Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 109 of 187
Found at i:32473895 original size:61 final size:58
Alignment explanation
Indices: 32473739--32473879 Score: 198
Period size: 61 Copynumber: 2.4 Consensus size: 58
32473729 AATTTTTGAG
**
32473739 GATATGCAATCTTAGATATGATATGCAATCCAAGATATGATATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATAT-CAATCCAAGATAT
**
32473798 GATATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATAT-AATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATCAATCCAAGATAT
32473857 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
32473880 ATTTTGTAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 15 0.20
59 12 0.16
61 42 0.55
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (58 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATCAATCCAAGATAT
Found at i:32475352 original size:98 final size:98
Alignment explanation
Indices: 32475231--32475427 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
32475221 TAAAAAATAA
* * *
32475231 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
32475296 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGAATGTTCTTTTAAAG
32475329 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
32475394 TTAAATCTTGGATAAGTGAATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGAATGTTCTTTTAAAG
32475427 T
1 T
32475428 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGAATGTTCTTTTAAAG
Found at i:32476530 original size:22 final size:22
Alignment explanation
Indices: 32476502--32476546 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
32476492 GTTTTGGTAC
32476502 AGGTAAGTTCGTATAAGGATTA
1 AGGTAAGTTCGTATAAGGATTA
32476524 AGGTAAGTTCGTATAAGGATTA
1 AGGTAAGTTCGTATAAGGATTA
32476546 A
1 A
32476547 CTTGTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (22 bp):
AGGTAAGTTCGTATAAGGATTA
Found at i:32478694 original size:20 final size:21
Alignment explanation
Indices: 32478657--32478695 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32478647 TGTTTATCAA
*
32478657 TTTTTCATTTTTTCTCAAAAT
1 TTTTTCATTTGTTCTCAAAAT
*
32478678 TTTTTGATTTGTT-TCAAA
1 TTTTTCATTTGTTCTCAAA
32478696 TTGGTCCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTTCATTTGTTCTCAAAAT
Found at i:32482817 original size:37 final size:38
Alignment explanation
Indices: 32482761--32482863 Score: 142
Period size: 37 Copynumber: 2.8 Consensus size: 38
32482751 ATAGAGTTAT
** *
32482761 TGATGTTCTGATTTACATGTTAAACATGCTAATAT-TC
1 TGATGTTCTGATTCGCATGTTAAGCATGCTAATATATC
*
32482798 TGATGTTCCGATTCGCATGTTAAGCATGCT-ATATATC
1 TGATGTTCTGATTCGCATGTTAAGCATGCTAATATATC
32482835 TGA--TTCTGATTCGCATGTTAAGCATGCTA
1 TGATGTTCTGATTCGCATGTTAAGCATGCTA
32482864 CTGTGATAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
35 24 0.41
36 4 0.07
37 31 0.53
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (38 bp):
TGATGTTCTGATTCGCATGTTAAGCATGCTAATATATC
Found at i:32483704 original size:15 final size:15
Alignment explanation
Indices: 32483684--32483715 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32483674 AATACTCTAT
32483684 TTTCAAAACGCAACA
1 TTTCAAAACGCAACA
32483699 TTTCAAAACGCAACA
1 TTTCAAAACGCAACA
32483714 TT
1 TT
32483716 CTTTCTTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (15 bp):
TTTCAAAACGCAACA
Found at i:32488839 original size:30 final size:30
Alignment explanation
Indices: 32488805--32488884 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
32488795 AGGCTAAATA
* *
32488805 AGGCCTATAGGTCAATTTTGAAATTTATTT
1 AGGCCTATAGGCCAATTTTGAAAATTATTT
* *
32488835 AGGCCTTTAGGCCGATTTT-AAAATTATTT
1 AGGCCTATAGGCCAATTTTGAAAATTATTT
***
32488864 AGGAAAATAGGCCAATTTTGA
1 AGGCCTATAGGCCAATTTTGA
32488885 GGGAAAGCTT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 23 0.57
30 17 0.43
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (30 bp):
AGGCCTATAGGCCAATTTTGAAAATTATTT
Found at i:32494951 original size:40 final size:40
Alignment explanation
Indices: 32494903--32494978 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
32494893 TAAAAAATTC
32494903 ATTTTGAATTAAATAGTTTGAGTTATTTGAGTTAATTCAA
1 ATTTTGAATTAAATAGTTTGAGTTATTTGAGTTAATTCAA
*
32494943 ATTTTGAATTAAATAGTTTGAGTTGTTTGAGTTAAT
1 ATTTTGAATTAAATAGTTTGAGTTATTTGAGTTAAT
32494979 CAAGTTATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (40 bp):
ATTTTGAATTAAATAGTTTGAGTTATTTGAGTTAATTCAA
Found at i:32496769 original size:9 final size:9
Alignment explanation
Indices: 32496755--32496848 Score: 127
Period size: 9 Copynumber: 10.4 Consensus size: 9
32496745 GTAGTGATTC
32496755 AATTCGGTT
1 AATTCGGTT
*
32496764 AATTCGGGT
1 AATTCGGTT
*
32496773 AATTCGATT
1 AATTCGGTT
*
32496782 AATTCGGGT
1 AATTCGGTT
*
32496791 AATCCGGTT
1 AATTCGGTT
32496800 AATTCGGTT
1 AATTCGGTT
*
32496809 AATTCGGGT
1 AATTCGGTT
32496818 AATTCGAG-T
1 AATTCG-GTT
32496827 AATTCGGTT
1 AATTCGGTT
32496836 AATTCGGTT
1 AATTCGGTT
32496845 AATT
1 AATT
32496849 TTTAACCAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
8 1 0.01
9 72 0.97
10 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:32513597 original size:14 final size:14
Alignment explanation
Indices: 32513561--32513590 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32513551 CTTTATGTTT
*
32513561 TATAAATATAATAA
1 TATAATTATAATAA
32513575 TATAATTATAATAA
1 TATAATTATAATAA
32513589 TA
1 TA
32513591 ACATTATTTA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAATTATAATAA
Found at i:32517874 original size:41 final size:41
Alignment explanation
Indices: 32517816--32518019 Score: 273
Period size: 41 Copynumber: 5.0 Consensus size: 41
32517806 TCAATTAAAA
* *
32517816 CAGATTCAACGGCACTTAGCCTGCTAAGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
*
32517858 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* * * *
32517899 CAGTTCACCAGCATTTAGCCTGCTAGGCTTAAAGCTTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
** * *
32517940 CAGATCGTCGGCACTTAGTCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* * *
32517981 CAGTTCACTGGCACTTAGCCTGCTAGGCTTTAAGCCTGA
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGA
32518020 ATTGATTCAC
Statistics
Matches: 139, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 135 0.97
42 4 0.03
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:32517968 original size:82 final size:82
Alignment explanation
Indices: 32517827--32518019 Score: 305
Period size: 82 Copynumber: 2.4 Consensus size: 82
32517817 AGATTCAACG
*
32517827 GCACTTAGCCTGCTAAGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAG
1 GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAG
32517892 CCTGATTCAGTTCACCA
66 CCTGATTCAGTTCACCA
* * ** *
32517909 GCATTTAGCCTGCTAGGCTTAAAGCTTGATTCAGATCGTCGGCACTTAGTCTGCTAGGCTTATAG
1 GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAG
**
32517974 CCTGATTCAGTTCACTG
66 CCTGATTCAGTTCACCA
*
32517991 GCACTTAGCCTGCTAGGCTTTAAGCCTGA
1 GCACTTAGCCTGCTAGGCTTAAAGCCTGA
32518020 ATTGATTCAC
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 100 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (82 bp):
GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAG
CCTGATTCAGTTCACCA
Found at i:32518029 original size:41 final size:40
Alignment explanation
Indices: 32517818--32518049 Score: 190
Period size: 41 Copynumber: 5.7 Consensus size: 40
32517808 AATTAAAACA
* *
32517818 GATTCAAC-GGCACTTAGCCTGCTAAGCTTAAAGCCTGATT
1 GATTC-ACTGGCACTTAGCCTGCTAGGCTTTAAGCCTGATT
*
32517858 CAGA-TCACCGGCACTTAGCCTGCTAGGC-TTATAGCCTGATT
1 --GATTCACTGGCACTTAGCCTGCTAGGCTTTA-AGCCTGATT
* ** * * *
32517899 CAGTTCACCAGCATTTAGCCTGCTAGGCTTAAAGCTTGATT
1 GA-TTCACTGGCACTTAGCCTGCTAGGCTTTAAGCCTGATT
* *
32517940 CAGA-TC-GTCGGCACTTAGTCTGCTAGGC-TTATAGCCTGATT
1 --GATTCACT-GGCACTTAGCCTGCTAGGCTTTA-AGCCTGATT
*
32517981 CAGTTCACTGGCACTTAGCCTGCTAGGCTTTAAGCCTGAATT
1 GA-TTCACTGGCACTTAGCCTGCTAGGCTTTAAGCCTG-ATT
*
32518023 GATTCACTGGCAATATA-CCTGCTAGGC
1 GATTCACTGGCACT-TAGCCTGCTAGGC
32518050 GCTGAGCCTG
Statistics
Matches: 155, Mismatches: 20, Indels: 31
0.75 0.10 0.15
Matches are distributed among these distances:
39 2 0.01
40 6 0.04
41 132 0.85
42 14 0.09
43 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GATTCACTGGCACTTAGCCTGCTAGGCTTTAAGCCTGATT
Found at i:32518044 original size:123 final size:123
Alignment explanation
Indices: 32517825--32518049 Score: 321
Period size: 123 Copynumber: 1.8 Consensus size: 123
32517815 ACAGATTCAA
32517825 CGGCACTTAGCCTGCTAAGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAT
1 CGGCACTTAGCCTGCTAAGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAT
*
32517890 AGCCTGATTCAGTTCACCAGCATTTAGCCTGCTAGGCTTAAAGCTTGATTCAGATCGT
66 AGCCTGATTCAGTTCACCAGCATATAGCCTGCTAGGCTTAAAGCTTGATTCAGATCGT
* * * * *
32517948 CGGCACTTAGTCTGCTAGGCTTATAGCCTGATTCAGTTCACTGGCACTTAGCCTGCTAGGCTT-T
1 CGGCACTTAGCCTGCTAAGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAT
* **
32518012 AAGCCTGAATTGA-TTCACTGGCAATATA-CCTGCTAGGC
66 -AGCCTG-ATTCAGTTCACCAGC-ATATAGCCTGCTAGGC
32518050 GCTGAGCCTG
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
122 1 0.01
123 81 0.90
124 8 0.09
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (123 bp):
CGGCACTTAGCCTGCTAAGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTAT
AGCCTGATTCAGTTCACCAGCATATAGCCTGCTAGGCTTAAAGCTTGATTCAGATCGT
Found at i:32518058 original size:41 final size:41
Alignment explanation
Indices: 32517949--32518062 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 41
32517939 TCAGATCGTC
* * * *
32517949 GGCACTTAGTCTGCTAGGC-TTATAGCCTG-ATTCAGTTCACT
1 GGCAATTAGCCTGCTAGGCGCTA-AGCCTGAATTGA-TTCACT
* **
32517990 GGCACTTAGCCTGCTAGGCTTTAAGCCTGAATTGATTCACT
1 GGCAATTAGCCTGCTAGGCGCTAAGCCTGAATTGATTCACT
*
32518031 GGCAATATA-CCTGCTAGGCGCTGAGCCTGAAT
1 GGCAAT-TAGCCTGCTAGGCGCTAAGCCTGAAT
32518063 ACGCAATTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 55 0.86
42 9 0.14
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.30
Consensus pattern (41 bp):
GGCAATTAGCCTGCTAGGCGCTAAGCCTGAATTGATTCACT
Found at i:32518060 original size:82 final size:81
Alignment explanation
Indices: 32517820--32518049 Score: 286
Period size: 82 Copynumber: 2.8 Consensus size: 81
32517810 TTAAAACAGA
* * *
32517820 TTCAACGGCACTTAGCCTGCTAAGCTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT-AGATCACTGGCACTTAGCCTGCTAGG
32517885 CTTATAGCCTGATTCAG
65 CTTATAGCCTGATTCAG
* * * * *
32517902 TTCACCAGCATTTAGCCTGCTAGGCTTAAAGCTTGATTCAGATC-GTCGGCACTTAGTCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT-AGATCACT-GGCACTTAGCCTGCTAG
32517966 GCTTATAGCCTGATTCAG
64 GCTTATAGCCTGATTCAG
* * *
32517984 TTCACTGGCACTTAGCCTGCTAGGCTTTAAGCCTGAATT-GATTCACTGGCAATATA-CCTGCTA
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTG-ATTAGA-TCACTGGCACT-TAGCCTGCTA
32518047 GGC
63 GGC
32518050 GCTGAGCCTG
Statistics
Matches: 127, Mismatches: 16, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
81 2 0.02
82 119 0.94
83 6 0.05
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (81 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTAGATCACTGGCACTTAGCCTGCTAGGC
TTATAGCCTGATTCAG
Found at i:32520445 original size:19 final size:19
Alignment explanation
Indices: 32520423--32520504 Score: 56
Period size: 19 Copynumber: 4.3 Consensus size: 19
32520413 GTGTGGGTTT
*
32520423 ATGCACCTCGTGTGCCAAG
1 ATGCACCTCATGTGCCAAG
* * *
32520442 ATGCTCTTCATGTGCCAGG
1 ATGCACCTCATGTGCCAAG
* * * *
32520461 ATGCGCTTCAAGTGCCAGG
1 ATGCACCTCATGTGCCAAG
*** *
32520480 ATGCGTTTCATGTGCCAAT
1 ATGCACCTCATGTGCCAAG
32520499 ATGCAC
1 ATGCAC
32520505 TATGTGTGTC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.21, C:0.27, G:0.26, T:0.27
Consensus pattern (19 bp):
ATGCACCTCATGTGCCAAG
Found at i:32520978 original size:24 final size:24
Alignment explanation
Indices: 32520946--32520995 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
32520936 ACTATTTAAT
32520946 AATATCAAATAATCAAAGATTCTC
1 AATATCAAATAATCAAAGATTCTC
*
32520970 AATATCAAATAATCGAAGATTCTC
1 AATATCAAATAATCAAAGATTCTC
32520994 AA
1 AA
32520996 CACTCCTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (24 bp):
AATATCAAATAATCAAAGATTCTC
Found at i:32532726 original size:21 final size:21
Alignment explanation
Indices: 32532693--32532746 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
32532683 TTAATAAATG
32532693 TTTTTATA-A-TTCTCT-AATT
1 TTTTTATATATTTCT-TGAATT
32532712 TTTTTATATATTTCTTGAATT
1 TTTTTATATATTTCTTGAATT
*
32532733 TTATTTATTTATTT
1 TT-TTTATATATTT
32532747 ATAAATCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 8 0.27
20 2 0.07
21 10 0.33
22 10 0.33
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTTATATATTTCTTGAATT
Found at i:32533211 original size:3 final size:3
Alignment explanation
Indices: 32533203--32533249 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
32533193 GTTTTTAAGC
32533203 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32533250 TTAATTAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32533266 original size:13 final size:13
Alignment explanation
Indices: 32533248--32533272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32533238 ATTATTATTA
32533248 TTTTAATTAATAT
1 TTTTAATTAATAT
32533261 TTTTAATTAATA
1 TTTTAATTAATA
32533273 AATAATATAT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATTAATAT
Found at i:32533278 original size:24 final size:24
Alignment explanation
Indices: 32533251--32533297 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
32533241 ATTATTATTT
32533251 TAAT-TAATATTTTTAATTAATAAA
1 TAATATAATA-TTTTAATTAATAAA
*
32533275 TAATATATTATTTTAATTAATAA
1 TAATATAATATTTTAATTAATAA
32533298 CTCTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATATAATATTTTAATTAATAAA
Found at i:32533309 original size:20 final size:18
Alignment explanation
Indices: 32533249--32533309 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 18
32533239 TTATTATTAT
32533249 TTTAATTAAT-ATTTTTA
1 TTTAATTAATAATTTTTA
* * *
32533266 ATTAATAAATAATATATTA
1 TTTAATTAATAAT-TTTTA
32533285 TTTTAATTAATAACTCTTTTA
1 -TTTAATTAATAA-T-TTTTA
32533306 TTTA
1 TTTA
32533310 TAAAATAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
17 8 0.24
18 2 0.06
19 4 0.12
20 14 0.42
21 5 0.15
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATTAATAATTTTTA
Found at i:32533458 original size:87 final size:95
Alignment explanation
Indices: 32533289--32533470 Score: 238
Period size: 87 Copynumber: 2.0 Consensus size: 95
32533279 ATATTATTTT
* *
32533289 AATTAATAACTCTTTTATTTATAAAATAAAATAATAAATATGTAATTATATAATAATAGAAATAT
1 AATTAATAACTCCTTTATTTAT--AATAAAATAATAAATATATAATTATATAATAATAGAAATAT
32533354 TATATATATATCATTATGTTAAAAATATTTGA
64 TATATATATATCATTATGTTAAAAATATTTGA
32533386 AATTAATAACTCCTTTATTTAT-AT-AAAT-A-AAATA-ATAATTATATAAT-A-A-AAATATT-
1 AATTAATAACTCCTTTATTTATAATAAAATAATAAATATATAATTATATAATAATAGAAATATTA
* *
32533442 TGATATTTATCATTATGTTAAATATATTT
66 T-ATATATATCATTATGTTAAAAATATTT
32533471 TATTTTTTTA
Statistics
Matches: 80, Mismatches: 4, Indels: 12
0.83 0.04 0.12
Matches are distributed among these distances:
86 1 0.01
87 32 0.40
88 1 0.01
89 1 0.01
90 12 0.15
91 5 0.06
92 1 0.01
93 4 0.05
94 2 0.03
97 21 0.26
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (95 bp):
AATTAATAACTCCTTTATTTATAATAAAATAATAAATATATAATTATATAATAATAGAAATATTA
TATATATATCATTATGTTAAAAATATTTGA
Found at i:32533913 original size:13 final size:13
Alignment explanation
Indices: 32533895--32533919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32533885 TAATATATTT
32533895 ATTAATTAAAAAC
1 ATTAATTAAAAAC
32533908 ATTAATTAAAAA
1 ATTAATTAAAAA
32533920 TAAAAAACTT
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:32537343 original size:27 final size:27
Alignment explanation
Indices: 32537313--32537364 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
32537303 AATTAAAAGA
*
32537313 TAAAGA-ACAAATTAAAAAAGTAAATAT
1 TAAAGACAAAAATTAAAAAA-TAAATAT
*
32537340 TAAAGACAAAAATTAAAGAATAAAT
1 TAAAGACAAAAATTAAAAAATAAAT
32537365 TAACTTACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (27 bp):
TAAAGACAAAAATTAAAAAATAAATAT
Found at i:32538074 original size:12 final size:13
Alignment explanation
Indices: 32538043--32538080 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
32538033 GATCCGTTCG
32538043 TATTAATTTTTTA
1 TATTAATTTTTTA
32538056 TATTAATTTTTTA
1 TATTAATTTTTTA
32538069 TA-TAATTTTTTA
1 TATTAATTTTTTA
32538081 AAAAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTAATTTTTTA
Found at i:32538347 original size:19 final size:19
Alignment explanation
Indices: 32538320--32538368 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
32538310 TGAAAAAAAC
* *
32538320 AACAATAAAATAGCAACAA
1 AACAGTAAAACAGCAACAA
*
32538339 AACAGTAAAAACAGCAAGAA
1 AACAGT-AAAACAGCAACAA
*
32538359 AATAGTAAAA
1 AACAGTAAAA
32538369 AAATAATAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.67, C:0.12, G:0.10, T:0.10
Consensus pattern (19 bp):
AACAGTAAAACAGCAACAA
Found at i:32538354 original size:20 final size:20
Alignment explanation
Indices: 32538326--32538369 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
32538316 AAACAACAAT
*
32538326 AAAATAGCAACAAAACAGTA
1 AAAACAGCAACAAAACAGTA
* *
32538346 AAAACAGCAAGAAAATAGTA
1 AAAACAGCAACAAAACAGTA
32538366 AAAA
1 AAAA
32538370 AATAATAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.68, C:0.11, G:0.11, T:0.09
Consensus pattern (20 bp):
AAAACAGCAACAAAACAGTA
Found at i:32539226 original size:19 final size:19
Alignment explanation
Indices: 32539198--32539234 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32539188 CAATTAAGTT
* *
32539198 AAATTTAAATTGTTTTTTA
1 AAATTAAAATAGTTTTTTA
32539217 AAATTAAAATAGTTTTTT
1 AAATTAAAATAGTTTTTT
32539235 CATTCATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
AAATTAAAATAGTTTTTTA
Found at i:32543640 original size:18 final size:18
Alignment explanation
Indices: 32543615--32543696 Score: 128
Period size: 18 Copynumber: 4.6 Consensus size: 18
32543605 ATGGTCTGAC
*
32543615 TCTTCTTCCTCAACTGCA
1 TCTTCTTCCTCACCTGCA
*
32543633 TTTTCTTCCTCACCTGCA
1 TCTTCTTCCTCACCTGCA
32543651 TCTTCTTCCTCACCTGCA
1 TCTTCTTCCTCACCTGCA
*
32543669 TCTTCTTCCTCACCTACA
1 TCTTCTTCCTCACCTGCA
*
32543687 ACTTCTTCCT
1 TCTTCTTCCT
32543697 TGGTCACATC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.13, C:0.41, G:0.04, T:0.41
Consensus pattern (18 bp):
TCTTCTTCCTCACCTGCA
Found at i:32550636 original size:22 final size:22
Alignment explanation
Indices: 32550608--32550652 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
32550598 TTTGTACTTA
32550608 TGGATCGAAGAAATAAGTGAAG
1 TGGATCGAAGAAATAAGTGAAG
*
32550630 TGGATCGAAGAAATGAGTGAAG
1 TGGATCGAAGAAATAAGTGAAG
32550652 T
1 T
32550653 AGTAACTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.33, T:0.20
Consensus pattern (22 bp):
TGGATCGAAGAAATAAGTGAAG
Found at i:32553023 original size:25 final size:26
Alignment explanation
Indices: 32553002--32553051 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
32552992 CAAAAAAACT
* *
32553002 AAAATCTAACCTAAAAA-GAAAAGAG
1 AAAACCTAAACTAAAAATGAAAAGAG
32553027 AAAACCTAAACTAAAAATGAAAAGA
1 AAAACCTAAACTAAAAATGAAAAGA
32553052 ATAGAAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.66, C:0.12, G:0.10, T:0.12
Consensus pattern (26 bp):
AAAACCTAAACTAAAAATGAAAAGAG
Found at i:32557347 original size:4 final size:4
Alignment explanation
Indices: 32557338--32557375 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
32557328 CATTTGCTTG
* *
32557338 ATTT ATTT ATTC ATTT ATTT ATTT ACTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
32557376 CCATTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (4 bp):
ATTT
Found at i:32569655 original size:50 final size:50
Alignment explanation
Indices: 32569596--32570267 Score: 435
Period size: 50 Copynumber: 13.5 Consensus size: 50
32569586 GCAGCGGAAC
* * * *
32569596 AGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTACAATTTGAA
1 AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGACATTGCAATTTGAA
* * * * ***
32569646 AGATCGAAGCCACAACGGCGAATCTTA-TTTCCAGGCGA-TGC-AGCAGAA
1 AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGAC-ATTGCAATTTGAA
* * *
32569694 CAGATTC-AAGCTACAACAGCGAATCTCACTTCCCCGACATTGTAATTTGAA
1 -AGA-TCGAAGCCACAACGGCGAATCTCACTTCCCCGACATTGCAATTTGAA
* * * * ***
32569745 AGATCGAAGCCACAATGGCGAATCTTACTT-TCCTAGCGA-TGC-AGCGGAA
1 AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGA-C-ATTGCAATTTGAA
* * *
32569794 TAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTGAA
1 -AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGACATTGCAATTTGAA
* * * * **** *
32569845 AGATTGAAGCCACAACGGCGAATCTTACTT-TCCTAGCGA-TGCAGCGGGAC
1 AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGA-C-ATTGCAATTTGAA
* * *
32569895 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCAACATTGCAATTTGAA
1 AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGACATTGCAATTTGAA
* * * * ***
32569945 AGATCGAAGCCACAACGGTGAATCTTACTT-TCCTAGCGA-TGC-AGCGGAA
1 AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGA-C-ATTGCAATTTGAA
* * *
32569994 CAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTGAA
1 -AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGACATTGCAATTTGAA
* * * * ***
32570045 AGATCGAAGCCACAACGGCGAATCTTA-TTTCCAGGCGA-TGC-AGCGGAA
1 AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGAC-ATTGCAATTTGAA
* * * *
32570093 CAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTACAATTTGAA
1 -AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGACATTGCAATTTGAA
* * * ***
32570144 AGATCGAAGCCACAACGGTGAATCTTACTT-CCAGACGA-TGC-AGCAGAA
1 AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGAC-ATTGCAATTTGAA
*** * * * *
32570192 CAGATCGAAGCTTTATCAGCAAATCTCACTTCCCCGACATTGCAATTTAAA
1 -AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGACATTGCAATTTGAA
* *
32570243 AGATTGAAGCCACAACGGTGAATCT
1 AGATCGAAGCCACAACGGCGAATCT
32570268 TATTTCCAGG
Statistics
Matches: 458, Mismatches: 131, Indels: 66
0.70 0.20 0.10
Matches are distributed among these distances:
48 12 0.03
49 115 0.25
50 300 0.66
51 31 0.07
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (50 bp):
AGATCGAAGCCACAACGGCGAATCTCACTTCCCCGACATTGCAATTTGAA
Found at i:32569833 original size:100 final size:99
Alignment explanation
Indices: 32569545--32570371 Score: 1207
Period size: 99 Copynumber: 8.3 Consensus size: 99
32569535 TTGCAACTCA
* * * *
32569545 AAAGATTGAAGCCACGACGGTGAATCTTATTCCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
*
32569610 ACAGCGAATCTCACTTCCCCGACATTACAATTTG
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* *
32569644 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCAGAACAGATTCAAGCTACA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
*
32569709 ACAGCGAATCTCACTTCCCCGACATTGTAATTTG
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* *
32569743 AAAGATCGAAGCCACAATGGCGAATCTTACTTTCCTA-GCGATGCAGCGGAATAGATTGAAGCTA
1 AAAGATCGAAGCCACAACGGCGAATCTTA-TTTCC-AGGCGATGCAGCGGAACAGATTGAAGCTA
32569807 CAACAGCGAATCTCACTTCCCCGACATTGCAATTTG
64 CAACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* *
32569843 AAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTA-GCGATGCAGCGGGACAGATTGAAGCTA
1 AAAGATCGAAGCCACAACGGCGAATCTTA-TTTCC-AGGCGATGCAGCGGAACAGATTGAAGCTA
* *
32569907 CAACGGCGAATCTCACTTCCCCAACATTGCAATTTG
64 CAACAGCGAATCTCACTTCCCCGACATTGCAATTTG
*
32569943 AAAGATCGAAGCCACAACGGTGAATCTTACTTTCCTA-GCGATGCAGCGGAACAGATTGAAGCTA
1 AAAGATCGAAGCCACAACGGCGAATCTTA-TTTCC-AGGCGATGCAGCGGAACAGATTGAAGCTA
32570007 CAACAGCGAATCTCACTTCCCCGACATTGCAATTTG
64 CAACAGCGAATCTCACTTCCCCGACATTGCAATTTG
32570043 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
*
32570108 ACAGCGAATCTCACTTCCCCGACATTACAATTTG
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* * * * * **
32570142 AAAGATCGAAGCCACAACGGTGAATCTTACTTCCAGACGATGCAGCAGAACAGATCGAAGCTTTA
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
* * *
32570207 TCAGCAAATCTCACTTCCCCGACATTGCAATTTA
66 ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
* * * *
32570241 AAAGATTGAAGCCACAACGGTGAATCTTATTTCCAGGCGATGCAGCGGCACAGATTGAAGCTACG
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
** * * * *
32570306 AC-GACGAATCTTGCTTTCCCGATATTACAA-CT-
66 ACAG-CGAATCTCACTTCCCCGACATTGCAATTTG
* *
32570338 AAAGATTGAAGCCGCAACGGCGAATCTTATTTCC
1 AAAGATCGAAGCCACAACGGCGAATCTTATTTCC
32570372 TCGGCGAGAC
Statistics
Matches: 668, Mismatches: 56, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
97 32 0.05
98 3 0.00
99 351 0.53
100 281 0.42
101 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (99 bp):
AAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACA
ACAGCGAATCTCACTTCCCCGACATTGCAATTTG
Found at i:32572180 original size:4 final size:4
Alignment explanation
Indices: 32572171--32572208 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
32572161 CATTTGCTTG
* *
32572171 ATTT ATTT ATTC ATTT ATTT ATTT ACTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
32572209 CCATTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (4 bp):
ATTT
Found at i:32573512 original size:21 final size:21
Alignment explanation
Indices: 32573488--32573540 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 21
32573478 AAATATAATG
*
32573488 TATTATATATTTTTTAAAATT
1 TATTATATATTTTTTAAAATA
*
32573509 TATTA-A-ATTTATTAAAATA
1 TATTATATATTTTTTAAAATA
*
32573528 T-TTATGTATTTTT
1 TATTATATATTTTT
32573541 AGTTTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 3 0.12
19 12 0.46
20 6 0.23
21 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTATATATTTTTTAAAATA
Found at i:32576638 original size:22 final size:24
Alignment explanation
Indices: 32576588--32576638 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
32576578 TTGCAATGCT
32576588 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
32576613 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
32576634 TTTAT
1 TTTAT
32576639 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:32576852 original size:34 final size:35
Alignment explanation
Indices: 32576796--32576862 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
32576786 CAAACACCAG
*
32576796 AAAATATTTTCCAGCAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGCAAATCATTTTACAGAAAAGT
* *
32576831 AAAACATTTTCCA-TAAATCATTTTACGGAAAA
1 AAAACATTTTCCAGCAAATCATTTTACAGAAAA
32576863 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGCAAATCATTTTACAGAAAAGT
Found at i:32585583 original size:41 final size:41
Alignment explanation
Indices: 32585555--32585697 Score: 209
Period size: 41 Copynumber: 3.5 Consensus size: 41
32585545 TGATTCAGAA
*
32585555 CACCTGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCTGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
* *
32585596 CACCAGCATTAAGCCTGCTAGATGTAAAGTCTGAATTATTT
1 CACCTGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
*
32585637 CA-CTGGCATTAAGCTTGCTAGACGTAAAGTCTGAATTATTT
1 CACCT-GCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
*
32585678 CA-CTGGCATTAAGTCTGCTA
1 CACCT-GCATTAAGCCTGCTA
32585698 TGCACAGAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 1 0.01
41 92 0.99
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (41 bp):
CACCTGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
Found at i:32585712 original size:82 final size:81
Alignment explanation
Indices: 32585560--32585713 Score: 211
Period size: 82 Copynumber: 1.9 Consensus size: 81
32585550 CAGAACACCT
*
32585560 GCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTAAGCCTGCTAGATGTAAAG
1 GCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTAAGCCTGCTA-ATGCAAAG
*
32585625 TCTGAATTATTTCACTG
65 CCTGAATTATTTCACTG
* * ** *
32585642 GCATTAAGCTTGCTAGACGTAAAGTCTGAATTATTTCACTGGCATTAAGTCTGCT-ATGCACAGA
1 GCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTAAGCCTGCTAATGCA-A-A
32585706 GCCTGAAT
64 GCCTGAAT
32585714 AACTCAGATA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 4 0.06
81 1 0.02
82 58 0.92
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (81 bp):
GCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTAAGCCTGCTAATGCAAAGC
CTGAATTATTTCACTG
Found at i:32585925 original size:61 final size:61
Alignment explanation
Indices: 32585820--32585935 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
32585810 GTATATATAA
* * * * *
32585820 TTCATAACATTAAGTTTAGCTCAAAGAACTTGTATATTACATTCGAACCTCATATGTTTAG
1 TTCAAAACATTAAATTCAGCTCAAAGAACTTGTATACTACATTCGAACCACATATGTTTAG
* * *
32585881 TTCAAAACATTAAATTCAGCTCAATGAATTTGTA-ACCTATATTCGAACCACATAT
1 TTCAAAACATTAAATTCAGCTCAAAGAACTTGTATA-CTACATTCGAACCACATAT
32585936 ATATATATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
60 1 0.02
61 45 0.98
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (61 bp):
TTCAAAACATTAAATTCAGCTCAAAGAACTTGTATACTACATTCGAACCACATATGTTTAG
Found at i:32586334 original size:2 final size:2
Alignment explanation
Indices: 32586327--32586355 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32586317 CTAGTGTATG
32586327 AT 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 AT A
32586356 AATTCCAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32588799 original size:75 final size:75
Alignment explanation
Indices: 32588670--32588864 Score: 257
Period size: 75 Copynumber: 2.6 Consensus size: 75
32588660 ATTAATGGCA
* * * * * * *
32588670 TTGCCTTCGATAGAATATCCGTTGAATTGGCAGATCGAGGTACATGAAATATGACTCTATACTGA
1 TTGCCTTCGATGGAATATCCATTGAACTGGCAGATCGTGGTACATAAAACATGACTCTATAATGA
* **
32588735 ATTTATGGTG
66 ATTCATGACG
*
32588745 TTGCCTTCGATGGAATATCCATTGAACTGGTAGATCGTGGTACATAAAACATGACTCTATAATGA
1 TTGCCTTCGATGGAATATCCATTGAACTGGCAGATCGTGGTACATAAAACATGACTCTATAATGA
32588810 ATTCATGACG
66 ATTCATGACG
* *
32588820 TTGCCTTCGATGCAA-AGTGCATTGAACTGGCAGATCGTGGTACAT
1 TTGCCTTCGATGGAATA-TCCATTGAACTGGCAGATCGTGGTACAT
32588865 GAATAATGGT
Statistics
Matches: 105, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
74 1 0.01
75 104 0.99
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (75 bp):
TTGCCTTCGATGGAATATCCATTGAACTGGCAGATCGTGGTACATAAAACATGACTCTATAATGA
ATTCATGACG
Found at i:32605997 original size:22 final size:22
Alignment explanation
Indices: 32605948--32605997 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
32605938 AATCAAGTTT
32605948 ATATTTATTATATTTATAATAA
1 ATATTTATTATATTTATAATAA
* *
32605970 AT-TTTATTTTTATTTTTAA-AA
1 ATATTTA-TTATATTTATAATAA
32605991 ATATTTA
1 ATATTTA
32605998 AAATATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTATTATATTTATAATAA
Found at i:32610045 original size:76 final size:75
Alignment explanation
Indices: 32609903--32610046 Score: 162
Period size: 76 Copynumber: 1.9 Consensus size: 75
32609893 AGCATTAATT
* * * * * **
32609903 TTTTGGATGAATAATTTAAGCTCATGCTTAGGAGCGATACAATATTTTAAGCTCGTGTTTGGGAG
1 TTTTGGATGAATAATTTAAGATCATGCTTAGGAACAATACAATAATTTAAGCTCGTGCTTAAGAG
32609968 CATCATTTTG
66 CATCATTTTG
* * *** *
32609978 TTTTGGATGAATAATTTTATGATCATGTTTAGGAACAATGTGATAATTTAAGCTTGTGCTTAAGA
1 TTTTGGATGAATAA-TTTAAGATCATGCTTAGGAACAATACAATAATTTAAGCTCGTGCTTAAGA
32610043 GCAT
65 GCAT
32610047 TAATTTTTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
75 14 0.25
76 41 0.75
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (75 bp):
TTTTGGATGAATAATTTAAGATCATGCTTAGGAACAATACAATAATTTAAGCTCGTGCTTAAGAG
CATCATTTTG
Found at i:32618698 original size:120 final size:120
Alignment explanation
Indices: 32618480--32618709 Score: 388
Period size: 120 Copynumber: 1.9 Consensus size: 120
32618470 GCTTTGGAAT
32618480 TTTTCAATGCTTTCTAAAAAATTCTATGAGTTCCTGATTTAGTCTCGACTTGTTTCTAACATGTA
1 TTTTCAATGCTTTCTAAAAAATTCTATGAGTTCCTGATTTAGTCTCGACTTGTTTCTAACATGTA
* *
32618545 TTTAGGGCCTCGAGGTCTCATATAAGGGTCAATATGTATGATTTTGATTTGAAAA
66 TTTAGGGCCTCGAGGGCTCATATAAGGGACAATATGTATGATTTTGATTTGAAAA
* * *
32618600 TTTTCAATGCTTTCTGAAAAATTCTCTGAGTTCCTGATTTAGTCTCGACTTGTTTCTAACCTGTA
1 TTTTCAATGCTTTCTAAAAAATTCTATGAGTTCCTGATTTAGTCTCGACTTGTTTCTAACATGTA
* **
32618665 TTTAGGGCCTTGAGGGCTTGTATAAGGGACAATATGTATGATTTT
66 TTTAGGGCCTCGAGGGCTCATATAAGGGACAATATGTATGATTTT
32618710 AATTGGTTTT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 102 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (120 bp):
TTTTCAATGCTTTCTAAAAAATTCTATGAGTTCCTGATTTAGTCTCGACTTGTTTCTAACATGTA
TTTAGGGCCTCGAGGGCTCATATAAGGGACAATATGTATGATTTTGATTTGAAAA
Found at i:32631771 original size:24 final size:25
Alignment explanation
Indices: 32631743--32631798 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
32631733 TTAATATTGT
32631743 TTTCTCTCATCCCATAATCTT-TCTA
1 TTTCTCTCA-CCCATAATCTTCTCTA
*
32631768 -TTCTCTCACCCTTAATCTTCTCTA
1 TTTCTCTCACCCATAATCTTCTCTA
32631792 TTTCTCT
1 TTTCTCT
32631799 TATTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 10 0.36
24 12 0.43
25 6 0.21
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTCTCTCACCCATAATCTTCTCTA
Found at i:32633068 original size:13 final size:13
Alignment explanation
Indices: 32633050--32633074 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32633040 GCTACTGTTT
32633050 GTTGATCACTATC
1 GTTGATCACTATC
32633063 GTTGATCACTAT
1 GTTGATCACTAT
32633075 AGTCGTGCCA
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:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (13 bp):
GTTGATCACTATC
Found at i:32636580 original size:35 final size:35
Alignment explanation
Indices: 32636534--32636605 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
32636524 GTTATGGTCG
*
32636534 AATCCGGAAGTGTTACAAAGAAGGGTTTCGAAACT
1 AATCCGAAAGTGTTACAAAGAAGGGTTTCGAAACT
*
32636569 AATCCGAAAGTGTTACAAAGAAGGGTTTTGAAACT
1 AATCCGAAAGTGTTACAAAGAAGGGTTTCGAAACT
32636604 AA
1 AA
32636606 CTTTACTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (35 bp):
AATCCGAAAGTGTTACAAAGAAGGGTTTCGAAACT
Found at i:32642687 original size:15 final size:14
Alignment explanation
Indices: 32642654--32642687 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
32642644 AAAATATTTA
*
32642654 ATTTATCAAAAATC
1 ATTTTTCAAAAATC
*
32642668 ATTTTTCAAAAATT
1 ATTTTTCAAAAATC
32642682 ATTTTT
1 ATTTTT
32642688 ATCCAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTTCAAAAATC
Found at i:32645706 original size:18 final size:17
Alignment explanation
Indices: 32645680--32645729 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
32645670 ATTAAGAATT
*
32645680 TTATGAAATTATATATTA
1 TTATTAAATTATAT-TTA
32645698 TTATTAAATTATATTTA
1 TTATTAAATTATATTTA
*
32645715 ATATT-AATTAT-TTTA
1 TTATTAAATTATATTTA
32645730 AATTGTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 7 0.23
18 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATTAAATTATATTTA
Found at i:32645772 original size:44 final size:43
Alignment explanation
Indices: 32645640--32645943 Score: 136
Period size: 47 Copynumber: 6.7 Consensus size: 43
32645630 ATATTTTGAT
* *
32645640 TTTAGTAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAA
1 TTTA-TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTA--AA
* * * * * **
32645687 ATTATATATT-ATTATTAA-ATTATATTTAATATTAATTATTTTAAA
1 TTTATAAATTCA-TA-TAAGA--AAATTTATTATCAAGAATTTTAAA
32645732 TTGTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAA
1 TT-TATAAATTCATATAAGAAAATTTATTATCAAGAATTTTA--AA
* * * * * **
32645778 ATTATATA-TCATTATTAA-ATTATATTTAATATTAATTATTTTAAA
1 TTTATAAATTCA-TA-TAAGA--AAATTTATTATCAAGAATTTTAAA
32645823 TTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAA
1 TT-TATAAATTCATATAAGAAAATTTATTATCAAGAATTTTA--AA
* * * * **
32645869 ATTATATATT-ATTATTAA-ATTATATTTAATAAT-AATTATTTTAAA
1 TTTATAAATTCA-TA-TAAGA--AAATTT-ATTATCAAGAATTTTAAA
*
32645914 TTATACAAATTCATATAAGAAAATTTATTA
1 TT-TATAAATTCATATAAGAAAATTTATTA
32645944 GTTATAATTA
Statistics
Matches: 192, Mismatches: 39, Indels: 56
0.67 0.14 0.20
Matches are distributed among these distances:
43 3 0.02
44 43 0.22
45 37 0.19
46 47 0.24
47 57 0.30
48 5 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (43 bp):
TTTATAAATTCATATAAGAAAATTTATTATCAAGAATTTTAAA
Found at i:32645792 original size:91 final size:91
Alignment explanation
Indices: 32645645--32645943 Score: 535
Period size: 91 Copynumber: 3.3 Consensus size: 91
32645635 TTGATTTTAG
* *
32645645 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATTATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTAT
*
32645710 ATTTAATATTAATTATTTTAAATTGTA
65 ATTTAATATTAATTATTTTAAATTATA
*
32645737 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
32645802 TTTAATATTAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
32645828 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
*
32645893 TTTAATAATAATTATTTTAAATTATA
66 TTTAATATTAATTATTTTAAATTATA
*
32645919 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
32645944 GTTATAATTA
Statistics
Matches: 200, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
91 184 0.92
92 16 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
TTTAATATTAATTATTTTAAATTATA
Found at i:32646099 original size:122 final size:120
Alignment explanation
Indices: 32645959--32646252 Score: 410
Period size: 120 Copynumber: 2.4 Consensus size: 120
32645949 AATTATTTTC
* * ***
32645959 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATGCTCCGCCGAGTATG
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TCAAACGA-TATG
* * * *
32646024 CTCGAG-ACTTATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
64 CTAGAGTA-TCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * * **
32646081 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAACTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCAAACGATATGCT
*
32646146 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 AGAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
32646201 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGT
32646253 TTAAATATGA
Statistics
Matches: 155, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
120 102 0.66
121 4 0.03
122 49 0.32
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTCAAACGATATGCT
AGAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:32646100 original size:61 final size:61
Alignment explanation
Indices: 32646032--32646221 Score: 176
Period size: 61 Copynumber: 3.1 Consensus size: 61
32646022 TGCTCGAGAC
*
32646032 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
1 TTATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
* * * * * * * ** *
32646093 TTATATATTTTAATTAAAATATATTTA-ATAATAAT-TATG-TTA--AACTATCTTT-TATAGTA
1 TTATATATTATGATTTAAGTAAATTCATATAAGAATAT-TGATTATTAAGAAT-TTTAT-TA-AA
* * *
32646152 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 TTATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
32646213 TTATATATT
1 TTATATATT
32646222 TTAATTATAA
Statistics
Matches: 94, Mismatches: 25, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
57 5 0.05
58 5 0.05
59 24 0.26
60 17 0.18
61 33 0.35
62 5 0.05
63 5 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
TTATATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAA
Found at i:32646110 original size:18 final size:17
Alignment explanation
Indices: 32646082--32646116 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32646072 ATTATTAAGA
*
32646082 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32646099 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32646117 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:32646199 original size:120 final size:120
Alignment explanation
Indices: 32646034--32646253 Score: 413
Period size: 120 Copynumber: 1.8 Consensus size: 120
32646024 CTCGAGACTT
* *
32646034 ATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
32646099 ATTTTAATTAAAATATATTTAATAATAATTATGTTAAACTATCTTTTATAGTATC
66 ATTTTAATTAAAATATATTTAATAATAATTATGTTAAACTATCTTTTATAGTATC
32646154 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
*
32646219 ATTTTAATTATAATATATTTAATAATAATTATGTT
66 ATTTTAATTAAAATATATTTAATAATAATTATGTT
32646254 TAAATATGAT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 97 1.00
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
ATTTTAATTAAAATATATTTAATAATAATTATGTTAAACTATCTTTTATAGTATC
Found at i:32646236 original size:16 final size:16
Alignment explanation
Indices: 32646215--32646256 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
32646205 TTATTAAATT
*
32646215 ATATATTTTAATTATA
1 ATATATTTTAATAATA
32646231 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
32646246 AT-TATGTTTAA
1 ATATAT-TTTAA
32646257 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:32646241 original size:15 final size:15
Alignment explanation
Indices: 32646206--32646247 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
32646196 TTAAGAATTT
*
32646206 TATTAAATTAT-ATA
1 TATTTAATTATAATA
32646220 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
32646234 TATTTAATAATAAT
1 TATTTAATTATAAT
32646248 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:32646489 original size:16 final size:16
Alignment explanation
Indices: 32646468--32646518 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
32646458 AATTAATTTG
32646468 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
32646484 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
* * *
32646500 CAATTACGCATTTATT
1 CTATTACGCCTCTATT
32646516 CTA
1 CTA
32646519 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.43
Consensus pattern (16 bp):
CTATTACGCCTCTATT
Found at i:32655156 original size:2 final size:2
Alignment explanation
Indices: 32655149--32655199 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
32655139 TCCATCTACT
32655149 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
32655191 TT TC TC TC T
1 TC TC TC TC T
32655200 TCCACTTGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:32661784 original size:16 final size:16
Alignment explanation
Indices: 32661763--32661793 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32661753 TCTTCAAGAA
*
32661763 AAGAAAGATTACGCCC
1 AAGAAAGAGTACGCCC
32661779 AAGAAAGAGTACGCC
1 AAGAAAGAGTACGCC
32661794 TACGCCCTGA
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:0.45, C:0.23, G:0.23, T:0.10
Consensus pattern (16 bp):
AAGAAAGAGTACGCCC
Found at i:32665376 original size:15 final size:15
Alignment explanation
Indices: 32665356--32665385 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32665346 TGAAATGTTA
32665356 GTGAACTACCTGTAC
1 GTGAACTACCTGTAC
32665371 GTGAACTACCTGTAC
1 GTGAACTACCTGTAC
32665386 ATGGGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (15 bp):
GTGAACTACCTGTAC
Found at i:32666124 original size:25 final size:25
Alignment explanation
Indices: 32666096--32666152 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
32666086 ACTTGTGAAG
32666096 CCTTTGTGGTGAGTCACCTATAAAA
1 CCTTTGTGGTGAGTCACCTATAAAA
* * *
32666121 CCTTTGTGGTGAGTCACTTGTAAAG
1 CCTTTGTGGTGAGTCACCTATAAAA
32666146 CCTTTGT
1 CCTTTGT
32666153 TGTAATAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (25 bp):
CCTTTGTGGTGAGTCACCTATAAAA
Found at i:32667484 original size:21 final size:21
Alignment explanation
Indices: 32667458--32667500 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
32667448 TTTGGGTGGA
*
32667458 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
32667479 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
32667500 T
1 T
32667501 GGCGTGTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.30, G:0.19, T:0.37
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:32668523 original size:2 final size:2
Alignment explanation
Indices: 32668516--32668579 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
32668506 CATATAATTA
32668516 AT AT AT AT AT AT AT A- AT -T A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32668555 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 A
32668580 GACTTACAAC
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 56 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32672549 original size:8 final size:8
Alignment explanation
Indices: 32672536--32672564 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
32672526 CACTAGAGAC
32672536 CAGTGTTA
1 CAGTGTTA
32672544 CAGTGTTA
1 CAGTGTTA
32672552 CAGTGTTA
1 CAGTGTTA
32672560 CAGTG
1 CAGTG
32672565 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:32672678 original size:23 final size:23
Alignment explanation
Indices: 32672651--32672726 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
32672641 AGTGTTATTG
32672651 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
32672674 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
32672697 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
32672720 ATCAGTG
1 ATCAGTG
32672727 TGGCACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:32676275 original size:16 final size:16
Alignment explanation
Indices: 32676225--32676276 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
32676215 GGGTGAGAAG
32676225 TAAAAGTTTAAGGAGAAAA
1 TAAAAGTTTAAGG-G--AA
**
32676244 TAAAAAGTTTTGGGGAA
1 T-AAAAGTTTAAGGGAA
32676261 TAAAAGTTTAAGGGAA
1 TAAAAGTTTAAGGGAA
32676277 CGTAAATAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 13 0.46
17 3 0.11
19 2 0.07
20 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (16 bp):
TAAAAGTTTAAGGGAA
Found at i:32676652 original size:9 final size:9
Alignment explanation
Indices: 32676634--32676670 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
32676624 TATAGTTTGA
32676634 TATTCGAAT
1 TATTCGAAT
*
32676643 TATTCAAAT
1 TATTCGAAT
*
32676652 TATTCGAGT
1 TATTCGAAT
32676661 TATTCGAAT
1 TATTCGAAT
32676670 T
1 T
32676671 CGAAAACCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:32680050 original size:21 final size:21
Alignment explanation
Indices: 32680024--32680087 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
32680014 ATTTGGTGGA
*
32680024 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
*
32680045 TCAGCTCTCACGAGCTTCTAT
1 TCAGCTCTCACGAGCTTCTGT
*
32680066 TTAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
32680087 T
1 T
32680088 GGCGTGTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.16, C:0.30, G:0.17, T:0.38
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:32681379 original size:50 final size:50
Alignment explanation
Indices: 32681316--32681724 Score: 423
Period size: 50 Copynumber: 8.2 Consensus size: 50
32681306 GGGTGTTACA
*
32681316 TTTGTGGTGATTTACTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAG-C
1 TTTGTGGCGATTTACTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCC
* * * * *
32681365 TCTTGTGACAATTTACTTGGGAAGCCTTTGTGGCGAGTTACTTGTAAAGCC
1 T-TTGTGGCGATTTACTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCC
* * * *
32681416 TTTGTGACAATTTACTTGGGAAGCCTTCGTGGTGAGTCACCTGTAAGGCC
1 TTTGTGGCGATTTACTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCC
* * * *
32681466 TTTGTGGTGATTTACTTGGGAAGCTTTTATGGCGAGTCACCTGTAAAGCC
1 TTTGTGGCGATTTACTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCC
* * *
32681516 TTTTTGGTGATTTACTT-GGAAGGCCTTT-TGGGTGAGTCACCTATAAAGCC
1 TTTGTGGCGATTTACTTGGGAA-GCCTTTGT-GGTGAGTCACCTGTAAAGCC
* * * *
32681566 TTTTTGGTGATTTACTTGGGAAACCTTTGTGGCGAGTCACCTGTAAAGCC
1 TTTGTGGCGATTTACTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCC
* * * * * * * *
32681616 TTTGTGACGATTTTCTTGGAAAACCTTTATGGTAACTCACTTGTAAAGCC
1 TTTGTGGCGATTTACTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCC
* * ** *
32681666 TTTGTGGCAATTTATTTGGGAAGTCC-TTGT-GACAGGTTACCTGTAAAGCC
1 TTTGTGGCGATTTACTTGGGAAG-CCTTTGTGGTGA-GTCACCTGTAAAGCC
*
32681716 TATGTGGCG
1 TTTGTGGCG
32681725 TAATGCTTGG
Statistics
Matches: 302, Mismatches: 50, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
49 8 0.03
50 285 0.94
51 9 0.03
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (50 bp):
TTTGTGGCGATTTACTTGGGAAGCCTTTGTGGTGAGTCACCTGTAAAGCC
Found at i:32684109 original size:40 final size:38
Alignment explanation
Indices: 32684045--32684233 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 38
32684035 ATCTAATGTT
* * *
32684045 CCATTTCATATATCTATTTCCATATAACCTATTCATATAA
1 CCATTTCATATAT-T-TTTTCATATAACCGATTCGTATAA
*
32684085 GCATTTCATATATCATTTTTCATATAACCGATTCGTATAA
1 CCATTTCATATAT--TTTTTCATATAACCGATTCGTATAA
* *
32684125 CCATTTCATATATTTATTTCCATATAACCAATACGTATAA
1 CCATTTCATATATTT-TTT-CATATAACCGATTCGTATAA
* *
32684165 CCATTTCATATATAATTTTTTATATAATCGATTCGTATAA
1 CCATTTCATATAT--TTTTTCATATAACCGATTCGTATAA
*
32684205 ACATTTCATATATTTATTTCCATATAACC
1 CCATTTCATATATTT-TTT-CATATAACC
32684234 AATCATATAG
Statistics
Matches: 127, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 4 0.03
39 6 0.05
40 111 0.87
41 4 0.03
42 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.43
Consensus pattern (38 bp):
CCATTTCATATATTTTTTCATATAACCGATTCGTATAA
Found at i:32684143 original size:80 final size:79
Alignment explanation
Indices: 32684045--32684242 Score: 297
Period size: 80 Copynumber: 2.5 Consensus size: 79
32684035 ATCTAATGTT
* * *
32684045 CCATTTCATATATCTATTTCCATATAACCTATTCATATAAGCATTTCATATATCATTTTTCATAT
1 CCATTTCATATATTTATTTCCATATAACC-ATTCATATAACCATTTCATATATAATTTTTCATAT
32684110 AACCGATTCGTATAA
65 AACCGATTCGTATAA
* * *
32684125 CCATTTCATATATTTATTTCCATATAACCAATACGTATAACCATTTCATATATAATTTTTTATAT
1 CCATTTCATATATTTATTTCCATATAACC-ATTCATATAACCATTTCATATATAATTTTTCATAT
*
32684190 AATCGATTCGTATAA
65 AACCGATTCGTATAA
* *
32684205 ACATTTCATATATTTATTTCCATATAACCAATCATATA
1 CCATTTCATATATTTATTTCCATATAACCATTCATATA
32684243 GAATTTTTTT
Statistics
Matches: 106, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 6 0.06
80 100 0.94
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (79 bp):
CCATTTCATATATTTATTTCCATATAACCATTCATATAACCATTTCATATATAATTTTTCATATA
ACCGATTCGTATAA
Found at i:32684176 original size:13 final size:13
Alignment explanation
Indices: 32684045--32684176 Score: 90
Period size: 13 Copynumber: 9.9 Consensus size: 13
32684035 ATCTAATGTT
*
32684045 CCATTTCATATAT
1 CCATTTCATATAA
*
32684058 CTATTTCCATATAA
1 CCATTT-CATATAA
32684072 CC-TATTCATATAA
1 CCAT-TTCATATAA
*
32684085 GCATTTCATAT-A
1 CCATTTCATATAA
*
32684097 TCATTTTTCATATAA
1 CCA--TTTCATATAA
*
32684112 CCGA-TTCGTATAA
1 CC-ATTTCATATAA
*
32684125 CCATTTCATATAT
1 CCATTTCATATAA
**
32684138 TTATTTCCATATAA
1 CCATTT-CATATAA
* * *
32684152 CCAATACGTATAA
1 CCATTTCATATAA
32684165 CCATTTCATATA
1 CCATTTCATATA
32684177 TAATTTTTTA
Statistics
Matches: 90, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
12 4 0.04
13 57 0.63
14 26 0.29
15 2 0.02
16 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (13 bp):
CCATTTCATATAA
Found at i:32688810 original size:19 final size:20
Alignment explanation
Indices: 32688786--32688824 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
32688776 GATATTCCTT
32688786 TAGTGTA-TTTGATTATCTC
1 TAGTGTATTTTGATTATCTC
32688805 TAGTGTATTTTTGATTATCT
1 TAGTGTA-TTTTGATTATCT
32688825 TGTGGGTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (20 bp):
TAGTGTATTTTGATTATCTC
Found at i:32689421 original size:19 final size:20
Alignment explanation
Indices: 32689397--32689442 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32689387 CATCCAAACA
32689397 CCAGAAAA-T-AGTAACTTTT
1 CCAGAAAAGTAAGTAA-TTTT
*
32689416 CCAGAAAAGTAAGTCATTTT
1 CCAGAAAAGTAAGTAATTTT
32689436 CCAGAAA
1 CCAGAAA
32689443 TAATTTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 8 0.33
20 12 0.50
21 4 0.17
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAGTAATTTT
Found at i:32690595 original size:25 final size:25
Alignment explanation
Indices: 32690566--32690615 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
32690556 CATTCTCTTA
32690566 CCATTTC-ATCATAT-ACATATATCAT
1 CCATTTCAAT-ATATCA-ATATATCAT
32690591 CCATTTCAATATATCAATATATCAT
1 CCATTTCAATATATCAATATATCAT
32690616 GTACCATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (25 bp):
CCATTTCAATATATCAATATATCAT
Found at i:32691060 original size:2 final size:2
Alignment explanation
Indices: 32691053--32691086 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32691043 GTATAATAAC
32691053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32691087 CGATTCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32691831 original size:16 final size:16
Alignment explanation
Indices: 32691809--32691858 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
32691799 TAAGTATAAA
*
32691809 ATGTTTTTCTTTCTTT
1 ATGTTTTTCTTACTTT
* *
32691825 TTGTTTTACTTACTTT
1 ATGTTTTTCTTACTTT
**
32691841 ATGTTTTTAATACTTT
1 ATGTTTTTCTTACTTT
32691857 AT
1 AT
32691859 TATTAATTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (16 bp):
ATGTTTTTCTTACTTT
Found at i:32697006 original size:22 final size:22
Alignment explanation
Indices: 32696981--32697022 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
32696971 TAAGATATAC
32696981 ATTGAATTTTATTGCCTCGATA
1 ATTGAATTTTATTGCCTCGATA
32697003 ATTGAATTTTATTGCCTCGA
1 ATTGAATTTTATTGCCTCGA
32697023 CAATCACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTGAATTTTATTGCCTCGATA
Found at i:32719980 original size:5 final size:5
Alignment explanation
Indices: 32719970--32720001 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
32719960 TAAGTTCCCT
32719970 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TT
32720002 CATGCCTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTTG
Found at i:32726881 original size:68 final size:68
Alignment explanation
Indices: 32726772--32726907 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 68
32726762 GAACAAATTT
*
32726772 TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACGCGGGCATAGTT
1 TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACGCGAGCATAGTT
32726837 GAG
66 GAG
*
32726840 TAACGTTAGTGCCTAAATTAAAAAAATTTAAAGTAGGTGACCAAAACATGAACGCGAGCATAGTT
1 TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACGCGAGCATAGTT
32726905 GAG
66 GAG
32726908 AGACCATTTG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (68 bp):
TAACGTTAGTGCCTAAATTAAAAAAATTCAAAGTAGGTGACCAAAACATGAACGCGAGCATAGTT
GAG
Found at i:32728710 original size:16 final size:17
Alignment explanation
Indices: 32728678--32728710 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32728668 TCTCTTAGGG
*
32728678 TTAGGGTTTTTATTTTA
1 TTAGGGTTTTTAGTTTA
32728695 TTAGGGTTTTT-GTTTA
1 TTAGGGTTTTTAGTTTA
32728711 GGGTTTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (17 bp):
TTAGGGTTTTTAGTTTA
Found at i:32731204 original size:39 final size:39
Alignment explanation
Indices: 32731161--32731239 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
32731151 ATCAATGGCT
32731161 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
*
32731200 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
32731239 A
1 A
32731240 TAATCATATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAACTCTAAGATTAC
Found at i:32731222 original size:17 final size:17
Alignment explanation
Indices: 32731160--32731226 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 17
32731150 CATCAATGGC
*
32731160 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
32731177 TACAATTAGAACTCTAAGATTA
1 TACAATTAGAA-GCT--G--TA
*
32731199 CACAATTAGAAGCTGTA
1 TACAATTAGAAGCTGTA
32731216 TACAATTAGAA
1 TACAATTAGAA
32731227 CTCTAAGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 22 0.55
18 2 0.05
19 1 0.03
20 1 0.03
21 2 0.05
22 12 0.30
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:32732784 original size:20 final size:20
Alignment explanation
Indices: 32732738--32732784 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
32732728 AGCTCGTTTC
*
32732738 CAGCTCACTTGAGCTCAAGT
1 CAGCTCACTTGAGATCAAGT
* *
32732758 CAACTCA-TTCGAGATCAATT
1 CAGCTCACTT-GAGATCAAGT
32732778 CAGCTCA
1 CAGCTCA
32732785 ATTTTAACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (20 bp):
CAGCTCACTTGAGATCAAGT
Found at i:32734309 original size:13 final size:14
Alignment explanation
Indices: 32734299--32734327 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32734289 AAAAAAAATC
32734299 AAAATTC-AAAAAA
1 AAAATTCGAAAAAA
32734312 AAAATTCGAAAAAA
1 AAAATTCGAAAAAA
32734326 AA
1 AA
32734328 GAAAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (14 bp):
AAAATTCGAAAAAA
Found at i:32734363 original size:14 final size:13
Alignment explanation
Indices: 32734320--32734371 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
32734310 AAAAAATTCG
32734320 AAAAAAAAGA-AA
1 AAAAAAAAGAGAA
*
32734332 AAAAAGAAGTGAGCAA
1 AAAAA-AA-AGAG-AA
32734348 AAAAAAAAGAGTAA
1 AAAAAAAAGAG-AA
32734362 AAAAAAAAGA
1 AAAAAAAAGA
32734372 AGTGAAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.15
13 2 0.06
14 17 0.52
15 2 0.06
16 7 0.21
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (13 bp):
AAAAAAAAGAGAA
Found at i:32734379 original size:14 final size:15
Alignment explanation
Indices: 32734327--32734379 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
32734317 TCGAAAAAAA
32734327 AGAAAAAAAAGAAGT
1 AGAAAAAAAAGAAGT
*
32734342 GAGCAAAAAAAAAAGAGT
1 -AG-AAAAAAAAGA-AGT
*
32734360 AAAAAAAAAAGAAGT
1 AGAAAAAAAAGAAGT
32734375 -GAAAA
1 AGAAAA
32734380 GTCTTGCGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 4 0.13
15 3 0.10
16 11 0.35
17 10 0.32
18 3 0.10
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.06
Consensus pattern (15 bp):
AGAAAAAAAAGAAGT
Found at i:32735465 original size:15 final size:15
Alignment explanation
Indices: 32735440--32735486 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
32735430 AGAAAAGAAT
32735440 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
32735456 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
32735471 AAA-AATATGAAAATG
1 AAAGAA-ATGAAAATG
32735486 A
1 A
32735487 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:32735533 original size:12 final size:12
Alignment explanation
Indices: 32735516--32735555 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
32735506 AGTGAAAAGC
32735516 AAAAAGAGATTG
1 AAAAAGAGATTG
*
32735528 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
32735540 AAAGAGAGCTTG
1 AAAAAGAGATTG
32735552 AAAA
1 AAAA
32735556 GAAATCGAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.60, C:0.03, G:0.23, T:0.15
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:32737453 original size:20 final size:20
Alignment explanation
Indices: 32737428--32737474 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32737418 AGCTCGTTTC
*
32737428 CAGCTCACTT-GAGCTCAAGT
1 CAGCTCA-TTCGAGATCAAGT
*
32737448 CAGCTCATTCGAGATCAATT
1 CAGCTCATTCGAGATCAAGT
32737468 CAGCTCA
1 CAGCTCA
32737475 ATTTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (20 bp):
CAGCTCATTCGAGATCAAGT
Found at i:32740728 original size:39 final size:39
Alignment explanation
Indices: 32740685--32740763 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
32740675 ATCATTGGCT
* * *
32740685 ACAATTAAAAGTTGTATACAATTAGTACTCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAAATCTAAGATTAC
*
32740724 ACAATTAGAAGCTGTATACAATTAGAAATCTAAGATTAC
1 ACAATTAAAAGCTGTATACAATTAGAAATCTAAGATTAC
32740763 A
1 A
32740764 TAATCATATC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (39 bp):
ACAATTAAAAGCTGTATACAATTAGAAATCTAAGATTAC
Found at i:32745550 original size:13 final size:13
Alignment explanation
Indices: 32745532--32745557 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32745522 CAATCGTGAC
32745532 ACACGACCATGTG
1 ACACGACCATGTG
32745545 ACACGACCATGTG
1 ACACGACCATGTG
32745558 TCTCCTCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
ACACGACCATGTG
Found at i:32748400 original size:43 final size:42
Alignment explanation
Indices: 32748292--32748423 Score: 203
Period size: 43 Copynumber: 3.1 Consensus size: 42
32748282 AAAAATAAAT
*
32748292 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCGCAAAC
1 GCCG-TAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
* *
32748335 GCAC-TAAAGGCCATGTTCTTTAGCGGTGCTTTTCCCACAAAC
1 GC-CGTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
32748377 GCCGTTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCG-TAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
32748420 GCCG
1 GCCG
32748424 CTATTGTTTG
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
41 1 0.01
42 37 0.46
43 42 0.52
44 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (42 bp):
GCCGTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:32748983 original size:25 final size:26
Alignment explanation
Indices: 32748932--32748993 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
32748922 TTTTACAATG
* *
32748932 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
32748958 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
32748983 ATTAAGTTATG
1 ATTAAGTTATG
32748994 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:32748997 original size:17 final size:17
Alignment explanation
Indices: 32748932--32749003 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
32748922 TTTTACAATG
* *
32748932 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
32748949 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
32748966 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
32748983 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
32749000 ATTA
1 ATTA
32749004 TGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:32749118 original size:17 final size:17
Alignment explanation
Indices: 32749096--32749155 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
32749086 ATATATTTTA
32749096 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
** *
32749113 AAATTATGCGAGTTGT-T
1 AAATTAT-TAAGTTATGT
*
32749130 AAGTTATTAAGTTATGT
1 AAATTATTAAGTTATGT
*
32749147 AAGTTATTA
1 AAATTATTA
32749156 TGTGAATTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 5 0.15
17 24 0.71
18 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.45
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:32749141 original size:34 final size:36
Alignment explanation
Indices: 32749099--32749182 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 36
32749089 TATTTTAAAA
* *
32749099 TTATTAAGTTATGTAA-ATTATGCGAGTTGT-TAAG
1 TTATTAAGTTATGTAATATTATGCGAATTATATAAG
*
32749133 TTATTAAGTTATGTAAGTTATTATGTGAATTATATAAG
1 TTATTAAGTTATGTAA--TATTATGCGAATTATATAAG
32749171 TTATTAAGTTAT
1 TTATTAAGTTAT
32749183 ATGGTATGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 16 0.37
37 11 0.26
38 16 0.37
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.48
Consensus pattern (36 bp):
TTATTAAGTTATGTAATATTATGCGAATTATATAAG
Found at i:32749178 original size:46 final size:46
Alignment explanation
Indices: 32749123--32749279 Score: 145
Period size: 46 Copynumber: 3.3 Consensus size: 46
32749113 AAATTATGCG
*
32749123 AGTTGTTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
* * * * * *
32749169 AGTTATTAAGTTA-TATGGTATGACATATATATATGTATTATGTAAATTATGTG
1 AGTTATTAAGTTATTA-AGT-T---ATGTA-A-GT-TATTATGTGAATTATATA
* * *
32749222 AGTTGTTAAGTTGTTCAGTTATGTAAGTTATTATGTGAATTATATA
1 AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
32749268 AGTTATTAAGTT
1 AGTTATTAAGTT
32749280 GGACATTTTT
Statistics
Matches: 85, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
45 2 0.02
46 40 0.47
47 2 0.02
48 1 0.01
49 4 0.05
50 4 0.05
51 1 0.01
52 2 0.02
53 28 0.33
54 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (46 bp):
AGTTATTAAGTTATTAAGTTATGTAAGTTATTATGTGAATTATATA
Found at i:32749182 original size:8 final size:8
Alignment explanation
Indices: 32749099--32749155 Score: 51
Period size: 9 Copynumber: 6.8 Consensus size: 8
32749089 TATTTTAAAA
32749099 TTATTAAG
1 TTATTAAG
*
32749107 TTATGTAAA
1 TTAT-TAAG
**
32749116 TTATGCGAG
1 TTAT-TAAG
*
32749125 TTGTTAAG
1 TTATTAAG
32749133 TTATTAAG
1 TTATTAAG
32749141 TTATGTAAG
1 TTAT-TAAG
32749150 TTATTA
1 TTATTA
32749156 TGTGAATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 19 0.49
9 20 0.51
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (8 bp):
TTATTAAG
Found at i:32749184 original size:17 final size:17
Alignment explanation
Indices: 32749129--32749184 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
32749119 TGCGAGTTGT
*
32749129 TAAGTTATTAAGTTATG
1 TAAGTTATTAAGTTATA
*
32749146 TAAGTTATTATGTGAATTATA
1 TAAGTTATTA----AGTTATA
32749167 TAAGTTATTAAGTTATA
1 TAAGTTATTAAGTTATA
32749184 T
1 T
32749185 GGTATGACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 17 0.53
21 15 0.47
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (17 bp):
TAAGTTATTAAGTTATA
Found at i:32752883 original size:148 final size:146
Alignment explanation
Indices: 32752613--32753488 Score: 1326
Period size: 147 Copynumber: 6.1 Consensus size: 146
32752603 TTACTCTGCT
*
32752613 AAATTTTTT-ATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTATA
1 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTATA
32752677 AATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTT
66 AATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTT
*
32752742 CTTATAAAGTGCCGCAA
131 CTTATAAAGCGCCGC-A
*
32752759 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTATTATTATTTTTAT
1 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATT-TTTTTAT
* *
32752824 AAATTGATTTGTTTTTTGCGGCGTTTTTATAGAAAACACCGCTATTGCTTACCTTTAGCGGCGCT
65 AAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCT
*
32752889 TCTTATAAAGCACCGCAAAGCA
130 TCTTATAAAG---CGC--CGCA
*
32752911 AAATTTTTTTTATTTTG-AC---ACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTATTTTTA
1 AAA-TTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATT-TTTTTA
*
32752972 TAAATTGA-TTATTTTTTGCGGCATTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGC
64 TAAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGC
32753036 TTCTTATAAA-----G--
129 TTCTTATAAAGCGCCGCA
* *
32753047 -------TGCATTTTGAACAAAACGACGCCGTTTTGTTATTCTAAATTTTTTTTATTTTTTTTAT
1 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTA-TTTTTTTAT
* * *
32753105 AAGTTGATTTATTTTTTGCGGCGTTTTTGTAGAAAACGGCGCTATTGCTTACCTTTAGCGGCGCT
65 AAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCT
32753170 TCTTATAAAGCGCCGCA
130 TCTTATAAAGCGCCGCA
32753187 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTTATTTTTTTAT
1 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAA-TTTTTTTTATTTTTTTAT
* * *
32753252 AAGTTGATTTATTTTTTGCGGCGTTTTTGTAGAAAACGCCGATATTGCTTACCTTTAGCGGCGCT
65 AAATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCT
32753317 TCTTATAAAGCGCCGCA
130 TCTTATAAAGCGCCGCA
32753334 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTATA
1 AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTATA
* *
32753399 AGTTGATTTATTTTTTGTGGCGATTTTT-TAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCT
66 AATTGATTTATTTTTTGCGGCG-TTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCT
32753463 TCTTATAAAGCGCCGCA
130 TCTTATAAAGCGCCGCA
*
32753480 AATTTTTTT
1 AAATTTTTT
32753489 ACAATTATAT
Statistics
Matches: 675, Mismatches: 25, Indels: 60
0.89 0.03 0.08
Matches are distributed among these distances:
128 7 0.01
129 2 0.00
132 45 0.07
133 65 0.10
138 2 0.00
146 109 0.16
147 222 0.33
148 152 0.23
149 49 0.07
151 2 0.00
152 6 0.01
153 14 0.02
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.45
Consensus pattern (146 bp):
AAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTATA
AATTGATTTATTTTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTT
CTTATAAAGCGCCGCA
Found at i:32753104 original size:281 final size:283
Alignment explanation
Indices: 32752768--32753481 Score: 1027
Period size: 281 Copynumber: 2.5 Consensus size: 283
32752758 AAAATTTTTT
* * *
32752768 CATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTATTATTATTTTTATAAATTGATT
1 CATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTTATAAGTTGATT
* *
32752833 TGTTTTTTGCGGCGTTTTTATAGAAAACACCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
66 TATTTTTTGCGGCGTTTTT-TAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
*
32752898 GCACCGCAAAGCAAAATTTTTTTTATTTTG-AC-ACGACGCCGTTTTGCTATTCTAAA-TTTTTT
130 GC-CCGCAAAGCAAAA-TTTTTTCATTTTGAACAACGACGCCGTTTTGCTATTCTAAATTTTTTT
*
32752960 TTATTATTTTTATAAATTGA-TTATTTTTTGCGGCATTTTTATAGAAAACGCCGCTATTGCTTAC
193 TTATT-TTTTTATAAATTGATTTATTTTTTGCGGCATTTTTATAGAAAACGCCGATATTGCTTAC
32753024 CTTTAGCGGCGCTTCTTATAAA-G-TG
257 CTTTAGCGGCGCTTCTTATAAACGATG
*
32753049 CATTTTGAACAAAACGACGCCGTTTTGTTATTCTAAATTTTTTTTATTTTTTTTATAAGTTGATT
1 CATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTTATAAGTTGATT
*
32753114 TATTTTTTGCGGCGTTTTTGTAGAAAACGGCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
66 TATTTTTTGCGGCGTTTTT-TAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
*
32753179 G--CGC--CGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTT
130 GCCCGCAAAGCAAAATTTTTTCATTTTGAAC--AACGACGCCGTTTTGCTATTCTAAATTTTTTT
* * *
32753240 TTATTTTTTTATAAGTTGATTTATTTTTTGCGGCGTTTTTGTAGAAAACGCCGATATTGCTTACC
193 TTATTTTTTTATAAATTGATTTATTTTTTGCGGCATTTTTATAGAAAACGCCGATATTGCTTACC
*
32753305 TTTAGCGGCGCTTCTTATAAAGCGCCGCAAAATTTTTT
258 TTTAGCGGCGCTTCTTATAAA----CG----A----TG
32753343 CATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTA-TTTTTTTATAAGTTGATT
1 CATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTTATAAGTTGATT
*
32753407 TATTTTTTGTGGCGATTTTTTAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
66 TATTTTTTGCGGCG-TTTTTTAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAA
32753472 GCGCCGCAAA
130 GC-CCGCAAA
32753482 TTTTTTTACA
Statistics
Matches: 388, Mismatches: 19, Indels: 35
0.88 0.04 0.08
Matches are distributed among these distances:
275 12 0.03
276 8 0.02
278 3 0.01
279 37 0.10
280 74 0.19
281 123 0.32
285 1 0.00
293 76 0.20
294 51 0.13
296 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (283 bp):
CATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTTATAAGTTGATT
TATTTTTTGCGGCGTTTTTTAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCTTATAAAG
CCCGCAAAGCAAAATTTTTTCATTTTGAACAACGACGCCGTTTTGCTATTCTAAATTTTTTTTTA
TTTTTTTATAAATTGATTTATTTTTTGCGGCATTTTTATAGAAAACGCCGATATTGCTTACCTTT
AGCGGCGCTTCTTATAAACGATG
Found at i:32753604 original size:14 final size:14
Alignment explanation
Indices: 32753585--32753618 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
32753575 AACCTTAAAT
32753585 CCCTAAC-TCTTAAC
1 CCCTAACATC-TAAC
32753599 CCCTAACATCTAAC
1 CCCTAACATCTAAC
32753613 CCCTAA
1 CCCTAA
32753619 ACCCCTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACATCTAAC
Found at i:32753687 original size:15 final size:15
Alignment explanation
Indices: 32753645--32753691 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
32753635 TCCCAACCCT
*
32753645 TAAA-CCATGATCCC
1 TAAATCCATAATCCC
*
32753659 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
32753673 TAAATCCATACTCCC
1 TAAATCCATAATCCC
32753688 TAAA
1 TAAA
32753692 CCTTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.07
14 10 0.37
15 15 0.56
ACGTcount: A:0.38, C:0.32, G:0.02, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:32754017 original size:73 final size:73
Alignment explanation
Indices: 32753934--32754117 Score: 350
Period size: 73 Copynumber: 2.5 Consensus size: 73
32753924 AGATAAAATA
* *
32753934 TTTTTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGG
1 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGG
32753999 GCTTAGGT
66 GCTTAGGT
32754007 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGG
1 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGG
32754072 GCTTAGGT
66 GCTTAGGT
32754080 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCC
1 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCC
32754118 TGAGCATTAG
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 109 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (73 bp):
TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGG
GCTTAGGT
Found at i:32754304 original size:112 final size:112
Alignment explanation
Indices: 32754013--32754336 Score: 456
Period size: 114 Copynumber: 2.9 Consensus size: 112
32754003 AGGTTTTTTT
** *
32754013 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
*
32754078 GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCTGAGCATTA
66 G-TTTTTTGCGGCGCTTT-CCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
32754127 GCGGCGCTTTCTTATAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
*
32754192 GTTTTTTGCGGCGCTTTACGAAAAACGCCGCTAAAGCCCTGAG-ATTA
66 GTTTTTTGCGGCGCTTT-CCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * * *
32754239 GCGGCG-TTTACTTAAAAACGCCGCTAAATTCCCGAAAGCTCGGGAAACGACGTCGCTGGGATTA
1 GCGGCGCTTT-CTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
32754303 GG-TTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
65 GGTTTTTTGCGGCGCTTTC-CAAAAACGCCGCTAA
32754337 TGCTTATTTG
Statistics
Matches: 189, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
110 1 0.01
111 32 0.17
112 57 0.30
113 39 0.21
114 60 0.32
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (112 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTGCGGCGCTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:32754710 original size:18 final size:20
Alignment explanation
Indices: 32754673--32754711 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
32754663 CTATTTACAC
32754673 AAAAAAATTATAATTATAAT
1 AAAAAAATTATAATTATAAT
32754693 AAAAAAATTA-AATT-TAAT
1 AAAAAAATTATAATTATAAT
32754711 A
1 A
32754712 TTATTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 4 0.21
20 10 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAAATTATAATTATAAT
Found at i:32754906 original size:9 final size:9
Alignment explanation
Indices: 32754894--32754965 Score: 65
Period size: 9 Copynumber: 7.8 Consensus size: 9
32754884 TTATTAAAAA
32754894 TGAGAGAGT
1 TGAGAGAGT
32754903 TGAGAG-GCT
1 TGAGAGAG-T
*
32754912 TGAGAGACT
1 TGAGAGAGT
*
32754921 TGAGAGGGTT
1 TGAGAGAG-T
*
32754931 TGAGAGAATT
1 TGAGAG-AGT
* *
32754941 TAAGAGAAT
1 TGAGAGAGT
32754950 TGAGAGAGT
1 TGAGAGAGT
32754959 TGAGAGA
1 TGAGAGA
32754966 AGGATGTGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
8 1 0.02
9 36 0.72
10 13 0.26
ACGTcount: A:0.35, C:0.03, G:0.39, T:0.24
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:32755538 original size:19 final size:19
Alignment explanation
Indices: 32755495--32755555 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
32755485 TTTGAAATTT
**
32755495 AAAATATAAAAAATTAAAAA
1 AAAATAT-AAAAATTAACTA
32755515 TAAAATATAAAAATTAACTA
1 -AAAATATAAAAATTAACTA
*
32755535 AAAATATAGAAACTT-ACTA
1 AAAATATA-AAAATTAACTA
32755554 AA
1 AA
32755556 TATTTTAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 14 0.39
20 15 0.42
21 7 0.19
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAATATAAAAATTAACTA
Found at i:32756290 original size:2 final size:2
Alignment explanation
Indices: 32756283--32756311 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32756273 GTACAAGCAA
32756283 AT 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 AT A
32756312 AATTTCAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32766164 original size:27 final size:27
Alignment explanation
Indices: 32766133--32766191 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
32766123 AATACGCCAG
*
32766133 AAAATGAAAGCCTTTATGGTAGTCTAT
1 AAAATGAAAGCCTTTATGGCAGTCTAT
* * *
32766160 GAAATGGAAGCCTTTGTGGCAGTCTAT
1 AAAATGAAAGCCTTTATGGCAGTCTAT
32766187 AAAAT
1 AAAAT
32766192 AGAAGTCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.31
Consensus pattern (27 bp):
AAAATGAAAGCCTTTATGGCAGTCTAT
Found at i:32766196 original size:27 final size:26
Alignment explanation
Indices: 32766140--32766213 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
32766130 CAGAAAATGA
* * *
32766140 AAGCCTTTATGGTAGTCTATGAAATGG
1 AAGCCTTTGTGG-AGTCTATAAAATAG
32766167 AAGCCTTTGTGGCAGTCTATAAAATAG
1 AAGCCTTTGTGG-AGTCTATAAAATAG
*
32766194 AAGTCTTTGTGGAGATCTAT
1 AAGCCTTTGTGGAG-TCTAT
32766214 GGAAAGTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (26 bp):
AAGCCTTTGTGGAGTCTATAAAATAG
Found at i:32766362 original size:26 final size:26
Alignment explanation
Indices: 32766330--32766380 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
32766320 CAAACCCTGG
*
32766330 AAGAATGATATGTATGGCT-AACTTTA
1 AAGAATGATAGGTATGG-TAAACTTTA
*
32766356 AAGAATGGTAGGTATGGTAAACTTT
1 AAGAATGATAGGTATGGTAAACTTT
32766381 GAGAGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (26 bp):
AAGAATGATAGGTATGGTAAACTTTA
Found at i:32777895 original size:29 final size:29
Alignment explanation
Indices: 32777862--32778159 Score: 253
Period size: 29 Copynumber: 10.4 Consensus size: 29
32777852 TTAGAGTCTC
* * * *
32777862 GCCATAAAGGCGTCCTTTTAACAGAGTTT
1 GCCACAAAGGCATCCTTTTAACAGAGATA
** * * * *
32777891 GCCA-TGAGGCATTCATTTATCTGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
*
32777919 GCAACAAAGGCATCCTTTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
32777948 GCCACAAATGCATCCTTTTAACAAAGATT
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * * ** * *
32777977 GACACAAAGACTTTTTTTTTAACAAAGATT
1 GCCACAAAGGC-ATCCTTTTAACAGAGATA
** * *
32778007 GCCACAAAGGTTTCCTTTTAATAGAGACA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
32778036 GCAACAAAGACATCCTTTTAACAAAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
32778065 GTCACAAAGGCATCCTTTTAATAGAGATC
1 GCCACAAAGGCATCCTTTTAACAGAGATA
*
32778094 GCCACAAAGGCTTCCTTTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
*
32778123 GCCACAAAGGCATCC-ATT--CAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
*
32778149 ACCACAAAGGC
1 GCCACAAAGGC
32778160 TCACTTATGC
Statistics
Matches: 212, Mismatches: 55, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
26 18 0.08
28 20 0.09
29 151 0.71
30 23 0.11
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (29 bp):
GCCACAAAGGCATCCTTTTAACAGAGATA
Found at i:32778043 original size:88 final size:86
Alignment explanation
Indices: 32777922--32778137 Score: 270
Period size: 88 Copynumber: 2.5 Consensus size: 86
32777912 TGAGATAGCA
* *
32777922 ACAAAGGCATCCTTTTAACAGAGATAGCCACAAATGCATCCTTTTAACAAAGATTGACACAAAGA
1 ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAA-GCATCCTTTTAACAAAGATAGACACAAAGA
* ** *
32777987 CTTTTTTTTTAACAAAGATTGCC
65 C-ATCCTTTTAACAAAGATCGCC
* * * * * *
32778010 ACAAAGGTTTCCTTTTAATAGAGACAGCAACAAAGACATCCTTTTAACAAAGATAGTCACAAAGG
1 ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAG-CATCCTTTTAACAAAGATAGACACAAAGA
* *
32778075 CATCCTTTTAATAGAGATCGCC
65 CATCCTTTTAACAAAGATCGCC
32778097 ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAGGCATCC
1 ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAA-GCATCC
32778138 ATTCAGAGAT
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
87 51 0.47
88 57 0.53
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (86 bp):
ACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAGCATCCTTTTAACAAAGATAGACACAAAGAC
ATCCTTTTAACAAAGATCGCC
Done.