Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005764.1 Hibiscus syriacus cultivar Beakdansim tig00013494_pilon, 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: 141587
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:3714 original size:16 final size:15
Alignment explanation
Indices: 3693--3768 Score: 75
Period size: 15 Copynumber: 4.9 Consensus size: 15
3683 ATTCAATCAG
3693 AACAAAAAGATAAAAA
1 AACAAAAAGA-AAAAA
*
3709 AACAAAAAAGAAAAGA
1 AAC-AAAAAGAAAAAA
*
3725 AACAAAAA-AGAAGAA
1 AACAAAAAGA-AAAAA
3740 AA-AAAAAGAACAAAA
1 AACAAAAAGAA-AAAA
*
3755 ATCAAAAAGAAAAA
1 AACAAAAAGAAAAA
3769 GGGACAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
14 7 0.14
15 18 0.36
16 18 0.36
17 7 0.14
ACGTcount: A:0.82, C:0.07, G:0.09, T:0.03
Consensus pattern (15 bp):
AACAAAAAGAAAAAA
Found at i:3718 original size:17 final size:16
Alignment explanation
Indices: 3696--3768 Score: 73
Period size: 16 Copynumber: 4.7 Consensus size: 16
3686 CAATCAGAAC
3696 AAAAAGATAAAAAAACA
1 AAAAAGA-AAAAAAACA
*
3713 AAAAAGAAAAGAAACA
1 AAAAAGAAAAAAAACA
*
3729 AAAAAG--AAGAAA-A
1 AAAAAGAAAAAAAACA
*
3742 AAAAAGAACAAAAATC-
1 AAAAAGAA-AAAAAACA
3758 AAAAAGAAAAA
1 AAAAAGAAAAA
3769 GGGACAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
13 7 0.14
14 6 0.12
15 3 0.06
16 26 0.53
17 7 0.14
ACGTcount: A:0.82, C:0.05, G:0.10, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAAAAAACA
Found at i:3768 original size:23 final size:23
Alignment explanation
Indices: 3696--3779 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 23
3686 CAATCAGAAC
3696 AAAAAGATA-AAAAAACAAAAA-A
1 AAAAAGA-ACAAAAAACAAAAAGA
* *
3718 GAAAAGAAACAAAAAAGAAGAAA-A
1 AAAAAG-AACAAAAAACAA-AAAGA
*
3742 AAAAAGAACAAAAATCAAAAAGA
1 AAAAAGAACAAAAAACAAAAAGA
* *
3765 AAAAGGGACAAAAAA
1 AAAAAGAACAAAAAA
3780 ACACATGCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
22 9 0.18
23 32 0.64
24 9 0.18
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.02
Consensus pattern (23 bp):
AAAAAGAACAAAAAACAAAAAGA
Found at i:4410 original size:20 final size:21
Alignment explanation
Indices: 4368--4417 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
4358 GCTACCCCAT
4368 CAAACCTTTGAGCATCAAATGC
1 CAAACC-TTGAGCATCAAATGC
4390 CAAACCTTGAGCATC-AATGC
1 CAAACCTTGAGCATCAAATGC
4410 CAAACCTT
1 CAAACCTT
4418 TGACCAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 13 0.46
21 9 0.32
22 6 0.21
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (21 bp):
CAAACCTTGAGCATCAAATGC
Found at i:4420 original size:21 final size:22
Alignment explanation
Indices: 4368--4420 Score: 92
Period size: 21 Copynumber: 2.5 Consensus size: 22
4358 GCTACCCCAT
4368 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
4390 CAAACC-TTGAGCATC-AATGC
1 CAAACCTTTGAGCATCAAATGC
4410 CAAACCTTTGA
1 CAAACCTTTGA
4421 CCAAACACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.37
21 13 0.43
22 6 0.20
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:5639 original size:106 final size:106
Alignment explanation
Indices: 5327--6397 Score: 1607
Period size: 106 Copynumber: 10.2 Consensus size: 106
5317 ATATCGTGCC
* * * * *
5327 ACTCGAGACAACACAAGTTCAAC-TCACAACGAAGGGA-CGGTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5390 AATTTCAGAGCCAATTTCAACTTCACAGCG-ATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5430 ACTCCAGACAACGCAAGTTCAACTTCACGACAAAGGGA-CACTGGTTGTC-ACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5493 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5534 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTATCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5599 AATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5640 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
5705 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
5746 ACTCGAGACAAAGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
5811 AATTTCGGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
5852 ACTCCAGACAATGCAAGTTCAACTTCACGACGATGGGACCGCTGGTTGTCAACAAACAATTTACC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
5917 AATTTCGGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
5958 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
6023 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
6064 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
6129 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
6170 ACTCGAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
6235 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
6276 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
6341 GA-TTCTAGAGCAAATTTCAACTTCAC-GACGTAGGATATTGG
66 AATTTC-AGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
* * *
6382 CCTCAAAACAACGCAA
1 ACTCCAGACAACGCAA
6398 CTTACATTGG
Statistics
Matches: 891, Mismatches: 71, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
103 62 0.07
104 67 0.08
105 12 0.01
106 750 0.84
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:8241 original size:2 final size:2
Alignment explanation
Indices: 8234--8269 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8224 TCTCATACCA
8234 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8270 GTTGTTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8390 original size:24 final size:27
Alignment explanation
Indices: 8335--8395 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 27
8325 TTGCATTTAA
*
8335 TTTATTTTGATTTCTTTCTCCTTTTCACT
1 TTTATTTTGATTTCATTCTCCTTTT--CT
8364 TTTATTTT-ATTTCATT-TCCTTTT-T
1 TTTATTTTGATTTCATTCTCCTTTTCT
8388 TTTATTTT
1 TTTATTTT
8396 TTACTAGATC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 9 0.29
27 7 0.23
28 7 0.23
29 8 0.26
ACGTcount: A:0.11, C:0.15, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTATTTTGATTTCATTCTCCTTTTCT
Found at i:14629 original size:31 final size:29
Alignment explanation
Indices: 14588--14664 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
14578 CAAAAGCCCA
* * *
14588 TGGCCACCTATCACCTTTCTTATCACAAGCT
1 TGGCCGCCTATCACCTTGCTTAT--CAAGCC
14619 TGGCCGCCTATCACCTTGCTTATCAAGCC
1 TGGCCGCCTATCACCTTGCTTATCAAGCC
**
14648 TAACCGCCTATCACCTT
1 TGGCCGCCTATCACCTT
14665 CAAGAAGACT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 20 0.49
31 21 0.51
ACGTcount: A:0.21, C:0.38, G:0.12, T:0.30
Consensus pattern (29 bp):
TGGCCGCCTATCACCTTGCTTATCAAGCC
Found at i:14655 original size:29 final size:30
Alignment explanation
Indices: 14594--14664 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
14584 CCCATGGCCA
* * **
14594 CCTATCACCTTTCTTATCACAAGCTTGGCCG
1 CCTATCACCTTGCTTAT-ACAAGCCTAACCG
14625 CCTATCACCTTGCTTAT-CAAGCCTAACCG
1 CCTATCACCTTGCTTATACAAGCCTAACCG
14654 CCTATCACCTT
1 CCTATCACCTT
14665 CAAGAAGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 20 0.56
31 16 0.44
ACGTcount: A:0.21, C:0.38, G:0.10, T:0.31
Consensus pattern (30 bp):
CCTATCACCTTGCTTATACAAGCCTAACCG
Found at i:16116 original size:19 final size:19
Alignment explanation
Indices: 16088--16140 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
16078 TATTAGTAAG
*
16088 AAATAGTAAATAAATATAA
1 AAATAATAAATAAATATAA
* * *
16107 AAATAATAAATCAATTTAG
1 AAATAATAAATAAATATAA
16126 AAAT-A-AAATAAATAT
1 AAATAATAAATAAATAT
16141 CAAAGTTAGG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 8 0.29
18 1 0.04
19 19 0.68
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AAATAATAAATAAATATAA
Found at i:16265 original size:28 final size:28
Alignment explanation
Indices: 16225--16278 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
16215 AGAATTCTTT
*
16225 TGTTCCCTTTATACAGTATGAGAGAGTA
1 TGTTCCATTTATACAGTATGAGAGAGTA
* *
16253 TGTTCCATTTATATAGTATTAGAGAG
1 TGTTCCATTTATACAGTATGAGAGAG
16279 CATCAAATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (28 bp):
TGTTCCATTTATACAGTATGAGAGAGTA
Found at i:16380 original size:18 final size:19
Alignment explanation
Indices: 16345--16381 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16335 CACGGAATGT
16345 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
16365 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
16382 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:16809 original size:21 final size:20
Alignment explanation
Indices: 16751--16830 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 20
16741 GATTCGCAAC
*
16751 GCGATTTTGACAATCGCATT
1 GCGATTTTGAAAATCGCATT
* * *
16771 GCGATTTTCCAAATTCGCGTT
1 GCGATTTT-GAAAATCGCATT
*
16792 GCGATTTTAGAAAATCGCAAT
1 GCGATTTT-GAAAATCGCATT
* * *
16813 GCGAATATGTAAATCGCA
1 GCGATTTTGAAAATCGCA
16831 ACGCGATTCT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (20 bp):
GCGATTTTGAAAATCGCATT
Found at i:16848 original size:20 final size:20
Alignment explanation
Indices: 16825--16970 Score: 145
Period size: 20 Copynumber: 7.2 Consensus size: 20
16815 GAATATGTAA
16825 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
16845 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
16865 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
**
16886 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
16906 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
* * **
16927 ATCGTAATGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
16947 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
16968 ATC
1 ATC
16971 ACATTGCGAT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
19 6 0.06
20 46 0.46
21 43 0.43
22 6 0.06
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:16869 original size:41 final size:41
Alignment explanation
Indices: 16824--17002 Score: 286
Period size: 41 Copynumber: 4.4 Consensus size: 41
16814 CGAATATGTA
16824 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
16865 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
* *
16906 AATCGCAACGCGATTCTGACTATCGTAATGCGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
* ** *
16947 AATCGCAACGCGATTCTGACTATCACATTGCGATAATACAA
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
* *
16988 AATCACAATGCGATT
1 AATCGCAACGCGATT
17003 TTCAAAGCGC
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 130 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (41 bp):
AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
Found at i:17192 original size:22 final size:22
Alignment explanation
Indices: 17138--17180 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
17128 TCACTCTCTA
*
17138 CGACGACATCCATCCCCATCTT
1 CGACGAAATCCATCCCCATCTT
*
17160 CGATGAAATCCATCCCCATCT
1 CGACGAAATCCATCCCCATCT
17181 CTGGCGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.09, T:0.23
Consensus pattern (22 bp):
CGACGAAATCCATCCCCATCTT
Found at i:17576 original size:20 final size:20
Alignment explanation
Indices: 17551--17652 Score: 74
Period size: 20 Copynumber: 5.5 Consensus size: 20
17541 AGGATCGCAA
17551 CGATAGTCAAATTCGCGTTG
1 CGATAGTCAAATTCGCGTTG
** *
17571 CGATAGTCATTTTCGTGTTG
1 CGATAGTCAAATTCGCGTTG
* ** *
17591 CAATTTTC-ATTTCGCGTTG
1 CGATAGTCAAATTCGCGTTG
*
17610 CGAT--T---A-TCTCGTTG
1 CGATAGTCAAATTCGCGTTG
*
17624 CGATAGTCAAATTCACGTTG
1 CGATAGTCAAATTCGCGTTG
17644 CGATAGTCA
1 CGATAGTCA
17653 TTTTCATGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
14 11 0.17
16 1 0.02
17 1 0.02
19 13 0.20
20 38 0.59
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (20 bp):
CGATAGTCAAATTCGCGTTG
Found at i:17636 original size:73 final size:74
Alignment explanation
Indices: 17551--17688 Score: 233
Period size: 73 Copynumber: 1.9 Consensus size: 74
17541 AGGATCGCAA
* *
17551 CGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCAATTTTCA-TTTCGCGTTGCGATT
1 CGATAGTCAAATTCACGTTGCGATAGTCATTTTCATGTTGCAATTTTCATTTTCGCGTTGCGATT
17615 ATCTCGTTG
66 ATCTCGTTG
* *
17624 CGATAGTCAAATTCACGTTGCGATAGTCATTTTCATGTTGCGATTTTCATTTTCGTGTTGCGATT
1 CGATAGTCAAATTCACGTTGCGATAGTCATTTTCATGTTGCAATTTTCATTTTCGCGTTGCGATT
17689 TTAAGTTTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
73 46 0.77
74 14 0.23
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (74 bp):
CGATAGTCAAATTCACGTTGCGATAGTCATTTTCATGTTGCAATTTTCATTTTCGCGTTGCGATT
ATCTCGTTG
Found at i:17658 original size:20 final size:20
Alignment explanation
Indices: 17619--17687 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
17609 GCGATTATCT
**
17619 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCATTTTCA
17639 CGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTTCA
* ** *
17659 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATAGTCATTTTCA
*
17679 TGTTGCGAT
1 CGTTGCGAT
17688 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCA
Found at i:17688 original size:20 final size:20
Alignment explanation
Indices: 17635--17690 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
17625 GATAGTCAAA
* **
17635 TTCACGTTGCGATAGTCATT
1 TTCATGTTGCGATTTTCATT
17655 TTCATGTTGCGATTTTCATT
1 TTCATGTTGCGATTTTCATT
*
17675 TTCGTGTTGCGATTTT
1 TTCATGTTGCGATTTT
17691 AAGTTTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.50
Consensus pattern (20 bp):
TTCATGTTGCGATTTTCATT
Found at i:17697 original size:20 final size:20
Alignment explanation
Indices: 17654--17698 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17644 CGATAGTCAT
* *
17654 TTTCATGTTGCGATTTTCAT
1 TTTCATGTTGCGATTTTAAG
*
17674 TTTCGTGTTGCGATTTTAAG
1 TTTCATGTTGCGATTTTAAG
17694 TTTCA
1 TTTCA
17699 GAAACTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.13, G:0.18, T:0.53
Consensus pattern (20 bp):
TTTCATGTTGCGATTTTAAG
Found at i:19633 original size:20 final size:20
Alignment explanation
Indices: 19608--19676 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
19598 AAACTTAAAA
19608 ATCGCAACGTGAAAATGACT
1 ATCGCAACGTGAAAATGACT
* * *
19628 ATCGCAACGCGGAAAGGACT
1 ATCGCAACGTGAAAATGACT
* **
19648 ATCGCAATGTGAATTTGACT
1 ATCGCAACGTGAAAATGACT
19668 ATCGCAACG
1 ATCGCAACG
19677 GGATAATCGT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (20 bp):
ATCGCAACGTGAAAATGACT
Found at i:19741 original size:34 final size:33
Alignment explanation
Indices: 19681--19744 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
19671 GCAACGGGAT
*
19681 AATCGTAATGCGAAATAAAAATCGCAACGTCAA
1 AATCGCAATGCGAAATAAAAATCGCAACGTCAA
*
19714 AATCGCAATGCGAAAATGAAAATCGCAACGT
1 AATCGCAATGCG-AAATAAAAATCGCAACGT
19745 GAATTTAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (33 bp):
AATCGCAATGCGAAATAAAAATCGCAACGTCAA
Found at i:19782 original size:19 final size:19
Alignment explanation
Indices: 19760--19805 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
19750 TAGTTTCACG
* *
19760 TTGCGATTTTGGTTTCGTA
1 TTGCGATTTTGATTTCGCA
*
19779 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTGATTTCGCA
19798 TTGCGATT
1 TTGCGATT
19806 ATCCCGTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.22, T:0.52
Consensus pattern (19 bp):
TTGCGATTTTGATTTCGCA
Found at i:19864 original size:20 final size:19
Alignment explanation
Indices: 19810--19878 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 19
19800 GCGATTATCC
*
19810 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTC-ATTTCG
*
19830 TGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
19850 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
19870 CATTGCGAT
1 CGTTGCGAT
19879 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.07
20 37 0.86
21 3 0.07
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:19888 original size:20 final size:20
Alignment explanation
Indices: 19865--19908 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
19855 CGATAGTCAT
19865 TTTCGCATTGCGATTTTAAG
1 TTTCGCATTGCGATTTTAAG
**
19885 TTTCGTGTTGCGATTTTAAG
1 TTTCGCATTGCGATTTTAAG
19905 TTTC
1 TTTC
19909 AAAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCATTGCGATTTTAAG
Found at i:20449 original size:42 final size:42
Alignment explanation
Indices: 20390--20516 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
20380 TCCCGACTCG
** * * *
20390 CCTATCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
*
20432 CCTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
* ** * * *
20474 CCTGTCATCGTTGAAGAGGTCCCTCCCACCATTCAAGA-GCC
1 CCTATCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
20515 CC
1 CC
20517 GATTCATACG
Statistics
Matches: 72, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 5 0.07
42 67 0.93
ACGTcount: A:0.21, C:0.39, G:0.17, T:0.22
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
Found at i:20485 original size:21 final size:20
Alignment explanation
Indices: 20394--20497 Score: 91
Period size: 21 Copynumber: 5.0 Consensus size: 20
20384 GACTCGCCTA
*
20394 TCATCGTTCAAGAGGCCTCT
1 TCATCGTTCAAGAGGCCCCT
*
20414 CCTATCGTTCAAGAGGCCCCT
1 TC-ATCGTTCAAGAGGCCCCT
** *
20435 ATCATCCCTCAAGAGTCCCCT
1 -TCATCGTTCAAGAGGCCCCT
* *
20456 CCCACCGTTCAAGAGGCCCCT
1 -TCATCGTTCAAGAGGCCCCT
* *
20477 GTCATCGTTGAAGAGGTCCCT
1 -TCATCGTTCAAGAGGCCCCT
20498 CCCACCATTC
Statistics
Matches: 65, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCCT
Found at i:20511 original size:21 final size:21
Alignment explanation
Indices: 20398--20512 Score: 74
Period size: 21 Copynumber: 5.5 Consensus size: 21
20388 CGCCTATCAT
* *
20398 CGTTCAAGAGG-CCTCTCCTAT
1 CGTTCAAGAGGTCC-CTCCCAC
* **
20419 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGTCCCTCCCA-C
*
20441 C-CTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGT-CCCTCCCAC
* ** *
20461 CGTTCAAGAGGCCCCTGTCAT
1 CGTTCAAGAGGTCCCTCCCAC
*
20482 CGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGTCCCTCCCAC
*
20503 CATTCAAGAG
1 CGTTCAAGAG
20513 CCCCGATTCA
Statistics
Matches: 69, Mismatches: 20, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
20 3 0.04
21 62 0.90
22 4 0.06
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (21 bp):
CGTTCAAGAGGTCCCTCCCAC
Found at i:21875 original size:72 final size:64
Alignment explanation
Indices: 21797--22038 Score: 256
Period size: 63 Copynumber: 3.6 Consensus size: 64
21787 GGGGTACACT
*
21797 TTTTTTGATTGTTTAATTGATTCT-TAAAAGTCTGATTTGTTTAATTGATGAGGAAAATAAGAAT
1 TTTTTTGCTTGTTTAATTGATT-TGTAAAAGT-TGATTTGTTTAATTGATG-GGAAAAT---AAT
21861 TATTAGCA
60 TATT---A
* * *
21869 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTA
1 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGGGAAAATAATTATTA
* * * *
21933 -TTTGTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTA
1 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGGGAAAATAATTATTA
* *
21996 TTTGTT-CTTATTTAATTGATTGAAATGTAAAAGTTGATTTGTT
1 TTTTTTGCTTGTTTAATTGATT----TGTAAAAGTTGATTTGTT
22039 GATTTCAATC
Statistics
Matches: 156, Mismatches: 8, Indels: 17
0.86 0.04 0.09
Matches are distributed among these distances:
63 76 0.49
64 4 0.03
67 24 0.15
70 5 0.03
71 19 0.12
72 28 0.18
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (64 bp):
TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGGGAAAATAATTATTA
Found at i:21907 original size:27 final size:27
Alignment explanation
Indices: 21877--21986 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
21867 CATTTTTTGC
*
21877 TTGTTTAATTGATTTGTAAAAGTTGAT
1 TTGTTTAATTGATGTGTAAAAGTTGAT
* *
21904 TTGTTTAATTGATGTGTAAATAATTCTTATTTGT
1 TTGTTTAATTGATGTGT-AA-AAGT-TGA----T
*
21938 GCTTGTTTAATTGATTTGTAAAAGTTGAT
1 --TTGTTTAATTGATGTGTAAAAGTTGAT
21967 TTGTTTAATTGATGTGTAAA
1 TTGTTTAATTGATGTGTAAA
21987 TAATTCTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
27 35 0.52
28 2 0.03
29 4 0.06
30 2 0.03
33 2 0.03
34 4 0.06
35 2 0.03
36 16 0.24
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.52
Consensus pattern (27 bp):
TTGTTTAATTGATGTGTAAAAGTTGAT
Found at i:21951 original size:36 final size:35
Alignment explanation
Indices: 21904--22015 Score: 114
Period size: 36 Copynumber: 3.4 Consensus size: 35
21894 AAAAGTTGAT
21904 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGT-C
* * *
21940 TTGTTTAATTGATTTGT-AA-AAGT-TGA----T-
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTC
21967 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTTC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTG-TC
*
22003 TTATTTAATTGAT
1 TTGTTTAATTGAT
22016 TGAAATGTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
27 16 0.27
28 2 0.03
29 4 0.07
30 2 0.03
33 2 0.03
34 3 0.05
35 3 0.05
36 28 0.47
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (35 bp):
TTGTTTAATTGATGTGTAAATAATTCTTATTTGTC
Found at i:21952 original size:63 final size:63
Alignment explanation
Indices: 21874--22038 Score: 276
Period size: 63 Copynumber: 2.6 Consensus size: 63
21864 TAGCATTTTT
21874 TGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTG
1 TGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTG
21937 TGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTG
1 TGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTG
* *
22000 TTCTTATTTAATTGATTGAAATGTAAAAGTTGATTTGTT
1 TGCTTGTTTAATTGATT----TGTAAAAGTTGATTTGTT
22039 GATTTCAATC
Statistics
Matches: 96, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
63 78 0.81
67 18 0.19
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (63 bp):
TGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTG
Found at i:22140 original size:20 final size:20
Alignment explanation
Indices: 22093--22143 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
22083 TACACTTTCG
* * *
22093 CAACGCTAAATTCAAAATCG
1 CAACGCGAAAGTCAAAATCA
* *
22113 TAATGCGAAAGTCAAAATCA
1 CAACGCGAAAGTCAAAATCA
22133 CAACGCGAAAG
1 CAACGCGAAAG
22144 CCAATTCGCA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.47, C:0.22, G:0.16, T:0.16
Consensus pattern (20 bp):
CAACGCGAAAGTCAAAATCA
Found at i:22211 original size:20 final size:20
Alignment explanation
Indices: 22186--22324 Score: 182
Period size: 20 Copynumber: 7.2 Consensus size: 20
22176 GCGATTTTCT
* *
22186 CGTTGCGATAGTTAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
22206 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
22226 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
22246 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
22266 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
22280 CGTTGCGATACTCATATTCG
1 CGTTGCGATAGTCAAATTCG
22300 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
22320 CGTTG
1 CGTTG
22325 TGATTTTTGA
Statistics
Matches: 105, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
14 12 0.11
16 1 0.01
18 1 0.01
20 91 0.87
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:22283 original size:54 final size:54
Alignment explanation
Indices: 22225--22370 Score: 220
Period size: 54 Copynumber: 2.7 Consensus size: 54
22215 AATCAAATTC
22225 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
* * *
22279 GCGTTGCGATACTCATATTCGCGTTGCGATAGTCAAATTCGCGTTGTGATTTTT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
* * ** *
22333 GAGATGCGATAGTCAAATTCATGTTGCGATATTCAAAT
1 GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
22371 GAATGTATAA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 82 1.00
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (54 bp):
GCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT
Found at i:22376 original size:20 final size:20
Alignment explanation
Indices: 22337--22376 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22327 ATTTTTGAGA
**
22337 TGCGATAGTCAAATTCATGT
1 TGCGATAGTCAAATGAATGT
*
22357 TGCGATATTCAAATGAATGT
1 TGCGATAGTCAAATGAATGT
22377 ATAATAAGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (20 bp):
TGCGATAGTCAAATGAATGT
Found at i:22593 original size:140 final size:140
Alignment explanation
Indices: 22341--22623 Score: 503
Period size: 140 Copynumber: 2.0 Consensus size: 140
22331 TTGAGATGCG
**
22341 ATAGTCAAATTCATGTTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCACATTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
22406 TAGCAATGTTCAAACTCAAGTTACTAATACATGCATAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCATAACTGAAAATGTTAAAAGTTTACACATAA
22471 AAAAAACATA
131 AAAAAACATA
* *
22481 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCACATTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
*
22546 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCATAACTGAAAATGTTAAAAGTTTACACATAA
* *
22611 AATACACATA
131 AAAAAACATA
22621 ATA
1 ATA
22624 CAACGTTTGC
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 136 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCACATTGCGATATTCAAATGAATGTATAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCATAACTGAAAATGTTAAAAGTTTACACATAA
AAAAAACATA
Found at i:25874 original size:20 final size:20
Alignment explanation
Indices: 25849--25915 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
25839 TTGAAATTCA
*
25849 GCGTTGCGACAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
**
25869 GCGTTGCGATTATGT-ATTATC
1 GCGTTGCGA-TA-GTCAGAATC
*
25890 GTGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
25910 GCGTTG
1 GCGTTG
25916 TGATTTACGT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
19 2 0.05
20 20 0.54
21 13 0.35
22 2 0.05
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGAATC
Found at i:25996 original size:20 final size:19
Alignment explanation
Indices: 25973--26018 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25963 GGAAACTGAT
* *
25973 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
25993 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
26012 TTGCGAT
1 TTGCGAT
26019 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:26008 original size:19 final size:19
Alignment explanation
Indices: 25984--26020 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25974 TGCGATACTG
*
25984 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
26003 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
26021 TGTTGGTCAT
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:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:28553 original size:114 final size:113
Alignment explanation
Indices: 28353--28585 Score: 403
Period size: 114 Copynumber: 2.1 Consensus size: 113
28343 ACTCACCCGA
* *
28353 TGGCCAGAGCTATAGCAAAAATCACGAAGAACTTGTTGAATTACATCTAGTTGATCCAAAGAAAC
1 TGGCCCGAGCTATAGCAAAAATCACAAAGAACTTGTTGAATTACATCTAGTTGATCCAAAGAAAC
*
28418 CTTAGCAAACAATACGAGATCATCAACAAAAAAATAGGTGAGTCAAAGG
66 CTCAGCAAACAATACGAGATCATCAAC-AAAAAATAGGTGAGTCAAAGG
* * *
28467 TGGCCCGAGCTATAGCAGAAATCACAAAGAACTTGTTGGATTACATCTAGTTGATCCAAAGAAGC
1 TGGCCCGAGCTATAGCAAAAATCACAAAGAACTTGTTGAATTACATCTAGTTGATCCAAAGAAAC
28532 CTCAGCAAACAATACGAGATCATCAACAAAAAATAGGTGAGTCAAAGG
66 CTCAGCAAACAATACGAGATCATCAACAAAAAATAGGTGAGTCAAAGG
28580 TGGCCC
1 TGGCCC
28586 TCCCCGAGAT
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
113 27 0.24
114 86 0.76
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (113 bp):
TGGCCCGAGCTATAGCAAAAATCACAAAGAACTTGTTGAATTACATCTAGTTGATCCAAAGAAAC
CTCAGCAAACAATACGAGATCATCAACAAAAAATAGGTGAGTCAAAGG
Found at i:33199 original size:22 final size:22
Alignment explanation
Indices: 33174--33252 Score: 158
Period size: 22 Copynumber: 3.6 Consensus size: 22
33164 GGGAGCGTGT
33174 GGGTATCGATACTCCTTCATAG
1 GGGTATCGATACTCCTTCATAG
33196 GGGTATCGATACTCCTTCATAG
1 GGGTATCGATACTCCTTCATAG
33218 GGGTATCGATACTCCTTCATAG
1 GGGTATCGATACTCCTTCATAG
33240 GGGTATCGATACT
1 GGGTATCGATACT
33253 ACATATATAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (22 bp):
GGGTATCGATACTCCTTCATAG
Found at i:33715 original size:19 final size:19
Alignment explanation
Indices: 33677--33716 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33667 CAAATAATTG
* *
33677 AATCGAATATAATATTTTA
1 AATCGAATATAAAATCTTA
33696 AATCGAATATAAAATCTTA
1 AATCGAATATAAAATCTTA
33715 AA
1 AA
33717 ATACTTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (19 bp):
AATCGAATATAAAATCTTA
Found at i:35572 original size:13 final size:13
Alignment explanation
Indices: 35556--35580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35546 TGAAAACTAT
35556 TTTGAAAAATAAG
1 TTTGAAAAATAAG
35569 TTTGAAAAATAA
1 TTTGAAAAATAA
35581 TTGTATGTAT
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:0.12, T:0.32
Consensus pattern (13 bp):
TTTGAAAAATAAG
Found at i:42305 original size:20 final size:21
Alignment explanation
Indices: 42263--42305 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
42253 AGTAAAATTG
* * *
42263 ATATTTGAAAATTTTGGAGTA
1 ATATTTGAAAATATTCGAATA
42284 ATATTTG-AAATATTCGAATA
1 ATATTTGAAAATATTCGAATA
42304 AT
1 AT
42306 TGAATAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (21 bp):
ATATTTGAAAATATTCGAATA
Found at i:43008 original size:24 final size:24
Alignment explanation
Indices: 42967--43053 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 24
42957 AGAGTAGATG
* *
42967 AATGTACTAAATACAGGAATGCACA
1 AATGCACT-AATACAGGAGTGCACA
* **
42992 AATGCACTAATACAGGAGTACATG
1 AATGCACTAATACAGGAGTGCACA
*
43016 AATGTACTAATAC-GAGAGTGCACA
1 AATGCACTAATACAG-GAGTGCACA
*
43040 AATGCAATAATACA
1 AATGCACTAATACA
43054 AAATCGATCG
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
23 1 0.02
24 41 0.84
25 7 0.14
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.21
Consensus pattern (24 bp):
AATGCACTAATACAGGAGTGCACA
Found at i:43051 original size:48 final size:49
Alignment explanation
Indices: 42958--43053 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 49
42948 ATAGTGCCAA
* *
42958 GAGTAGATGAATGTACTAAATACAGGAATGCACAAATGCACTAATACAG
1 GAGTACATGAATGTACTAAATACAGGAATGCACAAATGCAATAATACAG
*
43007 GAGTACATGAATGTACT-AATAC-GAGAGTGCACAAATGCAATAATACA
1 GAGTACATGAATGTACTAAATACAG-GAATGCACAAATGCAATAATACA
43054 AAATCGATCG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.02
48 26 0.60
49 16 0.37
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.21
Consensus pattern (49 bp):
GAGTACATGAATGTACTAAATACAGGAATGCACAAATGCAATAATACAG
Found at i:43297 original size:61 final size:60
Alignment explanation
Indices: 43183--43327 Score: 173
Period size: 61 Copynumber: 2.4 Consensus size: 60
43173 ACTAACATGC
* * * * *
43183 CAAAATATCGTATAAAAATACAATAGGCTAATTCATACCCGAAATCATCCATAAATCATTT
1 CAAAATATCATATAAAAATA-TATAGGATAACTCATACCCAAAATCATCCATAAATCATTT
* * *
43244 ATAAAATATCATATAAAAATATATTGGATAACTCATACCCAAAATCATTCATAAATCATTT
1 -CAAAATATCATATAAAAATATATAGGATAACTCATACCCAAAATCATCCATAAATCATTT
* *
43305 CCAAATATCATTATGAAAATATA
1 CAAAATATCA-TATAAAAATATA
43328 CCATAATATG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
60 8 0.11
61 45 0.63
62 18 0.25
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.30
Consensus pattern (60 bp):
CAAAATATCATATAAAAATATATAGGATAACTCATACCCAAAATCATCCATAAATCATTT
Found at i:43302 original size:23 final size:24
Alignment explanation
Indices: 43271--43316 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
43261 AATATATTGG
*
43271 ATAACTCATACCCAAA-ATCATTC
1 ATAAATCATACCCAAATATCATTC
**
43294 ATAAATCATTTCCAAATATCATT
1 ATAAATCATACCCAAATATCATT
43317 ATGAAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATCATACCCAAATATCATTC
Found at i:45537 original size:41 final size:41
Alignment explanation
Indices: 45480--45563 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
45470 TGTCTTGCAG
45480 TCCCCGTTTGAGTTTAGAATCCATTAACCTCCTAGAGGTTT
1 TCCCCGTTTGAGTTTAGAATCCATTAACCTCCTAGAGGTTT
45521 TCCCCGTTTGAGTTTAGAATCCATTAACCTCCTAGAGGTTT
1 TCCCCGTTTGAGTTTAGAATCCATTAACCTCCTAGAGGTTT
45562 TC
1 TC
45564 TCCACTTAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (41 bp):
TCCCCGTTTGAGTTTAGAATCCATTAACCTCCTAGAGGTTT
Found at i:49701 original size:7 final size:7
Alignment explanation
Indices: 49680--49715 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
49670 GAAAGAAAAG
*
49680 AATAAGA
1 AATATGA
49687 AA-ATGA
1 AATATGA
49693 AATATGA
1 AATATGA
49700 AATATGA
1 AATATGA
49707 AATATGA
1 AATATGA
49714 AA
1 AA
49716 GTTCTGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.22
Consensus pattern (7 bp):
AATATGA
Found at i:54370 original size:17 final size:18
Alignment explanation
Indices: 54340--54373 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
54330 AAAAACACAC
*
54340 ATTACATTATTAAAATAA
1 ATTACATTAGTAAAATAA
54358 ATTA-ATTAGTAAAATA
1 ATTACATTAGTAAAATA
54374 TACTCGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTACATTAGTAAAATAA
Found at i:56473 original size:3 final size:3
Alignment explanation
Indices: 56460--56505 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
56450 ATAAATAAGC
56460 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
56506 TACAATTAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:56784 original size:40 final size:40
Alignment explanation
Indices: 56666--56787 Score: 111
Period size: 40 Copynumber: 3.0 Consensus size: 40
56656 TTGGTTGTTG
*
56666 GGGATGACACCGCTCATACATGATGAAGAGTTTTGGTCGTCTAA
1 GGGATGACACCGCTCATACATGATGAAGAGTTCT-G--GTC-AA
* ** * * * **
56710 AGG-TGACAAGGTTCCTACATGATGAGGAAATCTGGTCAA
1 GGGATGACACCGCTCATACATGATGAAGAGTTCTGGTCAA
*
56749 GGGATGACACTGCTCATACATGATGAAGAGTTCTGGTCA
1 GGGATGACACCGCTCATACATGATGAAGAGTTCTGGTCA
56788 TCTTTAGGAG
Statistics
Matches: 60, Mismatches: 17, Indels: 6
0.72 0.20 0.07
Matches are distributed among these distances:
39 4 0.07
40 31 0.52
42 1 0.02
43 22 0.37
44 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGATGACACCGCTCATACATGATGAAGAGTTCTGGTCAA
Found at i:56951 original size:133 final size:134
Alignment explanation
Indices: 56722--57027 Score: 454
Period size: 133 Copynumber: 2.3 Consensus size: 134
56712 GTGACAAGGT
* * * *
56722 TCCTACATGATGAGGAAATCTGGTCAAGGGATGACACTGCTCATACATGATGAAGAGTTCTGGTC
1 TCCTACATGATGAGGAGATCTGGTCAGGGGATGACACGGCTCATACATGATGAAGAGTTCTGGCC
* * *
56787 ATCTTTAGGAGGAGTGATAACCCGATTCCTACGTGATGAGGACGGCTGGTTATCTA-GGATGACA
66 ATCTTTAGGAGGAGCGATAACACGATTCCTACGTGATGAGGACGACTGGTTATCTATGGATGACA
56851 CAGC
131 CAGC
* * * *
56855 TCCTACGTGATGAGGAGGTCTGGTCAGGGGATGGCACGGCTCATACGTGATGAAGAGTTCTGGCC
1 TCCTACATGATGAGGAGATCTGGTCAGGGGATGACACGGCTCATACATGATGAAGAGTTCTGGCC
* *
56920 ATCTTTAGGTAGG-GCGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTATGGTTGAC
66 ATCTTTAGG-AGGAGCGATAACACGATTCCTACGTGATGAGGACGACTGGTTATCTATGGATGAC
**
56984 ATGGC
130 ACAGC
56989 TCCTACATGATGAGGAGATCTGGTCAGGGGATGACACGG
1 TCCTACATGATGAGGAGATCTGGTCAGGGGATGACACGG
57028 TTCCTATGTG
Statistics
Matches: 153, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
133 105 0.69
134 48 0.31
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (134 bp):
TCCTACATGATGAGGAGATCTGGTCAGGGGATGACACGGCTCATACATGATGAAGAGTTCTGGCC
ATCTTTAGGAGGAGCGATAACACGATTCCTACGTGATGAGGACGACTGGTTATCTATGGATGACA
CAGC
Found at i:57815 original size:66 final size:67
Alignment explanation
Indices: 57727--58071 Score: 377
Period size: 67 Copynumber: 5.2 Consensus size: 67
57717 AAAGATTTAC
* * * * *
57727 TTCAAGAGAAACTATCTCAAGAGAGATAACATAATTCAT-TTT-AAGAAAAACAGATTCAAA-AT
1 TTCAAAAGAAAATATCTTAAGAGAG--AACAAAATT-ATGTTTCAA-AAAAACAGACTCAAAGAT
57789 TTTT-T
62 TTTTGT
* *
57794 TT-AAAAGAAAATATCTTAAGAGAG-ACAAAATTGTGTTTCCAAAGAAACAGACTCAAAGATTTT
1 TTCAAAAGAAAATATCTTAAGAGAGAACAAAATTATGTTT-CAAAAAAACAGACTCAAAGATTTT
57857 TGT
65 TGT
* * * *
57860 TTCAAAAGAAATTATCTTAAGAGAG-ACCAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTT
1 TTCAAAAGAAAATATCTTAAGAGAGAACAAAATTATGTTT-CAAAAAAACAGACTCAAAGATTTT
57924 TGT
65 TGT
* * *
57927 TTCAAAAGAAACA-ATCTTAAGAGAG-ACCAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTT
1 TTCAAAAGAAA-ATATCTTAAGAGAGAACAAAATTATGTTT-CAAAAAAACAGACTCAAAGATTT
57990 TTGT
64 TTGT
* * * *
57994 TTCAAAAGAAATTATCTTAAGAGAG-ACCAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTT
1 TTCAAAAGAAAATATCTTAAGAGAGAACAAAATTATGTTT-CAAAAAAACAGACTCAAAGATTTT
58058 TGT
65 TGT
58061 TTCAAAAGAAA
1 TTCAAAAGAAA
58072 CAATCTCAAA
Statistics
Matches: 258, Mismatches: 12, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
62 1 0.00
63 10 0.04
64 13 0.05
65 8 0.03
66 22 0.09
67 204 0.79
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (67 bp):
TTCAAAAGAAAATATCTTAAGAGAGAACAAAATTATGTTTCAAAAAAACAGACTCAAAGATTTTT
GT
Found at i:57861 original size:30 final size:30
Alignment explanation
Indices: 57827--58206 Score: 193
Period size: 30 Copynumber: 12.0 Consensus size: 30
57817 GACAAAATTG
*
57827 TGTTTCCAAAGAAACAGACTCAAAGATTTT
1 TGTTTCAAAAGAAACAGACTCAAAGATTTT
* * * *
57857 TGTTTCAAAAGAAATTA-TCTTAAGAGAGACCAAATTT
1 TGTTTCAAAAGAAA-CAGAC-TCA-A-AG----ATTTT
*
57894 TGTTTCCAAAGAAACAGACTCAAAGATTTT
1 TGTTTCAAAAGAAACAGACTCAAAGATTTT
* *
57924 TGTTTCAAAAGAAACA-ATCTTAAGAGAGACCAAATTT
1 TGTTTCAAAAGAAACAGA-C-TCA-A-AG----ATTTT
*
57961 TGTTTCCAAAGAAACAGACTCAAAGATTTT
1 TGTTTCAAAAGAAACAGACTCAAAGATTTT
* * * *
57991 TGTTTCAAAAGAAATTA-TCTTAAGAGAGACCAAATTT
1 TGTTTCAAAAGAAA-CAGAC-TCA-A-AG----ATTTT
*
58028 TGTTTCCAAAGAAACAGACTCAAAGATTTT
1 TGTTTCAAAAGAAACAGACTCAAAGATTTT
58058 TGTTTCAAAAGAAACA-ATCTCAAAGATTTT
1 TGTTTCAAAAGAAACAGA-CTCAAAGATTTT
*** *** * **
58088 T-TTTCACAAAATTGTCTCAAGAGAGAAAAAACTT
1 TGTTT--CAAAA--GAAAC-AGACTCAAAGATTTT
* *
58122 TGTTTCAAAAGAAATAGACTCAAAGATATT
1 TGTTTCAAAAGAAACAGACTCAAAGATTTT
58152 TGTTTCAAAAGAAACA-ACTCAAAGA--TT
1 TGTTTCAAAAGAAACAGACTCAAAGATTTT
*
58179 T-TTTCAAAAGGAACAGACTCAAAGATTT
1 TGTTTCAAAAGAAACAGACTCAAAGATTT
58207 ATCTCAAGAG
Statistics
Matches: 264, Mismatches: 48, Indels: 77
0.68 0.12 0.20
Matches are distributed among these distances:
26 13 0.05
27 12 0.05
29 15 0.06
30 108 0.41
31 14 0.05
32 3 0.01
33 13 0.05
34 14 0.05
35 7 0.03
36 8 0.03
37 56 0.21
38 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (30 bp):
TGTTTCAAAAGAAACAGACTCAAAGATTTT
Found at i:57880 original size:67 final size:67
Alignment explanation
Indices: 57774--58071 Score: 521
Period size: 67 Copynumber: 4.5 Consensus size: 67
57764 ATTTTAAGAA
* * * *
57774 AAACAGATTCAAA-ATTTTT-TTT-AAAAGAAAATATCTTAAGAGAGACAAAATTGTGTTTCCAA
1 AAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAATTTTGTTTCCAA
57836 AG
66 AG
57838 AAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAATTTTGTTTCCAA
1 AAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAATTTTGTTTCCAA
57903 AG
66 AG
**
57905 AAACAGACTCAAAGATTTTTGTTTCAAAAGAAACAATCTTAAGAGAGACCAAATTTTGTTTCCAA
1 AAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAATTTTGTTTCCAA
57970 AG
66 AG
57972 AAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAATTTTGTTTCCAA
1 AAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAATTTTGTTTCCAA
58037 AG
66 AG
58039 AAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
1 AAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
58072 CAATCTCAAA
Statistics
Matches: 223, Mismatches: 8, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
64 12 0.05
65 6 0.03
66 3 0.01
67 202 0.91
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (67 bp):
AAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAATTTTGTTTCCAA
AG
Found at i:57905 original size:37 final size:36
Alignment explanation
Indices: 57854--58043 Score: 138
Period size: 37 Copynumber: 5.5 Consensus size: 36
57844 ACTCAAAGAT
*
57854 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAA
1 TTTTGTTTCAAAAGAAA-CATCTTAAGAGAGACCAAA
* * * *
57891 TTTTGTTTCCAAAGAAACAGAC-TCA-A-AG----AT
1 TTTTGTTTCAAAAGAAACA-TCTTAAGAGAGACCAAA
57921 TTTTGTTTCAAAAGAAACAATCTTAAGAGAGACCAAA
1 TTTTGTTTCAAAAGAAAC-ATCTTAAGAGAGACCAAA
* * * *
57958 TTTTGTTTCCAAAGAAACAGAC-TCA-A-AG----AT
1 TTTTGTTTCAAAAGAAACA-TCTTAAGAGAGACCAAA
*
57988 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCAAA
1 TTTTGTTTCAAAAGAAA-CATCTTAAGAGAGACCAAA
*
58025 TTTTGTTTCCAAAGAAACA
1 TTTTGTTTCAAAAGAAACA
58044 GACTCAAAGA
Statistics
Matches: 115, Mismatches: 20, Indels: 37
0.67 0.12 0.22
Matches are distributed among these distances:
30 37 0.32
31 6 0.05
32 2 0.02
33 4 0.03
34 4 0.03
35 2 0.02
36 7 0.06
37 53 0.46
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (36 bp):
TTTTGTTTCAAAAGAAACATCTTAAGAGAGACCAAA
Found at i:58141 original size:94 final size:95
Alignment explanation
Indices: 57958--58182 Score: 319
Period size: 94 Copynumber: 2.4 Consensus size: 95
57948 AGAGACCAAA
* * **
57958 TTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACCA
1 TTTTGTTTCAAAAGAAACA-ACTCAAAGATTTTT-TTTCAAAAGAAATTATCTCAAGAGAGAAAA
* *
58023 AATTTTGTTTCCAAAGAAACAGACTCAAAGAT
64 AACTTTGTTTCAAAAGAAACAGACTCAAAGAT
* *
58055 TTTTGTTTCAAAAGAAACAATCTCAAAGATTTTTTTTC-ACA-AAATTGTCTCAAGAGAGAAAAA
1 TTTTGTTTCAAAAGAAACAA-CTCAAAGATTTTTTTTCAAAAGAAATTATCTCAAGAGAGAAAAA
*
58118 ACTTTGTTTCAAAAGAAATAGACTCAAAGAT
65 ACTTTGTTTCAAAAGAAACAGACTCAAAGAT
*
58149 ATTTGTTTCAAAAGAAACAACTCAAAGATTTTTT
1 TTTTGTTTCAAAAGAAACAACTCAAAGATTTTTT
58183 CAAAAGGAAC
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
93 14 0.12
94 65 0.56
95 2 0.02
96 5 0.04
97 31 0.26
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.32
Consensus pattern (95 bp):
TTTTGTTTCAAAAGAAACAACTCAAAGATTTTTTTTCAAAAGAAATTATCTCAAGAGAGAAAAAA
CTTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:58186 original size:26 final size:28
Alignment explanation
Indices: 58124--58220 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 28
58114 AAAAACTTTG
* *
58124 TTTCAAAAGAAATAGACTCAAAGATATTTG
1 TTTCAAAAGAAACAGACTCAAAG--ATTTA
58154 TTTCAAAAGAAACA-ACTCAAAGATTT-
1 TTTCAAAAGAAACAGACTCAAAGATTTA
*
58180 TTTCAAAAGGAACAGACTCAAAGATTTA
1 TTTCAAAAGAAACAGACTCAAAGATTTA
* *
58208 TCTCAAGAGAAAC
1 TTTCAAAAGAAAC
58221 TGTCTCAAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 13 0.22
27 16 0.27
28 10 0.17
29 8 0.13
30 13 0.22
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (28 bp):
TTTCAAAAGAAACAGACTCAAAGATTTA
Found at i:58198 original size:27 final size:28
Alignment explanation
Indices: 58120--58220 Score: 125
Period size: 30 Copynumber: 3.6 Consensus size: 28
58110 GAGAAAAAAC
*
58120 TTTGTTTCAAAAGAAATAGACTCAAAGATA
1 TTTGTTTCAAAAGAAACAGACTCAAAG--A
58150 TTTGTTTCAAAAGAAACA-ACTCAAAGA
1 TTTGTTTCAAAAGAAACAGACTCAAAGA
*
58177 TTT-TTTCAAAAGGAACAGACTCAAAGA
1 TTTGTTTCAAAAGAAACAGACTCAAAGA
* * *
58204 TTTATCTCAAGAGAAAC
1 TTTGTTTCAAAAGAAAC
58221 TGTCTCAAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 13 0.20
27 16 0.25
28 10 0.16
29 8 0.12
30 17 0.27
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
Consensus pattern (28 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGA
Found at i:58255 original size:120 final size:123
Alignment explanation
Indices: 58026--58268 Score: 282
Period size: 120 Copynumber: 2.0 Consensus size: 123
58016 GAGACCAAAT
* * *
58026 TTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAACAATCTCAAAGATTTTTTT
1 TTTGTTTCAAAAGAAACAGACTCAAAGA-TTTTGTTTCAAAAGAAACAATCTCAAAGATTTTATC
* ** *
58091 TCACAAAATTGTCTCAAGAGAGAAAAAACTTTGTTTCAAAAGAAATAGACTCAAAGATA
65 TCACAAAACTGTCTCAAGAGAGAAAAAACTTCATTTCAAAAGAAAAAGACTCAAAGATA
*
58150 TTTGTTTCAAAAGAAACA-ACTCAAAGA-TTT-TTTCAAAAGGAACAGA-CTCAAAGA-TTTATC
1 TTTGTTTCAAAAGAAACAGACTCAAAGATTTTGTTTCAAAAGAAACA-ATCTCAAAGATTTTATC
* * * ** *
58210 TCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTCATTTTAGGAGAAAAAGATTCAAAGAT
65 TC-ACA-AAACTGTCTCAAGAGAGAAAAAACTTCATTTCAAAAGAAAAAGACTCAAAGAT
58269 TGTCAATTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
119 6 0.06
120 45 0.44
121 25 0.25
123 9 0.09
124 17 0.17
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (123 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGATTTTGTTTCAAAAGAAACAATCTCAAAGATTTTATCT
CACAAAACTGTCTCAAGAGAGAAAAAACTTCATTTCAAAAGAAAAAGACTCAAAGATA
Found at i:58554 original size:36 final size:36
Alignment explanation
Indices: 58483--58573 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 36
58473 GCGAGACAAA
* * *
58483 ACAAAATTTG-CTTTA-AGATATAGTCTCAAATGAG
1 ACAAAATTTGTTTTTAGAGAAATAGTCTCAAACGAG
* *
58517 ACAAAATTTGTTTTTAGAGAAATTGTCTCAAGCGAG
1 ACAAAATTTGTTTTTAGAGAAATAGTCTCAAACGAG
*
58553 ACAAAGTTTGTTTTT-GAGAAA
1 ACAAAATTTGTTTTTAGAGAAA
58574 ACGATCTCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
34 10 0.20
35 10 0.20
36 29 0.59
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (36 bp):
ACAAAATTTGTTTTTAGAGAAATAGTCTCAAACGAG
Found at i:58601 original size:36 final size:36
Alignment explanation
Indices: 58505--58589 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
58495 TTAAGATATA
**
58505 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAAC
** *
58541 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAAC
58576 GATCTCAAATGAGA
1 G-TCTCAAATGAGA
58590 TCAACTTTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 7 0.17
36 34 0.83
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.31
Consensus pattern (36 bp):
GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:58720 original size:105 final size:105
Alignment explanation
Indices: 58585--58773 Score: 281
Period size: 105 Copynumber: 1.8 Consensus size: 105
58575 CGATCTCAAA
* *
58585 TGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAGGTCTCAA
1 TGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAGGTCTCAA
58650 ACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGG
66 ACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGG
* * * * *
58690 TGAGATTAATTTTGTTTTAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCA
1 TGAGATCAACTTTG-TTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAGGTCTCA
* *
58754 AGCGAGACGCAATTTGTTTT
65 AACGAGACGAAATTTGTTTT
58774 AAAATTCTCA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
105 69 0.93
106 5 0.07
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (105 bp):
TGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAGGTCTCAA
ACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGG
Found at i:58870 original size:156 final size:157
Alignment explanation
Indices: 58638--58934 Score: 386
Period size: 156 Copynumber: 1.9 Consensus size: 157
58628 TCTCAAAGGG
* * *
58638 AAAAGGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTT
1 AAAAGGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGATGAGATCAACTTT
* * * **
58703 GTTTTAAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATT
66 GTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACAAAATT
58768 TGTTTTAAAATTCTCAAAATTTGTGGA
131 TGTTTTAAAATTCTCAAAATTTGTGGA
* * * * *
58795 AAAATGTCTCAAGCGAGACGAAATTTGTTTT-AAA-ATAGATACGATCTCAA-ATGAGATCAACT
1 AAAAGGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACA-ACAATCT-AAGATGAGATCAACT
* * *
58857 TTG-TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAATGTCTCAAATGAGACAAA
64 TTGTTTTAA-GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACAAA
*
58921 ATTTGTTTTGAAAT
128 ATTTGTTTTAAAAT
58935 AAATTGTCTC
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
155 8 0.07
156 81 0.68
157 31 0.26
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (157 bp):
AAAAGGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGATGAGATCAACTTT
GTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACAAAATT
TGTTTTAAAATTCTCAAAATTTGTGGA
Found at i:58909 original size:104 final size:104
Alignment explanation
Indices: 58795--59130 Score: 398
Period size: 104 Copynumber: 3.4 Consensus size: 104
58785 AATTTGTGGA
* *
58795 AAAATGTCTCAAGCGAGACGAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATCAACTTTG
1 AAAATGTCTCAAACGAGACAAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATCAACTTTG
58860 TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGG
66 TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGG
* * * * ** *
58899 AAAATGTCTCAAATGAGACAAAATTTGTTTTGAAATAAAT-TG-TCTCAAGCGAGA-CAAAATTT
1 AAAATGTCTCAAACGAGACAAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATC-AACTTT
* *
58961 GTTT--T-T-AGAA-AAATCTCAAAATTT-G---T----GGA
65 GTTTAATGTGA-AACAAAT-TCGAAATTTGGATCTCAAAGGG
* *
58990 AAAATGTCTCAAGCGAGACGAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATCAACTTTG
1 AAAATGTCTCAAACGAGACAAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATCAACTTTG
59055 TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGG
66 TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGG
* *
59094 AAAATGTCTCAAATGAGACAAAATTTGTTTTGAAATA
1 AAAATGTCTCAAACGAGACAAAATTTGTTTTAAAATA
59131 AATTGTCTCA
Statistics
Matches: 187, Mismatches: 26, Indels: 38
0.75 0.10 0.15
Matches are distributed among these distances:
91 37 0.20
92 1 0.01
93 19 0.10
94 1 0.01
95 2 0.01
96 11 0.06
97 6 0.03
98 6 0.03
99 11 0.06
100 2 0.01
101 1 0.01
102 19 0.10
103 1 0.01
104 70 0.37
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (104 bp):
AAAATGTCTCAAACGAGACAAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATCAACTTTG
TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGG
Found at i:58925 original size:195 final size:194
Alignment explanation
Indices: 58747--59197 Score: 843
Period size: 195 Copynumber: 2.3 Consensus size: 194
58737 AAAGGAAAAA
** *
58747 TGTCTCAAGCGAGACGCAATTTG-TTTT-AAAATTCTCAAAATTTGTGGAAAAATGTCTCAAGCG
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAAAAAATCTCAAAATTTGTGGAAAAATGTCTCAAGCG
58810 AGACGAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATCAACTTTGTTTAATGTGAAACAA
66 AGACGAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATCAACTTTGTTTAATGTGAAACAA
58875 ATTCGAAATTTGGATCTCAAAGGGAAAATGTCTCAAATGAGACAAAATTTGTTTTGAAATAAAT
131 ATTCGAAATTTGGATCTCAAAGGGAAAATGTCTCAAATGAGACAAAATTTGTTTTGAAATAAAT
58939 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAAAAATCTCAAAATTTGTGGAAAAATGTCTCAAGC
1 TGTCTCAAGCGAGACAAAATTTGTTTTTA-AAAAATCTCAAAATTTGTGGAAAAATGTCTCAAGC
59004 GAGACGAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATCAACTTTGTTTAATGTGAAACA
65 GAGACGAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATCAACTTTGTTTAATGTGAAACA
59069 AATTCGAAATTTGGATCTCAAAGGGAAAATGTCTCAAATGAGACAAAATTTGTTTTGAAATAAAT
130 AATTCGAAATTTGGATCTCAAAGGGAAAATGTCTCAAATGAGACAAAATTTGTTTTGAAATAAAT
59134 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAAAAATCTCAAAATTTGTGGAAAAATGTCTCAAG
1 TGTCTCAAGCGAGACAAAATTTGTTTTTA-AAAAATCTCAAAATTTGTGGAAAAATGTCTCAAG
59198 AGACTGAATT
Statistics
Matches: 253, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
192 21 0.08
193 4 0.02
195 228 0.90
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (194 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAAAAAATCTCAAAATTTGTGGAAAAATGTCTCAAGCG
AGACGAAATTTGTTTTAAAATAGATACGATCTCAAATGAGATCAACTTTGTTTAATGTGAAACAA
ATTCGAAATTTGGATCTCAAAGGGAAAATGTCTCAAATGAGACAAAATTTGTTTTGAAATAAAT
Found at i:59532 original size:4 final size:4
Alignment explanation
Indices: 59523--59613 Score: 127
Period size: 4 Copynumber: 23.8 Consensus size: 4
59513 TGTATATATG
* *
59523 TGTA TGTA TGTA TATA TATA TGTA TGTA TGTA TGTA --TA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
59569 TGTA TGTA TATA TGTA TGTA TGTA TGTA TGTA TGT- TG-A TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
59614 TTTCTCAATC
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.03
3 4 0.05
4 73 0.92
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:59565 original size:38 final size:38
Alignment explanation
Indices: 59504--59597 Score: 145
Period size: 38 Copynumber: 2.5 Consensus size: 38
59494 ATGCAAAATT
* * *
59504 TATGTAT-CATGTATATATGTGTATGTATGTATATATA
1 TATGTATGTATGTATGTATATGTATGTATGTATATATA
*
59541 TATGTATGTATGTATGTATATGTATGTATGTATGTATA
1 TATGTATGTATGTATGTATATGTATGTATGTATATATA
59579 TATGTATGTATGTATGTAT
1 TATGTATGTATGTATGTAT
59598 GTATGTTGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 7 0.13
38 45 0.87
ACGTcount: A:0.30, C:0.01, G:0.19, T:0.50
Consensus pattern (38 bp):
TATGTATGTATGTATGTATATGTATGTATGTATATATA
Found at i:59613 original size:42 final size:42
Alignment explanation
Indices: 59504--59601 Score: 153
Period size: 42 Copynumber: 2.4 Consensus size: 42
59494 ATGCAAAATT
* * *
59504 TATGTAT-CATGTATATATGTGTATGTATGTATATATATATG
1 TATGTATGTATGTATATGTATGTATGTATGTATATATATATG
*
59545 TATGTATGTATGTATATGTATGTATGTATGTATATATGTATG
1 TATGTATGTATGTATATGTATGTATGTATGTATATATATATG
59587 TATGTATGTATGTAT
1 TATGTATGTATGTAT
59602 GTTGATGTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 7 0.13
42 45 0.87
ACGTcount: A:0.30, C:0.01, G:0.19, T:0.50
Consensus pattern (42 bp):
TATGTATGTATGTATATGTATGTATGTATGTATATATATATG
Found at i:60817 original size:12 final size:11
Alignment explanation
Indices: 60789--60826 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
60779 TCCTATTTTG
*
60789 TTCTTTGCTTT
1 TTCTTTGATTT
60800 TTCTTTGATTT
1 TTCTTTGATTT
60811 TTGCTTTGATTT
1 TT-CTTTGATTT
60823 TTCT
1 TTCT
60827 CTTTGCTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.05, C:0.13, G:0.11, T:0.71
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:60830 original size:13 final size:12
Alignment explanation
Indices: 60783--60831 Score: 55
Period size: 12 Copynumber: 4.0 Consensus size: 12
60773 TCTTTGTCCT
60783 ATTTTGTTCTTTG
1 ATTTT-TTCTTTG
*
60796 -CTTTTTCTTTG
1 ATTTTTTCTTTG
*
60807 ATTTTTGCTTTG
1 ATTTTTTCTTTG
60819 ATTTTTCTCTTTG
1 ATTTTT-TCTTTG
60832 CTCTTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
11 7 0.23
12 18 0.60
13 5 0.17
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.69
Consensus pattern (12 bp):
ATTTTTTCTTTG
Found at i:61528 original size:46 final size:44
Alignment explanation
Indices: 61437--61529 Score: 114
Period size: 46 Copynumber: 2.1 Consensus size: 44
61427 ATAAATGTAG
* * *
61437 TGTTTCAAGGTGGAAAGAATGTTCAAGGCCTTAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATGTTCAAGGCCTCAAAGAGAGAGAA
* * *
61481 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAAT-GTTCAAGGCCTCAAAGAGAGAGAA
61527 TGT
1 TGT
61530 CAAAATTTGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 11 0.27
45 8 0.20
46 22 0.54
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.26
Consensus pattern (44 bp):
TGTTTCAAGGTGAAAAGAATGTTCAAGGCCTCAAAGAGAGAGAA
Found at i:62975 original size:31 final size:32
Alignment explanation
Indices: 62919--62980 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
62909 TGACAAAATG
62919 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
62951 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
62981 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:66582 original size:3 final size:3
Alignment explanation
Indices: 66569--66614 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
66559 ATAAATAAGC
66569 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
66615 TACAATTAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:66989 original size:40 final size:40
Alignment explanation
Indices: 66940--67019 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
66930 ATTGTAAGAG
*
66940 ATGAATGAAAAATGATATTCTTATTAGTTGAATCAGATGT
1 ATGAATGAAAAATGATACTCTTATTAGTTGAATCAGATGT
66980 ATGAATGAAAAATGATACTCTTATTAGTTGAATCAGATGT
1 ATGAATGAAAAATGATACTCTTATTAGTTGAATCAGATGT
67020 GTTGAAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (40 bp):
ATGAATGAAAAATGATACTCTTATTAGTTGAATCAGATGT
Found at i:69428 original size:23 final size:23
Alignment explanation
Indices: 69333--69433 Score: 78
Period size: 23 Copynumber: 4.4 Consensus size: 23
69323 GTCGAGGGAT
* * * *
69333 TCTATGCGGTCCTCCGAGACAAT
1 TCTATGTGGTCCTTCGGGACAAA
* * *
69356 TCTACGCT-GTCCTTCGGGATAAT
1 TCTATG-TGGTCCTTCGGGACAAA
* * *
69379 TTTATGTGGTCCTTCGGGATAAT
1 TCTATGTGGTCCTTCGGGACAAA
* *
69402 TCTATGTGGTTCTTTGGGACAAA
1 TCTATGTGGTCCTTCGGGACAAA
69425 TCTATGTGG
1 TCTATGTGG
69434 CACTTAGGTG
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
22 1 0.02
23 63 0.98
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.37
Consensus pattern (23 bp):
TCTATGTGGTCCTTCGGGACAAA
Found at i:70049 original size:65 final size:64
Alignment explanation
Indices: 69980--70100 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
69970 GAATGCATTT
* * *
69980 CATGCATCGATGCACTCAGAG-T-TTTATGAAAACATCGAATGCATTTGATGCATCGATTCACCA
1 CATGCATCGATGCAATCAG-GCTATTT-TG-AAACATCAAATGCATTTCATGCATCGATTCACCA
70043 GC
63 GC
*
70045 CATGCATCGATGCAATCTGGCTATTTTGAAACATCAAATGCATTTCATGCATCGAT
1 CATGCATCGATGCAATCAGGCTATTTTGAAACATCAAATGCATTTCATGCATCGAT
70101 ACACTCTTAG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
64 27 0.54
65 20 0.40
66 3 0.06
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (64 bp):
CATGCATCGATGCAATCAGGCTATTTTGAAACATCAAATGCATTTCATGCATCGATTCACCAGC
Found at i:71230 original size:46 final size:45
Alignment explanation
Indices: 71138--71231 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
71128 ATAAATGTAG
* * * *
71138 TGTTTCAAGGTGGAAAGAATGTTTCAAGGCCTTAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
* *
71183 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
71229 TGT
1 TGT
71232 CAAAATTTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 11 0.26
46 31 0.74
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTCAAAGAGAGAGAA
Found at i:72679 original size:31 final size:32
Alignment explanation
Indices: 72623--72684 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
72613 TGACAAAATG
72623 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
72655 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
72685 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:74182 original size:17 final size:18
Alignment explanation
Indices: 74152--74185 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
74142 AAAAACACAC
*
74152 ATTACATTATTAAAATAA
1 ATTACATTAGTAAAATAA
74170 ATTA-ATTAGTAAAATA
1 ATTACATTAGTAAAATA
74186 TACTCGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTACATTAGTAAAATAA
Found at i:76287 original size:3 final size:3
Alignment explanation
Indices: 76274--76361 Score: 169
Period size: 3 Copynumber: 29.7 Consensus size: 3
76264 ATAAATAAGC
76274 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
76321 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
76362 TACAATTAGA
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 82 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:76748 original size:39 final size:40
Alignment explanation
Indices: 76687--76765 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
76677 ATTGTAAGAG
*
76687 ATGAATGAAAAATGATATTCTTATTAGTTGAATCAGATGT
1 ATGAATGAAAAATGATACTCTTATTAGTTGAATCAGATGT
76727 ATGAATG-AAAATGATACTCTTATTAGTTGAATCAGATGT
1 ATGAATGAAAAATGATACTCTTATTAGTTGAATCAGATGT
76766 GTTGAAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 31 0.82
40 7 0.18
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (40 bp):
ATGAATGAAAAATGATACTCTTATTAGTTGAATCAGATGT
Found at i:79171 original size:23 final size:23
Alignment explanation
Indices: 79076--79176 Score: 78
Period size: 23 Copynumber: 4.4 Consensus size: 23
79066 GTCGAGGGAT
* * * *
79076 TCTATGCGGTCCTCCGAGACAAT
1 TCTATGTGGTCCTTCGGGACAAA
* * *
79099 TCTACGCT-GTCCTTCGGGATAAT
1 TCTATG-TGGTCCTTCGGGACAAA
* * *
79122 TTTATGTGGTCCTTCGGGATAAT
1 TCTATGTGGTCCTTCGGGACAAA
* *
79145 TCTATGTGGTTCTTTGGGACAAA
1 TCTATGTGGTCCTTCGGGACAAA
79168 TCTATGTGG
1 TCTATGTGG
79177 CACTTAGGTG
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
22 1 0.02
23 63 0.98
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.37
Consensus pattern (23 bp):
TCTATGTGGTCCTTCGGGACAAA
Found at i:79792 original size:65 final size:64
Alignment explanation
Indices: 79723--79843 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
79713 GAATGCATTT
* * *
79723 CATGCATCGATGCACTCAGAG-T-TTTATGAAAACATCGAATGCATTTGATACATCGATTCACCA
1 CATGCATCGATGCAATCAG-GCTATTT-TG-AAACATCAAATGCATTTCATACATCGATTCACCA
79786 GC
63 GC
* *
79788 CATGCATCGATGCAATCTGGCTATTTTGAAACATCAAATGCATTTCATGCATCGAT
1 CATGCATCGATGCAATCAGGCTATTTTGAAACATCAAATGCATTTCATACATCGAT
79844 ACACTCTTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
64 26 0.53
65 20 0.41
66 3 0.06
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (64 bp):
CATGCATCGATGCAATCAGGCTATTTTGAAACATCAAATGCATTTCATACATCGATTCACCAGC
Found at i:85696 original size:23 final size:23
Alignment explanation
Indices: 85643--85703 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
85633 ATGCATCTCT
85643 TTGAATGTGCATCGA--TACACC
1 TTGAATGTGCATCGATGTACACC
* * * *
85664 ATGAAGGTGCACCGATGTACGCC
1 TTGAATGTGCATCGATGTACACC
85687 TTGAATGTGCATCGATG
1 TTGAATGTGCATCGATG
85704 CATCCGTCGG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 12 0.39
23 19 0.61
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (23 bp):
TTGAATGTGCATCGATGTACACC
Found at i:88511 original size:65 final size:63
Alignment explanation
Indices: 88394--88601 Score: 192
Period size: 65 Copynumber: 3.2 Consensus size: 63
88384 TTTCAAAGTG
* * * **
88394 ATGCACCGATGAACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTC-TGG-CTATTTTGAAACATCGAATGCATT
88457 TC
62 TC
*
88459 ATGCATCGATGCACATACTATGCATCGATGCACT-TAGAG-T-TTTATGAAAACATCGAATGCAT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCT-G-GCTATTT-TG-AAACATCGAATGCAT
*
88521 TTG
61 TTC
* * *
88524 ATGCATCGATTCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATTGAATGCATTTC
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCATTTC
*
88588 ATGCATCGTTGCAC
1 ATGCATCGATGCAC
88602 TCTTAGTGCA
Statistics
Matches: 119, Mismatches: 13, Indels: 24
0.76 0.08 0.15
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 46 0.39
65 61 0.51
66 6 0.05
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCATTTC
Found at i:95248 original size:23 final size:23
Alignment explanation
Indices: 95222--95283 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
95212 CGATCCTCTC
*
95222 GGACAATTCTATGTGGTTCTTCG
1 GGACAATTCTATGTGGTTCTTCA
* * *
95245 GGACAATTCTACGCGATTCTTCA
1 GGACAATTCTATGTGGTTCTTCA
* *
95268 GGAAAAATCTATGTGG
1 GGACAATTCTATGTGG
95284 CACTTCGGTG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (23 bp):
GGACAATTCTATGTGGTTCTTCA
Found at i:95290 original size:46 final size:46
Alignment explanation
Indices: 95204--95291 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
95194 GAGTCGAGGG
* * **
95204 ATTCTACGCGATCCTCTCGGACAATTCTATGTGGTTCTTCGGGACA
1 ATTCTACGCGATCCTCTCGGAAAAATCTATGTGGCACTTCGGGACA
*
95250 ATTCTACGCGATTCT-TCAGGAAAAATCTATGTGGCACTTCGG
1 ATTCTACGCGATCCTCTC-GGAAAAATCTATGTGGCACTTCGG
95292 TGCATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 2 0.06
46 34 0.94
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.32
Consensus pattern (46 bp):
ATTCTACGCGATCCTCTCGGAAAAATCTATGTGGCACTTCGGGACA
Found at i:96200 original size:17 final size:19
Alignment explanation
Indices: 96158--96206 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
96148 TTGGAGCCTT
*
96158 AGTGCATCGGTGCACTAAG
1 AGTGCATCGATGCACTAAG
*
96177 TGTGCATCGATGCA-TAA-
1 AGTGCATCGATGCACTAAG
96194 AGTGCATTCGATG
1 AGTGCA-TCGATG
96207 TTTCAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 12 0.46
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (19 bp):
AGTGCATCGATGCACTAAG
Found at i:96312 original size:65 final size:65
Alignment explanation
Indices: 96177--96337 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
96167 GTGCACTAAG
*
96177 TGTGCATCGATGCA-TAAAGTGCATTCGATG-TTTCAAAATAGCATGAGTGCATCGATGCATGTC
1 TGTGCATCGATGCATTAAA-TGCATTCGATGTTTTCAAAATACCATGAGTGCATCGATGCATGTC
*
96240 T
65 A
* *
96241 TATGCATCGATGCATTAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGGT
1 TGTGCATCGATGCATTAAATGCATTCGATGTTTTCA-AAATACCATGAGTGCATCGATGCAT-GT
96305 -A
64 CA
*
96306 TGTGCATCGATGCATAAAATGCATTCGATGTT
1 TGTGCATCGATGCATTAAATGCATTCGATGTT
96338 CAATTTATTC
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
64 24 0.28
65 58 0.67
66 5 0.06
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (65 bp):
TGTGCATCGATGCATTAAATGCATTCGATGTTTTCAAAATACCATGAGTGCATCGATGCATGTCA
Found at i:96376 original size:65 final size:64
Alignment explanation
Indices: 96177--96378 Score: 193
Period size: 65 Copynumber: 3.1 Consensus size: 64
96167 GTGCACTAAG
* *
96177 TGTGCATCGATGCATAAAGTGCATTCGATGTTTCAA--AATAGC-ATGAGTGCATCGATGCATGT
1 TGTGCATCGATGCATAAAATGCATTCGATG-TTCAATTTATA-CAATGAGTGCATCGATGCATG-
*
96239 CT
63 GT
* * * *
96241 TATGCATCGATGCATTAAATGCATTCGATGTT---TTCATAAAACCCTGAGTGCATCGATGCATG
1 TGTGCATCGATGCATAAAATGCATTCGATGTTCAATTTATACAA---TGAGTGCATCGATGCATG
96303 GT
63 GT
* *
96305 ATGTGCATCGATGCATAAAATGCATTCGATGTTCAATTTATTCAATG-TTGCATCGATGCATGGA
1 -TGTGCATCGATGCATAAAATGCATTCGATGTTCAATTTATACAATGAGTGCATCGATGCATGG-
96369 T
64 T
96370 TGGTGCATC
1 T-GTGCATC
96379 AGTGCATCCC
Statistics
Matches: 114, Mismatches: 12, Indels: 23
0.77 0.08 0.15
Matches are distributed among these distances:
62 4 0.04
63 2 0.02
64 44 0.39
65 58 0.51
68 6 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (64 bp):
TGTGCATCGATGCATAAAATGCATTCGATGTTCAATTTATACAATGAGTGCATCGATGCATGGT
Found at i:99048 original size:21 final size:22
Alignment explanation
Indices: 98993--99073 Score: 92
Period size: 23 Copynumber: 3.6 Consensus size: 22
98983 CATGGCCTTG
98993 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGG-A
* * *
99016 TGCATCGGTGCACCTTCATGG-
1 TGCATCGATGCACATTCAAGGA
*
99037 TGTATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AA-GGA
99061 TGCATCGATGCAC
1 TGCATCGATGCAC
99074 TGTTAAGTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
21 14 0.30
22 1 0.02
23 20 0.43
24 12 0.26
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:108725 original size:81 final size:81
Alignment explanation
Indices: 108586--108807 Score: 282
Period size: 81 Copynumber: 2.7 Consensus size: 81
108576 ATGTTCTTCA
* * * * * * * * * *
108586 TCTAACTTGCATTAGTGGCACCTTTATACCATATTGCACCATTAGGCGTTAGTATTTTATCCTAA
1 TCTAACTTGCATTATTAGCACCTTTCTGCCA-AATACACAATTATGCATTAGTCTTTTATCCTAA
108651 AGGCATTTAACATTTCT
65 AGGCATTTAACATTTCT
* * * * *
108668 TTTAACTTGTATTATTAGCATCTTTCTGCCAAATGCACAGTTATGCATTAGTCTTTTATCCTAAA
1 TCTAACTTGCATTATTAGCACCTTTCTGCCAAATACACAATTATGCATTAGTCTTTTATCCTAAA
*
108733 GGCATTTAACCTTTCT
66 GGCATTTAACATTTCT
*
108749 TCTAACTTGCATTATTGGCACCTTTCTGCCAAATACACAATTATGCATTAGTCTTTTAT
1 TCTAACTTGCATTATTAGCACCTTTCTGCCAAATACACAATTATGCATTAGTCTTTTAT
108808 TTTAGAACAA
Statistics
Matches: 120, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 96 0.80
82 24 0.20
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.41
Consensus pattern (81 bp):
TCTAACTTGCATTATTAGCACCTTTCTGCCAAATACACAATTATGCATTAGTCTTTTATCCTAAA
GGCATTTAACATTTCT
Found at i:109008 original size:54 final size:54
Alignment explanation
Indices: 108950--109120 Score: 189
Period size: 54 Copynumber: 3.2 Consensus size: 54
108940 AAGATGCATG
* * * * **
108950 CATAGTGCCTATATGGTCGTTCATCAACACATGATGAATTTTTTGGGTTACAAA
1 CATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGGGTTACAAA
* * * *
109004 CATAGTGCATGTACGGTTGTTCATCAACTCGTGATGAATTTCGTGGGTTGCACA
1 CATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGGGTTACAAA
* * * * * *
109058 CATAGTGTCTGTACGGTTGTTCATCAACTCCTGATGAATTCCGTGCGTTCCACA
1 CATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGGGTTACAAA
*
109112 CTTAGTGCC
1 CATAGTGCC
109121 GAAATGGTTA
Statistics
Matches: 99, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (54 bp):
CATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGGGTTACAAA
Found at i:109135 original size:54 final size:53
Alignment explanation
Indices: 109016--109435 Score: 333
Period size: 54 Copynumber: 7.9 Consensus size: 53
109006 TAGTGCATGT
* * * ** * * *
109016 ACGGTTGTTCATCAACTCGTGATGAATTTCGTGGGTTGCACACATAGTGTCTG-T
1 ACGGTTATTCATCAACT-ATGATGAATTCCGTGAATTGCACACTTAGTG-CCGAA
* * ** *
109070 ACGGTTGTTCATCAACTCCTGATGAATTCCGTGCGTTCCACACTTAGTGCCGAA
1 ACGGTTATTCATCAACT-ATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* * * * * *
109124 ATGGTTATTCATCAATATATGATGAATTTCTTGAATTGTACACTTAGTGTCGAA
1 ACGGTTATTCATCAA-CTATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
**
109178 ACGGTTATTCATCAACATATGATGAATTATGTGAATTG----C--A---CCGAA
1 ACGGTTATTCATCAAC-TATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* * * * * **
109223 ATGGTTATTCATCAATGTATGAAGAATTCCTTAAATTGCACACTTAGTGTTGAA
1 ACGGTTATTCATCAA-CTATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* * *
109277 ACGGTTATTCATCAACATATGATGAATTCTGTGAATTGCACACTTAGTACTGAA
1 ACGGTTATTCATCAAC-TATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* *
109331 ACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACTTAGTGCCAAA
1 ACGGTTATTCATCAAC-TATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
* * *
109385 ATGGTTATTCATCAACATATGACGAATTTC--GAACTTTGCACACTTAGTGCC
1 ACGGTTATTCATCAAC-TATGATGAATTCCGTGAA--TTGCACACTTAGTGCC
109436 TATTTAGTAA
Statistics
Matches: 302, Mismatches: 48, Indels: 32
0.79 0.13 0.08
Matches are distributed among these distances:
45 34 0.11
48 1 0.00
49 1 0.00
50 1 0.00
51 1 0.00
52 3 0.01
53 2 0.01
54 258 0.85
55 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (53 bp):
ACGGTTATTCATCAACTATGATGAATTCCGTGAATTGCACACTTAGTGCCGAA
Found at i:109290 original size:99 final size:100
Alignment explanation
Indices: 109119--109412 Score: 383
Period size: 99 Copynumber: 2.9 Consensus size: 100
109109 ACACTTAGTG
*
109119 CCGAAATGGTTATTCATCAATATATGATGAATTTCTTGAATTGTACACTTAGTGTCGAAACGGTT
1 CCGAAATGGTTATTCATCAATATATGATGAATTTCTTGAATTGCACACTTAGTGTCGAAACGGTT
109184 ATTCATCAACATATGATGAATTATGTGAATTG-CA
66 ATTCATCAACATATGATGAATTATGTGAATTGACA
* * * * *
109218 CCGAAATGGTTATTCATCAATGTATGAAGAATTCCTTAAATTGCACACTTAGTGTTGAAACGGTT
1 CCGAAATGGTTATTCATCAATATATGATGAATTTCTTGAATTGCACACTTAGTGTCGAAACGGTT
*
109283 ATTCATCAACATATGATGAATTCTGTGAATTGCACA
66 ATTCATCAACATATGATGAATTATGTGAATTG-ACA
* * * * *
109319 CTTAGTACTGAAACGGTTATTCATCAACATATGATGAATTTCGTGAATTGCACACTTAGTGCCAA
1 C------C-GAAATGGTTATTCATCAATATATGATGAATTTCTTGAATTGCACACTTAGTGTCGA
* *
109384 AATGGTTATTCATCAACATATGACGAATT
59 AACGGTTATTCATCAACATATGATGAATT
109413 TCGAACTTTG
Statistics
Matches: 167, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
99 90 0.54
101 3 0.02
107 1 0.01
108 73 0.44
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (100 bp):
CCGAAATGGTTATTCATCAATATATGATGAATTTCTTGAATTGCACACTTAGTGTCGAAACGGTT
ATTCATCAACATATGATGAATTATGTGAATTGACA
Found at i:109356 original size:26 final size:26
Alignment explanation
Indices: 109273--109356 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 26
109263 CACTTAGTGT
109273 TGAAACGGTTATTCATCAACATATGA
1 TGAAACGGTTATTCATCAACATATGA
* * * *
109299 TGAATTCTGTGAATTGCA-C-ACTTA-GTA
1 TGAA-ACGGT-TATT-CATCAACATATG-A
109326 CTGAAACGGTTATTCATCAACATATGA
1 -TGAAACGGTTATTCATCAACATATGA
109353 TGAA
1 TGAA
109357 TTTCGTGAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
25 2 0.05
26 13 0.31
27 16 0.38
28 9 0.21
29 2 0.05
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (26 bp):
TGAAACGGTTATTCATCAACATATGA
Found at i:111911 original size:21 final size:23
Alignment explanation
Indices: 111860--111919 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
111850 CCTTTGGGCT
111860 AGGTATCGATACCTCTATATAAA
1 AGGTATCGATACCTCTATATAAA
* *
111883 AGGGTATCGGTACCTCT-TA-AGA
1 A-GGTATCGATACCTCTATATAAA
111905 AGGTATCGATACCTC
1 AGGTATCGATACCTC
111920 CCTATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 13 0.39
22 3 0.09
23 3 0.09
24 14 0.42
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (23 bp):
AGGTATCGATACCTCTATATAAA
Found at i:112091 original size:17 final size:18
Alignment explanation
Indices: 112069--112105 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
112059 TTATATTCGA
112069 ATAA-TTGAATCGAATAT
1 ATAATTTGAATCGAATAT
112086 ATAATTTTGAATCGAATAT
1 ATAA-TTTGAATCGAATAT
112105 A
1 A
112106 AAATCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (18 bp):
ATAATTTGAATCGAATAT
Found at i:115011 original size:15 final size:15
Alignment explanation
Indices: 114987--115029 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
114977 CTTTTGTGAC
*
114987 ATGATCTCTAATGAA
1 ATGATGTCTAATGAA
**
115002 ATGATGTCTAATTTCA
1 ATGATGTCTAA-TGAA
115018 ATGATGTCTAAT
1 ATGATGTCTAAT
115030 TCCATAGTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (15 bp):
ATGATGTCTAATGAA
Found at i:120119 original size:19 final size:19
Alignment explanation
Indices: 120095--120134 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
120085 CGAATAATTG
* *
120095 AATCGAATATATAATTTTA
1 AATCGAATATAAAATCTTA
120114 AATCGAATATAAAATCTTA
1 AATCGAATATAAAATCTTA
120133 AA
1 AA
120135 ATTTATTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (19 bp):
AATCGAATATAAAATCTTA
Found at i:123635 original size:81 final size:81
Alignment explanation
Indices: 123544--123717 Score: 285
Period size: 81 Copynumber: 2.1 Consensus size: 81
123534 CCATTAGGCG
* * * * *
123544 TTAGTATTTTATCCTAAAGGCATTTAACCTTTCTTTTAACTTGTATTATTAGCACCTTTCTGCCA
1 TTAGTCTTTTATCCTAAAGGCATTTAACATTTCTTCTAACTTGCATTATTAGCACATTTCTGCCA
123609 AATGCACAGTTATGAA
66 AATGCACAGTTATGAA
*
123625 TTAGTCTTTTATCCTAAAGGCATTTAACATTTCTTCTAACTTGCATTATTGGCACATTTCTGCCA
1 TTAGTCTTTTATCCTAAAGGCATTTAACATTTCTTCTAACTTGCATTATTAGCACATTTCTGCCA
*
123690 AATGCACAGTTATGCA
66 AATGCACAGTTATGAA
123706 TTAGTCTTTTAT
1 TTAGTCTTTTAT
123718 TTTAGAATAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (81 bp):
TTAGTCTTTTATCCTAAAGGCATTTAACATTTCTTCTAACTTGCATTATTAGCACATTTCTGCCA
AATGCACAGTTATGAA
Found at i:123920 original size:54 final size:52
Alignment explanation
Indices: 123854--124005 Score: 169
Period size: 52 Copynumber: 2.9 Consensus size: 52
123844 TTTATTAAGA
* ** *
123854 TGCACACGTAGTGCCTATACGGTCATTCATCAACACATGATGAATTCCACGGGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAACTCATGATGAATT-C-CGGGT
* * * * * *
123908 TGCCCACATAGTGCATGTACGATTGTTCATCAACTCATGATGAATTCTGTGT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAACTCATGATGAATTCCGGGT
* * *
123960 TGCACACATAGTGGCGAAACGGTTGTTCATCAACTCATGATGAATT
1 TGCACACATAGTGCCTATACGGTTGTTCATCAACTCATGATGAATT
124006 TTGTGGGTTA
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
52 42 0.52
53 1 0.01
54 38 0.47
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (52 bp):
TGCACACATAGTGCCTATACGGTTGTTCATCAACTCATGATGAATTCCGGGT
Found at i:124044 original size:54 final size:54
Alignment explanation
Indices: 123933--124383 Score: 498
Period size: 54 Copynumber: 8.4 Consensus size: 54
123923 TGTACGATTG
* * * *
123933 TTCATCAAC-TCATGATGAATTCTGTG--TTGCACACATAGTGGCGAAACGGTTG
1 TTCATCAACAT-ATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAACGGTTA
** ** * * *
123985 TTCATCAAC-TCATGATGAATTTTGTGGGTTACACACTTAGCGTCGAAATGGTTA
1 TTCATCAACAT-ATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAACGGTTA
* * * ** *
124039 TTCATCAACATATGATGAATTCCGTGAATTGTACACTTAGTGCCAAAATTGTAA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAACGGTTA
* * * **
124093 TTCATCAACATATGATGAATTCTGTGAACTGCACACTTAGTGTCAAAATAGTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAACGGTTA
* *
124147 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAACAGTTG
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAACGGTTA
* *
124201 TTCATTAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGGTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAACGGTTA
* * * * * *
124255 TTCATCAATATATGATTAATTCCATGAATTGTACACTTAGTGCCAAAACGGTTA
1 TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAACGGTTA
* * * ** *
124309 TTCATCAACATTTGATGAATTCC-TTACTTTGCACACTTAGTACCGAAATGGTTA
1 TTCATCAACATATGATGAATTCCGTGA-ATTGCACACTTAGTGTCGAAACGGTTA
124363 TTCATCAACATATGATGAATT
1 TTCATCAACATATGATGAATT
124384 TTGTACTTTG
Statistics
Matches: 346, Mismatches: 49, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
52 25 0.07
53 2 0.01
54 318 0.92
55 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (54 bp):
TTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAAACGGTTA
Found at i:133246 original size:2 final size:2
Alignment explanation
Indices: 133239--133270 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
133229 GGGATAATTA
133239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
133271 TAATTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.