Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 91 of 226
Found at i:31878047 original size:12 final size:12
Alignment explanation
Indices: 31878027--31878056 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31878017 AAACAAGAAC
*
31878027 AGAACAAAATAA
1 AGAAGAAAATAA
31878039 AGAAGAAAATAA
1 AGAAGAAAATAA
31878051 AGAAGA
1 AGAAGA
31878057 TATATGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (12 bp):
AGAAGAAAATAA
Found at i:31878277 original size:25 final size:26
Alignment explanation
Indices: 31878228--31878278 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
31878218 AACTTTTTCT
*
31878228 AAAAGAAAACACAAGAGAAATTTTTA
1 AAAAGAAAACACAAGAGAAAATTTTA
* *
31878254 AAAAGAAAACTCAA-ATAAAATTTTA
1 AAAAGAAAACACAAGAGAAAATTTTA
31878279 TTAATTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.22
Consensus pattern (26 bp):
AAAAGAAAACACAAGAGAAAATTTTA
Found at i:31879701 original size:14 final size:14
Alignment explanation
Indices: 31879682--31879711 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31879672 TTTATTTTGG
31879682 TTTAACCCCTATTC
1 TTTAACCCCTATTC
31879696 TTTAACCCCTATTC
1 TTTAACCCCTATTC
31879710 TT
1 TT
31879712 GAACTTTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTAACCCCTATTC
Found at i:31880535 original size:17 final size:17
Alignment explanation
Indices: 31880510--31880543 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31880500 AACTCACCAT
*
31880510 TTTGGAATTAGAGTCAC
1 TTTGAAATTAGAGTCAC
31880527 TTTGAAATTAGAGTCAC
1 TTTGAAATTAGAGTCAC
31880544 ACGGGCCAAG
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:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (17 bp):
TTTGAAATTAGAGTCAC
Found at i:31880592 original size:80 final size:80
Alignment explanation
Indices: 31880454--31880602 Score: 235
Period size: 80 Copynumber: 1.9 Consensus size: 80
31880444 TGTTTTAAAG
* * * *
31880454 TTAGAGTTACACGGGCCAGGGACACGGGCGTGTGTCCAGGCTGTGTAACTCACCATTTTGGAATT
1 TTAGAGTCACACGGGCCAAGGACACAGGCGTGTGTCCAGGCCGTGTAACTCACCATTTTGGAATT
31880519 AGAGTCACTTTGAAA
66 AGAGTCACTTTGAAA
** *
31880534 TTAGAGTCACACGGGCCAAGGACACAGGCGTGTGTTTAGGCCGTGTAACTCACTATTTTGGAATT
1 TTAGAGTCACACGGGCCAAGGACACAGGCGTGTGTCCAGGCCGTGTAACTCACCATTTTGGAATT
31880599 AGAG
66 AGAG
31880603 ACACACAGAC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (80 bp):
TTAGAGTCACACGGGCCAAGGACACAGGCGTGTGTCCAGGCCGTGTAACTCACCATTTTGGAATT
AGAGTCACTTTGAAA
Found at i:31880824 original size:108 final size:108
Alignment explanation
Indices: 31880688--31880898 Score: 298
Period size: 108 Copynumber: 2.0 Consensus size: 108
31880678 TGTTGGGTTG
* *
31880688 TGTGCTAGACCGTGCAACTTACTGTTTTGAGCCACATGGGCGTGTGTTAAGAC-ATGTGATAGGC
1 TGTGCTAGACCGTGCAACTCACTGTTTTGAGCCACATGGGCGTGTGTTAAGACGA-GTGACAGGC
* * *
31880752 CGTGTGCGACATTGAGGTAGGCCACGCAGGTGTGTGCTATGCCT
65 CATGTGCGACATTGAGGTAGGCCACACAGGTGCGTGCTATGCCT
* * * * * *
31880796 TGTGCTAGACCGTGTAACTCATTGTTTTGAGCCACATGGGTGTGTGTTAGGCCGAGTGACAGGTC
1 TGTGCTAGACCGTGCAACTCACTGTTTTGAGCCACATGGGCGTGTGTTAAGACGAGTGACAGGCC
*
31880861 ATGTGCGACATTGAGGTAGGCCACACGGGTGCGTGCTA
66 ATGTGCGACATTGAGGTAGGCCACACAGGTGCGTGCTA
31880899 GGCCGTGTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
108 89 0.99
109 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.27
Consensus pattern (108 bp):
TGTGCTAGACCGTGCAACTCACTGTTTTGAGCCACATGGGCGTGTGTTAAGACGAGTGACAGGCC
ATGTGCGACATTGAGGTAGGCCACACAGGTGCGTGCTATGCCT
Found at i:31881466 original size:22 final size:22
Alignment explanation
Indices: 31881420--31881467 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
31881410 GGGGTAGGAC
* *
31881420 TCTGCATCTGAATCTGAAATGT
1 TCTGCAACTGAATCTGAAATCT
* *
31881442 TCTGCAACTGTATCTGAAGTCT
1 TCTGCAACTGAATCTGAAATCT
31881464 TCTG
1 TCTG
31881468 TTTCTATTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (22 bp):
TCTGCAACTGAATCTGAAATCT
Found at i:31882166 original size:7 final size:7
Alignment explanation
Indices: 31882150--31882192 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
31882140 ACTAAATCAG
31882150 AAAA-AA
1 AAAAGAA
31882156 AAAAGAA
1 AAAAGAA
31882163 AAAAGAA
1 AAAAGAA
31882170 AAAAG-A
1 AAAAGAA
31882176 AAAAGAA
1 AAAAGAA
31882183 GAAGAAGAA
1 -AA-AAGAA
31882192 A
1 A
31882193 GTGTTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 10 0.30
7 15 0.45
8 3 0.09
9 5 0.15
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:31882179 original size:52 final size:50
Alignment explanation
Indices: 31882072--31882171 Score: 112
Period size: 52 Copynumber: 2.0 Consensus size: 50
31882062 TAATTTTTTA
* * * ** *
31882072 AAAAAATGAATAAAAAATTAAATCAGAAAAAAAACCAATAAAAACGATTAT
1 AAAAAATGAATAAAAAACTAAATCAGAAAAAAAA-CAAGAAAAAAGAAAAG
*
31882123 AAAAAATTAATAGAAAAACTAAATCAGAAAAAAAA-AAGAAAAAAGAAAA
1 AAAAAATGAATA-AAAAACTAAATCAGAAAAAAAACAAGAAAAAAGAAAA
31882172 AAGAAAAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 10 0.24
51 11 0.26
52 21 0.50
ACGTcount: A:0.73, C:0.06, G:0.07, T:0.14
Consensus pattern (50 bp):
AAAAAATGAATAAAAAACTAAATCAGAAAAAAAACAAGAAAAAAGAAAAG
Found at i:31893766 original size:19 final size:20
Alignment explanation
Indices: 31893730--31893768 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31893720 GTGTGTTTTG
*
31893730 GTAAAATTAATTTTGATCAA
1 GTAAAATTAATATTGATCAA
31893750 GTAAAATTAA-ATTGATCAA
1 GTAAAATTAATATTGATCAA
31893769 ATCAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (20 bp):
GTAAAATTAATATTGATCAA
Found at i:31898572 original size:20 final size:20
Alignment explanation
Indices: 31898535--31898572 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31898525 CTTGGTTAGT
*
31898535 TAAATTAATTACTGTTTTGA
1 TAAATTAATTACTATTTTGA
31898555 TAAATT-ATTATCTATTTT
1 TAAATTAATTA-CTATTTT
31898573 TGTATATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TAAATTAATTACTATTTTGA
Found at i:31902702 original size:17 final size:17
Alignment explanation
Indices: 31902680--31902719 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
31902670 TCATAATTTA
31902680 TTTTTCTATTTCACTTT
1 TTTTTCTATTTCACTTT
* *
31902697 TTTTTCTTTTTCCCTTT
1 TTTTTCTATTTCACTTT
31902714 TATTTT
1 T-TTTT
31902720 ATTCTTTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTCTATTTCACTTT
Found at i:31902727 original size:19 final size:17
Alignment explanation
Indices: 31902688--31902732 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
31902678 TATTTTTCTA
* *
31902688 TTTCACTTTTTTTTCTT
1 TTTCCCTTTTTTTTATT
31902705 TTTCCCTTTTATTTTATT
1 TTTCCCTTTT-TTTTATT
31902723 CTTTCCCTTT
1 -TTTCCCTTT
31902733 CCCTTTCCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 6 0.25
19 9 0.38
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCCCTTTTTTTTATT
Found at i:31902748 original size:7 final size:7
Alignment explanation
Indices: 31902736--31902795 Score: 102
Period size: 7 Copynumber: 8.6 Consensus size: 7
31902726 TCCCTTTCCC
31902736 TTTCCAG
1 TTTCCAG
31902743 TTTCCAG
1 TTTCCAG
31902750 TTTCCAG
1 TTTCCAG
31902757 TTTCCAG
1 TTTCCAG
31902764 TTTCCAG
1 TTTCCAG
*
31902771 TTTCTAG
1 TTTCCAG
31902778 TTTCCAG
1 TTTCCAG
*
31902785 TTTCCAT
1 TTTCCAG
31902792 TTTC
1 TTTC
31902796 TTTTCTCTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.13, C:0.27, G:0.12, T:0.48
Consensus pattern (7 bp):
TTTCCAG
Found at i:31902804 original size:7 final size:7
Alignment explanation
Indices: 31902794--31902827 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
31902784 GTTTCCATTT
31902794 TCTTTTC
1 TCTTTTC
31902801 TCTTTTC
1 TCTTTTC
31902808 TCTTTTC
1 TCTTTTC
31902815 T-TTTT-
1 TCTTTTC
31902820 TCTTTTC
1 TCTTTTC
31902827 T
1 T
31902828 TCTAATTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.04
6 8 0.32
7 16 0.64
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TCTTTTC
Found at i:31902806 original size:12 final size:12
Alignment explanation
Indices: 31902791--31902828 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
31902781 CCAGTTTCCA
31902791 TTTTCT-TTTCTC
1 TTTTCTCTTT-TC
31902803 TTTTCTCTTTTC
1 TTTTCTCTTTTC
*
31902815 TTTTTTCTTTTC
1 TTTTCTCTTTTC
31902827 TT
1 TT
31902829 CTAATTCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 21 0.88
13 3 0.12
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTCTTTTC
Found at i:31902807 original size:19 final size:19
Alignment explanation
Indices: 31902791--31902827 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
31902781 CCAGTTTCCA
31902791 TTTTCTTTTCTCTTTTCTC
1 TTTTCTTTTCTCTTTTCTC
*
31902810 TTTTCTTTTTTCTTTTCT
1 TTTTCTTTTCTCTTTTCT
31902828 TCTAATTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTCTTTTCTCTTTTCTC
Found at i:31903404 original size:30 final size:31
Alignment explanation
Indices: 31903362--31903419 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
31903352 TTATAGATTG
*
31903362 ATGGATTTTTGTTTGTTATGTTAATTTTTTA
1 ATGGATTTTTGTTTGTGATGTTAATTTTTTA
31903393 ATGGA-TTTTGTTTGTGATGTTAATTTT
1 ATGGATTTTTGTTTGTGATGTTAATTTT
31903420 CTTGATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (31 bp):
ATGGATTTTTGTTTGTGATGTTAATTTTTTA
Found at i:31905201 original size:21 final size:23
Alignment explanation
Indices: 31905168--31905213 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
31905158 GAGAAAAAGT
*
31905168 TTTGAGGGAAAAAGTA-AAAATA
1 TTTGAGGGAAAAAATATAAAATA
*
31905190 TTTG-GGGTAAAAATATAAAATA
1 TTTGAGGGAAAAAATATAAAATA
31905212 TT
1 TT
31905214 ATAGTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (23 bp):
TTTGAGGGAAAAAATATAAAATA
Found at i:31909092 original size:53 final size:53
Alignment explanation
Indices: 31909022--31909196 Score: 207
Period size: 53 Copynumber: 3.5 Consensus size: 53
31909012 TTTGTTACAC
*
31909022 CAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAA
1 CAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATTTTAGTAA
* * *
31909075 CAATTAATACAATTAACAATTAATAATTT--TACTAA---AAAAATGTTAGTAA
1 CAATTAATACAATTAACAATTAATAATTTGATA-TAATTTGATAATTTTAGTAA
31909124 CAA-T--T--AA-T---AATTAATAATTTGATATAATTTGATAATTTTAGTAA
1 CAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATTTTAGTAA
31909168 CAATTAATACAATTAACAATTAATAATTT
1 CAATTAATACAATTAACAATTAATAATTT
31909197 TACTAGCAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 30
0.73 0.05 0.22
Matches are distributed among these distances:
40 12 0.12
41 3 0.03
42 2 0.02
43 1 0.01
44 16 0.16
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 15 0.15
50 1 0.01
51 2 0.02
52 3 0.03
53 41 0.41
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (53 bp):
CAATTAATACAATTAACAATTAATAATTTGATATAATTTGATAATTTTAGTAA
Found at i:31909138 original size:93 final size:93
Alignment explanation
Indices: 31909030--31909213 Score: 332
Period size: 93 Copynumber: 2.0 Consensus size: 93
31909020 ACCAATTAAT
31909030 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
1 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
31909095 TAATAATTTTACTAAAAAAATGTTAGTA
66 TAATAATTTTACTAAAAAAATGTTAGTA
* *
31909123 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAACAAT
1 ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
**
31909188 TAATAATTTTACTAGCAAAATGTTAG
66 TAATAATTTTACTAAAAAAATGTTAG
31909214 ATTTTACAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.39
Consensus pattern (93 bp):
ACAATTAACAATTAATAATTTGATATAATTTGATAATTTTACTAACAATTAATACAATTAACAAT
TAATAATTTTACTAAAAAAATGTTAGTA
Found at i:31912244 original size:11 final size:11
Alignment explanation
Indices: 31912228--31912252 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31912218 TTATACTAGG
31912228 AATAATCAGAC
1 AATAATCAGAC
31912239 AATAATCAGAC
1 AATAATCAGAC
31912250 AAT
1 AAT
31912253 GCTTGATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (11 bp):
AATAATCAGAC
Found at i:31918957 original size:40 final size:38
Alignment explanation
Indices: 31918904--31918980 Score: 118
Period size: 40 Copynumber: 2.0 Consensus size: 38
31918894 TCCCTTATTC
*
31918904 TTTTTTTTAATGAAAAAGAAATTACATGACACAACCTT
1 TTTTTTTTAATGAAAAAGAAATTACAAGACACAACCTT
*
31918942 TTTTTTTTATGATGAAAAAGAAATTATAAGACACAACCT
1 TTTTTTTTA--ATGAAAAAGAAATTACAAGACACAACCT
31918981 ACATAGGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 9 0.26
40 26 0.74
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (38 bp):
TTTTTTTTAATGAAAAAGAAATTACAAGACACAACCTT
Found at i:31927324 original size:34 final size:35
Alignment explanation
Indices: 31927280--31927346 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
31927270 CAGTAAAATA
*
31927280 TTTTCCGTAAAATGATTT-CTAGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
* *
31927314 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
31927347 CTAGTGTTTG
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:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:31927449 original size:20 final size:20
Alignment explanation
Indices: 31927424--31927475 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
31927414 GAAAAAGTTG
31927424 TTTTTACATATATT-AATAAA
1 TTTTTACATATATTAAAT-AA
* *
31927444 TTTTT--ATATTTTAAATTA
1 TTTTTACATATATTAAATAA
31927462 TTTTTACATATATT
1 TTTTTACATATATT
31927476 GCAATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATAA
Found at i:31928170 original size:50 final size:50
Alignment explanation
Indices: 31928067--31928302 Score: 262
Period size: 50 Copynumber: 4.6 Consensus size: 50
31928057 GGGAATGAGA
* *
31928067 TCCCATGTAAGACCATGTCTGGGACATGGC-ATTGACATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGA-TGGCA-C--CGAG---ATGAGAGG
* *
31928123 TCCCATGTAAGACCATGTTTGGGACATGGCGCTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGATGGCACCGAGATGAGAGG
* * * *
31928173 TCTCATGTGAGACCATGTCTGGGACATGGCGTTGACACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGATGGCACCGAGATGAGAGG
* **
31928223 TCCC-TCGTAAGACCATGTCTGGGACATGGC-ATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCGAT-GGCACCGAGATGAGAGG
*
31928273 TCCCATGTAAGACCATGTCTGGGATATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
31928303 ATTGGCAGTA
Statistics
Matches: 159, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
49 2 0.01
50 119 0.75
51 1 0.01
53 3 0.02
55 1 0.01
56 33 0.21
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGATGGCACCGAGATGAGAGG
Found at i:31928249 original size:100 final size:103
Alignment explanation
Indices: 31928067--31928306 Score: 310
Period size: 100 Copynumber: 2.3 Consensus size: 103
31928057 GGGAATGAGA
*
31928067 TCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCATTGAGATTATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCA-CGAG--TATGAGAGGTCCCATGTA
* * **
31928132 AGACCATGTTTGGGACATGGCGCT-GGCACCGAGATGAGAGG
63 AGACCATGTCTGGGACATGGC-ATGGGCACCGAGATGAGAAC
* * *
31928173 TCTCATGTGAGACCATGTCTGGGACATGGCGTTGACA-C-CGAG-ATGAGAGGTCCC-TCGTAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCACGAGTATGAGAGGTCCCAT-GTAAG
*
31928234 ACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
65 ACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
*
31928273 TCCCATGTAAGACCATGTCTGGGATATGGCATTG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTG
31928307 GCAGTACAGA
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
99 2 0.02
100 79 0.66
103 3 0.03
105 1 0.01
106 34 0.29
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (103 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCACGAGTATGAGAGGTCCCATGTAAGA
CCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:31928345 original size:49 final size:49
Alignment explanation
Indices: 31928123--31928348 Score: 163
Period size: 50 Copynumber: 4.6 Consensus size: 49
31928113 TTATGAGAGG
* * * * * **
31928123 TCCCATGTAAGACCATGTTTGGGACATGGCGCT-GGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGC-ATGGGCA-CGATAAGAAAAC
* * * * * * * * **
31928173 TCTCATGTGAGACCATGTCTGGGACATGGCGTTGACACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CGATAAGAAAAC
* *
31928223 TCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATGGGCA-CGATAAGAAAAC
* *
31928273 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA-G-TACAGAAAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACGATA-AGAAAAC
*
31928321 ATCCCATGTAAGACTATGTCTGGGACAT
1 -TCCCATGTAAGACCATGTCTGGGACAT
31928349 AGCTTTGGCA
Statistics
Matches: 152, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
47 2 0.01
48 6 0.04
49 27 0.18
50 116 0.76
51 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACGATAAGAAAAC
Found at i:31928594 original size:12 final size:12
Alignment explanation
Indices: 31928558--31928596 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
31928548 ATGAGTTATT
31928558 TAAGTGAGCAAG
1 TAAGTGAGCAAG
* *
31928570 TAAGTAAACAAG
1 TAAGTGAGCAAG
*
31928582 TAAGTGAGTAAG
1 TAAGTGAGCAAG
31928594 TAA
1 TAA
31928597 AGAAGCGAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.49, C:0.05, G:0.26, T:0.21
Consensus pattern (12 bp):
TAAGTGAGCAAG
Found at i:31938553 original size:21 final size:21
Alignment explanation
Indices: 31938524--31938580 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
31938514 TTCGACACTT
* *
31938524 AGTATGATCTATGATAAGATA
1 AGTAAGATCTATAATAAGATA
* *
31938545 AGTACGATCTATAATATGATA
1 AGTAAGATCTATAATAAGATA
*
31938566 AGTAAGATCCATAAT
1 AGTAAGATCTATAAT
31938581 TATTAAGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.32
Consensus pattern (21 bp):
AGTAAGATCTATAATAAGATA
Found at i:31950698 original size:13 final size:12
Alignment explanation
Indices: 31950677--31950732 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
31950667 AAAACCTGCA
31950677 GTTTTTTTATTT
1 GTTTTTTTATTT
*
31950689 GTTGTTTTTA-CT
1 GTT-TTTTTATTT
* *
31950701 GTTTTTTTGTGT
1 GTTTTTTTATTT
31950713 GTTTTTTT-TTT
1 GTTTTTTTATTT
31950724 GTTTTTTTA
1 GTTTTTTTA
31950733 CTATTTTGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
11 15 0.41
12 16 0.43
13 6 0.16
ACGTcount: A:0.05, C:0.02, G:0.14, T:0.79
Consensus pattern (12 bp):
GTTTTTTTATTT
Found at i:31950715 original size:24 final size:23
Alignment explanation
Indices: 31950677--31950732 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
31950667 AAAACCTGCA
*
31950677 GTTTTTTTATTTGTTGTTTTTACT
1 GTTTTTTTATGTGTT-TTTTTACT
* **
31950701 GTTTTTTTGTGTGTTTTTTTTTT
1 GTTTTTTTATGTGTTTTTTTACT
31950724 GTTTTTTTA
1 GTTTTTTTA
31950733 CTATTTTGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.05, C:0.02, G:0.14, T:0.79
Consensus pattern (23 bp):
GTTTTTTTATGTGTTTTTTTACT
Found at i:31950970 original size:11 final size:13
Alignment explanation
Indices: 31950954--31950990 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
31950944 TATATTTTTT
31950954 TAAAAA-TT-ATA
1 TAAAAATTTAATA
31950965 TAAAAATTTAATA
1 TAAAAATTTAATA
*
31950978 TAAAAAATTAATA
1 TAAAAATTTAATA
31950991 CGGGTTGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 6 0.26
12 2 0.09
13 15 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TAAAAATTTAATA
Found at i:31951636 original size:35 final size:35
Alignment explanation
Indices: 31951597--31951697 Score: 123
Period size: 35 Copynumber: 2.9 Consensus size: 35
31951587 GACAAAAGTG
*
31951597 ACCTTAAAGAGGTTGAGG-CAGACCCGTCTAAGACA
1 ACCTTAAAAAGGTTG-GGACAGACCCGTCTAAGACA
* * * *
31951632 ACCTTAAAAAGGTTGGGATATACTCGTCTAAGGCA
1 ACCTTAAAAAGGTTGGGACAGACCCGTCTAAGACA
* *
31951667 ACCTTAAAAAGGTTGGGATAGACACGTCTAA
1 ACCTTAAAAAGGTTGGGACAGACCCGTCTAA
31951698 TAGGGTAGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
34 2 0.03
35 56 0.97
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (35 bp):
ACCTTAAAAAGGTTGGGACAGACCCGTCTAAGACA
Found at i:31953771 original size:20 final size:22
Alignment explanation
Indices: 31953742--31953786 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
31953732 GTGTGTATTA
*
31953742 TTTTAATTT-AT-ATTTATTTT
1 TTTTAATTTAATCATTGATTTT
*
31953762 TTTTATTTTAATCATTGATTTT
1 TTTTAATTTAATCATTGATTTT
31953784 TTT
1 TTT
31953787 ACCCTAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 2 0.10
22 11 0.52
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTAATTTAATCATTGATTTT
Found at i:31953840 original size:15 final size:15
Alignment explanation
Indices: 31953820--31953868 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
31953810 TATTTTTAGG
31953820 GTGACCAAAATGAAA
1 GTGACCAAAATGAAA
* **
31953835 GTGACCAAAAAGTTGA
1 GTGACCAAAATG-AAA
*
31953851 GTGACCAAAATAAAA
1 GTGACCAAAATGAAA
31953866 GTG
1 GTG
31953869 TAAACATGAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.16
Consensus pattern (15 bp):
GTGACCAAAATGAAA
Found at i:31955156 original size:20 final size:20
Alignment explanation
Indices: 31955131--31955193 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
31955121 ATTATAAAAT
31955131 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAATTTTTAAA
*
31955151 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTTTTAAA
* * *
31955170 AATTACAATATATTTTTTTAA
1 AATT-CAAAATAATTTTTAAA
31955191 AAT
1 AAT
31955194 AAAAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 12 0.33
20 15 0.42
21 9 0.25
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTCAAAATAATTTTTAAA
Found at i:31955159 original size:39 final size:40
Alignment explanation
Indices: 31955115--31955214 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
31955105 GTCTCTCTCA
31955115 ACAAAAATTATAAAATAATT-CAAAATAATTTTTAAAAAT
1 ACAAAAATTATAAAATAATTACAAAATAATTTTTAAAAAT
* * * *
31955154 TCAAAATATT-TATAAA-AATTACAATATATTTTTTTAAAAT
1 ACAAAA-ATTATA-AAATAATTACAAAATAATTTTTAAAAAT
* *
31955194 AAAAAAATTAGAATAATAATT
1 ACAAAAATTATAA-AATAATT
31955215 TTGGGACTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
39 15 0.31
40 29 0.60
41 4 0.08
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (40 bp):
ACAAAAATTATAAAATAATTACAAAATAATTTTTAAAAAT
Found at i:31955442 original size:21 final size:21
Alignment explanation
Indices: 31955409--31955466 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
31955399 ATTTCACTCG
* *
31955409 ATTCGACTTGACTCGAATTTC
1 ATTCCACTCGACTCGAATTTC
* *
31955430 ATTCTACTCGACTCAAATTTC
1 ATTCCACTCGACTCGAATTTC
*
31955451 ACTCCACTCGACTCGA
1 ATTCCACTCGACTCGA
31955467 TTCGAAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (21 bp):
ATTCCACTCGACTCGAATTTC
Found at i:31956327 original size:43 final size:43
Alignment explanation
Indices: 31956256--31956675 Score: 529
Period size: 43 Copynumber: 9.8 Consensus size: 43
31956246 GCGTCGCTAA
* ***
31956256 CTTTAGCGGCGTTTTTAGAAAAGAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCAAA-AACGCCGCTAAAGACCAAGAC
* ** **
31956300 CTTTAGTGGCGCTTTAACGGAAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCAAGAC
* * *
31956343 CTTTAGCGGCGCTTTTCCGAAAAACGTCGCTAAAGAACAAGAC
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCAAGAC
* * *
31956386 CGTTAGCGGCGCTTTT-CCAAAAACGTCGCTAAAGAACAAGAC
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCAAGAC
*
31956428 CGTTAGCGGCGCTTTT-CCAAAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCAAGAC
* * *
31956470 CTTTAGCGGCGATTTTCCGAAAAACACCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCAAGAC
* *
31956513 CTTTAGCGGCGCTTTTCCCAAAAACGCTGCTATAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCAAGAC
* **
31956556 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTATAGACCACTAC
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCAAGAC
* * * * *
31956599 CTTTAGCGGCGCTTTTCCCACAATCGTCGCTAAAGATCATGAC
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCAAGAC
** *
31956642 CTTTAGCGGCGCTTTTATCACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAA
31956676 AATATAACCT
Statistics
Matches: 336, Mismatches: 39, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
42 79 0.24
43 241 0.72
44 16 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCAAGAC
Found at i:31956502 original size:170 final size:172
Alignment explanation
Indices: 31956279--31956675 Score: 541
Period size: 170 Copynumber: 2.3 Consensus size: 172
31956269 TTTAGAAAAG
* * * *
31956279 AACGCCGCTAAAGACCAAGACCTTTAGTGGCGCTTTAACGGAAAACGCCGCTAAAGACCAAGACC
1 AACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACGAAAAACACCGCTAAAGACCAAGACC
*
31956344 TTTAGCGGCGCTTTTCCGAAAAACG-TCGCTAAAGAACAAGACCGTTAGCGGCGCTTTT-CCAAA
66 TTTAGCGGCGCTTTTCCCAAAAACGCT-GCTAAAGAACAAGACCGTTAGCGGCGCTTTTCCCAAA
*
31956407 AACGTCGCTAAAGAACAAGACCGTTAGCGGCGCTTTT-CCAAA
130 AACGCCGCTAAAGAACAAGACCGTTAGCGGCGCTTTTCCCAAA
* *
31956449 AACGCCGCTAAAGACCAAGACCTTTAGCGGCGATTTTCCGAAAAACACCGCTAAAGACCAAGACC
1 AACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACGAAAAACACCGCTAAAGACCAAGACC
* * *
31956514 TTTAGCGGCGCTTTTCCCAAAAACGCTGCTATAGACCAAGACCTTTAGCGGCGCTTTTCCCAAAA
66 TTTAGCGGCGCTTTTCCCAAAAACGCTGCTAAAGAACAAGACCGTTAGCGGCGCTTTTCCCAAAA
* * ** * *
31956579 ACGCCGCTATAGACCACTACCTTTAGCGGCGCTTTTCCCACA
131 ACGCCGCTAAAGAACAAGACCGTTAGCGGCGCTTTTCCCAAA
* * * * * *
31956621 ATCGTCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATC-ACAAACGCCGCTAAA
1 AACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTA-CGAAAAACACCGCTAAA
31956676 AATATAACCT
Statistics
Matches: 198, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
170 111 0.56
171 37 0.19
172 49 0.25
173 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (172 bp):
AACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACGAAAAACACCGCTAAAGACCAAGACC
TTTAGCGGCGCTTTTCCCAAAAACGCTGCTAAAGAACAAGACCGTTAGCGGCGCTTTTCCCAAAA
ACGCCGCTAAAGAACAAGACCGTTAGCGGCGCTTTTCCCAAA
Found at i:31957039 original size:19 final size:19
Alignment explanation
Indices: 31957016--31957078 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
31957006 GACAGTAACG
31957016 AAAAATTAAACACCACACA
1 AAAAATTAAACACCACACA
* * * *
31957035 TAAAATTACACAGACAGTAACA
1 AAAAATTAAACA-CCA--CACA
31957057 AAAAATTAAACACCACACA
1 AAAAATTAAACACCACACA
31957076 AAA
1 AAA
31957079 TTTATCAAAC
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 16 0.48
20 2 0.06
21 2 0.06
22 13 0.39
ACGTcount: A:0.62, C:0.22, G:0.03, T:0.13
Consensus pattern (19 bp):
AAAAATTAAACACCACACA
Found at i:31957062 original size:22 final size:22
Alignment explanation
Indices: 31957001--31957064 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
31956991 AAAAATTAAA
*
31957001 ACACAGACAGTAACGAAAAATT
1 ACACAGACAGTAACAAAAAATT
* * * *
31957023 AAACA-CCA--CACATAAAATT
1 ACACAGACAGTAACAAAAAATT
31957042 ACACAGACAGTAACAAAAAATT
1 ACACAGACAGTAACAAAAAATT
31957064 A
1 A
31957065 AACACCACAC
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 12 0.40
20 2 0.07
21 2 0.07
22 14 0.47
ACGTcount: A:0.58, C:0.20, G:0.08, T:0.14
Consensus pattern (22 bp):
ACACAGACAGTAACAAAAAATT
Found at i:31957649 original size:25 final size:25
Alignment explanation
Indices: 31957621--31957688 Score: 136
Period size: 25 Copynumber: 2.7 Consensus size: 25
31957611 CCTAAGGAAA
31957621 AAGAACACGGTAAATATAAGAACAT
1 AAGAACACGGTAAATATAAGAACAT
31957646 AAGAACACGGTAAATATAAGAACAT
1 AAGAACACGGTAAATATAAGAACAT
31957671 AAGAACACGGTAAATATA
1 AAGAACACGGTAAATATA
31957689 GTAAATTACG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.56, C:0.12, G:0.16, T:0.16
Consensus pattern (25 bp):
AAGAACACGGTAAATATAAGAACAT
Found at i:31960356 original size:7 final size:7
Alignment explanation
Indices: 31960344--31960374 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
31960334 TAACTCTTAG
31960344 CCCCAAA
1 CCCCAAA
31960351 CCCCAAA
1 CCCCAAA
31960358 CCCCAAA
1 CCCCAAA
*
31960365 CGCCAAA
1 CCCCAAA
31960372 CCC
1 CCC
31960375 ATAACCACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.39, C:0.58, G:0.03, T:0.00
Consensus pattern (7 bp):
CCCCAAA
Found at i:31960490 original size:39 final size:40
Alignment explanation
Indices: 31960430--31960506 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 40
31960420 CACTAATTAA
* * *
31960430 TTTAAATCCTAAACCCTAACCCGACCCTAAATCCCTAATC
1 TTTAAACCCTAAACCCTAACCCAACCCCAAATCCCTAATC
*
31960470 TTTAAACCCT-AACCCTAACCCAACCCCGAATCCCTAA
1 TTTAAACCCTAAACCCTAACCCAACCCCAAATCCCTAA
31960507 CCCCTAAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 24 0.73
40 9 0.27
ACGTcount: A:0.35, C:0.40, G:0.03, T:0.22
Consensus pattern (40 bp):
TTTAAACCCTAAACCCTAACCCAACCCCAAATCCCTAATC
Found at i:31960515 original size:39 final size:40
Alignment explanation
Indices: 31960432--31960515 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
31960422 CTAATTAATT
* * * * **
31960432 TAAATCCTAAACCCTAACCCGACCCTAAATCCCTAATCTT
1 TAAACCCTAAACCCTAACCCAACCCCAAATCCCTAACCCC
*
31960472 TAAACCCT-AACCCTAACCCAACCCCGAATCCCTAACCCC
1 TAAACCCTAAACCCTAACCCAACCCCAAATCCCTAACCCC
31960511 TAAAC
1 TAAAC
31960516 ATTATTTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 30 0.81
40 7 0.19
ACGTcount: A:0.36, C:0.43, G:0.02, T:0.19
Consensus pattern (40 bp):
TAAACCCTAAACCCTAACCCAACCCCAAATCCCTAACCCC
Found at i:31961688 original size:41 final size:41
Alignment explanation
Indices: 31961587--31961901 Score: 386
Period size: 41 Copynumber: 7.7 Consensus size: 41
31961577 TTATTAGTGA
* *
31961587 CGCTTTTTTAAAAACGACGCTAAAGGCCCGAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGG
*
31961628 CGC-TTTTCAAAAACGCCGCTAAAGGCCAGAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGG
* *
31961668 CGCTTTTTCAAAAATGCCGCTAAAGGCCCGAGCGTTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGG
** * * *
31961709 CGCCTTAAT-AAAAACGCCGCTAAATGCCAGAGCATTAGCAG
1 CG-CTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGG
31961750 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGG
* * * ** *
31961791 TGCTTTAAT-AAAAACGCCGCTAAAAGCCATAGTATTAGCGG
1 CGCTTT-TTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGG
* * *
31961832 CGCTTTTTCCAAAACGCCACTAAAGTCCCGAGCATTAGCGG
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGG
* *
31961873 CGCTTTAAT-AAAAACGCCGCTAAATGCCC
1 CGCTTT-TTCAAAAACGCCGCTAAAGGCCC
31961902 CCAAAACTCA
Statistics
Matches: 230, Mismatches: 38, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
40 42 0.18
41 182 0.79
42 6 0.03
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (41 bp):
CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGG
Found at i:31961756 original size:82 final size:82
Alignment explanation
Indices: 31961587--31961900 Score: 461
Period size: 82 Copynumber: 3.8 Consensus size: 82
31961577 TTATTAGTGA
* * *
31961587 CGCTTTTTTAAAAACGACGCTAAAGGCCCGAGCATTAGCGGCG-CTT-TTCAAAAACGCCGCTAA
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCCTTAAT-AAAAACGCCGCTAA
*
31961650 AGGCCAGAGCATTAGCGG
65 ATGCCAGAGCATTAGCGG
* *
31961668 CGCTTTTTCAAAAATGCCGCTAAAGGCCCGAGCGTTAGCGGCGCCTTAATAAAAACGCCGCTAAA
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCCTTAATAAAAACGCCGCTAAA
*
31961733 TGCCAGAGCATTAGCAG
66 TGCCAGAGCATTAGCGG
* *
31961750 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGTGCTTTAATAAAAACGCCGCTAAA
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCCTTAATAAAAACGCCGCTAAA
* * *
31961815 AGCCATAGTATTAGCGG
66 TGCCAGAGCATTAGCGG
* * * *
31961832 CGCTTTTTCCAAAACGCCACTAAAGTCCCGAGCATTAGCGGCGCTTTAATAAAAACGCCGCTAAA
1 CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCCTTAATAAAAACGCCGCTAAA
31961897 TGCC
66 TGCC
31961901 CCCAAAACTC
Statistics
Matches: 211, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
81 39 0.18
82 171 0.81
83 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (82 bp):
CGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCCTTAATAAAAACGCCGCTAAA
TGCCAGAGCATTAGCGG
Found at i:31961997 original size:38 final size:37
Alignment explanation
Indices: 31961937--31962068 Score: 149
Period size: 38 Copynumber: 3.4 Consensus size: 37
31961927 GGGCTTAGGC
*
31961937 TTTTT-GCGGCGCTTTCCAAAAAACGCCGCTAATGCTTA
1 TTTTTAGCGGCG-TTTTC-AAAAACGCCGCTAATGCTTA
*
31961975 TTTTTAGCGGCGTTTTGCAAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTT-CAAAAA-CGCCGCTAATGCT-TA
** *
31962015 CCTTTAGCGGCGTTTTTAAAAACGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCAAAAACGCCGCTAATGCTT-A
*
31962053 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
31962069 TTGTCCAAAC
Statistics
Matches: 80, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
38 40 0.50
39 25 0.31
40 15 0.19
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (37 bp):
TTTTTAGCGGCGTTTTCAAAAACGCCGCTAATGCTTA
Found at i:31962069 original size:38 final size:38
Alignment explanation
Indices: 31961955--31962069 Score: 160
Period size: 38 Copynumber: 3.0 Consensus size: 38
31961945 GCGCTTTCCA
*
31961955 AAAAACGCCGCTAATGCTT-ATTTTTAGCGGCGTTTTGC
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTT-T
* **
31961993 AAAAAGCGCCGCTAATGCTCGACCTTTAGCGGCGTTTTT
1 AAAAA-CGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
*
31962032 AAAAACGCCGCTAATGCTTGATTTTTAGTGGCGTTTTT
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
31962070 TGTCCAAACG
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 34 0.51
39 18 0.27
40 15 0.22
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (38 bp):
AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
Found at i:31962092 original size:12 final size:12
Alignment explanation
Indices: 31962075--31962100 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31962065 TTTTTTGTCC
31962075 AAACGCCGCTAA
1 AAACGCCGCTAA
31962087 AAACGCCGCTAA
1 AAACGCCGCTAA
31962099 AA
1 AA
31962101 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:31962389 original size:22 final size:20
Alignment explanation
Indices: 31962334--31962394 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
31962324 TTTCTCTCCA
31962334 CTTTTCAATCGATTGTTTCT
1 CTTTTCAATCGATTGTTTCT
*
31962354 CTTTTCAATTGATTGCTTCTCT
1 CTTTTCAATCGATTG-TT-TCT
* *
31962376 TTTTTTAATCGATTGTTTC
1 CTTTTCAATCGATTGTTTC
31962395 GTTATCTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 16 0.46
21 4 0.11
22 15 0.43
ACGTcount: A:0.15, C:0.18, G:0.10, T:0.57
Consensus pattern (20 bp):
CTTTTCAATCGATTGTTTCT
Found at i:31971452 original size:21 final size:21
Alignment explanation
Indices: 31971419--31971467 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
31971409 ACACTCTCTA
* *
31971419 AACTGCTCTTGCAGACTCC-AG
1 AACTGTTCCTGCA-ACTCCAAG
*
31971440 AATTGTTCCTGCAACTCCAAG
1 AACTGTTCCTGCAACTCCAAG
31971461 AACTGTT
1 AACTGTT
31971468 GAGAGCTGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (21 bp):
AACTGTTCCTGCAACTCCAAG
Found at i:31973139 original size:21 final size:20
Alignment explanation
Indices: 31973105--31973143 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
31973095 TAAAAAATTA
31973105 TAAAAAATTCATTTAGAAATG
1 TAAAAAATTCATTT-GAAATG
* *
31973126 TAAAAATTTTATTTGAAA
1 TAAAAAATTCATTTGAAA
31973144 ACTAAACTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (20 bp):
TAAAAAATTCATTTGAAATG
Found at i:31973238 original size:17 final size:16
Alignment explanation
Indices: 31973202--31973264 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
31973192 AATTCTAACT
*
31973202 AATTATAAAAAAATAA
1 AATTATTAAAAAATAA
* *
31973218 AATTTTTAAAAAATATC
1 AATTATTAAAAAATA-A
* *
31973235 AATTATTAATATATATA
1 AATTATTAAAAAATA-A
31973252 AATTA-TAAAAAAT
1 AATTATTAAAAAAT
31973265 TATTTATTGA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
16 19 0.51
17 18 0.49
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTATTAAAAAATAA
Found at i:31973727 original size:22 final size:23
Alignment explanation
Indices: 31973701--31973749 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
31973691 AATTTGATAA
31973701 TTTATTAGAATTTTTAT-A-AATT
1 TTTATT-GAATTTTTATAACAATT
*
31973723 TTTA-TGAATTTTTTTAACAATT
1 TTTATTGAATTTTTATAACAATT
31973745 TTTAT
1 TTTAT
31973750 AAGTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 9 0.39
21 2 0.09
22 12 0.52
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATTGAATTTTTATAACAATT
Found at i:31973734 original size:9 final size:10
Alignment explanation
Indices: 31973709--31973762 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
31973699 AATTTATTAG
31973709 AATTTTTATA
1 AATTTTTATA
*
31973719 AATTTTTATG
1 AATTTTTATA
*
31973729 AATTTTTTTAA
1 AATTTTTAT-A
31973740 CAATTTTTATA
1 -AATTTTTATA
* *
31973751 AGTTTATATA
1 AATTTTTATA
31973761 AA
1 AA
31973763 AATTTAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
10 26 0.74
11 1 0.03
12 8 0.23
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (10 bp):
AATTTTTATA
Found at i:31973766 original size:22 final size:22
Alignment explanation
Indices: 31973718--31973767 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
31973708 GAATTTTTAT
* *
31973718 AAATTTTTATGAATTTTTTTAA
1 AAATTTTTATGAATTTATATAA
*
31973740 CAATTTTTAT-AAGTTTATATAA
1 AAATTTTTATGAA-TTTATATAA
31973762 AAATTT
1 AAATTT
31973768 AAATATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (22 bp):
AAATTTTTATGAATTTATATAA
Found at i:31973818 original size:19 final size:19
Alignment explanation
Indices: 31973794--31973853 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
31973784 TTTTATATAA
31973794 AAAAACTTATAAATATTAT
1 AAAAACTTATAAATATTAT
*
31973813 AAAAACCTAT-AATAATTAT
1 AAAAACTTATAAAT-ATTAT
31973832 AATAAA-TTATAAATATATAT
1 AA-AAACTTATAAATAT-TAT
31973852 AA
1 AA
31973854 TTTTTTATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 3 0.09
19 21 0.60
20 11 0.31
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAACTTATAAATATTAT
Found at i:31975060 original size:13 final size:13
Alignment explanation
Indices: 31975044--31975068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31975034 TTAATTAAAA
31975044 TTTTAAAAAATAT
1 TTTTAAAAAATAT
31975057 TTTTAAAAAATA
1 TTTTAAAAAATA
31975069 CTAATTATAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTTAAAAAATAT
Found at i:31979381 original size:9 final size:9
Alignment explanation
Indices: 31979368--31979452 Score: 107
Period size: 9 Copynumber: 9.4 Consensus size: 9
31979358 TTTGGTTAAA
*
31979368 AATTAACCA
1 AATTAACCG
31979377 AATTAACCG
1 AATTAACCG
*
31979386 AATTACCCG
1 AATTAACCG
31979395 AATTAACCG
1 AATTAACCG
*
31979404 AATTAATCG
1 AATTAACCG
* *
31979413 GATTACCCG
1 AATTAACCG
*
31979422 AATTAACCA
1 AATTAACCG
*
31979431 AATTACCCG
1 AATTAACCG
31979440 AATTAACCG
1 AATTAACCG
31979449 AATT
1 AATT
31979453 GAATCACTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 63 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:31979407 original size:27 final size:27
Alignment explanation
Indices: 31979368--31979452 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
31979358 TTTGGTTAAA
31979368 AATTAACCAAATTAACCGAATTACCCG
1 AATTAACCAAATTAACCGAATTACCCG
* * *
31979395 AATTAACCGAATTAATCGGATTACCCG
1 AATTAACCAAATTAACCGAATTACCCG
* *
31979422 AATTAACCAAATTACCCGAATTAACCG
1 AATTAACCAAATTAACCGAATTACCCG
31979449 AATT
1 AATT
31979453 GAATCACTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.25
Consensus pattern (27 bp):
AATTAACCAAATTAACCGAATTACCCG
Found at i:31979501 original size:24 final size:24
Alignment explanation
Indices: 31979471--31979519 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
31979461 ACATAATTAA
31979471 ATTATTTTTAGACTTTTAAACTTT
1 ATTATTTTTAGACTTTTAAACTTT
*
31979495 ATTATTTTTAGACTTTTAGACTTT
1 ATTATTTTTAGACTTTTAAACTTT
31979519 A
1 A
31979520 GTTTTAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (24 bp):
ATTATTTTTAGACTTTTAAACTTT
Found at i:31979619 original size:18 final size:18
Alignment explanation
Indices: 31979579--31979622 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
31979569 AATTTTTATG
**
31979579 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
31979597 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
31979615 CTTGGGTT
1 ATTGGGTT
31979623 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:31990557 original size:18 final size:17
Alignment explanation
Indices: 31990529--31990563 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31990519 ATTATTAAGA
*
31990529 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
31990546 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
31990564 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:31990806 original size:45 final size:44
Alignment explanation
Indices: 31990723--31990813 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
31990713 ACCTCTATTC
* * *
31990723 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACATCTATTCCAATA
*** *
31990767 CATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACATCTATTCCAATA
31990812 CA
1 CA
31990814 CCTCTAATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 16 0.41
45 23 0.59
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACATCTATTCCAATA
Found at i:31990819 original size:16 final size:16
Alignment explanation
Indices: 31990794--31990845 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
31990784 GATTTGCTAT
* *
31990794 TACACATCTATTCCAA
1 TACACCTCTAATCCAA
*
31990810 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
31990826 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
31990842 TACA
1 TACA
31990846 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:31997306 original size:40 final size:40
Alignment explanation
Indices: 31997251--31997330 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
31997241 AAAAGAGCAG
31997251 ATCAAAAAAAGATTAAAAAAGGTTGACTTCAGTTTTTTTT
1 ATCAAAAAAAGATTAAAAAAGGTTGACTTCAGTTTTTTTT
31997291 ATCAAAAAAAGATTAAAAAAGGTTGACTTCAGTTTTTTTT
1 ATCAAAAAAAGATTAAAAAAGGTTGACTTCAGTTTTTTTT
31997331 CTTCTTTCAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (40 bp):
ATCAAAAAAAGATTAAAAAAGGTTGACTTCAGTTTTTTTT
Found at i:31997352 original size:23 final size:22
Alignment explanation
Indices: 31997326--31997372 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
31997316 ACTTCAGTTT
*
31997326 TTTTTCTTCTTTCAGTTCTTTTA
1 TTTTTCTTATTTCA-TTCTTTTA
* *
31997349 TTTTTTTTATTTCATTTTTTTA
1 TTTTTCTTATTTCATTCTTTTA
31997371 TT
1 TT
31997373 ATATTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTCTTATTTCATTCTTTTA
Found at i:31997368 original size:13 final size:13
Alignment explanation
Indices: 31997350--31997398 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
31997340 GTTCTTTTAT
31997350 TTTTTTTATTTCA
1 TTTTTTTATTTCA
31997363 TTTTTTTA-TT-A
1 TTTTTTTATTTCA
* *
31997374 -TATTTTATTTTA
1 TTTTTTTATTTCA
31997386 TTTTTTTAGTTTC
1 TTTTTTTA-TTTC
31997399 TACTACCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
10 6 0.21
11 3 0.10
12 3 0.10
13 14 0.48
14 3 0.10
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTTTTATTTCA
Found at i:31997377 original size:5 final size:5
Alignment explanation
Indices: 31997344--31997389 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
31997334 CTTTCAGTTC
* *
31997344 TTTTA TTTT- TTTTA TTTCA -TTT- TTTTA TTATA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
31997390 TTTAGTTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 9 0.26
5 25 0.74
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:31997379 original size:23 final size:22
Alignment explanation
Indices: 31997335--31997393 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
31997325 TTTTTTCTTC
* *
31997335 TTTCAGTTCTTTTATTTTTTTTA
1 TTTCA-TTTTTTTATTTATTTTA
31997358 TTTCATTTTTTTATTATATTTTA
1 TTTCATTTTTTTATT-TATTTTA
*
31997381 TTTTATTTTTTTA
1 TTTCATTTTTTTA
31997394 GTTTCTACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 9 0.28
23 23 0.72
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTCATTTTTTTATTTATTTTA
Found at i:31998417 original size:20 final size:20
Alignment explanation
Indices: 31998363--31998418 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
31998353 TTTATATTTT
*
31998363 CATATAGTTTTTATATACATA
1 CATATA-TTTTTATACACATA
*
31998384 CATAT-TCTTATATACACATA
1 CATATAT-TTTTATACACATA
31998404 CATATATTTTTATAC
1 CATATATTTTTATAC
31998419 TTTATAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.03
20 23 0.77
21 6 0.20
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.46
Consensus pattern (20 bp):
CATATATTTTTATACACATA
Found at i:32000153 original size:3 final size:3
Alignment explanation
Indices: 32000145--32000200 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
32000135 GAAATGTGGA
32000145 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32000193 ATT ATT AT
1 ATT ATT AT
32000201 ATATGATGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:32001701 original size:34 final size:35
Alignment explanation
Indices: 32001593--32001729 Score: 159
Period size: 35 Copynumber: 3.9 Consensus size: 35
32001583 CAGTTAAAGG
*
32001593 CAACCTTAAAAAGGTTGGGATAGACCCGTCTAAGA
1 CAACCTTAAAAAGGTTGGGATAGACACGTCTAAGA
* *
32001628 CAACCTTAAAAAGGTTGGGATATACTCGTCTAAGA
1 CAACCTTAAAAAGGTTGGGATAGACACGTCTAAGA
* * * * *
32001663 CAACCTTAAAAA-GTTAGAACAGACAAGTCTAAGG
1 CAACCTTAAAAAGGTTGGGATAGACACGTCTAAGA
* ** *
32001697 CAACCTCAAAAAAATTGGGATAGACACATCTAA
1 CAACCTTAAAAAGGTTGGGATAGACACGTCTAA
32001730 TAGGGTAGAT
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
34 26 0.31
35 59 0.69
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (35 bp):
CAACCTTAAAAAGGTTGGGATAGACACGTCTAAGA
Found at i:32001729 original size:69 final size:70
Alignment explanation
Indices: 32001593--32001729 Score: 159
Period size: 69 Copynumber: 2.0 Consensus size: 70
32001583 CAGTTAAAGG
* * * ** * ** * * *
32001593 CAACCTTAAAAAGGTTGGGATAGACCCGTCTAAGACAACCTTAAAAAGGTTGGGATATACTCGTC
1 CAACCTTAAAAAGGTTAGAACAGACAAGTCTAAGACAACCTCAAAAAAATTGGGATAGACACATC
32001658 TAAGA
66 TAAGA
*
32001663 CAACCTTAAAAA-GTTAGAACAGACAAGTCTAAGGCAACCTCAAAAAAATTGGGATAGACACATC
1 CAACCTTAAAAAGGTTAGAACAGACAAGTCTAAGACAACCTCAAAAAAATTGGGATAGACACATC
32001727 TAA
66 TAA
32001730 TAGGGTAGAT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
69 43 0.78
70 12 0.22
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (70 bp):
CAACCTTAAAAAGGTTAGAACAGACAAGTCTAAGACAACCTCAAAAAAATTGGGATAGACACATC
TAAGA
Found at i:32003019 original size:7 final size:7
Alignment explanation
Indices: 32003007--32003041 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
32002997 ATCTTGTCTT
32003007 CCATCCC
1 CCATCCC
32003014 CCAT-CC
1 CCATCCC
32003020 CCAT-CC
1 CCATCCC
32003026 CCATCCC
1 CCATCCC
32003033 CCATCCC
1 CCATCCC
32003040 CC
1 CC
32003042 TAATCTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.14, C:0.71, G:0.00, T:0.14
Consensus pattern (7 bp):
CCATCCC
Found at i:32003023 original size:6 final size:6
Alignment explanation
Indices: 32003007--32003040 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
32002997 ATCTTGTCTT
32003007 CCATCCC CCATCC CCATCC CCATCCC CCATCC CC
1 CCAT-CC CCATCC CCATCC CCAT-CC CCATCC CC
32003041 CTAATCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.15, C:0.71, G:0.00, T:0.15
Consensus pattern (6 bp):
CCATCC
Found at i:32003025 original size:13 final size:14
Alignment explanation
Indices: 32003007--32003041 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
32002997 ATCTTGTCTT
32003007 CCATCCCCCAT-CC
1 CCATCCCCCATCCC
32003020 CCAT-CCCCATCCC
1 CCATCCCCCATCCC
32003033 CCATCCCCC
1 CCATCCCCC
32003042 TAATCTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 10 0.50
14 4 0.20
ACGTcount: A:0.14, C:0.71, G:0.00, T:0.14
Consensus pattern (14 bp):
CCATCCCCCATCCC
Found at i:32022257 original size:10 final size:10
Alignment explanation
Indices: 32022244--32022276 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
32022234 TTATAAATTC
32022244 TAATATTTTT
1 TAATATTTTT
32022254 TAATATTTTT
1 TAATATTTTT
32022264 T-ATAATTTTT
1 TAAT-ATTTTT
32022274 TAA
1 TAA
32022277 AAAAACCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.10
10 18 0.86
11 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TAATATTTTT
Found at i:32024392 original size:106 final size:106
Alignment explanation
Indices: 32024123--32024758 Score: 914
Period size: 106 Copynumber: 6.0 Consensus size: 106
32024113 TGGATTTAGA
* ** * * **
32024123 TTTAATAGGATATTTATCTATTTGGTCAAACAAGAAATTAAAACCCAGCACGTTAGGGCACGTTC
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
* * * *
32024188 CCTTGAATTTCCAAATGCAAAATATTGCCTTACTTTGAGAG
66 TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
* * *
32024229 TTTAAAAGTGATATTTGGCTATTTGGTCGAGCGAGAAATCGAAACCTAGCACGTTAGGGTACGTT
1 TTTAAAAG-GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTT
* * * *
32024294 TTCTCGAATTTTCAAACGCAAAATATTGTCTTACTTTGAAAT
65 CTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
* * *
32024336 TTTGAAAGAATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTC
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
* *
32024401 TCTCGAATTTCCAAACACAAAATATTGTCTTACTTTGAAAG
66 TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
*
32024442 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATTC-AAACCCAACACGTTAGGGCACGTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAA-TCGAAACCCAGCACGTTAGGGCACGTT
* * * *
32024506 TTCTCAAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAT
65 CTCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
* * *
32024548 TTTGAAAGGATATTCGGCTATTTGGTCGAAAGAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
*
32024613 TCTCGAATTTCCAAAAGCAAAATATTGCCTTACTTTGAAAG
66 TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
* * * *
32024654 TTTAAAATGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCTAGCACGTTAGGGCATGTTT
1 TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
*
32024719 TCTCGAATTTCCAAACACAAAATATTGCCTTACTTTGAAA
66 TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAA
32024759 TTTTTTGAAT
Statistics
Matches: 473, Mismatches: 54, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
105 2 0.00
106 381 0.81
107 90 0.19
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTC
TCTCGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAAG
Found at i:32026993 original size:132 final size:131
Alignment explanation
Indices: 32026828--32027142 Score: 414
Period size: 131 Copynumber: 2.4 Consensus size: 131
32026818 TAGTACAGGA
* * * * *
32026828 AGATAATATCTGCATTCTCCAACCTACTTCACTGCTGCTCAAGGAGATAAGACCAGTGGCTTAAA
1 AGATAATATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACCAGTGGCTTAAA
* * * * * *
32026893 TCTGCTTCTCTACTACCTTGGGAAGATAAGATTTGTCGTCCTCAATCTGCTCTACTACTGCTTAA
66 TCTGC-TCCCCACTACCTTGGAAAGATAAGATTTGCCGTCCTCAATCTACTCCACTACTGCTTAA
32026958 GG
130 GG
* * * *
32026960 AGATAATATCTACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAAA
1 AGATAATATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACCAGTGGCTTAAA
* * ** *
32027025 TCTGCTCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAGG
66 TCTGCTCCCCACTACCTTGGAAAGATAAGATTTGCCGTCCTCAATCTACTCCACTACTGCTTAAG
32027090 G
131 G
* * *
32027091 AGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAAGA
1 AGATAATATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGA
32027143 TCTACAATCT
Statistics
Matches: 157, Mismatches: 26, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
131 96 0.61
132 61 0.39
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (131 bp):
AGATAATATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACCAGTGGCTTAAA
TCTGCTCCCCACTACCTTGGAAAGATAAGATTTGCCGTCCTCAATCTACTCCACTACTGCTTAAG
G
Found at i:32027096 original size:44 final size:44
Alignment explanation
Indices: 32026916--32027753 Score: 353
Period size: 44 Copynumber: 19.1 Consensus size: 44
32026906 TACCTTGGGA
* * * * *
32026916 AGATAAGATTTGTC-GTCCTCAATCTGCTCTACTACTGCTTAAGG
1 AGATAAGATCTG-CAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * * *
32026960 AGATAATATCTACAATCTTTAACCTACTCCACTGCTGCTCAGGG
1 AGATAAGATCTGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
32027004 AGACAAG-GCT--AGTGGCTTAAATCTGCTCCCCACTA-T-CTT-GGAA
1 AGATAAGATCTGCAGT--CTTCAATCTACT--CCACTACTGCTTAGG-G
* * **
32027047 AGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATCTGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * *
32027091 AGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAGGG
1 AGATAAGATCTGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* *
32027135 AGATAAGATCTACAATCTTCAA-CTTACTCCACTACTGCTTAGGG
1 AGATAAGATCTGCAGTCTTCAATC-TACTCCACTACTGCTTAGGG
* * * *
32027179 AGATAAGATCTACAATCTTCAA-CTTACTCCACTGCTGCTCAGGG
1 AGATAAGATCTGCAGTCTTCAATC-TACTCCACTACTGCTTAGGG
* * ** * * * *
32027223 AGACAAG-GCTGGTGGCCTAAATCTACTCCCCACTA-T-CTT-GGAA
1 AGATAAGATCTGCAGTCTTCAATCTACT--CCACTACTGCTTAGG-G
* * * * *
32027266 AGATAAGATTTGCCGTCTTCGATCTGCTCTACTACTGCTTAGGG
1 AGATAAGATCTGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* ** * * * * * *
32027310 AGATAAGATATATAATCTTCAACCTACTCCATTGCTGCTCAGGA
1 AGATAAGATCTGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * ** * * *
32027354 AGACAAG-GCTGGTGGCTTAAATCTACTCCCCACTA-T-CTT-GGAA
1 AGATAAGATCTGCAGTCTTCAATCTACT--CCACTACTGCTTAGG-G
* * * * *
32027397 AGATAAGATTTTTC-GTCTTCGATCTGCTCCACTACTGCTTAAGG
1 AGATAAGA-TCTGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * *
32027441 AGATAAGAACTACAATCTTCAACCTACTCCACTGCTGCTCAGGG
1 AGATAAGATCTGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * ** * * *
32027485 AGACAAG-GCTGGTGGCTTAAATCTACTCCCCACTA-T-CTT-GGAA
1 AGATAAGATCTGCAGTCTTCAATCTACT--CCACTACTGCTTAGG-G
* * * * *
32027528 AGATAAGATTTGTC-GTCTTCGATTTGCTCCACTACTGCTTAAGG
1 AGATAAGATCTG-CAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
32027572 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGG
1 AGATAAGATCTGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
** * * * *
32027616 AGATAAGGAT-TGGTGGCTTAAATCTGCTTCCTACTAC--CTTAGGA
1 AGATAA-GATCTGCAGTCTTCAATCTAC-TCC-ACTACTGCTTAGGG
* * * *
32027660 AGATAAGAT-TCGCCGTTTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATCT-GCAGTCTTCAATCTACTCCACTACTGCTTAGGG
* * * * * *
32027704 AGATAAGATCTGCAATCTTAAACCTACTCCACTGCTGCTCAAGG
1 AGATAAGATCTGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
32027748 AGATAA
1 AGATAA
32027754 TGATTGATAT
Statistics
Matches: 577, Mismatches: 171, Indels: 92
0.69 0.20 0.11
Matches are distributed among these distances:
41 2 0.00
42 36 0.06
43 93 0.16
44 407 0.71
45 33 0.06
46 6 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
AGATAAGATCTGCAGTCTTCAATCTACTCCACTACTGCTTAGGG
Found at i:32027192 original size:219 final size:219
Alignment explanation
Indices: 32026946--32027340 Score: 682
Period size: 219 Copynumber: 1.8 Consensus size: 219
32026936 AATCTGCTCT
* *
32026946 ACTACTGCTTAAGGAGATAATATCTACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGACAAG
1 ACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAG
* * *
32027011 GCTAGTGGCTTAAATCTGCTCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTC
66 GCTAGTGGCCTAAATCTACTCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTC
*
32027076 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAA
131 CACTACTGCTTAGGGAGATAAGATATACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAA
32027141 GATCTACAATCTTCAACTTACTCC
196 GATCTACAATCTTCAACTTACTCC
* *
32027165 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACTTACTCCACTGCTGCTCAGGGAGACAAG
1 ACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAG
* *
32027230 GCTGGTGGCCTAAATCTACTCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
66 GCTAGTGGCCTAAATCTACTCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTC
* *
32027295 TACTACTGCTTAGGGAGATAAGATATATAATCTTCAACCTACTCCA
131 CACTACTGCTTAGGGAGATAAGATATACAATCTTCAACCTACTCCA
32027341 TTGCTGCTCA
Statistics
Matches: 164, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 164 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (219 bp):
ACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAG
GCTAGTGGCCTAAATCTACTCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTC
CACTACTGCTTAGGGAGATAAGATATACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAA
GATCTACAATCTTCAACTTACTCC
Found at i:32027249 original size:131 final size:129
Alignment explanation
Indices: 32027161--32027750 Score: 885
Period size: 131 Copynumber: 4.5 Consensus size: 129
32027151 CTTCAACTTA
*
32027161 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACTTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
*
32027226 CAAGGCTGGTGGCCTAAATCTACTCCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCT
66 CAAGGCTGGTGGCTTAAATCTACT-CCCACTATCTTGGAAAGATAAGATTTG-CGTCTTCGATCT
32027291 G
129 G
* * * * *
32027292 CTCTACTACTGCTTAGGGAGATAAGATATATAATCTTCAACCTACTCCATTGCTGCTCAGGAAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
*
32027357 CAAGGCTGGTGGCTTAAATCTACTCCCCACTATCTTGGAAAGATAAGATTTTTCGTCTTCGATCT
66 CAAGGCTGGTGGCTTAAATCTACT-CCCACTATCTTGGAAAGATAAGA-TTTGCGTCTTCGATCT
32027422 G
129 G
* *
32027423 CTCCACTACTGCTTAAGGAGATAAGAACTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
*
32027488 CAAGGCTGGTGGCTTAAATCTACTCCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTCGATTT
66 CAAGGCTGGTGGCTTAAATCTACT-CCCACTATCTTGGAAAGATAAGATTTG-CGTCTTCGATCT
32027553 G
129 G
*
32027554 CTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
* * * * * * *
32027619 TAAGGATTGGTGGCTTAAATCTGCTTCCTACTACCTTAGG-AAGATAAGATTCGCCGTTTTCGAT
66 CAAGG-CTGGTGGCTTAAATCTAC-TCCCACTATCTT-GGAAAGATAAGATTTG-CGTCTTCGAT
32027683 CTG
127 CTG
* * *
32027686 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTAAACCTACTCCACTGCTGCTCAAGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
32027751 TAATGATTGA
Statistics
Matches: 423, Mismatches: 31, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
130 3 0.01
131 305 0.72
132 112 0.26
133 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (129 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
CAAGGCTGGTGGCTTAAATCTACTCCCACTATCTTGGAAAGATAAGATTTGCGTCTTCGATCTG
Found at i:32028411 original size:97 final size:97
Alignment explanation
Indices: 32028245--32028424 Score: 297
Period size: 97 Copynumber: 1.9 Consensus size: 97
32028235 GAAAAATGCT
* *
32028245 TGAAAAAGATTATCAAAATAGACAAGATGAAATTTTGTTGAGAACTAAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATAGACAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAAT
32028310 TAATCAAGATAGCAAATTCTGTTGAGATAAGA
66 TAATCAAGATAGCAAATTCTGTTGAGATAAGA
* * * *
32028342 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCAAAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATAGACAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAAT
*
32028407 TAATCAAGATAGTAAATT
66 TAATCAAGATAGCAAATT
32028425 TTGCTAAGAT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 76 1.00
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (97 bp):
TGAAAAAGATTATCAAAATAGACAAGATGAAATTTTATTGAGAACAAAGCTCGAAATGAATAAAT
TAATCAAGATAGCAAATTCTGTTGAGATAAGA
Found at i:32028425 original size:49 final size:46
Alignment explanation
Indices: 32028267--32028427 Score: 139
Period size: 47 Copynumber: 3.3 Consensus size: 46
32028257 TCAAAATAGA
32028267 CAAGATGAAATTTTGTTGAGAACTAAGCTCGAAATGAATAAATTAAT
1 CAAGATGAAATTTTGTTGAG-ACTAAGCTCGAAATGAATAAATTAAT
* * * **
32028314 CAAGATAGCAAATTCTGTTGAGA-TAAGAT-GAAAAAGATTATCACAATGGAT
1 CAAGAT-G-AAATTTTGTTGAGACTAAGCTCG-AAATGA--AT-A-AATTAAT
* *
32028365 -AAGATGAAATTTTATTGAGAGCAAAGCTCGAAATGAATAAATTAAT
1 CAAGATGAAATTTTGTTGAGA-CTAAGCTCGAAATGAATAAATTAAT
32028411 CAAGATAGTAAATTTTG
1 CAAGAT-G-AAATTTTG
32028428 CTAAGATACA
Statistics
Matches: 88, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
46 6 0.07
47 22 0.25
48 17 0.19
49 22 0.25
50 15 0.17
51 6 0.07
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (46 bp):
CAAGATGAAATTTTGTTGAGACTAAGCTCGAAATGAATAAATTAAT
Found at i:32033493 original size:14 final size:15
Alignment explanation
Indices: 32033462--32033502 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
32033452 TTTAATATAA
*
32033462 AATTTAAA-AATTTC
1 AATTTAAATAAATTC
32033476 AATTTAAATAAATT-
1 AATTTAAATAAATTC
*
32033490 AATTTATATAAAT
1 AATTTAAATAAAT
32033503 ATTTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTAAATAAATTC
Found at i:32034073 original size:16 final size:16
Alignment explanation
Indices: 32034052--32034094 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
32034042 CATTTTAATT
32034052 ATTTATATAATAAGTA
1 ATTTATATAATAAGTA
* *
32034068 ATTTATATTATATGTA
1 ATTTATATAATAAGTA
32034084 ATTT-TATAATA
1 ATTTATATAATA
32034095 TAATATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
ATTTATATAATAAGTA
Found at i:32035385 original size:25 final size:25
Alignment explanation
Indices: 32035351--32035398 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
32035341 TGAAATAAAA
32035351 ATTACCCATGAGTTCGAGATACAAC
1 ATTACCCATGAGTTCGAGATACAAC
* * *
32035376 ATTACTCATGAGTTTGAGTTACA
1 ATTACCCATGAGTTCGAGATACA
32035399 TGTTGTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (25 bp):
ATTACCCATGAGTTCGAGATACAAC
Found at i:32041250 original size:4 final size:4
Alignment explanation
Indices: 32041243--32041296 Score: 58
Period size: 4 Copynumber: 13.8 Consensus size: 4
32041233 AAAAAGGAGT
* * *
32041243 AATA AATA AATA AGTA AATA GATA AATA GAT- AAT- AATAA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AATA
32041290 AATA AAT
1 AATA AAT
32041297 GCATGATGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
3 5 0.12
4 34 0.81
5 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:32042905 original size:44 final size:44
Alignment explanation
Indices: 32042838--32042956 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 44
32042828 TCATTCTAAC
* * *
32042838 CCACTACAACTTCAGAGG-TATAAGATTTGTCCCATCAATATACT
1 CCACTGCAACTTCAG-GGAAATAAGATTTGTACCATCAATATACT
* * * * * *
32042882 CCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAAATAAGATTTGTACCATCAATATACT
* *
32042926 CCACTGTAACTTCAAGGAAATAAGATTTGTA
1 CCACTGCAACTTCAGGGAAATAAGATTTGTA
32042957 ACTTGTAACT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
43 2 0.03
44 60 0.97
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAAATAAGATTTGTACCATCAATATACT
Found at i:32042996 original size:51 final size:52
Alignment explanation
Indices: 32042910--32043564 Score: 379
Period size: 51 Copynumber: 12.9 Consensus size: 52
32042900 GATAAGATTA
* * *
32042910 GTAGCTTCAATCTGCTCCACTGT-AACTTCAAGGAAATAAGATTTGTAACTT
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
* * *
32042961 GTAACTTTAATCTGTTCCATTGTC-ACTTCAGGGAAATAAGACTTG---C--
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
* * * * * * * *
32043007 -TATCTTCAATCTGCTCCACTG-CAACTTCAGAGAGACACGATTTGTAACTC
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
* * * * * *
32043057 GTACCTTTAACCTGTTCTACTG-CAACTTTAGGGAAATAAGATTCGCATA-TT
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTA-ACTT
* * * * * *
32043108 CAATCGAGCCCACTTCAATCTGCTCCACTGT-AAATTCAAGGAGATAAGATTTGTAACTT
1 --GT--AG----CTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
*
32043167 GTAGCTTTAATCTGTTCTACTGT-AACTTCAGGGAAATAAGATTTG-----T
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
* * * * * * *
32043213 -TATCTTCAGTCTGCTCCACT-ACAACTTCAGGGAAATATGATTTGTAACTC
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
* * * * * *
32043263 GTAGCTTCAATCTGCTCCACT-ACAACTTCAGGGAGATACGATTTGTAACTC
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
* *
32043314 GTAGCTTTAATCTGTTCCACTG-CAACCTT-AGGGAAATAATATTCGCATCTTCAATCTACT
1 GTAGCTTTAATCTGTTCCACTGTCAA-CTTCAGGGAAATAAGATT----T-GT-AA-CT--T
** * * *
32043374 CCA-CTTTAATCTGTTCCACT-ACAAATTCAGGGAGATAAGATTTGTAACTT
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
* * *
32043424 GTAGCTTTAATTTGTTCTACTGT-AACTTCAGGGACATAAGA-TTG-AA---
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
* * ** * *
32043470 -TATCTTCAATCTACTCCATTGT-AACTTCAGGGAGATAAGATTTGTAACTT
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
* *
32043520 ATAGCTTTAATCTGTTCCACT-ACAACTTCAGGGAAATAAGATTTG
1 GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTG
32043565 CACCTTCAAT
Statistics
Matches: 462, Mismatches: 94, Indels: 96
0.71 0.14 0.15
Matches are distributed among these distances:
44 1 0.00
45 101 0.22
46 4 0.01
47 2 0.00
48 2 0.00
49 2 0.00
50 5 0.01
51 254 0.55
52 6 0.01
53 3 0.01
54 1 0.00
55 5 0.01
56 1 0.00
57 3 0.01
58 5 0.01
59 66 0.14
60 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (52 bp):
GTAGCTTTAATCTGTTCCACTGTCAACTTCAGGGAAATAAGATTTGTAACTT
Found at i:32043053 original size:96 final size:95
Alignment explanation
Indices: 32042881--32043305 Score: 282
Period size: 96 Copynumber: 4.3 Consensus size: 95
32042871 ATCAATATAC
* *
32042881 TCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGTAACTTCAAGGAAA
1 TCCACTGCAACTTCAGGGAAATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAAA
* * *
32042946 TAAGATTTGTAACTTGTAACTTTAATCTGT
66 CAAGATTTGTAACTCGTAACTTTAACCTGT
* *
32042976 TCCATTGTC-ACTTCAGGGAAATAAGACTT-GCTATCTTCAATCTGCTCCACTGCAACTTC-AGA
1 TCCACTG-CAACTTCAGGGAAATAAGA-TTAG-TAGCTTCAATCTGCTCCACTGCAACTTCAAG-
* * *
32043038 GAGACACGATTTGTAACTCGTACCTTTAACCTGT
62 GAAACAAGATTTGTAACTCGTAACTTTAACCTGT
* * * * ** * *
32043072 TCTACTGCAACTTTAGGGAAATAAGATTCGCATATTCAATCGAGC-CCACTTCAATCTGCTCCAC
1 TCCACTGCAACTTCAGGGAAATAAGATTAGTAGCTTCAATC-TGCTCCACTGCAA-CT--T-CA-
* * * * *
32043136 TGTAAATTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGT
60 AGGAAA--C--------AAGATTTGTAACTCGTAACTTTAACCTGT
* * * * * * *
32043182 TCTACTGTAACTTCAGGGAAATAAGATTTGTTATCTTCAGTCTGCTCCACTACAACTTCAGGGAA
1 TCCACTGCAACTTCAGGGAAATAAGATTAG-TAGCTTCAATCTGCTCCACTGCAACTTCAAGGAA
* * * * * *
32043247 ATATGATTTGTAACTCGTAGCTTCAATCTGC
65 ACAAGATTTGTAACTCGTAACTTTAACCTGT
* * *
32043278 TCCACTACAACTTCAGGGAGATACGATT
1 TCCACTGCAACTTCAGGGAAATAAGATT
32043306 TGTAACTCGT
Statistics
Matches: 261, Mismatches: 44, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
95 45 0.17
96 131 0.50
98 1 0.00
99 1 0.00
100 2 0.01
101 1 0.00
102 1 0.00
106 4 0.02
107 2 0.01
108 1 0.00
110 56 0.21
111 16 0.06
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (95 bp):
TCCACTGCAACTTCAGGGAAATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAAA
CAAGATTTGTAACTCGTAACTTTAACCTGT
Found at i:32043175 original size:110 final size:110
Alignment explanation
Indices: 32043010--32043209 Score: 303
Period size: 110 Copynumber: 1.8 Consensus size: 110
32043000 GACTTGCTAT
* *
32043010 CTTCAATCTGCTCCACTGCAACTTCAGAGAGACACGATTTGTAACTCGTACCTTTAACCTGTTCT
1 CTTCAATCTGCTCCACTGCAAATTCAGAGAGACAAGATTTGTAACTCGTACCTTTAACCTGTTCT
*
32043075 ACTGCAACTTTAGGGAAATAAGATTCGCATATTCAATCGAGCCCA
66 ACTGCAACTTCAGGGAAATAAGATTCGCATATTCAATCGAGCCCA
* * * * *
32043120 CTTCAATCTGCTCCACTGTAAATTCA-AGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTC
1 CTTCAATCTGCTCCACTGCAAATTCAGA-GAGACAAGATTTGTAACTCGTACCTTTAACCTGTTC
*
32043184 TACTGTAACTTCAGGGAAATAAGATT
65 TACTGCAACTTCAGGGAAATAAGATT
32043210 TGTTATCTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
109 1 0.01
110 79 0.99
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (110 bp):
CTTCAATCTGCTCCACTGCAAATTCAGAGAGACAAGATTTGTAACTCGTACCTTTAACCTGTTCT
ACTGCAACTTCAGGGAAATAAGATTCGCATATTCAATCGAGCCCA
Found at i:32043369 original size:257 final size:257
Alignment explanation
Indices: 32043010--32043564 Score: 799
Period size: 257 Copynumber: 2.2 Consensus size: 257
32043000 GACTTGCTAT
* * * *
32043010 CTTCAATCTGCTCCACTGCAACTTCAGAGAGACACGATTTGTAACTCGTACCTTTAACCTGTTCT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATACGATTTGTAACTCGTACCTTTAACCTGTTCC
* **
32043075 ACTGCAACTTTAGGGAAATAAGATTCGCATATTCAATCGAGC-CCACTTCAATCTGCTCCACTGT
66 ACTGCAACCTTAGGGAAATAAGATTCGCATATTCAATCGA-CTCCACTTCAATCTGCTCCACTAC
32043139 AAATTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAAAT
130 AAATTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAAAT
* * * * *
32043204 AAGATTTG-TTATCTTCAGTCTGCTCCACTACAACTTCAGGGAAATATGATTTGTAACTCGTAG
195 AAGA-TTGAATATCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATTTGTAACTCATAG
* *
32043267 CTTCAATCTGCTCCACTACAACTTCAGGGAGATACGATTTGTAACTCGTAGCTTTAATCTGTTCC
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATACGATTTGTAACTCGTACCTTTAACCTGTTCC
* * * * *
32043332 ACTGCAACCTTAGGGAAATAATATTCGCATCTTCAATCTACTCCACTTTAATCTGTTCCACTACA
66 ACTGCAACCTTAGGGAAATAAGATTCGCATATTCAATCGACTCCACTTCAATCTGCTCCACTACA
* * *
32043397 AATTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCTACTGTAACTTCAGGGACATA
131 AATTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAAATA
* ** * *
32043462 AGATTGAATATCTTCAATCTACTCCATTGTAACTTCAGGGAGATAAGATTTGTAACTTATAG
196 AGATTGAATATCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATTTGTAACTCATAG
* * * *
32043524 CTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATACGATTTG
32043565 CACCTTCAAT
Statistics
Matches: 265, Mismatches: 31, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
256 4 0.02
257 261 0.98
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (257 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATACGATTTGTAACTCGTACCTTTAACCTGTTCC
ACTGCAACCTTAGGGAAATAAGATTCGCATATTCAATCGACTCCACTTCAATCTGCTCCACTACA
AATTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCTACTGTAACTTCAGGGAAATA
AGATTGAATATCTTCAATCTACTCCACTACAACTTCAGGGAAATAAGATTTGTAACTCATAG
Found at i:32043383 original size:206 final size:201
Alignment explanation
Indices: 32043171--32044003 Score: 859
Period size: 206 Copynumber: 4.0 Consensus size: 201
32043161 TAACTTGTAG
* * * * * * *
32043171 CTTTAATCTGTTCTACTGTAACTTCAGGGAAATAAGATTTG-T-TATCTTCAGTCTGCTCCACTA
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGATGTAGCTTTAATCTGTTCCACTA
* * * *
32043234 CAACTTCAGGGAAATATGATTTGTAACTCGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGA
66 CAACTTCAGGGAAATAAGA--T-T--C-C-TATCTTCAATCTACTCCACTGCAACTTCAGGGAGA
* *
32043299 TACGATTTGTAACTCGTAGCTTTAATCTGTTCCACTGCAACCTT-AGGGAAATAATATTCGCATC
124 TAAGATTTGTAACTCGTAGCTTTAATCTGTTCCACTGCAA-CTTCAGGGAAATAAGATTCGCATC
32043363 TTCAATCTACTCCA
188 TTCAATCTACTCCA
* * * * * *
32043377 CTTTAATCTGTTCCACTACAAATTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCT
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTG--A--TGTAGCTTTAATCTGTTCC
** * ** * *
32043442 ACTGTAACTTCAGGGACATAAGATTGAATATCTTCAATCTACTCCATTGTAACTTCAGGGAGATA
62 ACTACAACTTCAGGGAAATAAGATT-CCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATA
** * * *
32043507 AGATTTGTAACTTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCACCTTC
126 AGATTTGTAACTCGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTC
32043572 AATCTACTCCA
191 AATCTACTCCA
*
32043583 CTTCAATCTGCTCCACTGCAACTTCAGGGAGAA-AAGATTTGTAACTTGTAGCTTTAATCTGTTC
1 CTTTAATCTGCTCCACTGCAACTTCAGGGA-AATAAGATTTG--A--TGTAGCTTTAATCTGTTC
* * * * *
32043647 CATTGCAACTTCAAGGAATTAAGATTCGCTATCTTCAATCTACTTCACTGCAAC-TCTAGGGAGA
61 CACTACAACTTCAGGGAAATAAGATTC-CTATCTTCAATCTACTCCACTGCAACTTC-AGGGAGA
*
32043711 TAAGATTTGTAACTTGTAACTTGTAACTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
124 TAAGATTTGTAAC---T--C--GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
*
32043776 CGCATCTTCAATCTACTCTA
182 CGCATCTTCAATCTACTCCA
* * * *
32043796 CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGTTTTAATATATTCC
1 CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTG--A--TGTAGCTTTAATCTGTTCC
* * *
32043861 ACTACAACTTCAGGGAAATAAGATTCCCTATCTTCAATCTGCTCTACTGTAACTTCAGGGAGATA
62 ACTACAACTTCAGGGAAATAAGATT-CCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATA
* * * * *
32043926 AGATTTATAACTGGTAGC-TTAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCACTATTTT
126 AGATTTGTAACTCGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGC-ATCTT
*
32043990 CAATCTGCTCCA
190 CAATCTACTCCA
32044002 CT
1 CT
32044004 GCAACCTCAG
Statistics
Matches: 531, Mismatches: 75, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
205 43 0.08
206 271 0.51
207 1 0.00
209 2 0.00
210 2 0.00
211 1 0.00
212 31 0.06
213 177 0.33
214 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (201 bp):
CTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGATGTAGCTTTAATCTGTTCCACTA
CAACTTCAGGGAAATAAGATTCCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
TGTAACTCGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCT
ACTCCA
Found at i:32043588 original size:15 final size:15
Alignment explanation
Indices: 32043568--32043599 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32043558 AGATTTGCAC
32043568 CTTCAATCTACTCCA
1 CTTCAATCTACTCCA
*
32043583 CTTCAATCTGCTCCA
1 CTTCAATCTACTCCA
32043598 CT
1 CT
32043600 GCAACTTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.41, G:0.03, T:0.34
Consensus pattern (15 bp):
CTTCAATCTACTCCA
Found at i:32043670 original size:110 final size:111
Alignment explanation
Indices: 32043473--32043704 Score: 331
Period size: 110 Copynumber: 2.1 Consensus size: 111
32043463 GATTGAATAT
* * *
32043473 CTTCAATCTACTCCATTGTAACTTCAGGGAGATAAGATTTGTAACTTATAGCTTTAATCTGTTCC
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGAAAAGATTTGTAACTTATAGCTTTAATCTGTTCC
* *
32043538 ACTACAACTTCAGGGAAATAAGATTTGC-ACCTTCAATCTACTCCA
66 ACTACAACTTCAAGGAAATAAGATTCGCTACCTTCAATCTACTCCA
* *
32043583 CTTCAATCTGCTCCACTGCAACTTCAGGGAGAAAAGATTTGTAACTTGTAGCTTTAATCTGTTCC
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGAAAAGATTTGTAACTTATAGCTTTAATCTGTTCC
* * * * *
32043648 ATTGCAACTTCAAGGAATTAAGATTCGCTATCTTCAATCTACTTCA
66 ACTACAACTTCAAGGAAATAAGATTCGCTACCTTCAATCTACTCCA
*
32043694 CTGCAACTCTA
1 CTTCAA-TCTA
32043705 GGGAGATAAG
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
110 83 0.78
111 20 0.19
112 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (111 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGAAAAGATTTGTAACTTATAGCTTTAATCTGTTCC
ACTACAACTTCAAGGAAATAAGATTCGCTACCTTCAATCTACTCCA
Found at i:32043820 original size:213 final size:209
Alignment explanation
Indices: 32043267--32044003 Score: 925
Period size: 206 Copynumber: 3.6 Consensus size: 209
32043257 TAACTCGTAG
* * ** *
32043267 CTTCAATCTGCTCCACTACAACTTCAGGGAGATACGATTTGTAAC-T--C-GTAGCTTTAATCTG
1 CTTCAATCTACTTCACTGTAACTTCAGGGAGATAAGATTTGTAACTTAACTGTAGCTTTAATCTG
* *
32043328 TTCCACTGCAACCTT-AGGGAAATAATATTCGCATCTTCAATCTACTCCACTTTAATCTGTTCCA
66 TTCCACTGCAA-CTTCAGGGAAATAAGATTCGCATCTTCAATCTACTCCACTTTAATCTGCTCCA
* * * * *
32043392 CTACAAATTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCTACTGTAACTTCAGGG
130 CTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATATGTTCCACTGCAACTTCAGGG
*
32043457 ACATAAGATT-GAATAT
195 A-ATAAGATTCG-CTAT
* *
32043473 CTTCAATCTACTCCATTGTAACTTCAGGGAGATAAGATTTGTAACTT-A---TAGCTTTAATCTG
1 CTTCAATCTACTTCACTGTAACTTCAGGGAGATAAGATTTGTAACTTAACTGTAGCTTTAATCTG
* * * *
32043534 TTCCACTACAACTTCAGGGAAATAAGATTTGCACCTTCAATCTACTCCACTTCAATCTGCTCCAC
66 TTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTACTCCACTTTAATCTGCTCCAC
* * * *
32043599 TGCAACTTCAGGGAGAAAAGATTTGTAACTTGTAGCTTTAATCTGTTCCATTGCAACTTCAAGGA
131 TGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATATGTTCCACTGCAACTTCAGGGA
32043664 ATTAAGATTCGCTAT
196 A-TAAGATTCGCTAT
* *
32043679 CTTCAATCTACTTCACTGCAAC-TCTAGGGAGATAAGATTTGTAACTTGTAACTTGTAACTTTAA
1 CTTCAATCTACTTCACTGTAACTTC-AGGGAGATAAGATTTGTAAC-T-TAAC-TGTAGCTTTAA
*
32043743 TCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTACTCTACTTTAATCTGCT
62 TCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTACTCCACTTTAATCTGCT
* * *
32043808 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGTTTTAATATATTCCACTACAACTTCA
127 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATATGTTCCACTGCAACTTCA
*
32043873 GGGAAATAAGATTCCCTAT
192 GGG-AATAAGATTCGCTAT
*
32043892 CTTCAATCTGC-TCTACTGTAACTTCAGGGAGATAAGA-TT-T-A--TAACTGGTAGC-TTAATC
1 CTTCAATCTACTTC-ACTGTAACTTCAGGGAGATAAGATTTGTAACTTAACT-GTAGCTTTAATC
* * * *
32043950 TGTTCCATTGCAACTTCAGGGAAATAAGATTCACTATTTTCAATCTGCTCCACT
64 TGTTCCACTGCAACTTCAGGGAAATAAGATTCGC-ATCTTCAATCTACTCCACT
32044004 GCAACCTCAG
Statistics
Matches: 468, Mismatches: 45, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
205 45 0.10
206 238 0.51
207 3 0.01
208 1 0.00
209 1 0.00
210 1 0.00
211 1 0.00
212 4 0.01
213 170 0.36
214 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (209 bp):
CTTCAATCTACTTCACTGTAACTTCAGGGAGATAAGATTTGTAACTTAACTGTAGCTTTAATCTG
TTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCAATCTACTCCACTTTAATCTGCTCCAC
TGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTAATATGTTCCACTGCAACTTCAGGGA
ATAAGATTCGCTAT
Found at i:32043879 original size:110 final size:114
Alignment explanation
Indices: 32043683--32043908 Score: 309
Period size: 117 Copynumber: 2.0 Consensus size: 114
32043673 CGCTATCTTC
* * *
32043683 AATCTACTTCACTGCAACTCTAGGGAGATAAGATTTGTAACTTGTAACTTGTAACTTTAATCTGT
1 AATCTACTCCACTGCAACTCTAGGGAGATAAGATTTGTAACTTGTAA--TGT-A-TTTAATATAT
* *
32043748 TCCACTGCAACTTCAGGGAAATAAGATTCGC-ATCTTCAATCTACTCTACTTT
62 TCCACTACAACTTCAGGGAAATAAGATTCCCTATCTTCAATCTACTCTACTTT
*
32043800 AATCTGCTCCACTGCAACT-TCAGGGAGATAAGATTTGTAACTTGT-A-GT-TTTAATATATTCC
1 AATCTACTCCACTGCAACTCT-AGGGAGATAAGATTTGTAACTTGTAATGTATTTAATATATTCC
*
32043861 ACTACAACTTCAGGGAAATAAGATTCCCTATCTTCAATCTGCTCTACT
65 ACTACAACTTCAGGGAAATAAGATTCCCTATCTTCAATCTACTCTACT
32043909 GTAACTTCAG
Statistics
Matches: 100, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
110 37 0.37
111 18 0.18
113 2 0.02
116 2 0.02
117 41 0.41
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (114 bp):
AATCTACTCCACTGCAACTCTAGGGAGATAAGATTTGTAACTTGTAATGTATTTAATATATTCCA
CTACAACTTCAGGGAAATAAGATTCCCTATCTTCAATCTACTCTACTTT
Found at i:32043930 original size:45 final size:45
Alignment explanation
Indices: 32043858--32044025 Score: 167
Period size: 45 Copynumber: 3.6 Consensus size: 45
32043848 TTTAATATAT
* *
32043858 TCCACTACAACTTCAGGGAAATAAGATTCCCTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGC
* * * * * *
32043903 TCTACTGTAACTTCAGGGAGATAAGATTTA-TAACTGGTAGCTTAATCTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTCACTATCT--T--C--AATCTGC
* *
32043953 TCCATTGCAACTTCAGGGAAATAAGATTCACTATTTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGC
* *
32043998 TCCACTGCAACCTCAGGGAGATAAGATT
1 TCCACTGCAACTTCAGGGAAATAAGATT
32044026 TGTAACTTGA
Statistics
Matches: 97, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
44 4 0.04
45 55 0.57
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
50 31 0.32
51 3 0.03
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGC
Found at i:32043992 original size:95 final size:96
Alignment explanation
Indices: 32043800--32044032 Score: 351
Period size: 95 Copynumber: 2.4 Consensus size: 96
32043790 ACTCTACTTT
* *
32043800 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTGTAGTTTTAATATATTCCACTA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTGGTAGTCTTAATATATTCCACTA
*
32043865 CAACTTCAGGGAAATAAGATTCCCTATCTTC
66 CAACTTCAGGGAAATAAGATTCACTATCTTC
* * * * * * *
32043896 AATCTGCTCTACTGTAACTTCAGGGAGATAAGATTTATAACTGGTAG-CTTAATCTGTTCCATTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTGGTAGTCTTAATATATTCCACTA
*
32043960 CAACTTCAGGGAAATAAGATTCACTATTTTC
66 CAACTTCAGGGAAATAAGATTCACTATCTTC
*
32043991 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGTAACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACT
32044033 TGACTGATCT
Statistics
Matches: 122, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 79 0.65
96 43 0.35
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (96 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTGGTAGTCTTAATATATTCCACTA
CAACTTCAGGGAAATAAGATTCACTATCTTC
Found at i:32048799 original size:25 final size:25
Alignment explanation
Indices: 32048771--32048850 Score: 92
Period size: 24 Copynumber: 3.2 Consensus size: 25
32048761 CCTGTGCTCT
32048771 CTGTTAAAGTGCTCTTCGGAGCTTC
1 CTGTTAAAGTGCTCTTCGGAGCTTC
*
32048796 CTGTT-AAGTGCTCTTCGGAGCTAC
1 CTGTTAAAGTGCTCTTCGGAGCTTC
* * *
32048820 CTGATATAG-GCTCTTTGTGAGCTTC
1 CTGTTAAAGTGCTCTTCG-GAGCTTC
*
32048845 CCGTTA
1 CTGTTA
32048851 TTAATCCCGG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 29 0.63
25 17 0.37
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (25 bp):
CTGTTAAAGTGCTCTTCGGAGCTTC
Found at i:32053944 original size:4 final size:4
Alignment explanation
Indices: 32053937--32054000 Score: 55
Period size: 4 Copynumber: 16.8 Consensus size: 4
32053927 AAAAAGGAGT
* * *
32053937 AATA AATA AATA AGTA AATA AATA TATA GAT- AATA AA-A TAAT- AAT-
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA -AATA AATA
*
32053982 AATA GATA AATA AATA AAT
1 AATA AATA AATA AATA AAT
32054001 GCCCGATGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
3 9 0.18
4 40 0.82
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:32055487 original size:22 final size:23
Alignment explanation
Indices: 32055444--32055485 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
32055434 AAAATGACCT
*
32055444 ATTACAATCTAAATATATTTTAG
1 ATTACAATCAAAATATATTTTAG
32055467 ATTA-AATCAAAATA-ATTTT
1 ATTACAATCAAAATATATTTT
32055486 TAAAAGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 9 0.50
23 4 0.22
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTACAATCAAAATATATTTTAG
Found at i:32059224 original size:30 final size:30
Alignment explanation
Indices: 32059188--32059247 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
32059178 CCCTTAATAA
*
32059188 ACATAAATTCCATGGGTAGAATAGTAATTT
1 ACATAAATTCCATGGGTAGAACAGTAATTT
*
32059218 ACATAAATTCCATGGGTAGGACAGTAATTT
1 ACATAAATTCCATGGGTAGAACAGTAATTT
32059248 GCATCGCTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (30 bp):
ACATAAATTCCATGGGTAGAACAGTAATTT
Found at i:32066639 original size:11 final size:11
Alignment explanation
Indices: 32066625--32066670 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
32066615 AAAGTGATCG
32066625 AAAAAATGAAA
1 AAAAAATGAAA
32066636 AAAAAATAGAAA
1 AAAAAAT-GAAA
*
32066648 AAAATATGAAA
1 AAAAAATGAAA
*
32066659 AATAAA-GAAA
1 AAAAAATGAAA
32066669 AA
1 AA
32066671 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 6 0.19
11 15 0.48
12 10 0.32
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (11 bp):
AAAAAATGAAA
Found at i:32066671 original size:10 final size:9
Alignment explanation
Indices: 32066634--32066681 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
32066624 GAAAAAATGA
32066634 AAAAAAAAT
1 AAAAAAAAT
32066643 AGAAAAAAAT
1 A-AAAAAAAT
**
32066653 ATGAAAAAT
1 AAAAAAAAT
32066662 AAAGAAAAAT
1 AAA-AAAAAT
*
32066672 TAAAAAAAT
1 AAAAAAAAT
32066681 A
1 A
32066682 TTTTTTTGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 14 0.45
10 17 0.55
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:32066678 original size:19 final size:18
Alignment explanation
Indices: 32066635--32066681 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
32066625 AAAAAATGAA
32066635 AAAAAAATAGAAAAAAAT
1 AAAAAAATAGAAAAAAAT
*
32066653 ATGAAAAATA-AAGAAAAATT
1 A-AAAAAATAGAA-AAAAA-T
32066673 AAAAAAATA
1 AAAAAAATA
32066682 TTTTTTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 3 0.12
19 19 0.79
20 2 0.08
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (18 bp):
AAAAAAATAGAAAAAAAT
Found at i:32070019 original size:28 final size:30
Alignment explanation
Indices: 32069983--32070042 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
32069973 TTTTTTATCT
*
32069983 AAATAATATAAAAAACA-ATTAATTATGAA
1 AAATAATATAAAAAACAGATTAATTACGAA
** *
32070012 AAAT-ATATGGAAAATAGATTAATTACGAA
1 AAATAATATAAAAAACAGATTAATTACGAA
32070041 AA
1 AA
32070043 TAGGCATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (30 bp):
AAATAATATAAAAAACAGATTAATTACGAA
Found at i:32071481 original size:15 final size:14
Alignment explanation
Indices: 32071460--32071495 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
32071450 AACTAGTTTT
32071460 ATTTATTTTTAAATA
1 ATTTATTTTT-AATA
*
32071475 TTTTATTTTTAATA
1 ATTTATTTTTAATA
32071489 ATTTATT
1 ATTTATT
32071496 CAACCGAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTATTTTTAATA
Found at i:32075174 original size:17 final size:17
Alignment explanation
Indices: 32075152--32075187 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32075142 ATCAATAGTC
32075152 ATCTTTAAAACTTTGAA
1 ATCTTTAAAACTTTGAA
* *
32075169 ATCTTTAGACCTTTGAA
1 ATCTTTAAAACTTTGAA
32075186 AT
1 AT
32075188 TTCAAGCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (17 bp):
ATCTTTAAAACTTTGAA
Found at i:32078078 original size:32 final size:29
Alignment explanation
Indices: 32078008--32078078 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 29
32077998 TGGACATCTC
*
32078008 AAACCATCCACTAAGGGAAAGAGAGGCCC
1 AAACCATCCACTAAGGGAAAGAGAGGCCA
*
32078037 AAACCATCCACTAGAGAGGAGAAGGGA-GCTCA
1 AAACCATCCACTA-AG-GGA-AAGAGAGGC-CA
32078069 AAACCATCCA
1 AAACCATCCA
32078079 TCTGACTTGG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 13 0.36
30 2 0.06
31 5 0.14
32 16 0.44
ACGTcount: A:0.42, C:0.27, G:0.23, T:0.08
Consensus pattern (29 bp):
AAACCATCCACTAAGGGAAAGAGAGGCCA
Found at i:32079606 original size:10 final size:10
Alignment explanation
Indices: 32079591--32079642 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
32079581 GTTAATTTCA
32079591 ATTATTTAAT
1 ATTATTTAAT
32079601 ATTATTTAAT
1 ATTATTTAAT
* *
32079611 ATTTTTTCAT
1 ATTATTTAAT
*
32079621 -TTATATAAT
1 ATTATTTAAT
* *
32079630 TTTAATTAAT
1 ATTATTTAAT
32079640 ATT
1 ATT
32079643 TTTTTATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
9 6 0.18
10 27 0.82
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTATTTAAT
Found at i:32079624 original size:29 final size:29
Alignment explanation
Indices: 32079586--32079646 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
32079576 GTATGGTTAA
* *
32079586 TTTCAATTATTTAATATTATTTAATATTT
1 TTTCAATTATATAATATTAATTAATATTT
* *
32079615 TTTCATTTATATAATTTTAATTAATATTT
1 TTTCAATTATATAATATTAATTAATATTT
32079644 TTT
1 TTT
32079647 TATAATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTCAATTATATAATATTAATTAATATTT
Found at i:32081655 original size:59 final size:60
Alignment explanation
Indices: 32081590--32081705 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 60
32081580 TTAATATATA
* *
32081590 TGTACAAACTATTTTTATATTATT-TC-ATTTAATAAAACAGAAGTTGTTTTAAATATTTT
1 TGTACAAACTATATTTATATT-TTGTCTATTTAATAAAACAGAAGTTCTTTTAAATATTTT
* * *
32081649 TGTACAAATTATATTTATATTTTGTCTTATTTAATAAAATAGAAGTTCTTTTGAATA
1 TGTACAAACTATATTTATATTTTGTC-TATTTAATAAAACAGAAGTTCTTTTAAATA
32081706 AGGCAATACA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 2 0.04
59 21 0.43
61 26 0.53
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (60 bp):
TGTACAAACTATATTTATATTTTGTCTATTTAATAAAACAGAAGTTCTTTTAAATATTTT
Found at i:32085825 original size:21 final size:22
Alignment explanation
Indices: 32085785--32085825 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
32085775 AGTTCTTGTT
*
32085785 ATTTATTTTAATTCTGTTTTTG
1 ATTTATTTTAATTCTATTTTTG
*
32085807 ATTT-TTTTAATTTTATTTT
1 ATTTATTTTAATTCTATTTT
32085826 AATCGCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (22 bp):
ATTTATTTTAATTCTATTTTTG
Found at i:32087957 original size:126 final size:126
Alignment explanation
Indices: 32087793--32088097 Score: 443
Period size: 126 Copynumber: 2.4 Consensus size: 126
32087783 AAGCAGGATG
* * *
32087793 TACTGTACAAAAAGAGCATCCAGCTGGGTGCTTTTTTCAGTACTTTTGCTGACAATGCATCTTGC
1 TACTGTACAAAAAGAGGATCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCTTAC
* *
32087858 TTAAAGTGTTTTTCAACCTATTTCTCCAAAACCATCTTCTCAAAATTATTTTTTCAGAATC
66 TTAAAGTGTTTTTCAACCTATTTCTCCAAAACCATCTTCTCAAAATTATTTTTTCAAAAAC
* * *
32087919 TACTGTACAAAAAGAGGATCAAGCTAGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCTTAC
1 TACTGTACAAAAAGAGGATCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCTTAC
* * * *
32087984 TTGAAGTGTTTTTCAACCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAAAAAC
66 TTAAAGTGTTTTTCAACCTATTTCTCCAAAACCATCTTCTCAAAATTATTTTTTCAAAAAC
* * *
32088045 CA-TAGTACAAAAAGAGCG-TCCAGCTGGGAGCTTTTTTCAGTATTTTTGTTGAC
1 TACT-GTACAAAAAGAG-GATCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGAC
32088098 TGTACAAAAA
Statistics
Matches: 160, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
125 1 0.01
126 158 0.99
127 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (126 bp):
TACTGTACAAAAAGAGGATCCAGCTGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATCTTAC
TTAAAGTGTTTTTCAACCTATTTCTCCAAAACCATCTTCTCAAAATTATTTTTTCAAAAAC
Done.