Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015086.1 Kokia drynarioides strain JFW-HI SEQ_130130, whole genome shotgun sequence
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: 100172
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Warning! 215 characters in sequence are not A, C, G, or T
Found at i:4361 original size:13 final size:13
Alignment explanation
Indices: 4343--4368 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4333 CCTCCAAAAT
4343 TTTACTTTTCCCA
1 TTTACTTTTCCCA
4356 TTTACTTTTCCCA
1 TTTACTTTTCCCA
4369 AAAACCCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTACTTTTCCCA
Found at i:6710 original size:7 final size:6
Alignment explanation
Indices: 6684--6713 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
6674 AAAATAAGAA
6684 GGGAAG GGGAAG GGGAAG GGAGAAG GGGAA
1 GGGAAG GGGAAG GGGAAG GG-GAAG GGGAA
6714 TAGAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:6710 original size:13 final size:13
Alignment explanation
Indices: 6680--6713 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
6670 AGGGAAAATA
6680 AGAA-GGGAAGGG
1 AGAAGGGGAAGGG
6692 -GAAGGGGAAGGG
1 AGAAGGGGAAGGG
6704 AGAAGGGGAA
1 AGAAGGGGAA
6714 TAGAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (13 bp):
AGAAGGGGAAGGG
Found at i:6785 original size:29 final size:30
Alignment explanation
Indices: 6752--6825 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
6742 GATGATGATG
6752 ATTTTAATAATTTTATA-TTTAAAAAAATA
1 ATTTTAATAATTTTATATTTTAAAAAAATA
**
6781 ATTTTAATAATTTTATATTTTTTAAAAATA
1 ATTTTAATAATTTTATATTTTAAAAAAATA
6811 ATTTTAATAATTTTA
1 ATTTTAATAATTTTA
6826 AAATTATTTG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
29 17 0.40
30 25 0.60
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTTTAATAATTTTATATTTTAAAAAAATA
Found at i:6824 original size:21 final size:21
Alignment explanation
Indices: 6786--6828 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
6776 AAATAATTTT
*
6786 AATAATTTTATATTTTTTAAA
1 AATAATTTTATATATTTTAAA
6807 AATAATTTTA-ATAATTTTAAA
1 AATAATTTTATAT-ATTTTAAA
6828 A
1 A
6829 TTATTTGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAATTTTATATATTTTAAA
Found at i:10387 original size:15 final size:15
Alignment explanation
Indices: 10367--10400 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
10357 GTAAATCACC
10367 ACTTCAAACGAAAAT
1 ACTTCAAACGAAAAT
10382 ACTTCAAACGAAAAT
1 ACTTCAAACGAAAAT
10397 ACTT
1 ACTT
10401 AAATCAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.24
Consensus pattern (15 bp):
ACTTCAAACGAAAAT
Found at i:16850 original size:12 final size:12
Alignment explanation
Indices: 16823--16977 Score: 93
Period size: 12 Copynumber: 12.5 Consensus size: 12
16813 TGATTTTAAG
*
16823 TTTAAATTGA-T
1 TTTAAATTTATT
16834 TTTAAATTTATT
1 TTTAAATTTATT
**
16846 TTTAAATTTAAA
1 TTTAAATTTATT
* *
16858 TTT-ACTTTAAAAT
1 TTTAAATTT--ATT
16871 TTTAAATTTATT
1 TTTAAATTTATT
* **
16883 TTCAAATTTAAA
1 TTTAAATTTATT
16895 TTTAAATTTATT
1 TTTAAATTTATT
16907 TTTAAATTTAAATT
1 TTTAAATTT--ATT
*
16921 TTT-AATTTA-G
1 TTTAAATTTATT
16931 TTTAAATTTGAAATGGT
1 TTTAAATTT---AT--T
* **
16948 TTTAAACTTAAC
1 TTTAAATTTATT
16960 TTTAAATTTATT
1 TTTAAATTTATT
16972 TTTAAA
1 TTTAAA
16978 GTCAAATACA
Statistics
Matches: 110, Mismatches: 21, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
10 3 0.03
11 19 0.17
12 58 0.53
13 10 0.09
14 12 0.11
17 8 0.07
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (12 bp):
TTTAAATTTATT
Found at i:16857 original size:18 final size:18
Alignment explanation
Indices: 16834--16921 Score: 95
Period size: 18 Copynumber: 4.5 Consensus size: 18
16824 TTAAATTGAT
16834 TTTAAATTTATTTTTAAA
1 TTTAAATTTATTTTTAAA
* *
16852 TTTAAATTTACTTTAAAA
1 TTTAAATTTATTTTTAAA
16870 TTTTAAATTTATTTTCAAATTTAAA
1 -TTTAAATTTA--TT----TTTAAA
16895 TTTAAATTTATTTTTAAA
1 TTTAAATTTATTTTTAAA
16913 TTTAAATTT
1 TTTAAATTT
16922 TTAATTTAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
18 31 0.53
19 10 0.17
21 1 0.02
22 2 0.03
24 10 0.17
25 5 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAATTTATTTTTAAA
Found at i:16964 original size:6 final size:6
Alignment explanation
Indices: 16834--16944 Score: 84
Period size: 6 Copynumber: 18.2 Consensus size: 6
16824 TTAAATTGAT
** * *
16834 TTTAAA TTTATT TTTAAA TTTAAA TTT-AC TTTAAAA TTTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA -TTTAAA TTTAAA
** * *
16882 TTTCAAA TTTAAA TTTAAA TTTATT TTTAAA TTTAAA TTTTTAA TTT-AG
1 TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA
16931 TTTAAA TTTGAAA T
1 TTTAAA TTT-AAA T
16945 GGTTTTAAAC
Statistics
Matches: 82, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
5 12 0.15
6 50 0.61
7 17 0.21
8 3 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:17625 original size:6 final size:6
Alignment explanation
Indices: 17614--17683 Score: 58
Period size: 6 Copynumber: 12.2 Consensus size: 6
17604 AGTAAATATC
* * *
17614 ATTAAT ATTAAT ATTAATT ATT-AT AATATT AATAAT ATTAAT -TTAAT
1 ATTAAT ATTAAT ATTAA-T ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT
* *
17661 AAT-A- ATTAAT ATTAAT AATAAT A
1 ATTAAT ATTAAT ATTAAT ATTAAT A
17684 AAAAGAGCTG
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
4 2 0.04
5 10 0.19
6 36 0.69
7 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATTAAT
Found at i:17640 original size:21 final size:20
Alignment explanation
Indices: 17616--17676 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 20
17606 TAAATATCAT
*
17616 TAATATTAATATTAATTATTA
1 TAATATTAATATTAATT-TAA
17637 TAATATTAATAATATTAATTTAA
1 TAATA-T--TAATATTAATTTAA
17660 TAATAATTAATATTAAT
1 TAAT-ATTAATATTAAT
17677 AATAATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 15 0.43
22 1 0.03
23 7 0.20
24 12 0.34
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATATTAATATTAATTTAA
Found at i:17649 original size:3 final size:3
Alignment explanation
Indices: 17616--17684 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
17606 TAAATATCAT
* * * * * * *
17616 TAA TAT TAA TAT TAA TTA TTA TAA TAT TAA TAA TAT TAA T-T TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
17663 TAA TTAA TAT TAA TAA TAA TAA
1 TAA -TAA TAA TAA TAA TAA TAA
17685 AAAGAGCTGA
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
2 1 0.02
3 46 0.92
4 3 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (3 bp):
TAA
Found at i:17650 original size:30 final size:30
Alignment explanation
Indices: 17616--17680 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
17606 TAAATATCAT
* *
17616 TAATATTAATATTAATTATTA-TAATATTAA
1 TAATATTAAT-TTAATAATAATTAATATTAA
17646 TAATATTAATTTAATAATAATTAATATTAA
1 TAATATTAATTTAATAATAATTAATATTAA
17676 TAATA
1 TAATA
17681 ATAAAAAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TAATATTAATTTAATAATAATTAATATTAA
Found at i:17654 original size:24 final size:24
Alignment explanation
Indices: 17622--17671 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
17612 TCATTAATAT
*
17622 TAATATTAATTATTATAAT-ATTAA
1 TAATATTAATT-TAATAATAATTAA
17646 TAATATTAATTTAATAATAATTAA
1 TAATATTAATTTAATAATAATTAA
17670 TA
1 TA
17672 TTAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TAATATTAATTTAATAATAATTAA
Found at i:18143 original size:24 final size:25
Alignment explanation
Indices: 18095--18148 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
18085 GAACGGAGGA
*
18095 GATGACGGCACGTGAGGACGGTGT-
1 GATGGCGGCACGTGAGGACGGTGTG
*
18119 GATGGCGGCACGTGGAGGAC-TTGTG
1 GATGGCGGCACGT-GAGGACGGTGTG
18144 GATGG
1 GATGG
18149 GCCTAACCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.19, C:0.15, G:0.48, T:0.19
Consensus pattern (25 bp):
GATGGCGGCACGTGAGGACGGTGTG
Found at i:18794 original size:29 final size:29
Alignment explanation
Indices: 18761--19146 Score: 235
Period size: 29 Copynumber: 13.1 Consensus size: 29
18751 AAATCACAAA
**
18761 TTTACCCCTAAACTTTCTTAAATTCCATT
1 TTTACCCCTAAACTTTCAAAAATTCCATT
**
18790 TTTACCTCC-AAACTTTCTTAAATTCCATT
1 TTTACC-CCTAAACTTTCAAAAATTCCATT
* * * *
18819 TTTA-ACCTCGAATTTTCTAAAAATTACATT
1 TTTACCCCT-AAACTTTC-AAAAATTCCATT
* * *
18849 TTTACCCCCTAAACTTTCCAAGATTTCATT
1 TTTA-CCCCTAAACTTTCAAAAATTCCATT
* * ** * *
18879 TTTGACCTC-GATTTTTCCAAAATTTACATT
1 TTT-ACCCCTAAACTTT-CAAAAATTCCATT
* * * *
18909 TTTACCCTTAAACTTTCCAAGATTTCATTT
1 TTTACCCCTAAACTTTCAAAAATTCCA-TT
* * *** *
18939 TTTACCTCGATTTTTTCAAAAATTACATT
1 TTTACCCCTAAACTTTCAAAAATTCCATT
* **
18968 TTTACCCTTAATTTTTTC-AAAATTCCATT
1 TTTACCCCTAA-ACTTTCAAAAATTCCATT
* * * *
18997 TTTAACCCTAAACTTTACAAAATTTACAAT
1 TTTACCCCTAAACTTT-CAAAAATTCCATT
* * *
19027 TTTACCCCCAAAC-TTCACAAGAATTACATA
1 TTTACCCCTAAACTTTCA-AA-AATTCCATT
*
19057 TTTACCCCTAAACTTCCAAAAATTCCA-T
1 TTTACCCCTAAACTTTCAAAAATTCCATT
* * *
19085 TTTACCCCCAAAATTCCAAAAATTCCATT
1 TTTACCCCTAAACTTTCAAAAATTCCATT
* * *
19114 TTTACCCCCAAAATTCCAAAAATTCCATT
1 TTTACCCCTAAACTTTCAAAAATTCCATT
19143 TTTA
1 TTTA
19147 ATCCTGTATG
Statistics
Matches: 279, Mismatches: 61, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
27 2 0.01
28 30 0.11
29 123 0.44
30 111 0.40
31 10 0.04
32 3 0.01
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.41
Consensus pattern (29 bp):
TTTACCCCTAAACTTTCAAAAATTCCATT
Found at i:18843 original size:30 final size:30
Alignment explanation
Indices: 18780--19003 Score: 109
Period size: 30 Copynumber: 7.6 Consensus size: 30
18770 AAACTTTCTT
* * *
18780 AAATTCCATTTTT-ACCTCCAAACTTTCT-T
1 AAATTACATTTTTAACCT-CAAATTTTCTAA
* *
18809 AAATTCCATTTTTAACCTCGAATTTTCTAA
1 AAATTACATTTTTAACCTCAAATTTTCTAA
* * * *
18839 AAATTACATTTTTACCCCCTAAACTTTC-CA
1 AAATTACATTTTTAACCTC-AAATTTTCTAA
* * * * * *
18869 AGATTTCATTTTTGACCTCGATTTTTCCAA
1 AAATTACATTTTTAACCTCAAATTTTCTAA
* * * * *
18899 AATTTACATTTTTACCCTTAAACTTTC-CA
1 AAATTACATTTTTAACCTCAAATTTTCTAA
* * * * *
18928 AGATTTCATTTTTTACCTC-GATTTTTTCAA
1 AAATTACATTTTTAACCTCAAATTTTCT-AA
* * * *
18958 AAATTACATTTTTACCCT-TAATTTTTTCA
1 AAATTACATTTTTAACCTCAAATTTTCTAA
*
18987 AAATTCCATTTTTAACC
1 AAATTACATTTTTAACC
19004 CTAAACTTTA
Statistics
Matches: 142, Mismatches: 46, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
28 4 0.03
29 56 0.39
30 76 0.54
31 6 0.04
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (30 bp):
AAATTACATTTTTAACCTCAAATTTTCTAA
Found at i:19005 original size:30 final size:30
Alignment explanation
Indices: 18838--19005 Score: 119
Period size: 30 Copynumber: 5.7 Consensus size: 30
18828 GAATTTTCTA
* * **
18838 AAAATTACATTTTTACCCCCTAAACTTTCC
1 AAAATTACATTTTTAACCCTTAATTTTTCC
* * * **
18868 AAGATTTCATTTTTGA-CCTCGATTTTTCC
1 AAAATTACATTTTTAACCCTTAATTTTTCC
**
18897 AAAATTTACATTTTT-ACCCTTAAACTTTCC
1 AAAA-TTACATTTTTAACCCTTAATTTTTCC
* * * * * *
18927 AAGATTTCATTTTTTA-CCTCGATTTTTTCA
1 AAAATTACATTTTTAACCCT-TAATTTTTCC
*
18957 AAAATTACATTTTT-ACCCTTAATTTTTTC
1 AAAATTACATTTTTAACCCTTAATTTTTCC
*
18986 AAAATTCCATTTTTAACCCT
1 AAAATTACATTTTTAACCCT
19006 AAACTTTACA
Statistics
Matches: 103, Mismatches: 29, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
29 44 0.43
30 59 0.57
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (30 bp):
AAAATTACATTTTTAACCCTTAATTTTTCC
Found at i:19018 original size:59 final size:59
Alignment explanation
Indices: 18780--19003 Score: 247
Period size: 59 Copynumber: 3.8 Consensus size: 59
18770 AAACTTTCTT
* * **
18780 AAATTCCATTTTTA-CCTCCAAACTTTCTTAAATTCCATTTTTAACCTCGAA-TTTTCTAA
1 AAATTACATTTTTACCCT-TAAACTTTCCAAAATTCCATTTTTAACCTCGAATTTTTC-AA
* * * *
18839 AAATTACATTTTTACCCCCTAAACTTTCCAAGATTTCATTTTTGACCTCG-ATTTTTCCAA
1 AAATTACATTTTTA-CCCTTAAACTTTCCAAAATTCCATTTTTAACCTCGAATTTTT-CAA
* * * * *
18899 AATTTACATTTTTACCCTTAAACTTTCCAAGATTTCATTTTTTACCTCGATTTTTTCAA
1 AAATTACATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCTCGAATTTTTCAA
** *
18958 AAATTACATTTTTACCCTTAATTTTTTCAAAATTCCATTTTTAACC
1 AAATTACATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACC
19004 CTAAACTTTA
Statistics
Matches: 141, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
59 89 0.63
60 49 0.35
61 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (59 bp):
AAATTACATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCTCGAATTTTTCAA
Found at i:19024 original size:59 final size:59
Alignment explanation
Indices: 18786--19033 Score: 205
Period size: 59 Copynumber: 4.2 Consensus size: 59
18776 TCTTAAATTC
* ** * * *
18786 CATTTTTA-CCTCCAAACTTTCTTAAATTCCATTTTTAACCTCGAA-TTTTCTAAAAATTA
1 CATTTTTACCCT-TAAACTTTCCAAAATTCCATTTTTAACCTCAAACTTTAC-AAAATTTA
* * * * * ** *
18845 CATTTTTACCCCCTAAACTTTCCAAGATTTCATTTTTGACCTCGATTTTTCCAAAATTTA
1 CATTTTTA-CCCTTAAACTTTCCAAAATTCCATTTTTAACCTCAAACTTTACAAAATTTA
* * * * ** * *
18905 CATTTTTACCCTTAAACTTTCCAAGATTTCATTTTTTACCTCGATTTTTTCAAAAATTA
1 CATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCTCAAACTTTACAAAATTTA
** *
18964 CATTTTTACCCTTAATTTTTTCAAAATTCCATTTTTAACC-CTAAACTTTACAAAATTTA
1 CATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCTC-AAACTTTACAAAATTTA
*
19023 CAATTTTACCC
1 CATTTTTACCC
19034 CCAAACTTCA
Statistics
Matches: 159, Mismatches: 26, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
58 1 0.01
59 111 0.70
60 41 0.26
61 6 0.04
ACGTcount: A:0.30, C:0.23, G:0.02, T:0.45
Consensus pattern (59 bp):
CATTTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCTCAAACTTTACAAAATTTA
Found at i:19216 original size:29 final size:29
Alignment explanation
Indices: 19071--19326 Score: 152
Period size: 29 Copynumber: 8.8 Consensus size: 29
19061 CCCCTAAACT
* * *
19071 TCCAAAAATTCCA-TTTTACCCCCAAAAT-
1 TCCAAAAATTACATTTTTACCCCC-GAGTG
* * *
19099 TCCAAAAATTCCATTTTTACCCCCAAAAT-
1 TCCAAAAATTACATTTTTACCCCC-GAGTG
* ** *
19128 TCCAAAAATTCCATTTTTAATCCTGTA-TG
1 TCCAAAAATTACATTTTTACCCCCG-AGTG
* **
19157 TCTAAAAATT-CAATTTTTGA-CCTTGTA-TG
1 TCCAAAAATTAC-ATTTTT-ACCCCCG-AGTG
19186 TCCAAAAATTACATTTTTACCCCCGAGTG
1 TCCAAAAATTACATTTTTACCCCCGAGTG
* ** *
19215 TCCAAAAATCACCGTTTTGCTCCCCG-GATG
1 TCCAAAAATTACATTTTTAC-CCCCGAG-TG
*
19245 TCCAAAAATTACATTTTCACCCCCGAGTG
1 TCCAAAAATTACATTTTTACCCCCGAGTG
* * *
19274 TCCAAAAATCACCATTTTCACCCTCGAGTG
1 TCCAAAAATTA-CATTTTTACCCCCGAGTG
**
19304 TTTAAAAATTACCA-TTTTACCCC
1 TCCAAAAATTA-CATTTTTACCCC
19327 TAAAGCATCC
Statistics
Matches: 190, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
28 17 0.09
29 120 0.63
30 53 0.28
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTACCCCCGAGTG
Found at i:19247 original size:30 final size:28
Alignment explanation
Indices: 19184--19326 Score: 121
Period size: 30 Copynumber: 4.9 Consensus size: 28
19174 TGACCTTGTA
*
19184 TGTCCAAAAATTA-CATTTTTACCCCCGAG
1 TGTCCAAAAATCACCA-TTTT-CCCCCGAG
*
19213 TGTCCAAAAATCACCGTTTTGCTCCCCG-G
1 TGTCCAAAAATCACCATTTT-C-CCCCGAG
*
19242 ATGTCCAAAAATTA-CATTTTCACCCCCGAG
1 -TGTCCAAAAATCACCATTTT--CCCCCGAG
19272 TGTCCAAAAATCACCATTTTCACCCTCGAG
1 TGTCCAAAAATCACCATTTTC-CCC-CGAG
** * *
19302 TGTTTAAAAATTACCATTTTACCCC
1 TGTCCAAAAATCACCATTTTCCCCC
19327 TAAAGCATCC
Statistics
Matches: 95, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
28 2 0.02
29 46 0.48
30 47 0.49
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.30
Consensus pattern (28 bp):
TGTCCAAAAATCACCATTTTCCCCCGAG
Found at i:19311 original size:59 final size:58
Alignment explanation
Indices: 19183--19326 Score: 193
Period size: 59 Copynumber: 2.4 Consensus size: 58
19173 TTGACCTTGT
* *
19183 ATGTCCAAAAATTACATTTTTACCCCCGAGTGTCCAAAAATCACCGTTTTGCTCCCCGG
1 ATGTCCAAAAATTACA-TTTTACCCCCGAGTGTCCAAAAATCACCATTTTGCACCCCGG
19242 ATGTCCAAAAATTACATTTTCACCCCCGAGTGTCCAAAAATCACCATTTT-CACCCTC-G
1 ATGTCCAAAAATTACATTTT-ACCCCCGAGTGTCCAAAAATCACCATTTTGCACCC-CGG
**
19300 AGTGTTTAAAAATTACCATTTTACCCC
1 A-TGTCCAAAAATTA-CATTTTACCCC
19327 TAAAGCATCC
Statistics
Matches: 77, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
58 10 0.13
59 61 0.79
60 6 0.08
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (58 bp):
ATGTCCAAAAATTACATTTTACCCCCGAGTGTCCAAAAATCACCATTTTGCACCCCGG
Found at i:25324 original size:15 final size:16
Alignment explanation
Indices: 25304--25333 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25294 ATAATAACAC
25304 CCAAAGAAGA-GTAAT
1 CCAAAGAAGATGTAAT
25319 CCAAAGAAGATGTAA
1 CCAAAGAAGATGTAA
25334 ACCTTGTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (16 bp):
CCAAAGAAGATGTAAT
Found at i:33343 original size:17 final size:17
Alignment explanation
Indices: 33321--33354 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33311 TTTAAAATTC
*
33321 TTCATCTAAAGTTTAAA
1 TTCATCAAAAGTTTAAA
*
33338 TTCATCAAAATTTTAAA
1 TTCATCAAAAGTTTAAA
33355 ATAATATATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (17 bp):
TTCATCAAAAGTTTAAA
Found at i:33988 original size:16 final size:16
Alignment explanation
Indices: 33949--33990 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
33939 TGTGTAAAAA
33949 AAACAT-AAATATAAAT
1 AAACATGAAA-ATAAAT
*
33965 AGACATGAAAATAAAT
1 AAACATGAAAATAAAT
*
33981 AAAGATGAAA
1 AAACATGAAA
33991 TAAGAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.19
Consensus pattern (16 bp):
AAACATGAAAATAAAT
Found at i:34744 original size:21 final size:20
Alignment explanation
Indices: 34719--34768 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
34709 TATTTTAAAA
34719 TATTTAAAAAAATCAAAATTT
1 TATTTAAAAAAAT-AAAATTT
*
34740 TATTTTAAAAAAATTAAATTT
1 TA-TTTAAAAAAATAAAATTT
34761 T-TTTAAAA
1 TATTTAAAA
34769 TAAAATTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 7 0.26
21 9 0.33
22 11 0.41
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTTAAAAAAATAAAATTT
Found at i:34747 original size:22 final size:20
Alignment explanation
Indices: 34721--34774 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
34711 TTTTAAAATA
34721 TTTAAAAAAATCAAAATTTTAT
1 TTTAAAAAAAT-AAAATTTT-T
*
34743 TTTAAAAAAATTAAATTTTT
1 TTTAAAAAAATAAAATTTTT
*
34763 TTAAAATAAAAT
1 TTTAAA-AAAAT
34775 TTTGATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 6 0.21
21 12 0.41
22 11 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTAAAAAAATAAAATTTTT
Found at i:34767 original size:71 final size:68
Alignment explanation
Indices: 34682--34876 Score: 176
Period size: 71 Copynumber: 2.8 Consensus size: 68
34672 TTTTTAAATC
* *
34682 ACTACTTTTCTTAAAGAATAAAGTTTTTATTTTAAAATATTTAAAAAAATCAAAATTTTATTTTA
1 ACTAATTTTCTTAAA-AATAAAATTTTTATTTTAAAATATTT-AAAAAATCAAAATTTTATTTTA
34747 AAAAA
64 AAAAA
* * * * * * * *
34752 ATTAAATTTT-TTTAAAATAAAATTTTGATTTTTTTAAATATTTTTAAAAATCTAATTTTTTTTT
1 ACT-AATTTTCTTAAAAATAAAATTTT--TATTTTAAAATA-TTTAAAAAATCAAAATTTTATTT
**
34816 TAAAATC
62 TAAAAAA
* ** *
34823 ACTACTTTTCTTAAAAATCAAAATTTTTATTTCGAAATAGTTAAAAAATCAAAA
1 ACTAATTTTCTTAAAAAT-AAAATTTTTATTTTAAAATATTTAAAAAATCAAAA
34877 CTTTGTTTAA
Statistics
Matches: 97, Mismatches: 22, Indels: 13
0.73 0.17 0.10
Matches are distributed among these distances:
69 21 0.22
70 20 0.21
71 45 0.46
72 11 0.11
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (68 bp):
ACTAATTTTCTTAAAAATAAAATTTTTATTTTAAAATATTTAAAAAATCAAAATTTTATTTTAAA
AAA
Found at i:34773 original size:21 final size:21
Alignment explanation
Indices: 34724--34789 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
34714 TAAAATATTT
** *
34724 AAAAAAATCAAAATTTTATTTT
1 AAAAAAATTTAAATTTT-TTTA
34746 AAAAAAA-TTAAATTTTTTTA
1 AAAAAAATTTAAATTTTTTTA
**
34766 AAATAAAATTTTGATTTTTTTA
1 AAA-AAAATTTAAATTTTTTTA
34788 AA
1 AA
34790 TATTTTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 6 0.16
21 11 0.30
22 20 0.54
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
AAAAAAATTTAAATTTTTTTA
Found at i:39121 original size:30 final size:31
Alignment explanation
Indices: 39067--39126 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
39057 TTAATAAAAG
*
39067 TTATTTTCTATTAACATGTAATTTACTTTAT
1 TTATTTTCAATTAACATGTAATTTACTTTAT
* *
39098 TTATTTTCAATTAATAT-TAATTTATTTTA
1 TTATTTTCAATTAACATGTAATTTACTTTA
39127 AACAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (31 bp):
TTATTTTCAATTAACATGTAATTTACTTTAT
Found at i:39528 original size:22 final size:22
Alignment explanation
Indices: 39496--39557 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
39486 AAATTAAATT
39496 ATATATATTTTATAATAATAATA
1 ATATA-ATTTTATAATAATAATA
* **
39519 ATATAATTTTATCATTTTAATA
1 ATATAATTTTATAATAATAATA
*
39541 ATTTATATTTTTATAAT
1 A--TATAATTTTATAAT
39558 TTTTAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 15 0.47
23 5 0.16
24 12 0.38
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATAATTTTATAATAATAATA
Found at i:39556 original size:15 final size:16
Alignment explanation
Indices: 39520--39559 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
39510 ATAATAATAA
39520 TATAATTTTATCATTTT
1 TATAA-TTTATCATTTT
*
39537 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
39552 TATAATTT
1 TATAATTT
39560 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:39563 original size:25 final size:25
Alignment explanation
Indices: 39496--39560 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
39486 AAATTAAATT
39496 ATATATATTTTATAA---TAATAATA
1 ATATA-ATTTTATAATTTTAATAATA
*
39519 ATATAATTTTATCATTTTAATAAT-
1 ATATAATTTTATAATTTTAATAATA
* *
39543 TTATATTTTTATAATTTT
1 ATATAATTTTATAATTTT
39561 TAAAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 8 0.23
23 5 0.14
24 15 0.43
25 7 0.20
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
ATATAATTTTATAATTTTAATAATA
Found at i:44532 original size:7 final size:7
Alignment explanation
Indices: 44520--44544 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44510 ATATTGATAG
44520 TGGATGA
1 TGGATGA
44527 TGGATGA
1 TGGATGA
44534 TGGATGA
1 TGGATGA
44541 TGGA
1 TGGA
44545 AGCCTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.44, T:0.28
Consensus pattern (7 bp):
TGGATGA
Found at i:52015 original size:39 final size:39
Alignment explanation
Indices: 51956--52034 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
51946 TTGATAAGAA
*
51956 ATTGCTTATTGAGTAGACCAAATTCAATGTGTAAGTCAC
1 ATTGCTTATTAAGTAGACCAAATTCAATGTGTAAGTCAC
* *
51995 ATTGTTTATTAAGTAGACCAAATTCGATGTGTAAGTCAC
1 ATTGCTTATTAAGTAGACCAAATTCAATGTGTAAGTCAC
52034 A
1 A
52035 AACCCATTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (39 bp):
ATTGCTTATTAAGTAGACCAAATTCAATGTGTAAGTCAC
Found at i:61046 original size:132 final size:132
Alignment explanation
Indices: 60798--61049 Score: 335
Period size: 132 Copynumber: 1.9 Consensus size: 132
60788 TTTACAGTTT
* * * **
60798 TGGGGGCTGGTCTTGGATGTCCTATCGATGGCTGAGGTCCTACATTTGTTATGGATTCTCCACAG
1 TGGGGGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCTACATTGGTTACAGATTCTCCACAG
* * *
60863 CTCATGCGAGCAACATTGTGTAGCCTAACATCCCGACTCATAGCTCATGTGAGCATTACAGGTTA
66 CTCATGCGAGCAACATCGTGTAGCCTAACATCCCAACTCACAGCTCATGTGAGCATTACAGGTTA
60928 TA
131 TA
* * * *
60930 TGGGTGCTTGTCTTAGATGTCCTACCGATGGCTGAGGTCCTGCATTGGTTGCAGATTCTCCACAG
1 TGGGGGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCTACATTGGTTACAGATTCTCCACAG
* * * * *
60995 CTCGTGTGAGCAGCATCGTGTAGCCTAACATCTCAA-TCCACAGCTCGTGTGAGCA
66 CTCATGCGAGCAACATCGTGTAGCCTAACATCCCAACT-CACAGCTCATGTGAGCA
61050 AGCCCATTTC
Statistics
Matches: 102, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
131 1 0.01
132 101 0.99
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (132 bp):
TGGGGGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCTACATTGGTTACAGATTCTCCACAG
CTCATGCGAGCAACATCGTGTAGCCTAACATCCCAACTCACAGCTCATGTGAGCATTACAGGTTA
TA
Found at i:61243 original size:158 final size:158
Alignment explanation
Indices: 60904--61234 Score: 493
Period size: 158 Copynumber: 2.1 Consensus size: 158
60894 CCCGACTCAT
* * * *
60904 AGCTCATGTGAGCATTACAGGTTATATGGGTGCTTGTCTTAGATGTCCTACCGATGGCTGAGGTC
1 AGCTCATGTGAGCATTACAGGTTATATGGGTGCTGGTATTAGATATCCTACCGATGGATGAGGTC
* * * *
60969 CTGCATTGGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCCTAACATCTCAATCC
66 CTGCATTGATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAACCCAACATCTCAACCC
61034 ACAGCTCGTGTGAGCAAGCCCATTTCAC
131 ACAGCTCGTGTGAGCAAGCCCATTTCAC
**
61062 AGCTTGTGTGAGCATTACAGGTTATATGGGTGCTGGTATTAGATATCCTACCGATGGATGAGGTC
1 AGCTCATGTGAGCATTACAGGTTATATGGGTGCTGGTATTAGATATCCTACCGATGGATGAGGTC
* * * * *
61127 C-GACATTTATTGCGGATTCTCCACAGCTCGTGTGAGCAGCATTGTGTAACCCCACATCTCGACC
66 CTG-CATTGATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAACCCAACATCTCAACC
*
61191 CACATCTCGTGTGAGCAAGCCCATTTCAC
130 CACAGCTCGTGTGAGCAAGCCCATTTCAC
*
61220 AGCTCATGTAAGCAT
1 AGCTCATGTGAGCAT
61235 ATATGGTTAC
Statistics
Matches: 153, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
157 1 0.01
158 152 0.99
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (158 bp):
AGCTCATGTGAGCATTACAGGTTATATGGGTGCTGGTATTAGATATCCTACCGATGGATGAGGTC
CTGCATTGATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAACCCAACATCTCAACCC
ACAGCTCGTGTGAGCAAGCCCATTTCAC
Found at i:64651 original size:78 final size:78
Alignment explanation
Indices: 64557--65567 Score: 898
Period size: 78 Copynumber: 12.9 Consensus size: 78
64547 TACCTTTGGC
* ** * *
64557 TCGGGGTAAGAGATTGGCTGATGGTAATCTACCTTAGGCTCGGGGTAAGAGATCGGATGGCTACA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
64622 ATCTGCCCTAGGT
66 ATCTGCCCTAGGT
** * * * * *
64635 TCGCAGTAAGAGATTGGCTGACGGTGATATGCCCCAAGCTCGGTGTAAGAGATCGGATGGCTACA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
* * *
64700 ATCTACCCCAGGC
66 ATCTGCCCTAGGT
* * * ** * * * *
64713 TCGAGGTAAGAAATTGGTTGATGGTGATCTACCTTAAGCTCGGGATAAGAGATCGAATGACTGTA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
* *
64778 ATCTATCCC-AAGT
66 ATCT-GCCCTAGGT
* * * ** **
64791 TCGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCAAGCTCGGGATAAGAGATCGGATGATTATA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
* *
64856 ATATGCCCTAAGT
66 ATCTGCCCTAGGT
* * * * * * *
64869 TCGGGGGTAAGAGATTAGTTGACGGTGATCTACCTCAAGCTCGGTGTAAAAGATCAGATGGCTGC
1 TC-GGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGC
* *
64934 AATCTG-CCTCAAGC
65 AATCTGCCCT-AGGT
* * * * * *
64948 TCGGGGTAAGAGATTGGCTGATTGTTATCTACCCCAAGCTAGGGGTAAGAGATTGAATGGCTGTA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
* *
65013 ATCTGTCTTAGGT
66 ATCTGCCCTAGGT
* * * * * **
65026 TCAGGGTAAGAGATTAGCTAATGGTGATCTACCCTAGGCTTAGGGTAAGAGATCGGATGGCTGCA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
*
65091 ATCTGCCCCAGGT
66 ATCTGCCCTAGGT
* * ** * * * * * * **
65104 T-AGGGTAAGAGATTGGCTGACGGTGATCTGTCTCAAGCTTGGGGTAACAGATCGAATAGTTATA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
* * * *
65168 ATATGCCCCAAGC
66 ATCTGCCCTAGGT
* * * * * *
65181 TCGGGGGTAAGAGATTGGCTAATGGTGATCTACCTCAGGCTCGGGGTAAGAGATTGAATGGCTGT
1 TC-GGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGC
*
65246 AATCT-TCCTAGGT
65 AATCTGCCCTAGGT
** * ** *
65259 TCGGGGTAAGAGATTAACTGATGGTGATCTGCCCCAAGCTCATGGTAAGAGATCGAATGGCTGCA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
* *
65324 ATTTGCCTTAGGT
66 ATCTGCCCTAGGT
* * * *** *
65337 TTGGGGTAAGAGATTGGTTGATGGTGATCTGCCTTTAGACTCGGGGTAAAAGATCGGATGGCTGC
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAG-CTCGGGGTAAGAGATCGGATGGCTGC
* *
65402 AATCTGCCCCAGGC
65 AATCTGCCCTAGGT
* *** ** * * *
65416 TCGAGGTAAGAGATTAATTGATGGTGATCTGTCCTAAACTCGGGGTAAGAGATCGGATGGCTACA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
*
65481 ATCTATCCC-AGGT
66 ATCT-GCCCTAGGT
* * * * *
65494 TTGGGGTAAGAGATTGGCTGACGGTGATCTGCCCCAAGCTCGGGGTAAAAAATCGGATGGCTGCA
1 TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
65559 ATCTGCCCT
66 ATCTGCCCT
65568 TCTTGATTAG
Statistics
Matches: 744, Mismatches: 178, Indels: 22
0.79 0.19 0.02
Matches are distributed among these distances:
77 121 0.16
78 441 0.59
79 182 0.24
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (78 bp):
TCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
ATCTGCCCTAGGT
Found at i:65234 original size:39 final size:39
Alignment explanation
Indices: 64555--65541 Score: 296
Period size: 39 Copynumber: 25.3 Consensus size: 39
64545 TCTACCTTTG
* * * *
64555 GCTCGGGGTAAGAGATTGGCTGATGGTAATCTACCTTAG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
* * *
64594 GCTCGGGGTAAGAGA-T--CGGATGGCTACAATCTGCC-CTAG
1 GCTCGGGGTAAGAGATTGGCTGATGG-T--GATCTGCCTC-AA
* ** * * *
64633 GTTCGCAGTAAGAGATTGGCTGACGGTGATATGCCCCAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
* * * * * *
64672 GCTCGGTGTAAGAGA-T--CGGATGGCTACAATCTACCCCAG
1 GCTCGGGGTAAGAGATTGGCTGATGG-T--GATCTGCCTCAA
* * * * *
64711 GCTCGAGGTAAGAAATTGGTTGATGGTGATCTACCTTAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
* * ** * *
64750 GCTCGGGATAAGAGATCGAATGACT-GTAATCTATCC-CAA
1 GCTCGGGGTAAGAGATTGGCTGA-TGGTGATCT-GCCTCAA
* * *
64789 GTTCGGGGTAAGAGATTGGCTGATGGTGATTTGCCCCAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
* * * ** * *
64828 GCTCGGGATAAGAGATCGGATGATTATAATATGCC-CTAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTC-AA
* * * * *
64867 GTTCGGGGGTAAGAGATTAGTTGACGGTGATCTACCTCAA
1 GCTC-GGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
* * *
64907 GCTCGGTGTAAAAGA-T--CAGATGGCTGCAATCTGCCTCAA
1 GCTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTGCCTCAA
* * * *
64946 GCTCGGGGTAAGAGATTGGCTGATTGTTATCTACCCCAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
* ** * * * * *
64985 GCTAGGGGTAAGAGATTGAATGGCT-GTAATCTGTCTTAG
1 GCTCGGGGTAAGAGATTGGCT-GATGGTGATCTGCCTCAA
* * * * * *
65024 GTTCAGGGTAAGAGATTAGCTAATGGTGATCTACC-CTAG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTC-AA
** * *
65063 GCTTAGGGTAAGAGA-T--CGGATGGCTGCAATCTGCC-CCA
1 GCTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTGCCTCAA
* ** * *
65101 GGTTAGGGTAAGAGATTGGCTGACGGTGATCTGTCTCAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
* * * ** ** * * *
65140 GCTTGGGGTAACAGATCGAAT-AGTTATAATATGCCCCAA
1 GCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTGCCTCAA
* * *
65179 GCTCGGGGGTAAGAGATTGGCTAATGGTGATCTACCTCAG
1 GCTC-GGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
** * * * *
65219 GCTCGGGGTAAGAGATTGAATGGCT-GTAATCTTCCT-AG
1 GCTCGGGGTAAGAGATTGGCT-GATGGTGATCTGCCTCAA
* ** *
65257 GTTCGGGGTAAGAGATTAACTGATGGTGATCTGCCCCAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
** * * *
65296 GCTCATGGTAAGAGA-T--C-GAATGGCTGCAATTTGCCTTAG
1 GCTCGGGGTAAGAGATTGGCTG-ATGG-TG--ATCTGCCTCAA
* * * **
65335 GTTTGGGGTAAGAGATTGGTTGATGGTGATCTGCCTTTA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
* * * *
65374 GACTCGGGGTAAAAGA-T--CGGATGGCTGCAATCTGCCCCAG
1 G-CTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTGCCTCAA
* ***
65414 GCTCGAGGTAAGAGATTAATTGATGGTGATCTGTCCT-AA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTG-CCTCAA
* * * * *
65453 ACTCGGGGTAAGAGA-T--CGGATGGCTACAATCTATCC-CAG
1 GCTCGGGGTAAGAGATTGGCTGATGG-T--GATCT-GCCTCAA
* * * *
65492 GTTTGGGGTAAGAGATTGGCTGACGGTGATCTGCCCCAA
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
65531 GCTCGGGGTAA
1 GCTCGGGGTAA
65542 AAAATCGGAT
Statistics
Matches: 681, Mismatches: 199, Indels: 136
0.67 0.20 0.13
Matches are distributed among these distances:
35 1 0.00
36 30 0.04
37 16 0.02
38 64 0.09
39 437 0.64
40 88 0.13
41 15 0.02
42 29 0.04
43 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (39 bp):
GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAA
Found at i:65563 original size:39 final size:39
Alignment explanation
Indices: 65376--65566 Score: 127
Period size: 39 Copynumber: 4.9 Consensus size: 39
65366 TGCCTTTAGA
*
65376 CTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAGG
1 CTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAG
* * ** * * *
65415 CTCGAGGTAAGAGATTAATTGATGG-TG--ATCTGTCCTAAA
1 CTCGGGGTAAAAGA-T--CGGATGGCTGCAATCTGCCCCAAG
* * ** *
65454 CTCGGGGTAAGAGATCGGATGGCTACAATCTATCCCAGG
1 CTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAG
* * * * * * * **
65493 TTTGGGGTAAGAGATTGGCTGACGGTGATCTGCCCCAAG
1 CTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAG
*
65532 CTCGGGGTAAAAAATCGGATGGCTGCAATCTGCCC
1 CTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCC
65567 TTCTTGATTA
Statistics
Matches: 108, Mismatches: 38, Indels: 12
0.68 0.24 0.08
Matches are distributed among these distances:
36 5 0.05
37 1 0.01
38 1 0.01
39 93 0.86
40 1 0.01
41 2 0.02
42 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
CTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCCCAAG
Found at i:65654 original size:41 final size:41
Alignment explanation
Indices: 65557--65841 Score: 310
Period size: 41 Copynumber: 6.9 Consensus size: 41
65547 CGGATGGCTG
*
65557 CAATCTGCCCTTCTTGATTAGGGGTAAAAAGATCGAAATC-T
1 CAATCTGCCCTTCTTGATTAGGGGT-AAAAGATAGAAATCTT
* *
65598 CTAATATGCCCTTCTTGATTAAGGGTAAAAGATAGAAATCTT
1 C-AATCTGCCCTTCTTGATTAGGGGTAAAAGATAGAAATCTT
* * * *
65640 CAATCTACCTTTCTTGATTAAGGGTAAAAGATTGAAATCTT
1 CAATCTGCCCTTCTTGATTAGGGGTAAAAGATAGAAATCTT
** *
65681 CAATCTG-CCTCTCTTGATTAGGGGTAAAAGACTTTAAATATT
1 CAATCTGCCCT-TCTTGATTAGGGGTAAAAGA-TAGAAATCTT
* * *
65723 CAATGTGCCCCTCTTGATTAAGGGTAAAAGACTAG-AATCTT
1 CAATCTGCCCTTCTTGATTAGGGGTAAAAGA-TAGAAATCTT
* *
65764 CAATCTG-CATTCTTGATTAGGGGTAAAAGACT-GGAATCTT
1 CAATCTGCCCTTCTTGATTAGGGGTAAAAGA-TAGAAATCTT
* * * *
65804 CAATCTACCCCTCTTAATTAGGGGTAAAAGATCGAAAT
1 CAATCTGCCCTTCTTGATTAGGGGTAAAAGATAGAAAT
65842 GATGTAGTTT
Statistics
Matches: 209, Mismatches: 27, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.00
40 37 0.18
41 110 0.53
42 59 0.28
43 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (41 bp):
CAATCTGCCCTTCTTGATTAGGGGTAAAAGATAGAAATCTT
Found at i:65655 original size:83 final size:81
Alignment explanation
Indices: 65557--65841 Score: 333
Period size: 83 Copynumber: 3.5 Consensus size: 81
65547 CGGATGGCTG
* * * * *
65557 CAATCTGCCCTTCTTGATTAGGGGTAAAAAGATCGAAATC-TCTAATATGCCCTTCTTGATTAAG
1 CAATCTACCCCTCTTGATTAAGGGT-AAAAGATCGAAATCTTC-AATCTG-CCTTCTTGATTAGG
65621 GGTAAAAGA-TAGAAATCTT
63 GGTAAAAGACT-GAAATCTT
** *
65640 CAATCTACCTTTCTTGATTAAGGGTAAAAGATTGAAATCTTCAATCTGCCTCTCTTGATTAGGGG
1 CAATCTACCCCTCTTGATTAAGGGTAAAAGATCGAAATCTTCAATCTGCCT-TCTTGATTAGGGG
* *
65705 TAAAAGACTTTAAATATT
65 TAAAAGAC-TGAAATCTT
* * * *
65723 CAATGTGCCCCTCTTGATTAAGGGTAAAAGA-CTAGAATCTTCAATCTGCATTCTTGATTAGGGG
1 CAATCTACCCCTCTTGATTAAGGGTAAAAGATCGA-AATCTTCAATCTGCCTTCTTGATTAGGGG
*
65787 TAAAAGACTGGAATCTT
65 TAAAAGACTGAAATCTT
* *
65804 CAATCTACCCCTCTTAATTAGGGGTAAAAGATCGAAAT
1 CAATCTACCCCTCTTGATTAAGGGTAAAAGATCGAAAT
65842 GATGTAGTTT
Statistics
Matches: 173, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
81 39 0.23
82 61 0.35
83 72 0.42
84 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (81 bp):
CAATCTACCCCTCTTGATTAAGGGTAAAAGATCGAAATCTTCAATCTGCCTTCTTGATTAGGGGT
AAAAGACTGAAATCTT
Found at i:65701 original size:124 final size:121
Alignment explanation
Indices: 65557--65841 Score: 376
Period size: 124 Copynumber: 2.3 Consensus size: 121
65547 CGGATGGCTG
* *
65557 CAATCTGCCCTTCTTGATTAGGGGTAAAAAGATCGAAAT-CTCTAATATGCCCTTCTTGATTAAG
1 CAATCTGCCC-TCTTGATTAGGGGT-AAAAGATCGAAATATTC-AATATGCCCCTCTTGATTAAG
* *
65621 GGTAAAAGA-TAGAAATCTTCAATCTACCTTTCTTGATTAAGGGTAAAAGATTGAAATCTT
63 GGTAAAAGACTAG-AATCTTCAATCT-CCATTCTTGATTAAGGGTAAAAGACTGAAATCTT
** *
65681 CAATCTGCCTCTCTTGATTAGGGGTAAAAGACTTTAAATATTCAATGTGCCCCTCTTGATTAAGG
1 CAATCTGCC-CTCTTGATTAGGGGTAAAAGA-TCGAAATATTCAATATGCCCCTCTTGATTAAGG
* * *
65746 GTAAAAGACTAGAATCTTCAATCTGCATTCTTGATTAGGGGTAAAAGACTGGAATCTT
64 GTAAAAGACTAGAATCTTCAATCTCCATTCTTGATTAAGGGTAAAAGACTGAAATCTT
* *
65804 CAATCTACCCCTCTTAATTAGGGGTAAAAGATCGAAAT
1 CAATCT-GCCCTCTTGATTAGGGGTAAAAGATCGAAAT
65842 GATGTAGTTT
Statistics
Matches: 142, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
122 5 0.04
123 61 0.43
124 70 0.49
125 6 0.04
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (121 bp):
CAATCTGCCCTCTTGATTAGGGGTAAAAGATCGAAATATTCAATATGCCCCTCTTGATTAAGGGT
AAAAGACTAGAATCTTCAATCTCCATTCTTGATTAAGGGTAAAAGACTGAAATCTT
Found at i:65826 original size:123 final size:124
Alignment explanation
Indices: 65604--65834 Score: 358
Period size: 123 Copynumber: 1.9 Consensus size: 124
65594 ATCTCTAATA
* *
65604 TGCCCTTCTTGATTAAGGGTAAAAGATAGAAATCTTCAATCTACCTTTCTTGATTAAGGGTAAAA
1 TGCCCCTCTTGATTAAGGGTAAAAGATAGAAATCTTCAATCTACCATTCTTGATTAAGGGTAAAA
* * * *
65669 GATTGAAATCTTCAATCTGCCTCTCTTGATTAGGGGTAAAAGACTTTAAATATTCAATG
66 GACTGAAATCTTCAATCTACCCCTCTTAATTAGGGGTAAAAGACTTTAAATATTCAATG
* *
65728 TGCCCCTCTTGATTAAGGGTAAAAGACTAG-AATCTTCAATCT-GCATTCTTGATTAGGGGTAAA
1 TGCCCCTCTTGATTAAGGGTAAAAGA-TAGAAATCTTCAATCTACCATTCTTGATTAAGGGTAAA
*
65791 AGACTGGAATCTTCAATCTACCCCTCTTAATTAGGGGTAAAAGA
65 AGACTGAAATCTTCAATCTACCCCTCTTAATTAGGGGTAAAAGA
65835 TCGAAATGAT
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
123 57 0.59
124 37 0.38
125 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (124 bp):
TGCCCCTCTTGATTAAGGGTAAAAGATAGAAATCTTCAATCTACCATTCTTGATTAAGGGTAAAA
GACTGAAATCTTCAATCTACCCCTCTTAATTAGGGGTAAAAGACTTTAAATATTCAATG
Found at i:67046 original size:7 final size:6
Alignment explanation
Indices: 67033--67125 Score: 57
Period size: 6 Copynumber: 14.5 Consensus size: 6
67023 TTTTTCCCGT
*
67033 TTTTTC TATTTTC TTTTTC TTTTTTTC TTATTTC TTTTCTT TTTTTC TTTCCTT-
1 TTTTTC T-TTTTC TTTTTC --TTTTTC TT-TTTC TTTT-TC TTTTTC TTT--TTC
* *
67087 TTTTTC TTTCTT- TTCTTTC TTTTT- TATTTA TTTTTC TTT
1 TTTTTC TTT-TTC TT-TTTC TTTTTC TTTTTC TTTTTC TTT
67126 ATTGAATTCG
Statistics
Matches: 70, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
5 6 0.09
6 31 0.44
7 25 0.36
8 8 0.11
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:67058 original size:21 final size:20
Alignment explanation
Indices: 67018--67125 Score: 89
Period size: 21 Copynumber: 5.1 Consensus size: 20
67008 CGACCTCTCC
*
67018 TTTTCTTTTTCCCGTTTTTTCT
1 TTTTCTTTTT--CTTTTTTTCT
67040 ATTTTCTTTTTCTTTTTTTCT
1 -TTTTCTTTTTCTTTTTTTCT
67061 TATTTC-TTTTCTTTTTTTCT
1 T-TTTCTTTTTCTTTTTTTCT
67081 TTCCTT-TTTTTCTTTCTTTTCT
1 TT--TTCTTTTTCTTT-TTTTCT
67103 TTCTT-TTTTAT-TTATTTTTCT
1 TT-TTCTTTT-TCTT-TTTTTCT
67124 TT
1 TT
67126 ATTGAATTCG
Statistics
Matches: 77, Mismatches: 1, Indels: 16
0.82 0.01 0.17
Matches are distributed among these distances:
19 1 0.01
20 16 0.21
21 40 0.52
22 10 0.13
23 10 0.13
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.79
Consensus pattern (20 bp):
TTTTCTTTTTCTTTTTTTCT
Found at i:67075 original size:54 final size:54
Alignment explanation
Indices: 67017--67119 Score: 124
Period size: 54 Copynumber: 1.9 Consensus size: 54
67007 TCGACCTCTC
67017 CTTTTCTTT-TTCCCGTTTTTTCTATT-TTCTT-TTTCTTTTTT-TCTTATTTCTTTT
1 CTTTT-TTTCTTCCCGTTTTTTCT-TTCTT-TTCTTTCTTTTTTAT-TTATTTCTTTT
* *
67071 CTTTTTTTCTTTCCTTTTTTTCTTTCTTTTCTTTCTTTTTTATTTATTT
1 CTTTTTTTCTTCCCGTTTTTTCTTTCTTTTCTTTCTTTTTTATTTATTT
67120 TTCTTTATTG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
53 7 0.16
54 35 0.81
55 1 0.02
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (54 bp):
CTTTTTTTCTTCCCGTTTTTTCTTTCTTTTCTTTCTTTTTTATTTATTTCTTTT
Found at i:67079 original size:13 final size:13
Alignment explanation
Indices: 67041--67109 Score: 79
Period size: 13 Copynumber: 5.3 Consensus size: 13
67031 GTTTTTTCTA
*
67041 TTTTCTTTTTCTTT
1 TTTTCTTTTT-TTC
*
67055 TTTTC-TTATTTC
1 TTTTCTTTTTTTC
67067 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
*
67080 TTTCCTTTTTTTC
1 TTTTCTTTTTTTC
67093 -TTTCTTTTCTTTC
1 TTTTCTTTT-TTTC
67106 TTTT
1 TTTT
67110 TTATTTATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
12 14 0.30
13 25 0.53
14 8 0.17
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:67079 original size:34 final size:34
Alignment explanation
Indices: 67041--67111 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
67031 GTTTTTTCTA
*
67041 TTTTCTTTTTCTTTTTTTCTTAT-TTCT-TTTCTTT
1 TTTTC-TTTCCTTTTTTTCTT-TCTTCTCTTTCTTT
*
67075 TTTTCTTTCCTTTTTTTCTTTCTTTTCTTTCTTT
1 TTTTCTTTCCTTTTTTTCTTTCTTCTCTTTCTTT
67109 TTT
1 TTT
67112 ATTTATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 1 0.03
33 17 0.52
34 15 0.45
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (34 bp):
TTTTCTTTCCTTTTTTTCTTTCTTCTCTTTCTTT
Found at i:67096 original size:4 final size:4
Alignment explanation
Indices: 67048--67108 Score: 52
Period size: 4 Copynumber: 14.8 Consensus size: 4
67038 CTATTTTCTT
* * * *
67048 TTTC TTTT TTTC -TTA TTTC TTTTC TTTT TTTC TTTCC TTTT TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC -TTTC TTTC TTTC TTT-C TTTC TTTC TTTC
67097 TTTTC TTTC TTT
1 -TTTC TTTC TTT
67109 TTTATTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
3 2 0.04
4 31 0.69
5 12 0.27
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:67122 original size:26 final size:25
Alignment explanation
Indices: 67041--67125 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 25
67031 GTTTTTTCTA
*
67041 TTTTCTTTTTCTTT-TTTTCTTATTTC
1 TTTTC-TTTTCTTTCTTTT-TTATTTT
67067 TTTTCTTTT-TTTCTTTCCTTT-TTTT
1 TTTTCTTTTCTTTCTTT--TTTATTTT
*
67092 CTTTCTTTTCTTTCTTTTTTATTTAT
1 TTTTCTTTTCTTTCTTTTTTATTT-T
67118 TTTTCTTT
1 TTTTCTTT
67126 ATTGAATTCG
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
24 6 0.12
25 21 0.42
26 22 0.44
27 1 0.02
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (25 bp):
TTTTCTTTTCTTTCTTTTTTATTTT
Found at i:68073 original size:10 final size:10
Alignment explanation
Indices: 68044--68082 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
68034 ATCTTGACCC
*
68044 TTTTTTATTTG
1 TTTTTT-TTTA
68055 TTTTGTTTTTA
1 TTTT-TTTTTA
68066 TTTTTTTTTA
1 TTTTTTTTTA
68076 TTTTTTT
1 TTTTTTT
68083 AACACGTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 13 0.50
11 11 0.42
12 2 0.08
ACGTcount: A:0.08, C:0.00, G:0.05, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:69592 original size:19 final size:19
Alignment explanation
Indices: 69568--69605 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
69558 CTCTTCTTTT
*
69568 TCCTTAATTAGGGCTGCAA
1 TCCTTAATCAGGGCTGCAA
*
69587 TCCTTAATCAGGGTTGCAA
1 TCCTTAATCAGGGCTGCAA
69606 CCCAATGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (19 bp):
TCCTTAATCAGGGCTGCAA
Found at i:77192 original size:80 final size:80
Alignment explanation
Indices: 77059--77287 Score: 377
Period size: 80 Copynumber: 2.9 Consensus size: 80
77049 CGCAAAACCA
77059 TTAGTTAATCCAACTAGAGTTGGGCTCATTTATTGCGGTTTATCCGCTAGGCATTGGGTGCCATG
1 TTAGTTAATCCAACTAGAGTTGGGCTCATTTATTGCGGTTTATCCGCTAGGCATTGGGTGCCATG
77124 AATTGATGGAATTCG
66 AATTGATGGAATTCG
* **
77139 TTAGTTAATCCAACTAGAGTTGGGCTTATTTATTATGGTTTATCCGCTAGGCATTGGGTGCCATG
1 TTAGTTAATCCAACTAGAGTTGGGCTCATTTATTGCGGTTTATCCGCTAGGCATTGGGTGCCATG
77204 AATTGATGGAATTCG
66 AATTGATGGAATTCG
* * * * * *
77219 TTGGTTAATCCAACTAAAGTTGGGCTCACTTATCGCGGTTTATCCGCTGGGCACTGGGTGCCATG
1 TTAGTTAATCCAACTAGAGTTGGGCTCATTTATTGCGGTTTATCCGCTAGGCATTGGGTGCCATG
77284 AATT
66 AATT
77288 AACAGATTTG
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 137 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (80 bp):
TTAGTTAATCCAACTAGAGTTGGGCTCATTTATTGCGGTTTATCCGCTAGGCATTGGGTGCCATG
AATTGATGGAATTCG
Found at i:79387 original size:23 final size:24
Alignment explanation
Indices: 79350--79399 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
79340 ATTTGTACTC
79350 TCTGTTTATCCGCTTCGG-TGGTGT
1 TCTGTTTATCCGCTT-GGATGGTGT
*
79374 TCTG-TTATCTGCTTGGATGGTGT
1 TCTGTTTATCCGCTTGGATGGTGT
79397 TCT
1 TCT
79400 ATTTTGTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 2 0.08
23 18 0.75
24 4 0.17
ACGTcount: A:0.06, C:0.18, G:0.28, T:0.48
Consensus pattern (24 bp):
TCTGTTTATCCGCTTGGATGGTGT
Found at i:82028 original size:37 final size:38
Alignment explanation
Indices: 81930--82029 Score: 105
Period size: 38 Copynumber: 2.7 Consensus size: 38
81920 ATTTTTCCAT
* * *
81930 ATTGCACCCAAGACTGTCGCTGCACAAATATTCTTCAA
1 ATTGCAACCAAGAATGTCGCTGCATAAATATTCTTCAA
* * * *
81968 ATTGCATCC-AGAACTATCACTGCATAAGTATTCTTC-A
1 ATTGCAACCAAGAA-TGTCGCTGCATAAATATTCTTCAA
*
82005 ATTGCAACCAAGAATGCCGCTGCAT
1 ATTGCAACCAAGAATGTCGCTGCAT
82030 GAACATGTAC
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 20 0.40
38 30 0.60
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (38 bp):
ATTGCAACCAAGAATGTCGCTGCATAAATATTCTTCAA
Found at i:84679 original size:17 final size:17
Alignment explanation
Indices: 84657--84721 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
84647 CTATAGTATA
*
84657 ATTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
84674 ATTGTCACTGCA-TTTT
1 ATTGTCACTGCATTTTT
* * **
84690 GTTGTCACTGCATCTAC
1 ATTGTCACTGCATTTTT
*
84707 ATTGTCATTGCATTT
1 ATTGTCACTGCATTT
84722 CCATTTATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 15 0.38
17 24 0.62
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.48
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:85905 original size:36 final size:36
Alignment explanation
Indices: 85852--85946 Score: 172
Period size: 36 Copynumber: 2.6 Consensus size: 36
85842 ACATCCAAAT
*
85852 TTGCACCCAAAATTGTCGCCGCATGAGCACTTCCAGA
1 TTGCA-CCAAAACTGTCGCCGCATGAGCACTTCCAGA
85889 TTGCACCAAAACTGTCGCCGCATGAGCACTTCCAGA
1 TTGCACCAAAACTGTCGCCGCATGAGCACTTCCAGA
85925 TTGCACCAAAACTGTCGCCGCA
1 TTGCACCAAAACTGTCGCCGCA
85947 AGAATTTTTC
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
36 52 0.91
37 5 0.09
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.20
Consensus pattern (36 bp):
TTGCACCAAAACTGTCGCCGCATGAGCACTTCCAGA
Found at i:85958 original size:36 final size:36
Alignment explanation
Indices: 85852--85967 Score: 151
Period size: 36 Copynumber: 3.2 Consensus size: 36
85842 ACATCCAAAT
* * *
85852 TTGCACCCAAAATTGTCGCCGCATGAGCACTTCCAGA
1 TTGCA-CCAAAACTGTCGCCGCAAGAACACTTCCAGA
* *
85889 TTGCACCAAAACTGTCGCCGCATGAGCACTTCCAGA
1 TTGCACCAAAACTGTCGCCGCAAGAACACTTCCAGA
***
85925 TTGCACCAAAACTGTCGCCGCAAGAATTTTTCCAGA
1 TTGCACCAAAACTGTCGCCGCAAGAACACTTCCAGA
85961 TTGCACC
1 TTGCACC
85968 CAAGACTATC
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
36 68 0.93
37 5 0.07
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (36 bp):
TTGCACCAAAACTGTCGCCGCAAGAACACTTCCAGA
Found at i:86935 original size:69 final size:69
Alignment explanation
Indices: 86855--86993 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
86845 CCACACTTAG
86855 TTTTCTAACTGACTATTCACGTTGTGGATCCCATTTTACCTTCATCACATTTTATCTTTATTTTC
1 TTTTCTAACTGACTATTCACGTTGTGGATCCCATTTTACCTTCATCACATTTTATCTTTATTTTC
86920 ATAT
66 ATAT
*
86924 TTTTCTGACTGACTATTCACGTTGTGGATCCCATTTTACCTTCATCACATTTTATCTTTATTTTC
1 TTTTCTAACTGACTATTCACGTTGTGGATCCCATTTTACCTTCATCACATTTTATCTTTATTTTC
86989 ATAT
66 ATAT
86993 T
1 T
86994 ATTGCTCTGA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.21, C:0.22, G:0.08, T:0.50
Consensus pattern (69 bp):
TTTTCTAACTGACTATTCACGTTGTGGATCCCATTTTACCTTCATCACATTTTATCTTTATTTTC
ATAT
Found at i:88385 original size:24 final size:24
Alignment explanation
Indices: 88358--88432 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
88348 AGTTCAACTC
*
88358 AAACAAATCAACAAAGTTTAATTG
1 AAACAAATAAACAAAGTTTAATTG
* *
88382 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAACAAAGTTTAATTG
* *
88406 AAACAATTAAA-AAGAGTTTAACTG
1 AAACAAATAAACAA-AGTTTAATTG
88430 AAA
1 AAA
88433 GATTATTTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
23 1 0.02
24 43 0.98
ACGTcount: A:0.56, C:0.08, G:0.11, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAAAGTTTAATTG
Found at i:90366 original size:24 final size:24
Alignment explanation
Indices: 90350--90424 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
90340 AGTTTGACTC
90350 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
* *
90374 AAACAAACAAACATAGTTTAATTG
1 AAACAAATAAACAGAGTTTAATTG
* * *
90398 AAACAATTAAAAAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAATTG
90422 AAA
1 AAA
90425 GATTATTTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAATTG
Found at i:91093 original size:158 final size:157
Alignment explanation
Indices: 90805--91261 Score: 608
Period size: 158 Copynumber: 2.9 Consensus size: 157
90795 ATTTTGACTA
* * ** *
90805 CTGGTCTTGGATGTCCTACTGATGCCTGAGGTCATGCATTTGTTGTGGATTCTCCACAGCTCGTG
1 CTGGTATTAGATGTCCTACTGATGGATGAGGTC-TACATTTGTTGTGGATTCTCCACAGCTCGTG
* * * *
90870 TGAGCAGCATCGTGTAGCCTAATATCCCTACCCACAGCTTGTGTGAGCAGACCCATTTCACAGCT
65 TGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAGACCCATTTCACAGCT
* *
90935 CGTGTGAGCATTACATGTTATATGGGTG
130 CGTGTGAGCATTACAAGTTATATGCGTG
* * * *
90963 CTGGTATTAGATGTCCTACTGATGGTTGAGGTCTTACATTGGTTGTAGATTCTCCACAACTCGTG
1 CTGGTATTAGATGTCCTACTGATGGATGAGGTC-TACATTTGTTGTGGATTCTCCACAGCTCGTG
* * * * *
91028 TGAGCAGCATCGTGTAGCATAACATCTCGACCTACAGCTCATGTGAGCAGACCCATTTTATAGCT
65 TGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAGACCCATTTCACAGCT
91093 CGTGTGAGCATTACAAGTTATATGCGTG
130 CGTGTGAGCATTACAAGTTATATGCGTG
* * * * * *
91121 TTGTTATTAGATGTCCTACTGATGGATGAGGTACGACATTTATTGCGGATTCTCTACAGCTCGTG
1 CTGGTATTAGATGTCCTACTGATGGATGAGGT-CTACATTTGTTGTGGATTCTCCACAGCTCGTG
** * *
91186 TGAGCAGCATCGTGTAGCCCCACATCTCGACCCACAACTCGTGTGAGCAGGCCCATTTCACAGCT
65 TGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAGACCCATTTCACAGCT
*
91251 CGTTTGAGCAT
130 CGTGTGAGCAT
91262 ATATGGTTAC
Statistics
Matches: 258, Mismatches: 40, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
158 257 1.00
159 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (157 bp):
CTGGTATTAGATGTCCTACTGATGGATGAGGTCTACATTTGTTGTGGATTCTCCACAGCTCGTGT
GAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCGTGTGAGCAGACCCATTTCACAGCTC
GTGTGAGCATTACAAGTTATATGCGTG
Found at i:94477 original size:12 final size:12
Alignment explanation
Indices: 94440--94480 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
94430 TACATATATT
94440 TATATGTAATAAA
1 TATAT-TAATAAA
94453 TA-A-TAAGTAAA
1 TATATTAA-TAAA
94464 TATATTAATAAA
1 TATATTAATAAA
94476 TATAT
1 TATAT
94481 AAAAAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 3 0.12
11 6 0.24
12 11 0.44
13 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (12 bp):
TATATTAATAAA
Found at i:97348 original size:30 final size:29
Alignment explanation
Indices: 97260--97563 Score: 271
Period size: 30 Copynumber: 10.3 Consensus size: 29
97250 GGAATTTGAG
* *
97260 GGTTAAAATTGAAATTTTTGGAAAA-TTT-T
1 GGTTAAAA-TGTAA-TTTTGGAAAAGTTTAA
**
97289 GGATTAAAATCAAACTTTTGGAAAA-TTTAA
1 GG-TTAAAATGTAA-TTTTGGAAAAGTTTAA
* *
97319 GGTTGAAAATGTGATTTTGGAGAAGTTTAA
1 GGTT-AAAATGTAATTTTGGAAAAGTTTAA
* *
97349 GGGTTAAAATGTAATTTTGAAAAAGTTTAG
1 -GGTTAAAATGTAATTTTGGAAAAGTTTAA
* *
97379 GTGTTAAAATGTAATTTTAGAAAAGTTTAG
1 G-GTTAAAATGTAATTTTGGAAAAGTTTAA
* * *
97409 GGTTAAAATGTAATATTAGAAAAGTTTAGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTA-A
*
97439 GGTT-AAATGTAATTTT-GAAAAGTTTAGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTA-A
* *
97467 GGTTAAAATGTAATTTTTTTG-AAAGTTTAG
1 GGTTAAAATGTAA--TTTTGGAAAAGTTTAA
*
97497 GAGTCAAAATGTAATTTTGGAAAAGTTTAA
1 G-GTTAAAATGTAATTTTGGAAAAGTTTAA
*
97527 GGGTTAAAATGTAATTTT-GAAAAGTTTAG
1 -GGTTAAAATGTAATTTTGGAAAAGTTTAA
*
97556 GGGTAAAA
1 GGTTAAAA
97564 AATTAAATAA
Statistics
Matches: 240, Mismatches: 21, Indels: 29
0.83 0.07 0.10
Matches are distributed among these distances:
28 23 0.10
29 91 0.38
30 97 0.40
31 28 0.12
32 1 0.00
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.38
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTGGAAAAGTTTAA
Found at i:97555 original size:118 final size:118
Alignment explanation
Indices: 97325--97559 Score: 348
Period size: 118 Copynumber: 2.0 Consensus size: 118
97315 TTAAGGTTGA
* * * *
97325 AAATGTGATTTTGGAGAAGTTTAAGGGTTAAAATGTAATTTTGAAAAAGTTTAGGTGTTAAAATG
1 AAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTGAAAAAGTTTAGGAGTCAAAATG
97390 TAATTTTAGAAAAGTTTAGGGTTAAAATGTAATATTAGAAAAGTTTAGGGGTT
66 TAATTTTAGAAAAGTTTAGGGTTAAAATGTAATATTAGAAAAGTTTAGGGGTT
* ***
97443 AAATGTAATTTT-GAAAAGTTTAGGGGTTAAAATGTAATTTTTTTGAAAGTTTAGGAGTCAAAAT
1 AAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGTAA-TTTTGAAAAAGTTTAGGAGTCAAAAT
* *
97507 GTAATTTTGGAAAAGTTTAAGGGTTAAAATGTAAT-TTTGAAAAGTTTAGGGGT
65 GTAATTTTAGAAAAGTTT-AGGGTTAAAATGTAATATTAGAAAAGTTTAGGGGT
97560 AAAAAATTAA
Statistics
Matches: 105, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
117 23 0.22
118 66 0.63
119 16 0.15
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (118 bp):
AAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTGAAAAAGTTTAGGAGTCAAAATG
TAATTTTAGAAAAGTTTAGGGTTAAAATGTAATATTAGAAAAGTTTAGGGGTT
Found at i:97563 original size:89 final size:87
Alignment explanation
Indices: 97324--97563 Score: 340
Period size: 89 Copynumber: 2.7 Consensus size: 87
97314 TTTAAGGTTG
* * *
97324 AAAATGTGATTTTGGAGAAGTTTAAGGGTTAAAATGTAATTTTGAAAAAGTTTAGGTGTTAAAAT
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTG-AAAAGTTTAGG-GGTAAAAT
*
97389 GTAATTTTAGAAAAGTTTAGGGTT
64 GTAATTTTAGAAAAGTTTAGGGTC
* * *
97413 AAAATGTAATATTAGAAAAGTTTAGGGGTT-AAATGTAATTTTGAAAAGTTTAGGGGTTAAAATG
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTGAAAAGTTTAGGGG-TAAAATG
*
97477 TAATTTTTTTG-AAAGTTTAGGAGTC
65 TAA--TTTTAGAAAAGTTTAGG-GTC
97502 AAAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTGAAAAGTTTAGGGGTAAAA
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTGAAAAGTTTAGGGGTAAAA
97564 AATTAAATAA
Statistics
Matches: 135, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
86 1 0.01
87 21 0.16
88 23 0.17
89 64 0.47
90 26 0.19
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (87 bp):
AAAATGTAATTTTGGAAAAGTTTAAGGGTTAAAATGTAATTTTGAAAAGTTTAGGGGTAAAATGT
AATTTTAGAAAAGTTTAGGGTC
Found at i:97566 original size:30 final size:29
Alignment explanation
Indices: 97319--97564 Score: 309
Period size: 30 Copynumber: 8.3 Consensus size: 29
97309 GAAAATTTAA
* * *
97319 GGTTGAAAATGTGATTTTGGAGAAGTTTAAG
1 GGTT-AAAATGTAATTTT-GAAAAGTTTAGG
97350 GGTTAAAATGTAATTTTGAAAAAGTTTAGG
1 GGTTAAAATGTAATTTTG-AAAAGTTTAGG
*
97380 TGTTAAAATGTAATTTTAGAAAAGTTTA-G
1 GGTTAAAATGTAATTTT-GAAAAGTTTAGG
*
97409 GGTTAAAATGTAATATTAGAAAAGTTTAGG
1 GGTTAAAATGTAAT-TTTGAAAAGTTTAGG
97439 GGTT-AAATGTAATTTTGAAAAGTTTAGG
1 GGTTAAAATGTAATTTTGAAAAGTTTAGG
97467 GGTTAAAATGTAATTTTTTTG-AAAGTTTAGG
1 GGTTAAAATGTAA---TTTTGAAAAGTTTAGG
* * *
97498 AGTCAAAATGTAATTTTGGAAAAGTTTAAG
1 GGTTAAAATGTAATTTT-GAAAAGTTTAGG
97528 GGTTAAAATGTAATTTTGAAAAGTTTAGG
1 GGTTAAAATGTAATTTTGAAAAGTTTAGG
*
97557 GGTAAAAA
1 GGTTAAAA
97565 ATTAAATAAC
Statistics
Matches: 191, Mismatches: 14, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
28 22 0.12
29 61 0.32
30 77 0.40
31 26 0.14
32 5 0.03
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTGAAAAGTTTAGG
Done.