATGA
* *
77853885 TTATGCCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCTACTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTACTAACTAGATGTGATGC
* * *
77853949 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAACCAAATACTCCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTACTAACTAGATGTGATGC
* ** *
77854013 TGATGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTGCTAACTAGATGTG
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTACTAACTAGATGTG
77854073 TTATGAATGA
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 113 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (64 bp):
TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTACTAACTAGATGTGATGC
Found at i:77854138 original size:6 final size:6
Alignment explanation
Indices: 77854124--77854153 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
77854114 TTAAATGATC
77854124 TTTTCT TTTT-T TTTTCT TTTTCT TTTTCT T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T
77854154 GGTAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTCT
Found at i:77854140 original size:11 final size:12
Alignment explanation
Indices: 77854124--77854153 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
77854114 TTAAATGATC
77854124 TTTTCTTTTT-T
1 TTTTCTTTTTCT
77854135 TTTTCTTTTTCT
1 TTTTCTTTTTCT
77854147 TTTTCTT
1 TTTTCTT
77854154 GGTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTCTTTTTCT
Found at i:77855252 original size:20 final size:20
Alignment explanation
Indices: 77855227--77855278 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
77855217 ACATCTATTA
77855227 AATGTGTCTTAAGCATGTTT
1 AATGTGTCTTAAGCATGTTT
77855247 AATGTGTCTTAAGCATGTTT
1 AATGTGTCTTAAGCATGTTT
77855267 AATGTGTCTTAA
1 AATGTGTCTTAA
77855279 AAGTGTGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (20 bp):
AATGTGTCTTAAGCATGTTT
Found at i:77859544 original size:14 final size:14
Alignment explanation
Indices: 77859521--77859550 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
77859511 TTGAAAATAT
77859521 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
77859535 GTTGATTTGGATTG
1 GTTGAATTGGATTG
77859549 GT
1 GT
77859551 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:77860719 original size:21 final size:20
Alignment explanation
Indices: 77860690--77860741 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 20
77860680 AAAAAATTAA
77860690 AAAATAAAAATAAAAAAGCTATT
1 AAAA-AAAAA-AAAAAA-CTATT
* *
77860713 AAAAAAACAAAAAAAATTGTT
1 AAAAAAA-AAAAAAAACTATT
77860734 AAAAAAAA
1 AAAAAAAA
77860742 CATTTTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.04
21 10 0.38
22 9 0.35
23 6 0.23
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.17
Consensus pattern (20 bp):
AAAAAAAAAAAAAAACTATT
Found at i:77860852 original size:6 final size:6
Alignment explanation
Indices: 77860841--77860865 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
77860831 ACCGGTGCCC
77860841 CCTTCT CCTTCT CCTTCT CCTTCT C
1 CCTTCT CCTTCT CCTTCT CCTTCT C
77860866 TTTTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
CCTTCT
Found at i:77864100 original size:18 final size:19
Alignment explanation
Indices: 77864072--77864107 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
77864062 AAATTCACGG
*
77864072 AATTATTTTTTAGTTGATC
1 AATTATTTTTTAATTGATC
77864091 AATT-TTTTTTAATTGAT
1 AATTATTTTTTAATTGAT
77864108 AGGATGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.61
Consensus pattern (19 bp):
AATTATTTTTTAATTGATC
Found at i:77868178 original size:21 final size:22
Alignment explanation
Indices: 77868153--77868199 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
77868143 AAAAATCACT
77868153 TTTTC-TCTTAAAAACGTTTTG
1 TTTTCATCTTAAAAACGTTTTG
* *
77868174 TTTTCATCTTAAAAGCGTTTTT
1 TTTTCATCTTAAAAACGTTTTG
77868196 TTTT
1 TTTT
77868200 TTTTTACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (22 bp):
TTTTCATCTTAAAAACGTTTTG
Found at i:77869622 original size:97 final size:99
Alignment explanation
Indices: 77869470--77869664 Score: 306
Period size: 97 Copynumber: 2.0 Consensus size: 99
77869460 CGAGCCTGTT
* * *
77869470 CCATTTTCACTCTCTCCGAAGTAAATTTCCTTTTCCTCTTTTCTGTTCACGTTCAAGATTGTTCA
1 CCATTTTCACTCTCTCCAAAGTAAATCTACTTTTCCTCTTTTCTGTTCACGTTCAAGATTGTTCA
*
77869535 GTGATTAATTTGCACGCCAAGTAATT-TTTTTTC
66 GCGATTAATTTGCACGCCAAGTAATTCTTTTTTC
*
77869568 CCATTTTCACTCTCTCCAAAGT-AATCTATTTTTCCTCTTTTCTGTTCAAC-TTCAAGATTGTTC
1 CCATTTTCACTCTCTCCAAAGTAAATCTACTTTTCCTCTTTTCTGTTC-ACGTTCAAGATTGTTC
*
77869631 AGCGATTAATTTTCACGCCAAGTAATTCTTTTTT
65 AGCGATTAATTTGCACGCCAAGTAATTCTTTTTT
77869665 TCCGTAATGG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
97 60 0.67
98 29 0.33
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.45
Consensus pattern (99 bp):
CCATTTTCACTCTCTCCAAAGTAAATCTACTTTTCCTCTTTTCTGTTCACGTTCAAGATTGTTCA
GCGATTAATTTGCACGCCAAGTAATTCTTTTTTC
Done.