Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold876
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: 74101
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:1865 original size:90 final size:90
Alignment explanation
Indices: 1707--1958 Score: 324
Period size: 90 Copynumber: 2.8 Consensus size: 90
1697 AATTGTATAG
* * * *
1707 CCCACACATTCCCAATCATATCCCCTTTATCCAACCACTAGATGGTTTTGATGCATCACTAAGCC
1 CCCATACATTCCTAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCACTAAGCC
*
1772 TGATTTTCTTTGGGGCAAGGTACAA
66 TGATTTTCTTTGAGGCAAGGTACAA
* ** *
1797 CCCATACATTCCTAATCATATCCCCTTCATCCAACCACTAGATGGTATTAATATATCATTAAGCC
1 CCCATACATTCCTAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCACTAAGCC
* ** *
1862 TGATTTCCTTTGAGGCAAGGTGTAG
66 TGATTTTCTTTGAGGCAAGGTACAA
* * * ** * *
1887 CTCGTACAGTCCTAATCATATCCTTTTCATCTAACCACTAGATGGTATTGATGCATCACAAAGCC
1 CCCATACATTCCTAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCACTAAGCC
1952 TGATTTT
66 TGATTTT
1959 ACTAGGGCAA
Statistics
Matches: 137, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 137 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (90 bp):
CCCATACATTCCTAATCATATCCCCTTCATCCAACCACTAGATGGTATTGATGCATCACTAAGCC
TGATTTTCTTTGAGGCAAGGTACAA
Found at i:2649 original size:43 final size:43
Alignment explanation
Indices: 2602--2739 Score: 156
Period size: 43 Copynumber: 3.2 Consensus size: 43
2592 TTTATCTTTT
* *
2602 GTCTGCCTGTCGGTTTAAGCCAAGAGACTTTCTTTACCCTTAA
1 GTCTGCCTGTCGGTTTAACCCTAGAGACTTTCTTTACCCTTAA
* * * * *
2645 GTCTGCTTGTCAGCTTTGACCCTAGAGAC-TTCTTCACCTTTAA
1 GTCTGCCTGTC-GGTTTAACCCTAGAGACTTTCTTTACCCTTAA
* *
2688 GTCTGTCTGTCGGCTTTAACCCTAGAGACTTTC-TTACCCTT-T
1 GTCTGCCTGTCGG-TTTAACCCTAGAGACTTTCTTTACCCTTAA
2730 GTCTGCCTGT
1 GTCTGCCTGT
2740 TGGCTTTGAC
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 10 0.13
43 51 0.66
44 16 0.21
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.38
Consensus pattern (43 bp):
GTCTGCCTGTCGGTTTAACCCTAGAGACTTTCTTTACCCTTAA
Found at i:2761 original size:42 final size:41
Alignment explanation
Indices: 2599--2791 Score: 138
Period size: 43 Copynumber: 4.6 Consensus size: 41
2589 TCCTTTATCT
* * * *
2599 TTTGTCTGCCTGTCGG-TTTAAGCCAAGAGACTTTCTTTACCC
1 TTTGTCTGCCTGTCGGCTTTGACCCGAGAAAC-TT-TTTACCC
* * * * * *
2641 TTAAGTCTGCTTGTCAGCTTTGACCCTAGAGACTTCTT-CACC
1 TT-TGTCTGCCTGTCGGCTTTGACCCGAGAAACTTTTTAC-CC
* * * *
2683 TTTAAGTCTGTCTGTCGGCTTTAACCCTAGAGACTTTCTTACCC
1 TTT--GTCTGCCTGTCGGCTTTGACCCGAGAAACTTT-TTACCC
* *
2727 TTTGTCTGCCTGTTGGCTTTGACTCGAGAAACTTTTTACCC
1 TTTGTCTGCCTGTCGGCTTTGACCCGAGAAACTTTTTACCC
* * *
2768 TTTATTTGCCTGTCGACTTTGACC
1 TTTGTCTGCCTGTCGGCTTTGACC
2792 TAAGAGACTT
Statistics
Matches: 120, Mismatches: 24, Indels: 15
0.75 0.15 0.09
Matches are distributed among these distances:
41 26 0.22
42 34 0.28
43 40 0.33
44 19 0.16
45 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (41 bp):
TTTGTCTGCCTGTCGGCTTTGACCCGAGAAACTTTTTACCC
Found at i:2771 original size:85 final size:86
Alignment explanation
Indices: 2602--2833 Score: 206
Period size: 85 Copynumber: 2.7 Consensus size: 86
2592 TTTATCTTTT
* *
2602 GTCTGCCTGTCGGTTTAAGCCAAGAGACTTTCTTTACCCTTAAGTCTGCTTGTCAGCTTTGACCC
1 GTCTGCCTGTCGGTTTAACCCAAGAGACTTTCTTTACCCTTAAGTCTGCCTGTCAGCTTTGACCC
* *
2667 TAGAGACTTCTTCACCTTTAA
66 GAGAAACTTCTTCACCTTTAA
* * * ** *
2688 GTCTGTCTGTCGGCTTTAACCCTAGAGACTTTC-TTACCCTT-TGTCTGCCTGTTGGCTTTGACT
1 GTCTGCCTGTCGG-TTTAACCCAAGAGACTTTCTTTACCCTTAAGTCTGCCTGTCAGCTTTGACC
*
2751 CGAGAAACTT-TTTACCCTTT-A
65 CGAGAAACTTCTTCA-CCTTTAA
* * * * * * * ** *
2772 -TTTGCCTGTCGACTTTGACCTAAGAGACTTCCTTCA-TCTTTTGTCTGCTTGTCAGCTTTGAC
1 GTCTGCCTGTCG-GTTTAACCCAAGAGACTTTCTTTACCCTTAAGTCTGCCTGTCAGCTTTGAC
2834 TTGGGAGACT
Statistics
Matches: 118, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
83 27 0.23
84 24 0.20
85 30 0.25
86 20 0.17
87 17 0.14
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (86 bp):
GTCTGCCTGTCGGTTTAACCCAAGAGACTTTCTTTACCCTTAAGTCTGCCTGTCAGCTTTGACCC
GAGAAACTTCTTCACCTTTAA
Found at i:3012 original size:42 final size:42
Alignment explanation
Indices: 2924--3016 Score: 102
Period size: 41 Copynumber: 2.2 Consensus size: 42
2914 TTAGATCGTG
* *
2924 GAGACTTTTTCATTAATTGTTTGCCGTCGGCCTAGATCTATA
1 GAGACTTTTTCATTAATTATCTGCCGTCGGCCTAGATCTATA
** *
2966 -AGACTTTTTCATTTTTTATCTGCCAGTCGGCTTAG-TCTCA-A
1 GAGACTTTTTCATTAATTATCTGCC-GTCGGCCTAGATCT-ATA
3007 GAGACTTTTT
1 GAGACTTTTT
3017 TTATCGACCA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
41 24 0.56
42 19 0.44
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.43
Consensus pattern (42 bp):
GAGACTTTTTCATTAATTATCTGCCGTCGGCCTAGATCTATA
Found at i:3539 original size:43 final size:41
Alignment explanation
Indices: 3458--3660 Score: 131
Period size: 43 Copynumber: 4.8 Consensus size: 41
3448 CTACTCGTTG
* * * * *
3458 GCTTAGACCTGAGAGACTTCTTCATCCACTGCCAGCCCATCA
1 GCTTAGACC-GAGAGACTTCTTTATCAACCGTCTGCCCATCA
* *
3500 GCTTAGACTCGGGAGACCTTCTTTATCAACCGTCTGCCCATCG
1 GCTTAGAC-CGAGAGA-CTTCTTTATCAACCGTCTGCCCATCA
* * * * * **
3543 GCTTAAACCTGGGAGACTTCTTCATTC--CTTGTCTACCCATTG
1 GCTTAGACC-GAGAGACTTCTTTA-TCAAC-CGTCTGCCCATCA
* * * * *
3585 GCTCAGTCTTGAGAGACTTCCTTTATAAACTGTCTGCCCATCA
1 GCTTAGAC-CGAGAGACTT-CTTTATCAACCGTCTGCCCATCA
* *
3628 GCTTAGACCTAGAGACTTCTTTATCAATCGTCT
1 GCTTAGACCGAGAGACTTCTTTATCAACCGTCT
3661 ACCGTCGGCT
Statistics
Matches: 123, Mismatches: 29, Indels: 19
0.72 0.17 0.11
Matches are distributed among these distances:
41 13 0.11
42 53 0.43
43 56 0.46
44 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (41 bp):
GCTTAGACCGAGAGACTTCTTTATCAACCGTCTGCCCATCA
Found at i:3546 original size:85 final size:85
Alignment explanation
Indices: 3436--3648 Score: 218
Period size: 85 Copynumber: 2.5 Consensus size: 85
3426 AAAGACTTAT
* * * *
3436 TTTATCAACCGTCTACTCGTTGGCTTAGACCTGAGAGACTTCTTCA-TCCACTG-CCAGCCCATC
1 TTTATCAACCGTCTGCCCATCGGCTTAGACCTGAGAGACTTCTTCATTCC-CTGTCCA-CCCATC
* *
3499 AGCTTAGACTCGGGAGACCTT-C
64 AGCTCAGACTCGAGAGA-CTTCC
* * * * **
3521 TTTATCAACCGTCTGCCCATCGGCTTAAACCTGGGAGACTTCTTCATTCCTTGTCTACCCATTGG
1 TTTATCAACCGTCTGCCCATCGGCTTAGACCTGAGAGACTTCTTCATTCCCTGTCCACCCATCAG
* *
3586 CTCAGTCTTGAGAGACTTCC
66 CTCAGACTCGAGAGACTTCC
* * *
3606 TTTATAAACTGTCTGCCCATCAGCTTAGACCT-AGAGACTTCTT
1 TTTATCAACCGTCTGCCCATCGGCTTAGACCTGAGAGACTTCTT
3649 TATCAATCGT
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
84 13 0.12
85 88 0.83
86 5 0.05
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.31
Consensus pattern (85 bp):
TTTATCAACCGTCTGCCCATCGGCTTAGACCTGAGAGACTTCTTCATTCCCTGTCCACCCATCAG
CTCAGACTCGAGAGACTTCC
Found at i:3767 original size:43 final size:43
Alignment explanation
Indices: 3720--3843 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 43
3710 GACTTAGACT
* *
3720 CGAGAGACTTCTTCATCTATTTATTTGTCTATCAGCTCAAACC
1 CGAGAGACTTTTTCATCTATTTATTTGTCCATCAGCTCAAACC
* * * * * *
3763 CGAGAGACTTTTTCATCTCTTTATCT-ACCGTCGGCTCAGACC
1 CGAGAGACTTTTTCATCTATTTATTTGTCCATCAGCTCAAACC
* * *
3805 CGAGAGACTTTTTCATCTTTTTATTTGTTCATCGGCTCA
1 CGAGAGACTTTTTCATCTATTTATTTGTCCATCAGCTCA
3844 GTCTTGGGAA
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 35 0.52
43 32 0.48
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.39
Consensus pattern (43 bp):
CGAGAGACTTTTTCATCTATTTATTTGTCCATCAGCTCAAACC
Found at i:3813 original size:42 final size:42
Alignment explanation
Indices: 3658--3828 Score: 144
Period size: 43 Copynumber: 4.0 Consensus size: 42
3648 TTATCAATCG
* * * *
3658 TCTACCGTCGGCTCAGGCTCGAGAGACTTCTTCATCTCGTTA
1 TCTACCATCGGCTCAGACCCGAGAGACTTCTTCATCTCTTTA
* * * * * * *
3700 TTTGCCAATTGACTTAGACTCGAGAGACTTCTTCATCTATTTA
1 TCTACC-ATCGGCTCAGACCCGAGAGACTTCTTCATCTCTTTA
* * * * * *
3743 TTTGTCTATCAGCTCAAACCCGAGAGACTTTTTCATCTCTTTA
1 TCT-ACCATCGGCTCAGACCCGAGAGACTTCTTCATCTCTTTA
* * *
3786 TCTACCGTCGGCTCAGACCCGAGAGACTTTTTCATCTTTTTA
1 TCTACCATCGGCTCAGACCCGAGAGACTTCTTCATCTCTTTA
3828 T
1 T
3829 TTGTTCATCG
Statistics
Matches: 101, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 38 0.38
43 62 0.61
44 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (42 bp):
TCTACCATCGGCTCAGACCCGAGAGACTTCTTCATCTCTTTA
Found at i:4071 original size:168 final size:168
Alignment explanation
Indices: 3869--4460 Score: 728
Period size: 167 Copynumber: 3.5 Consensus size: 168
3859 TTCCATCTCA
* * * * * * **
3869 TTGTTTACCTGTTGGCCCAGTACCGGGTAAATCCTTTATCCCTCGTTAACTTGTCGGTTTAATCT
1 TTGTTTACCTGTTAGCCCAGTACTGAGTAAATCCTTTATCCCTCATTGACTTATCAATTTAATCT
* * *
3934 CGGACAACTTTTTATCCTTCATTCACCTGTCGGCTTGCTCCTAAGTACTTCCTTTTATCTTTTGT
66 CGGACAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTTCATTTTATCTTTTGT
* * *
3999 TGACTTATTGGTCTAATCCCGATCAACTT-TCTTATCCT
131 TGACTTATCGGTCTAATCTCGGTCAACTTCT-TTATCCT
* * * * *
4037 TTATTTACCTGTTGGCCCAATACTGAGTAAATCCTTTATCCCTCTTTGACTTATCGATTTAATC-
1 TTGTTTACCTGTTAGCCCAGTACTGAGTAAATCCTTTATCCCTCATTGACTTATCAATTTAATCT
* * * * *
4101 CCGATCAACTTTTTA-CCTTTATTCACCTATTGGCTTGGTCCCAGGTACTTCATTTTATCTTTTG
66 CGGA-CAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTTCATTTTATCTTTTG
4165 TTGACTTATCGGTCTAATCTCGGTCAACTTCTTTATCCT
130 TTGACTTATCGGTCTAATCTCGGTCAACTTCTTTATCCT
* * *
4204 TTGTTTA-CTCGTTAGCCCAGT-CTCAAGTAAA-ACTTTATCCCTCATTGACTTATTAATTTAAT
1 TTGTTTACCT-GTTAGCCCAGTACT-GAGTAAATCCTTTATCCCTCATTGACTTATCAATTTAAT
* * *
4266 CTTGGTCAACTTTTTATCCTTCATTCACCCGTCGGCTTGGTCCCAAGTACTTCATTTTATCTTTT
64 CTCGGACAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTTCATTTTATCTTTT
* *
4331 GTTGACTTGTCGGTGTAATCTCGGTCAACTTCTTTATCCT
129 GTTGACTTATCGGTCTAATCTCGGTCAACTTCTTTATCCT
** * * * * * *
4371 TTGTTTACCCATCAGCCTAGTCCTGGGTAAATCTTTTATCCCTTATTGACTTATCAATTTAATCT
1 TTGTTTACCTGTTAGCCCAGTACTGAGTAAATCCTTTATCCCTCATTGACTTATCAATTTAATCT
**
4436 CGGTGAACTTTTTATCCTTCATTCA
66 CGGACAACTTTTTATCCTTCATTCA
4461 TGAAAGCTCA
Statistics
Matches: 366, Mismatches: 49, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
166 42 0.11
167 202 0.55
168 122 0.33
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.43
Consensus pattern (168 bp):
TTGTTTACCTGTTAGCCCAGTACTGAGTAAATCCTTTATCCCTCATTGACTTATCAATTTAATCT
CGGACAACTTTTTATCCTTCATTCACCTGTCGGCTTGGTCCCAAGTACTTCATTTTATCTTTTGT
TGACTTATCGGTCTAATCTCGGTCAACTTCTTTATCCT
Found at i:4408 original size:84 final size:83
Alignment explanation
Indices: 3926--4454 Score: 267
Period size: 84 Copynumber: 6.3 Consensus size: 83
3916 AACTTGTCGG
* ** * * * * **
3926 TTTAATCTCGGACAACTTTTTATCCTTCATTCACCTGTC-GGCTTGCTCCTAAGTACTTCCTTTT
1 TTTAATCTCGGTCAACTTTTTATCCTTTGTTTACCCGTCAGCCTAG-TCCTAAGTAAAT-CTTTT
** * ***
3990 ATCTTTTGTTGACTTATTGG
64 ATCCCTTATTGACTTATCAA
* * * * * ** * * * * *
4010 TCTAATCCCGATCAACTTTCTTATCCTTTATTTACCTGTTGGCCCAATACTGAGTAAATCCTTTA
1 TTTAATCTCGGTCAACTTT-TTATCCTTTGTTTACCCGTCAGCCTAGTCCTAAGTAAATCTTTTA
*
4075 TCCCTCT-TTGACTTATCGA
65 TCCCT-TATTGACTTATCAA
* * * * ** ** * * * * **
4094 TTTAATCCCGATCAACTTTTTA-CCTTTATTCACCTATTGGCTTGGTCCCAGGTACTTCATTTTA
1 TTTAATCTCGGTCAACTTTTTATCCTTTGTTTACCCGTCAGCCTAGTCCTAAGTAAATC-TTTTA
** * **
4158 TCTTTTGTTGACTTATCGG
65 TCCCTTATTGACTTATCAA
* * * * *
4177 TCTAATCTCGGTCAACTTCTTTATCCTTTGTTTACTCGTTAGCCCAGT-CTCAAGTAAAAC-TTT
1 TTTAATCTCGGTCAACTT-TTTATCCTTTGTTTACCCGTCAGCCTAGTCCT-AAGTAAATCTTTT
* *
4240 ATCCCTCATTGACTTATTAA
64 ATCCCTTATTGACTTATCAA
* ** * * * * * **
4260 TTTAATCTTGGTCAACTTTTTATCCTTCATTCACCCGTCGGCTTGGTCCCAAGTACTTCATTTTA
1 TTTAATCTCGGTCAACTTTTTATCCTTTGTTTACCCGTCAGCCTAGTCCTAAGTAAATC-TTTTA
** * * **
4325 TCTTTTGTTGACTTGTCGG
65 TCCCTTATTGACTTATCAA
* * **
4344 TGTAATCTCGGTCAACTTCTTTATCCTTTGTTTACCCATCAGCCTAGTCCTGGGTAAATCTTTTA
1 TTTAATCTCGGTCAACTT-TTTATCCTTTGTTTACCCGTCAGCCTAGTCCTAAGTAAATCTTTTA
4409 TCCCTTATTGACTTATCAA
65 TCCCTTATTGACTTATCAA
*
4428 TTTAATCTCGGTGAACTTTTTATCCTT
1 TTTAATCTCGGTCAACTTTTTATCCTT
4455 CATTCATGAA
Statistics
Matches: 327, Mismatches: 106, Indels: 25
0.71 0.23 0.05
Matches are distributed among these distances:
82 51 0.16
83 78 0.24
84 121 0.37
85 75 0.23
86 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (83 bp):
TTTAATCTCGGTCAACTTTTTATCCTTTGTTTACCCGTCAGCCTAGTCCTAAGTAAATCTTTTAT
CCCTTATTGACTTATCAA
Found at i:5246 original size:33 final size:30
Alignment explanation
Indices: 5204--5269 Score: 96
Period size: 33 Copynumber: 2.1 Consensus size: 30
5194 CCTTACAAGC
*
5204 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATT--G-TGTATCGATA
5237 CAATGTATCGATACATATTGTGTATCGATA
1 CAATGTATCGATACATATTGTGTATCGATA
5267 CAA
1 CAA
5270 ATTTGGCTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 13 0.41
31 1 0.03
33 18 0.56
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (30 bp):
CAATGTATCGATACATATTGTGTATCGATA
Found at i:5262 original size:17 final size:17
Alignment explanation
Indices: 5207--5268 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 17
5197 TACAAGCCAA
*
5207 TGTATCGATACATTTTGGG
1 TGTATCGATACATATT--G
5226 ATGTATCGATACA-A---
1 -TGTATCGATACATATTG
5240 TGTATCGATACATATTG
1 TGTATCGATACATATTG
5257 TGTATCGATACA
1 TGTATCGATACA
5269 AATTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 12 0.32
14 1 0.03
17 12 0.32
20 12 0.32
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (17 bp):
TGTATCGATACATATTG
Found at i:5352 original size:20 final size:21
Alignment explanation
Indices: 5302--5354 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
5292 GCTAATGACC
*
5302 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTTATCA
* *
5323 AGTATTGATACATT-TTATCA
1 TGTATCGATACATTCTTATCA
5343 TGTATCGATACA
1 TGTATCGATACA
5355 ATGTATCGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (21 bp):
TGTATCGATACATTCTTATCA
Found at i:5360 original size:13 final size:13
Alignment explanation
Indices: 5342--5366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5332 ACATTTTATC
5342 ATGTATCGATACA
1 ATGTATCGATACA
5355 ATGTATCGATAC
1 ATGTATCGATAC
5367 TGTGCAAGCT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7382 original size:166 final size:164
Alignment explanation
Indices: 7203--7537 Score: 421
Period size: 165 Copynumber: 2.0 Consensus size: 164
7193 ATTATTTTTG
* *
7203 GAGTTATTGATTTTCTT-TTCG-AATTCTTCCTATTTTCAAATTACGA-GATTTTCTTCTCCATA
1 GAGTTATTGATTTT-TTCTT-GAAATTCTT-CTATTTTCAAA-TACGATG-TTTTATACTCCATA
* * *
7265 AATTTTTTTTG-GAGG-ATTTTTCTTAATTTTTAATTTTTAAAATTTATCAACTTTTTTTATTTA
61 AA-TTTTTTTGAG-GGCATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAATATTTTTATTTA
*
7328 TTTTATATTAATTCT-GTTTTCAAAAATTCATTCATTTTCAT
124 TTTCATATTAATT-TAGTTTTCAAAAATTCATTCATTTTCAT
* * * * *
7369 GAGTTTTTGATTTTTTCCTTGAAATTCTTTTTTTTTGAAATACGATGTTTTATACTCCGTAAATT
1 GAGTTATTGATTTTTT-CTTGAAATTCTTCTATTTTCAAATACGATGTTTTATACTCCATAAATT
**
7434 TTTTTGAGGGCATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTTTTATTTATTTCAT
65 TTTTTGAGGGCATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAATATTTTTATTTATTTCAT
*
7499 ATTAATTTATTTTTCAAAAATTCATTCATTTTCAT
130 ATTAATTTAGTTTTCAAAAATTCATTCATTTTCAT
7534 GAGT
1 GAGT
7538 GAAAGCTTAT
Statistics
Matches: 148, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
164 11 0.07
165 105 0.71
166 23 0.16
167 9 0.06
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (164 bp):
GAGTTATTGATTTTTTCTTGAAATTCTTCTATTTTCAAATACGATGTTTTATACTCCATAAATTT
TTTTGAGGGCATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAATATTTTTATTTATTTCATA
TTAATTTAGTTTTCAAAAATTCATTCATTTTCAT
Found at i:8799 original size:13 final size:13
Alignment explanation
Indices: 8781--8838 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
8771 CAATTTTTTG
8781 TGTATCGATACAT
1 TGTATCGATACAT
8794 TGTATCGATACATACTT
1 TGTATCGATAC--A--T
8811 GCTGTATCGATACAT
1 --TGTATCGATACAT
8826 TGTATCGATACAT
1 TGTATCGATACAT
8839 ACTTGCTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
15 2 0.05
17 2 0.05
19 11 0.28
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8818 original size:19 final size:19
Alignment explanation
Indices: 8794--8856 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
8784 ATCGATACAT
8794 TGTATCGATACATACTTGC
1 TGTATCGATACATACTTGC
8813 TGTATCGATAC--A--T--
1 TGTATCGATACATACTTGC
8826 TGTATCGATACATACTTGC
1 TGTATCGATACATACTTGC
8845 TGTATCGATACA
1 TGTATCGATACA
8857 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATACTTGC
Found at i:8822 original size:32 final size:32
Alignment explanation
Indices: 8781--8856 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
8771 CAATTTTTTG
8781 TGTATCGATACATTGTATCGATACATACTTGC
1 TGTATCGATACATTGTATCGATACATACTTGC
8813 TGTATCGATACATTGTATCGATACATACTTGC
1 TGTATCGATACATTGTATCGATACATACTTGC
8845 TGTATCGATACA
1 TGTATCGATACA
8857 AGTTTGGCTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACATACTTGC
Found at i:8903 original size:21 final size:21
Alignment explanation
Indices: 8877--8952 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
8867 CTGCCAAGAA
8877 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
8898 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
8918 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
8939 ATGTATCGATACAT
1 ATGTATCGATACAT
8953 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:8922 original size:20 final size:20
Alignment explanation
Indices: 8897--8970 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
8887 ACATCTTTTT
8897 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
8917 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
8938 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
8958 CATGTATCGATAC
1 CATGTATCGATAC
8971 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:8934 original size:41 final size:41
Alignment explanation
Indices: 8877--8970 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
8867 CTGCCAAGAA
8877 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
8918 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
8959 ATGTATCGATAC
1 ATGTATCGATAC
8971 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:10382 original size:167 final size:168
Alignment explanation
Indices: 9931--10523 Score: 753
Period size: 168 Copynumber: 3.5 Consensus size: 168
9921 TGAGCTTTCA
*
9931 TGAATGAAGGATAAAAAGTTGACCGAGATTAAATTGATAAGTCAATA-AGGGATAAAAGATTTAC
1 TGAATGAAGGATAAAAAGTTGACCGAGATTAAATCGATAAGTCAA-AGAGGGATAAAAGATTTAC
* * ** ** *
9995 CCAGGACTAGGCTGATGGGTAAACAAAGGATAAAGAAGTTGACCGAGATTAGACCGACAAGTCAA
65 CCAGTACTGGGCCAACAGGTAAACAAAGGATAAAGAAGTTGACCGAGATTAGACCGATAAGTCAA
*
10060 CAAAAGATAAAATGAAGTACTTGGGACCAAGCCGATGGG
130 CAAAAGATAAAATGAAGTACTTGGGACCAAGCCGATAGG
* ** * *
10099 TGAATGAAGGATAAAAAGTTGACCAAGATTAAATTAATAAGTCAATGAGGGATAAAAGTTTTACC
1 TGAATGAAGGATAAAAAGTTGACCGAGATTAAATCGATAAGTCAAAGAGGGATAAAAGATTTACC
* * * * *
10164 TGAG-ATTGGGCTAAC-GAGTAAACAAAGGATAAAGAAGTTGACCAAGATTAGACCGATAGGTCA
66 -CAGTACTGGGCCAACAG-GTAAACAAAGGATAAAGAAGTTGACCGAGATTAGACCGATAAGTCA
* *
10227 ACAAAAGATAAAATGAAGTACCTGGGACCAAGCCAATAGG
129 ACAAAAGATAAAATGAAGTACTTGGGACCAAGCCGATAGG
* * * * *
10267 TGAATAAAGG-TAAAAAGTTGATCGGGATTAAATCGATAAGTCAAAGAGGGATAAAGGATTTACT
1 TGAATGAAGGATAAAAAGTTGACCGAGATTAAATCGATAAGTCAAAGAGGGATAAAAGATTTACC
* * * * *
10331 CAGTATTGGGCCAACAGGTAAACAAAGGATAAGGAAGTTGATCGGGATTAGACCAATAAGTCAAC
66 CAGTACTGGGCCAACAGGTAAACAAAGGATAAAGAAGTTGACCGAGATTAGACCGATAAGTCAAC
* * *
10396 AAAAGATAAAAGGAAGTACTTAGGACCAAGCCGACAGG
131 AAAAGATAAAATGAAGTACTTGGGACCAAGCCGATAGG
* * * * * * *
10434 TGAATGAAGGATAAAAAGTTGTCCGGGATTAAACCGACAAGTTAACGAGGGATAAAGGATTTACC
1 TGAATGAAGGATAAAAAGTTGACCGAGATTAAATCGATAAGTCAAAGAGGGATAAAAGATTTACC
*
10499 CGGTACTGGGCCAACAGGTAAACAA
66 CAGTACTGGGCCAACAGGTAAACAA
10524 TGAGATGGAA
Statistics
Matches: 371, Mismatches: 48, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
166 2 0.01
167 140 0.38
168 227 0.61
169 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (168 bp):
TGAATGAAGGATAAAAAGTTGACCGAGATTAAATCGATAAGTCAAAGAGGGATAAAAGATTTACC
CAGTACTGGGCCAACAGGTAAACAAAGGATAAAGAAGTTGACCGAGATTAGACCGATAAGTCAAC
AAAAGATAAAATGAAGTACTTGGGACCAAGCCGATAGG
Found at i:10488 original size:84 final size:84
Alignment explanation
Indices: 10019--10489 Score: 261
Period size: 84 Copynumber: 5.6 Consensus size: 84
10009 ATGGGTAAAC
* * * * * ** * *
10019 AAAGGATAAAGAAGTTGACCGAGATTAGACCGACAAGTCAACAAAAGATAAAATGAAGTACTTGG
1 AAAGGATAAA-AAGTTGATCGGGATTAAACCGATAAGTCAACGAGGGATAAAAGGAAGTACTTAG
* **
10084 GACCAAGCCGATGGGTGAAT
65 GACCAAGCCAACAGGTGAAT
* * ** *** * *** *
10104 GAAGGATAAAAAGTTGACCAAGATTAAATTAATAAGTCAATGAGGGATAAAA-GTTTTACCT-GA
1 AAAGGATAAAAAGTTGATCGGGATTAAACCGATAAGTCAACGAGGGATAAAAGGAAGTACTTAG-
**** * * *
10167 GATTGGGCTAAC-GAGTAAAC
65 GACCAAGCCAACAG-GTGAAT
* ** * * * ** * * *
10187 AAAGGATAAAGAAGTTGACCAAGATTAGACCGATAGGTCAACAAAAGATAAAATGAAGTACCTGG
1 AAAGGATAAA-AAGTTGATCGGGATTAAACCGATAAGTCAACGAGGGATAAAAGGAAGTACTTAG
*
10252 GACCAAGCCAATAGGTGAAT
65 GACCAAGCCAACAGGTGAAT
* * ** * *
10272 AAAGG-TAAAAAGTTGATCGGGATTAAATCGATAAGTCAAAGAGGGAT-AAAGGATTTACTCAGT
1 AAAGGATAAAAAGTTGATCGGGATTAAACCGATAAGTCAACGAGGGATAAAAGGAAGTACTTAGG
**** * *
10335 ATTGGGCCAACAGGTAAAC
66 ACCAAGCCAACAGGTGAAT
* * * * **
10354 AAAGGATAAGGAAGTTGATCGGGATTAGACCAATAAGTCAACAAAAGATAAAAGGAAGTACTTAG
1 AAAGGATAA-AAAGTTGATCGGGATTAAACCGATAAGTCAACGAGGGATAAAAGGAAGTACTTAG
*
10419 GACCAAGCCGACAGGTGAAT
65 GACCAAGCCAACAGGTGAAT
* * *
10439 GAAGGATAAAAAGTTG-TCCGGGATTAAACCGACAAGTTAACGAGGGATAAA
1 AAAGGATAAAAAGTTGAT-CGGGATTAAACCGATAAGTCAACGAGGGATAAA
10490 GGATTTACCC
Statistics
Matches: 279, Mismatches: 97, Indels: 21
0.70 0.24 0.05
Matches are distributed among these distances:
82 28 0.10
83 55 0.20
84 132 0.47
85 62 0.22
86 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (84 bp):
AAAGGATAAAAAGTTGATCGGGATTAAACCGATAAGTCAACGAGGGATAAAAGGAAGTACTTAGG
ACCAAGCCAACAGGTGAAT
Found at i:10595 original size:43 final size:42
Alignment explanation
Indices: 10548--10727 Score: 146
Period size: 43 Copynumber: 4.2 Consensus size: 42
10538 TTTCCCAAGA
*
10548 CTGAGCTGATGAACAAATAAAAAGATGAAAAAGTCTCTCGGGC
1 CTGAGCTGATG-ACAAATAAAGAGATGAAAAAGTCTCTCGGGC
* * ** * * *
10591 CTGAGCCGACGGTAGATATAGAGATGAAAAAGTCTCTCGGGT
1 CTGAGCTGATGACAAATAAAGAGATGAAAAAGTCTCTCGGGC
* * * * * *
10633 TTGAGCCGATAGACAAATAAATAGATGAAGAAGTCTCTCGAGT
1 CTGAGCTGAT-GACAAATAAAGAGATGAAAAAGTCTCTCGGGC
* * * *
10676 CTAAG-TCAATTGGCAAATAAAGAGATGAAGAAGTCTCTCGGGC
1 CTGAGCT-GA-TGACAAATAAAGAGATGAAAAAGTCTCTCGGGC
*
10719 TTGAGCTGA
1 CTGAGCTGA
10728 CGGTAGACGA
Statistics
Matches: 105, Mismatches: 28, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
42 33 0.31
43 70 0.67
44 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.22
Consensus pattern (42 bp):
CTGAGCTGATGACAAATAAAGAGATGAAAAAGTCTCTCGGGC
Found at i:10795 original size:42 final size:41
Alignment explanation
Indices: 10740--11363 Score: 220
Period size: 42 Copynumber: 14.8 Consensus size: 41
10730 GTAGACGATT
* *
10740 GATAAAGAAGTCTCTAGGTCTAAGCTGATGGGCAGACAGTT
1 GATAAAGAAGTCTCTAGGTCTAAGCCGATGGGCAGACAGTG
* * * * *
10781 TATAAAGGAAGTCTCTCAAGACTAAGCCAATGGGTAGACGAG-G
1 GATAAA-GAAGTCTCT-AGGTCTAAGCCGATGGGCAGAC-AGTG
* * * * * * * *
10824 AATGAAGAAGTCTCCCAGGTTTAAGCCGACGGGCAAACGGTT
1 GATAAAGAAGTCT-CTAGGTCTAAGCCGATGGGCAGACAGTG
** *
10866 GATAAAGAAAGTCTCCCGAGTCTAAGCCGATGGGCTGACAGTG
1 GATAAAG-AAGTCTCTAG-GTCTAAGCCGATGGGCAGACAGTG
* * * * * *
10909 GATGAAGAAGTCTCTCAGGTCTAAGCCGACGAGTAGACGGTT
1 GATAAAGAAGTCTCT-AGGTCTAAGCCGATGGGCAGACAGTG
* * * * * **
10951 GATAAAATAAGTCTTTGAGGACTGAGCCGATAGGCAGATGGTG
1 GAT-AAAGAAGTCTCT-AGGTCTAAGCCGATGGGCAGACAGTG
* * * ** * ***
10994 GATAAAGAA-ACTCTTGAGTCAAAGTTGACGGGCAGACAAAA
1 GATAAAGAAGTCTCTAG-GTCTAAGCCGATGGGCAGACAGTG
* * * * *
11035 GAT--A-AAGTCTCCCAGGTCAAAGTCGATGGGCAGA-TGATT
1 GATAAAGAAGTCT-CTAGGTCTAAGCCGATGGGCAGACAG-TG
* * * * *
11074 GATAAAGGAAGTATCTCAAGTATAAGCCGACGGGTAGACAGTG
1 GATAAA-GAAGTCTCT-AGGTCTAAGCCGATGGGCAGACAGTG
* * * * * *
11117 GATGAAGAAGTCTCCAAGGTCTAAGCCAATAGGCAGACGGTT
1 GATAAAGAAGTCT-CTAGGTCTAAGCCGATGGGCAGACAGTG
* * * * *
11159 GATAAAAAAGGTCTCTTGAGAT-TAAGCCAATGAGCAGACGGTG
1 GATAAAGAA-GTCTC-T-AGGTCTAAGCCGATGGGCAGACAGTG
* * * * * ***
11202 GATGAAGAAGTCTTTCGGGACAAAGCCGATGGGCAGACAAAA
1 GATAAAGAAGTCTCT-AGGTCTAAGCCGATGGGCAGACAGTG
* * * * * **
11244 GATGAAAAAAGTCTCTCGTGT-TAAAGCCGAAGGGTAGATAAAG
1 GAT-AAAGAAGTCTCTAG-GTCT-AAGCCGATGGGCAGACAGTG
* * * * * *
11287 GGTAAAGAAGTCTCTCAAGTCAAAGCTGATGGGCAGACAATT
1 GATAAAGAAGTCTCT-AGGTCTAAGCCGATGGGCAGACAGTG
* *
11329 GATAAAGATGTCTCCTAGGTCTAAGCCGACGGGCA
1 GATAAAGAAGTCT-CTAGGTCTAAGCCGATGGGCA
11364 AATGGTCGAT
Statistics
Matches: 410, Mismatches: 143, Indels: 59
0.67 0.23 0.10
Matches are distributed among these distances:
38 2 0.00
39 23 0.06
40 3 0.01
41 27 0.07
42 180 0.44
43 169 0.41
44 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (41 bp):
GATAAAGAAGTCTCTAGGTCTAAGCCGATGGGCAGACAGTG
Found at i:10878 original size:85 final size:85
Alignment explanation
Indices: 10744--10964 Score: 243
Period size: 85 Copynumber: 2.6 Consensus size: 85
10734 ACGATTGATA
* * * * * * *
10744 AAGAAGTCT-CTAGGTCTAAGCTGATGGGCAGACAGTTTATAAAGGAAGTCTCTCAAGACTAAGC
1 AAGAAGTCTCCCAGGTCTAAGCCGACGGGCAGACGGTTGATAAAGAAAGTCTCCCAAGACTAAGC
10808 CAATGGG-TAGACGAG-GAATG
66 CAATGGGCT-GAC-AGTGAATG
* * * *
10828 AAGAAGTCTCCCAGGTTTAAGCCGACGGGCAAACGGTTGATAAAGAAAGTCTCCCGAGTCTAAGC
1 AAGAAGTCTCCCAGGTCTAAGCCGACGGGCAGACGGTTGATAAAGAAAGTCTCCCAAGACTAAGC
* *
10893 CGATGGGCTGACAGTGGATG
66 CAATGGGCTGACAGTGAATG
* * *
10913 AAGAAGTCTCTCAGGTCTAAGCCGACGAGTAGACGGTTGATAAA-ATAAGTCT
1 AAGAAGTCTCCCAGGTCTAAGCCGACGGGCAGACGGTTGATAAAGA-AAGTCT
10965 TTGAGGACTG
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
84 12 0.10
85 102 0.89
86 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (85 bp):
AAGAAGTCTCCCAGGTCTAAGCCGACGGGCAGACGGTTGATAAAGAAAGTCTCCCAAGACTAAGC
CAATGGGCTGACAGTGAATG
Found at i:10892 original size:43 final size:43
Alignment explanation
Indices: 10732--11173 Score: 182
Period size: 43 Copynumber: 10.5 Consensus size: 43
10722 AGCTGACGGT
* * * *
10732 AGACGATTGATAAAG-AAGTCT-CTAGGTCTAAGCTGATGGGC
1 AGACGGTTGATAAAGAAAGTCTCCCAGGTCTAAGCCGACGGGC
* * * * * * * * *
10773 AGACAGTTTATAAAGGAAGTCTCTCAAGACTAAGCCAATGGGT
1 AGACGGTTGATAAAGAAAGTCTCCCAGGTCTAAGCCGACGGGC
* *
10816 AGACGAG--GAATGAAG-AAGTCTCCCAGGTTTAAGCCGACGGGC
1 AGACG-GTTG-ATAAAGAAAGTCTCCCAGGTCTAAGCCGACGGGC
* *
10858 AAACGGTTGATAAAGAAAGTCTCCC-GAGTCTAAGCCGATGGGC
1 AGACGGTTGATAAAGAAAGTCTCCCAG-GTCTAAGCCGACGGGC
* * * * * * *
10901 TGACAGTGGATGAAG-AAGTCTCTCAGGTCTAAGCCGACGAGT
1 AGACGGTTGATAAAGAAAGTCTCCCAGGTCTAAGCCGACGGGC
*** * * **
10943 AGACGGTTGATAAA-ATAAGTCTTTGAGGACTGAGCCGATAGGC
1 AGACGGTTGATAAAGA-AAGTCTCCCAGGTCTAAGCCGACGGGC
* * * ** * **
10986 AGATGGTGGATAAAGAAACTCT-TGA-GTCAAAGTTGACGGGC
1 AGACGGTTGATAAAGAAAGTCTCCCAGGTCTAAGCCGACGGGC
* * *
11027 AGAC-----A-AAAGATAAAGTCTCCCAGGTCAAAGTCGATGGGC
1 AGACGGTTGATAAAG--AAAGTCTCCCAGGTCTAAGCCGACGGGC
* * * * * * * *
11066 AGATGATTGATAAAGGAAGTATCTCAAGTATAAGCCGACGGGT
1 AGACGGTTGATAAAGAAAGTCTCCCAGGTCTAAGCCGACGGGC
* * * * * **
11109 AGACAGTGGATGAAG-AAGTCTCCAAGGTCTAAGCCAATAGGC
1 AGACGGTTGATAAAGAAAGTCTCCCAGGTCTAAGCCGACGGGC
11151 AGACGGTTGATAAA-AAAGGTCTC
1 AGACGGTTGATAAAGAAA-GTCTC
11174 TTGAGATTAA
Statistics
Matches: 289, Mismatches: 88, Indels: 46
0.68 0.21 0.11
Matches are distributed among these distances:
35 4 0.01
36 1 0.00
37 6 0.02
38 1 0.00
39 17 0.06
41 25 0.09
42 101 0.35
43 127 0.44
44 3 0.01
45 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (43 bp):
AGACGGTTGATAAAGAAAGTCTCCCAGGTCTAAGCCGACGGGC
Found at i:10995 original size:85 final size:85
Alignment explanation
Indices: 10744--11002 Score: 211
Period size: 85 Copynumber: 3.1 Consensus size: 85
10734 ACGATTGATA
* * * * * * * * * *
10744 AAGAAGTCT-CTAGGTCTAAGCTGATGGGCAGACAGTTTATAAAGGAAGTCTCTCAAGACTAAGC
1 AAGAAGTCTCCCAGGTCTAAGCCGACGAGCAAACGGTTGATAAAGAAAGTCTCCCGAGACTAAGC
* * * *
10808 CAATGGGTAGACGAG-GAATG
66 CGATAGGCAGAC-AGTGGATG
* * *
10828 AAGAAGTCTCCCAGGTTTAAGCCGACGGGCAAACGGTTGATAAAGAAAGTCTCCCGAGTCTAAGC
1 AAGAAGTCTCCCAGGTCTAAGCCGACGAGCAAACGGTTGATAAAGAAAGTCTCCCGAGACTAAGC
* *
10893 CGATGGGCTGACAGTGGATG
66 CGATAGGCAGACAGTGGATG
* * * ** *
10913 AAGAAGTCTCTCAGGTCTAAGCCGACGAGTAGACGGTTGATAAA-ATAAGTCT-TTGAGGACTGA
1 AAGAAGTCTCCCAGGTCTAAGCCGACGAGCAAACGGTTGATAAAGA-AAGTCTCCCGA-GACTAA
** *
10976 GCCGATAGGCAGATGGTGGATA
64 GCCGATAGGCAGACAGTGGATG
10998 AAGAA
1 AAGAA
11003 ACTCTTGAGT
Statistics
Matches: 142, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
84 14 0.10
85 128 0.90
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (85 bp):
AAGAAGTCTCCCAGGTCTAAGCCGACGAGCAAACGGTTGATAAAGAAAGTCTCCCGAGACTAAGC
CGATAGGCAGACAGTGGATG
Found at i:11204 original size:208 final size:208
Alignment explanation
Indices: 10831--11210 Score: 475
Period size: 208 Copynumber: 1.8 Consensus size: 208
10821 AGGAATGAAG
** * * * *
10831 AAGTCTCCCAGGTTTAAGCCGACGGGCAAACGGTTGATAAAGAAAGTCTCCCGAGTCTAAGCCGA
1 AAGTCTCCCAGGTCAAAGCCGACGGGCAAACGATTGATAAAGAAAGTATCCCAAGTATAAGCCGA
* * * *
10896 TGGGCTGACAGTGGATGAAGAAGTCTCTCAGGTCTAAGCCGACGAGTAGACGGTTGATAAAATAA
66 CGGGCTGACAGTGGATGAAGAAGTCTCTCAGGTCTAAGCCAAAGAGCAGACGGTTGATAAAATAA
* * *
10961 GTCTTTGAGGACTGAGCCGATAGGCAGATGGTGGATAAAGAAACTCTTGAGTCAAAGTTGACGGG
131 GTCTTTGAGGACTAAGCCAATAGGCAGACGGTGGATAAAGAAACTCTTGAGTCAAAGTTGACGGG
11026 CAGACAAAAGATA
196 CAGACAAAAGATA
* * * * * *
11039 AAGTCTCCCAGGTCAAAGTCGATGGGCAGATGATTGATAAAGGAAGTATCTCAAGTATAAGCCGA
1 AAGTCTCCCAGGTCAAAGCCGACGGGCAAACGATTGATAAAGAAAGTATCCCAAGTATAAGCCGA
11104 CGGG-TAGACAGTGGATGAAGAAGTCTC-CAAGGTCTAAGCCAATAG-GCAGACGGTTGATAAAA
66 CGGGCT-GACAGTGGATGAAGAAGTCTCTC-AGGTCTAAGCCAA-AGAGCAGACGGTTGATAAAA
* *
11166 -AAGGTCTCTTGA-GATTAAGCCAAT-GAGCAGACGGTGGATGAAGAA
128 TAA-GTCT-TTGAGGACTAAGCCAATAG-GCAGACGGTGGATAAAGAA
11211 GTCTTTCGGG
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
207 5 0.03
208 135 0.93
209 5 0.03
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (208 bp):
AAGTCTCCCAGGTCAAAGCCGACGGGCAAACGATTGATAAAGAAAGTATCCCAAGTATAAGCCGA
CGGGCTGACAGTGGATGAAGAAGTCTCTCAGGTCTAAGCCAAAGAGCAGACGGTTGATAAAATAA
GTCTTTGAGGACTAAGCCAATAGGCAGACGGTGGATAAAGAAACTCTTGAGTCAAAGTTGACGGG
CAGACAAAAGATA
Found at i:11649 original size:41 final size:42
Alignment explanation
Indices: 11557--11793 Score: 131
Period size: 43 Copynumber: 5.6 Consensus size: 42
11547 AAGTCTCCCA
* * * * * *
11557 AGTCAAAGCTGACAAGCAGACAAAAGATGAAGGAAGTCTCTTAG
1 AGTCAAAGCCGACAGGCAAACAAAGGGT-AAGAAAGTCTC-TAG
* * *
11601 -GTCAAAGCCGACAGGCAAATAAAGGGTAA-AAAGTTTCTCG
1 AGTCAAAGCCGACAGGCAAACAAAGGGTAAGAAAGTCTCTAG
* * *
11641 AGTCAAAGCCAACAAGCAGACAAAGGGTAAGAAAGTCTCTAG
1 AGTCAAAGCCGACAGGCAAACAAAGGGTAAGAAAGTCTCTAG
* * * * *
11683 GGTTAAAGCCGACAGACAGACTTAAA-GGTGAAG-AAGTCTCCAG
1 AGTCAAAGCCGACAGGCAAAC--AAAGGGT-AAGAAAGTCTCTAG
* * * * * * **
11726 GGTCAAAGCTGACAAGTAGACTTAAGGGTAAAGAAAGTCTCCCG
1 AGTCAAAGCCGACAGGCAAAC-AAAGGGT-AAGAAAGTCTCTAG
* * *
11770 GGTTAAAACCGACAGGCAAACAAA
1 AGTCAAAGCCGACAGGCAAACAAA
11794 AGATAAAGGA
Statistics
Matches: 150, Mismatches: 36, Indels: 15
0.75 0.18 0.07
Matches are distributed among these distances:
40 2 0.01
41 31 0.21
42 30 0.20
43 57 0.38
44 30 0.20
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.15
Consensus pattern (42 bp):
AGTCAAAGCCGACAGGCAAACAAAGGGTAAGAAAGTCTCTAG
Found at i:11728 original size:43 final size:45
Alignment explanation
Indices: 11645--11784 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 45
11635 TTCTCGAGTC
* *
11645 AAAGCCAACA-AGCAGAC--AAAGGGT-AAGAAAGTCTCTAGGGTT
1 AAAGCCGACAGAGCAGACTTAAA-GGTAAAGAAAGTCTCCAGGGTT
* *
11687 AAAGCCGACAGA-CAGACTTAAAGGTGAAG-AAGTCTCCAGGGTC
1 AAAGCCGACAGAGCAGACTTAAAGGTAAAGAAAGTCTCCAGGGTT
* * * *
11730 AAAGCTGACA-AGTAGACTTAAGGGTAAAGAAAGTCTCCCGGGTT
1 AAAGCCGACAGAGCAGACTTAAAGGTAAAGAAAGTCTCCAGGGTT
*
11774 AAAACCGACAG
1 AAAGCCGACAG
11785 GCAAACAAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
42 15 0.19
43 39 0.49
44 26 0.32
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (45 bp):
AAAGCCGACAGAGCAGACTTAAAGGTAAAGAAAGTCTCCAGGGTT
Found at i:12604 original size:90 final size:90
Alignment explanation
Indices: 12434--12688 Score: 312
Period size: 90 Copynumber: 2.8 Consensus size: 90
12424 TTGCCCTAGT
** * * ** *
12434 AAAATCAGGCTTTGTGATGCATCAATACCATCTAGTGGTTAGATGAAAAGGATATGATTAGGACT
1 AAAATCAGGCTTAATGATACATCAATACCATCTAGTGGTTGGATGAAGGGGATATGATTAGGAAT
* *
12499 GTATGGGCTACACCTTGCCTCAAAG
66 GTGTGGGCTACACCTTGCCCCAAAG
* * * * *
12524 GAAATCAGGTTTAATGATATATTAATACCATCTAATGGTTGGATGAAGGGGATATGATTAGGAAT
1 AAAATCAGGCTTAATGATACATCAATACCATCTAGTGGTTGGATGAAGGGGATATGATTAGGAAT
* **
12589 GTGTGGGTTGTACCTTGCCCCAAAG
66 GTGTGGGCTACACCTTGCCCCAAAG
* * * * *
12614 AAAATCAGGCTTAGTGATGCATCAAAACCATCTAGTGGTTGGATAAAGGGGATATGATTGGGAAT
1 AAAATCAGGCTTAATGATACATCAATACCATCTAGTGGTTGGATGAAGGGGATATGATTAGGAAT
12679 GTGTGGGCTA
66 GTGTGGGCTA
12689 TACAATTTCC
Statistics
Matches: 136, Mismatches: 29, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 136 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (90 bp):
AAAATCAGGCTTAATGATACATCAATACCATCTAGTGGTTGGATGAAGGGGATATGATTAGGAAT
GTGTGGGCTACACCTTGCCCCAAAG
Found at i:18122 original size:155 final size:154
Alignment explanation
Indices: 17853--18184 Score: 447
Period size: 155 Copynumber: 2.1 Consensus size: 154
17843 ATGTCTCTAG
* *
17853 GGGATACCTTCAACGTAAAAGTACCTGATACCCTTAAAGGACTTAAAAAGGATAATGGATGAGAT
1 GGGATACCTTCAACGTAAAAGTACCTGATACCCTTAAAGGACTTAAAAAGGACAATAGATGAGAT
* * **
17918 GAACCTATCCTAAATATCTAGCTTCGGCATAAAAGCGAACCTGGTGACAACCTAGGACTCGGT-T
66 GAACCTATCCTAAATATCTACCTTCGACATAAAAGCGAACCCAGTGACAACCTAGGACTCGGTGT
* *
17982 CTAAAAAATTACCAAAATGCCCCTAA
131 -TAAAAAATTA-AAAAATACCCCTAA
* ** *
18008 GGGATACCTTCGATTTAAAAGTACCTGGTA-CCTCTAAAGGACTTAAAAAGGACAATAGATGAGA
1 GGGATACCTTCAACGTAAAAGTACCTGATACCCT-TAAAGGACTTAAAAAGGACAATAGATGAGA
*
18072 TGAACCTATCCTAAATATCTACCTTCGATATAAAAGC-AGACCCAGTGACAACCTAGGACTCGGT
65 TGAACCTATCCTAAATATCTACCTTCGACATAAAAGCGA-ACCCAGTGACAACCTAGGACTCGGT
* *
18136 GTTGAAAAATTAAAAAATACCCCTAG
129 GTTAAAAAATTAAAAAATACCCCTAA
*
18162 GGGAT-CCTTTCAACATAAAAGTA
1 GGGATACC-TTCAACGTAAAAGTA
18185 TTCGATACCC
Statistics
Matches: 155, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
153 2 0.01
154 32 0.21
155 120 0.77
156 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (154 bp):
GGGATACCTTCAACGTAAAAGTACCTGATACCCTTAAAGGACTTAAAAAGGACAATAGATGAGAT
GAACCTATCCTAAATATCTACCTTCGACATAAAAGCGAACCCAGTGACAACCTAGGACTCGGTGT
TAAAAAATTAAAAAATACCCCTAA
Found at i:19629 original size:20 final size:20
Alignment explanation
Indices: 19604--19660 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
19594 TTTTATCGAG
* *
19604 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTCTTCA
19624 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
19644 ATGCATCGATACATTCT
1 ATGTATCGATACATTCT
19661 GTCTTTTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:19663 original size:71 final size:71
Alignment explanation
Indices: 19572--19708 Score: 195
Period size: 71 Copynumber: 1.9 Consensus size: 71
19562 TTTTTACCCA
* * * * * *
19572 AATGTATCGATACATTCTGTCTTTTTAT-CGAGATGTATCGATATATTTTTCAATGTATCGATAC
1 AATGCATCGATACATTCTGTCTTTTT-TCCCAAATGCATCGATACATTATTCAATGTATCGATAC
19636 ATTCTTC
65 ATTCTTC
*
19643 AATGCATCGATACATTCTGTCTTTTTTCCCAAATGCATCTATACATTATTCAATGTATCGATACA
1 AATGCATCGATACATTCTGTCTTTTTTCCCAAATGCATCGATACATTATTCAATGTATCGATACA
19708 T
66 T
19709 CTAGTTAATT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 1 0.02
71 57 0.98
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.42
Consensus pattern (71 bp):
AATGCATCGATACATTCTGTCTTTTTTCCCAAATGCATCGATACATTATTCAATGTATCGATACA
TTCTTC
Found at i:23196 original size:21 final size:21
Alignment explanation
Indices: 23167--23211 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
23157 AAGTTTTTAT
*
23167 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
23187 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
23209 TTT
1 TTT
23212 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:25442 original size:13 final size:13
Alignment explanation
Indices: 25424--25449 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25414 ACAATTTTTG
25424 TGTATCGATACAT
1 TGTATCGATACAT
25437 TGTATCGATACAT
1 TGTATCGATACAT
25450 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:25446 original size:32 final size:32
Alignment explanation
Indices: 25405--25467 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
25395 TACAAGCCAA
* *
25405 TGTATCGATACA-ATTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTGGTGTATCGATACAT
25437 TGTATCGATACATACTTGGTGTATCGATACA
1 TGTATCGATACATACTTGGTGTATCGATACA
25468 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATACTTGGTGTATCGATACAT
Found at i:25474 original size:19 final size:18
Alignment explanation
Indices: 25405--25474 Score: 60
Period size: 19 Copynumber: 4.0 Consensus size: 18
25395 TACAAGCCAA
*
25405 TGTATCGATACAATTTTTG
1 TGTATCGATACAA-TTTGG
25424 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
25437 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
25456 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
25475 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 2 0.05
19 27 0.63
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:30929 original size:16 final size:16
Alignment explanation
Indices: 30910--30943 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30900 TGTTACGTTT
30910 TTTTGTCTCTTTCTTC
1 TTTTGTCTCTTTCTTC
* *
30926 TTTTTTCTTTTTCTTC
1 TTTTGTCTCTTTCTTC
30942 TT
1 TT
30944 GCTGTTACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTGTCTCTTTCTTC
Found at i:31305 original size:28 final size:28
Alignment explanation
Indices: 31240--31293 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
31230 ATTTTTATAT
* * *
31240 TACTTTTTTATTTTTTTTAAATTGTTAA
1 TACTATTTTAATTTTTTTAAATTATTAA
31268 TACTATTTTAATTTTTTT-AATTATTA
1 TACTATTTTAATTTTTTTAAATTATTA
31294 TTATATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (28 bp):
TACTATTTTAATTTTTTTAAATTATTAA
Found at i:31308 original size:27 final size:27
Alignment explanation
Indices: 31240--31308 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
31230 ATTTTTATAT
* *
31240 TACTTTTTTATTTTTTTTAAATTGTTAA
1 TACTATTTTA-TTTTTTTAAATTATTAA
31268 TACTATTTTAATTTTTTT-AATTATTATTA
1 TACTATTTT-ATTTTTTTAAATTATTA--A
31297 TA-TATTTTATTT
1 TACTATTTTATTT
31309 AAAATAAACC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
27 11 0.31
28 21 0.58
29 4 0.11
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (27 bp):
TACTATTTTATTTTTTTAAATTATTAA
Found at i:31892 original size:42 final size:42
Alignment explanation
Indices: 31828--32031 Score: 196
Period size: 42 Copynumber: 4.9 Consensus size: 42
31818 TAAGCTGATA
* *
31828 GTAGAC-AAAGGATAAA-AGAGTCTCCCGGGTCTAAGCCGATGG
1 GTAGACAAAAGG-TAAAGA-AGTCTCCCGGGTCAAAGCCGACGG
* * * ** *
31870 GTGGACAAAAGGTAAAGAAGTCTTCTGGGTCAAAGTTGAAGG
1 GTAGACAAAAGGTAAAGAAGTCTCCCGGGTCAAAGCCGACGG
* * * *
31912 GTAGACAAAAAGTAAAGAAGTCTCCCGAGTCAAAGCCAACGA
1 GTAGACAAAAGGTAAAGAAGTCTCCCGGGTCAAAGCCGACGG
* * ** * *
31954 GCAGACAAAGGGTAAAGAAGTCTCCCAAGTCAAAGTCGACAG
1 GTAGACAAAAGGTAAAGAAGTCTCCCGGGTCAAAGCCGACGG
* *
31996 GAAGACAAAAGGTAAAGAAGTCTCTCGGGTCAAAGC
1 GTAGACAAAAGGTAAAGAAGTCTCCCGGGTCAAAGC
32032 TAACCAACAA
Statistics
Matches: 129, Mismatches: 31, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
42 123 0.95
43 6 0.05
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (42 bp):
GTAGACAAAAGGTAAAGAAGTCTCCCGGGTCAAAGCCGACGG
Found at i:31936 original size:84 final size:84
Alignment explanation
Indices: 31842--32073 Score: 234
Period size: 84 Copynumber: 2.8 Consensus size: 84
31832 ACAAAGGATA
* * * * ** * ***
31842 AAAG-AGTCTCCCGGGTCTAAGCCGATGGGTGGACAAAAGGTAAAGAAGTCTTCTGGGTCAAAGT
1 AAAGAAGTCTCCCGGGTCAAAGCCAACGAGCAGACAAAAGGTAAAGAAGTCTCCCAAGTCAAAGT
* *
31906 TGA-AGGGTAGACAAAAAGT
66 CGACA-GGAAGACAAAAAGT
* *
31925 AAAGAAGTCTCCCGAGTCAAAGCCAACGAGCAGACAAAGGGTAAAGAAGTCTCCCAAGTCAAAGT
1 AAAGAAGTCTCCCGGGTCAAAGCCAACGAGCAGACAAAAGGTAAAGAAGTCTCCCAAGTCAAAGT
*
31990 CGACAGGAAGACAAAAGGT
66 CGACAGGAAGACAAAAAGT
* * * * * * * *
32009 AAAGAAGTCTCTCGGGTCAAAGCTAACCAACAAACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGT
1 AAAGAAGTCTCCCGGGTCAAAGCCAACGAGCAGACAAAAGGTAAAGAAGTCTCCCAAGTCAAAGT
32074 TGATAGGCAG
Statistics
Matches: 124, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
83 4 0.03
84 119 0.96
85 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.26, T:0.15
Consensus pattern (84 bp):
AAAGAAGTCTCCCGGGTCAAAGCCAACGAGCAGACAAAAGGTAAAGAAGTCTCCCAAGTCAAAGT
CGACAGGAAGACAAAAAGT
Found at i:32046 original size:42 final size:42
Alignment explanation
Indices: 31916--32072 Score: 165
Period size: 42 Copynumber: 3.7 Consensus size: 42
31906 TGAAGGGTAG
* * * *
31916 ACAAAAAGTAAAGAAGTCTCCCGAGTCAAAGCCAACGAGCAG
1 ACAAAAGGTAAAGAAGTCTCCCGAGTCAAAGCTAACCAGCAA
* * * *
31958 ACAAAGGGTAAAGAAGTCTCCCAAGTCAAAG-TCGA-CAGGAA
1 ACAAAAGGTAAAGAAGTCTCCCGAGTCAAAGCT-AACCAGCAA
* * *
31999 GACAAAAGGTAAAGAAGTCTCTCGGGTCAAAGCTAACCAACAA
1 -ACAAAAGGTAAAGAAGTCTCCCGAGTCAAAGCTAACCAGCAA
* *
32042 ACAAAGGGTAAAAAAGTCTCCCGAGTCAAAG
1 ACAAAAGGTAAAGAAGTCTCCCGAGTCAAAG
32073 TTGATAGGCA
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 3 0.03
42 84 0.91
43 5 0.05
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (42 bp):
ACAAAAGGTAAAGAAGTCTCCCGAGTCAAAGCTAACCAGCAA
Found at i:32090 original size:42 final size:41
Alignment explanation
Indices: 31876--32155 Score: 157
Period size: 42 Copynumber: 6.8 Consensus size: 41
31866 ATGGGTGGAC
* * * *
31876 AAAA-GGTAAAGAAGTCTTCTGGGTCAAAGTTGAAGGGTAGA
1 AAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTTGAA-GGCAGA
* **
31917 CAAAA-AGTAAAGAAGTCTCCCGAGTCAAAG-CCAACGAGCAGA
1 -AAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTTGAA-G-GCAGA
* * * *
31959 CAAAGGGTAAAGAAGTCTCCCAAGTCAAAGTCGACAGGAAGA
1 AAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTTGA-AGGCAGA
* * * * *
32001 CAAAA-GGTAAAGAAGTCTCTCGGGTCAAAGCT-AA-CCAACAA
1 -AAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTTGAAGGC-A-GA
*
32042 ACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGTTGATAGGCAGA
1 A-AAAGGGTAAAGAAGTCTCCCGAGTCAAAGTTGA-AGGCAGA
* * * *
32085 AAAAGGGTGAAA-AA-TCTCTCG-GTTAAAGCTGATGAGCA-A
1 AAAAGGGT-AAAGAAGTCTCCCGAGTCAAAGTTGAAG-GCAGA
* * *
32124 ACAAAGGGTAAAAAAATCTCTCGAGTCAAAGT
1 A-AAAGGGTAAAGAAGTCTCCCGAGTCAAAGT
32156 CAACGGGAAG
Statistics
Matches: 186, Mismatches: 34, Indels: 36
0.73 0.13 0.14
Matches are distributed among these distances:
39 6 0.03
40 24 0.13
41 24 0.13
42 116 0.62
43 12 0.06
44 3 0.02
45 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (41 bp):
AAAAGGGTAAAGAAGTCTCCCGAGTCAAAGTTGAAGGCAGA
Found at i:32137 original size:82 final size:84
Alignment explanation
Indices: 31874--32275 Score: 304
Period size: 84 Copynumber: 4.8 Consensus size: 84
31864 CGATGGGTGG
* * * * * * * * *
31874 ACAAAAGGTAAAGAAGTCTTCTGGGTCAAAGTTGA-AGGGTAGACAAAAAGTAAAGAAGTCTCCC
1 ACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGTCGACA-GGAAGACAAAAGGTAAAGAAGTCTCTC
* * *
31938 GAGTCAAAGCCAACGAGCAG
65 GGGTCAAAGCTAACGAGCAA
* *
31958 ACAAAGGGTAAAGAAGTCTCCCAAGTCAAAGTCGACAGGAAGACAAAAGGTAAAGAAGTCTCTCG
1 ACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGTCGACAGGAAGACAAAAGGTAAAGAAGTCTCTCG
* *
32023 GGTCAAAGCTAACCAACAA
66 GGTCAAAGCTAACGAGCAA
* * *
32042 ACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGTTGATAGGCAGA-AAAAGGGTGAAA-AA-TCTCT
1 ACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGTCGACAGGAAGACAAAA-GGT-AAAGAAGTCTCT
* * *
32104 C-GGTTAAAGCTGATGAGCAA
64 CGGGTCAAAGCTAACGAGCAA
* * * * * *
32124 ACAAAGGGTAAAAAAATCTCTCGAGTCAAAGTCAACGGGAAGA-TAAAGATTAAA-AATGTCTCT
1 ACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGTCGACAGGAAGACAAAAG-GTAAAGAA-GTCTCT
** *
32187 CGGGTCAAAG-TCAATAAGTAA
64 CGGGTCAAAGCT-AACGAGCAA
* * * * * * *
32208 ATAAAGGATAAAGAAGTATCCCGAGTCTAAGTC-A-ATGGATAGA-TAAAGGATAAAAAAGTCTC
1 ACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGTCGACA-GGA-AGACAAAAGG-TAAAGAAGTCTC
32270 TCGGGT
63 TCGGGT
32276 TTATAGCTGC
Statistics
Matches: 260, Mismatches: 46, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
81 6 0.02
82 54 0.21
83 21 0.08
84 173 0.67
85 6 0.02
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.18
Consensus pattern (84 bp):
ACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGTCGACAGGAAGACAAAAGGTAAAGAAGTCTCTCG
GGTCAAAGCTAACGAGCAA
Found at i:32645 original size:42 final size:42
Alignment explanation
Indices: 32599--32909 Score: 200
Period size: 42 Copynumber: 7.4 Consensus size: 42
32589 TTACACTAAA
* * *** *
32599 GGGTAGACAAAGGGTAAAGAAGTCTCTTGGGTCAAAGTTAAG
1 GGGTAGACAAAAGGTAAAGAAGTCTCTTGAGTCAAAGCCGAC
* * * *
32641 GGGTAGACAAAAGATAAA-AAGGCCTTTTGAGTCAAAACCGAC
1 GGGTAGACAAAAGGTAAAGAA-GTCTCTTGAGTCAAAGCCGAC
* *** *
32683 GGGCAGACAAAAGGTAAAGAAGTCTCCCAAGTCAAAGCCGAT
1 GGGTAGACAAAAGGTAAAGAAGTCTCTTGAGTCAAAGCCGAC
* * * * * **
32725 GGGCAGACAAAGGGTAAAGAAGCCTTTTAAGTCAAAGCTAAC
1 GGGTAGACAAAAGGTAAAGAAGTCTCTTGAGTCAAAGCCGAC
* * * *
32767 AGGTAGATAAAGGGTAAAGAAGTCT-TTCGAGTCAAAGTCGAC
1 GGGTAGACAAAAGGTAAAGAAGTCTCTT-GAGTCAAAGCCGAC
* * ** * ** *
32809 AGGTAGAC-AAAGGTGAAGAAGTCTCCCGGGTCAAAGTTGAT
1 GGGTAGACAAAAGGTAAAGAAGTCTCTTGAGTCAAAGCCGAC
* * * *
32850 GGGTAGACAAAAGGTAAAGAAATCT-TTCGCA-TTAAAACTGAC
1 GGGTAGACAAAAGGTAAAGAAGTCTCTT-G-AGTCAAAGCCGAC
*
32892 GGGCAGACAAAAGGTAAA
1 GGGTAGACAAAAGGTAAA
32910 AAAATCTCCC
Statistics
Matches: 208, Mismatches: 54, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
41 36 0.17
42 170 0.82
43 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.18
Consensus pattern (42 bp):
GGGTAGACAAAAGGTAAAGAAGTCTCTTGAGTCAAAGCCGAC
Found at i:32733 original size:126 final size:125
Alignment explanation
Indices: 32603--32870 Score: 304
Period size: 126 Copynumber: 2.1 Consensus size: 125
32593 ACTAAAGGGT
* ** * **
32603 AGACAAAGGGTAAAGAAGTCTCTTGGGTCAAAGTTAAGGGGTAGACAAAAGATAAA-AAGGCCTT
1 AGACAAAGGGTAAAGAAGCCTCTTAAGTCAAAGCTAACAGGTAGACAAAAGATAAAGAA-GCCTT
* *
32667 TTGAGTCAAAACCGACGGGCAGACAAAAGGTAAAGAAGTCTCCCAAGTCAAAGCCGATGGGC
65 TCGAGTCAAAACCGACAGGCAGAC-AAAGGTAAAGAAGTCTCCCAAGTCAAAGCCGATGGGC
* * * * *
32729 AGACAAAGGGTAAAGAAGCCTTTTAAGTCAAAGCTAACAGGTAGATAAAGGGTAAAGAAGTCTTT
1 AGACAAAGGGTAAAGAAGCCTCTTAAGTCAAAGCTAACAGGTAGACAAAAGATAAAGAAGCCTTT
** * * ** ** *
32794 CGAGTCAAAGTCGACAGGTAGACAAAGGTGAAGAAGTCTCCCGGGTCAAAGTTGATGGGT
66 CGAGTCAAAACCGACAGGCAGACAAAGGTAAAGAAGTCTCCCAAGTCAAAGCCGATGGGC
*
32854 AGACAAAAGGTAAAGAA
1 AGACAAAGGGTAAAGAA
32871 ATCTTTCGCA
Statistics
Matches: 118, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
125 47 0.40
126 69 0.58
127 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.17
Consensus pattern (125 bp):
AGACAAAGGGTAAAGAAGCCTCTTAAGTCAAAGCTAACAGGTAGACAAAAGATAAAGAAGCCTTT
CGAGTCAAAACCGACAGGCAGACAAAGGTAAAGAAGTCTCCCAAGTCAAAGCCGATGGGC
Found at i:32800 original size:84 final size:83
Alignment explanation
Indices: 32600--32829 Score: 221
Period size: 84 Copynumber: 2.7 Consensus size: 83
32590 TACACTAAAG
* ** * *
32600 GGTAGACAAAGGGTAAAGAAGTCTCTT-GGGTCAAAGTTAAGGGGTAGACAAAAGATAAA-AAGG
1 GGTAGACAAAGGGTAAAGAAGTCT-TTCGAGTCAAAGTCGACGGGTAGAC-AAAGGTAAAGAA-G
* * *
32663 CCTTTTGAGTCAAAACCGACG
63 CCTTTTAAGTCAAAACCAACA
* * ** * * * *
32684 GGCAGACAAAAGGTAAAGAAGTCTCCCAAGTCAAAGCCGATGGGCAGACAAAGGGTAAAGAAGCC
1 GGTAGACAAAGGGTAAAGAAGTCTTTCGAGTCAAAGTCGACGGGTAGACAAA-GGTAAAGAAGCC
* *
32749 TTTTAAGTCAAAGCTAACA
65 TTTTAAGTCAAAACCAACA
* * *
32768 GGTAGATAAAGGGTAAAGAAGTCTTTCGAGTCAAAGTCGACAGGTAGACAAAGGTGAAGAAG
1 GGTAGACAAAGGGTAAAGAAGTCTTTCGAGTCAAAGTCGACGGGTAGACAAAGGTAAAGAAG
32830 TCTCCCGGGT
Statistics
Matches: 115, Mismatches: 28, Indels: 7
0.77 0.19 0.05
Matches are distributed among these distances:
83 12 0.10
84 101 0.88
85 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.17
Consensus pattern (83 bp):
GGTAGACAAAGGGTAAAGAAGTCTTTCGAGTCAAAGTCGACGGGTAGACAAAGGTAAAGAAGCCT
TTTAAGTCAAAACCAACA
Found at i:32876 original size:83 final size:84
Alignment explanation
Indices: 32768--32929 Score: 202
Period size: 83 Copynumber: 1.9 Consensus size: 84
32758 AAAGCTAACA
* * * * * * * * *
32768 GGTAGATAAAGGGTAAAGAAGTCTTTCG-AGTCAAAGTCGACAGGTAGAC-AAAGGTGAAGAAGT
1 GGTAGACAAAAGGTAAAGAAATCTTTCGCAGTAAAACT-GACAGGCAGACAAAAGGTAAAAAAAT
32831 CTCCCGGGTCAAAGTTGATG
65 CTCCCGGGTCAAAGTTGATG
* *
32851 GGTAGACAAAAGGTAAAGAAATCTTTCGCATTAAAACTGACGGGCAGACAAAAGGTAAAAAAATC
1 GGTAGACAAAAGGTAAAGAAATCTTTCGCAGTAAAACTGACAGGCAGACAAAAGGTAAAAAAATC
32916 TCCCGGGTCAAAGT
66 TCCCGGGTCAAAGT
32930 CAATAGGCAG
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
83 34 0.52
84 32 0.48
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.19
Consensus pattern (84 bp):
GGTAGACAAAAGGTAAAGAAATCTTTCGCAGTAAAACTGACAGGCAGACAAAAGGTAAAAAAATC
TCCCGGGTCAAAGTTGATG
Found at i:32908 original size:125 final size:126
Alignment explanation
Indices: 32645--32911 Score: 270
Period size: 125 Copynumber: 2.1 Consensus size: 126
32635 GTTAAGGGGT
* * *
32645 AGACAAAAGATAAAAAGGCCTTTTGAGTCAAAACCGACGGGCAGACAAAAGGTAAAGAAGTCTCC
1 AGACAAAAGGTAAAAAGGCCTTTCGAGTCAAAACCGACAGGCAGACAAAAGGTAAAGAAGTCTCC
* * * * *
32710 CAAGTCAAAGCCGATGGGCAGACAAAGGGTAAAGAAGCCTTTTAAGTCAAAGCTAACAGGT
66 CAAGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAACCTTTGAAGTCAAAACTAACAGGC
* * * ** * *
32771 AGATAAAGGGTAAAGAA-GTCTTTCGAGTCAAAGTCGACAGGTAGAC-AAAGGTGAAGAAGTCTC
1 AGACAAAAGGTAAA-AAGGCCTTTCGAGTCAAAACCGACAGGCAGACAAAAGGTAAAGAAGTCTC
** ** * * * * * *
32834 CCGGGTCAAAGTTGATGGGTAGACAAAAGGTAAAGAAATCTTTCGCA-TTAAAACTGACGGGC
65 CCAAGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAACCTTT-GAAGTCAAAACTAACAGGC
32896 AGACAAAAGGTAAAAA
1 AGACAAAAGGTAAAAA
32912 AATCTCCCGG
Statistics
Matches: 112, Mismatches: 27, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
124 2 0.02
125 73 0.65
126 35 0.31
127 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.17
Consensus pattern (126 bp):
AGACAAAAGGTAAAAAGGCCTTTCGAGTCAAAACCGACAGGCAGACAAAAGGTAAAGAAGTCTCC
CAAGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAACCTTTGAAGTCAAAACTAACAGGC
Found at i:32996 original size:209 final size:210
Alignment explanation
Indices: 32600--33043 Score: 459
Period size: 209 Copynumber: 2.1 Consensus size: 210
32590 TACACTAAAG
** *
32600 GGTAGACAAAGGGTAAAGAAGTCTCTTGGGTCAAAGTTAAGGGGTAGACAAAAGATAAAAAGGCC
1 GGTAGACAAAGGGTAAAGAAGTCTCCCGGGTCAAAGTTAAGGGGTAGACAAAAGATAAAAAGACC
* * * * *
32665 TTTTGAGTCAAAACCGACGGGCAGACAAAAGGTAAAGAAGTCTCCCAAGTCAAAGCCGATGGGCA
66 TTTCGAGTCAAAACCGACGGGCAGACAAAAGGTAAAAAAATCTCCCAAGTCAAAGCCAATAGGCA
** * * * * * *
32730 GACAAAGGGTAAAGAAGCCTTTTAAGTCAAAGCTAACAGGTAGATAAAGGGTAAAGAAGTCTTTC
131 GACAAAAAGTAAAGAAGCCTTTCAAGTAAAAGCTAACAGGCACACAAAGGATAAAGAAGTCTTTC
32795 GAGTCAAAGTCGACA
196 GAGTCAAAGTCGACA
* * * * *
32810 GGTAGACAAA-GGTGAAGAAGTCTCCCGGGTCAAAGTTGATGGGTAGACAAAAGGTAAAGAA-AT
1 GGTAGACAAAGGGTAAAGAAGTCTCCCGGGTCAAAGTTAAGGGGTAGACAAAAGATAAA-AAGAC
* * ** *
32873 CTTTCGCA-TTAAAACTGACGGGCAGACAAAAGGTAAAAAAATCTCCCGGGTCAAAGTCAATAGG
65 CTTTCG-AGTCAAAACCGACGGGCAGACAAAAGGTAAAAAAATCTCCCAAGTCAAAGCCAATAGG
* * ** *
32937 CAGATAAAAAGTAAA-AATGGCTTTCAAGTAAAAG-TCAATGGGCACACAAAGGATAAAGAAAT-
129 CAGACAAAAAGTAAAGAA-GCCTTTCAAGTAAAAGCT-AACAGGCACACAAAGGATAAAGAAGTC
* * **
32999 TTCTCGAGTCTAAGCCGATG
192 TT-TCGAGTCAAAGTCGACA
* * *
33019 GGTAGATAAAGGATAAAAAAGTCTC
1 GGTAGACAAAGGGTAAAGAAGTCTC
33044 TCGAGTCTAG
Statistics
Matches: 189, Mismatches: 39, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
208 5 0.03
209 160 0.85
210 24 0.13
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (210 bp):
GGTAGACAAAGGGTAAAGAAGTCTCCCGGGTCAAAGTTAAGGGGTAGACAAAAGATAAAAAGACC
TTTCGAGTCAAAACCGACGGGCAGACAAAAGGTAAAAAAATCTCCCAAGTCAAAGCCAATAGGCA
GACAAAAAGTAAAGAAGCCTTTCAAGTAAAAGCTAACAGGCACACAAAGGATAAAGAAGTCTTTC
GAGTCAAAGTCGACA
Found at i:33061 original size:42 final size:42
Alignment explanation
Indices: 32982--33162 Score: 136
Period size: 42 Copynumber: 4.3 Consensus size: 42
32972 CAATGGGCAC
* * *
32982 ACAAAGGATAAAGAAA-TTTCTCGAGTCTAAGCCGATGGGTAG
1 ACAAAGGATAAA-AAAGTCTCTCGAGTCTAAGCCGATGGGGAA
* * **
33024 ATAAAGGATAAAAAAGTCTCTCGAGTCTAGGTTGATGGGGAA
1 ACAAAGGATAAAAAAGTCTCTCGAGTCTAAGCCGATGGGGAA
* * * * * *
33066 ACAAAGGATAAAAAAGCCAC-CTAGGTCTAAGTCGATGGGCAG
1 ACAAAGGATAAAAAAGTCTCTCGA-GTCTAAGCCGATGGGGAA
* * * *
33108 ACAACA-GATAAAAAAGTCTC-CCAGGTCTAAGCCAATAGGCAA
1 ACAA-AGGATAAAAAAGTCTCTCGA-GTCTAAGCCGATGGGGAA
33150 ACAAATGGATAAA
1 ACAAA-GGATAAA
33163 GGTTGACCAG
Statistics
Matches: 112, Mismatches: 22, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
41 6 0.05
42 99 0.88
43 7 0.06
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (42 bp):
ACAAAGGATAAAAAAGTCTCTCGAGTCTAAGCCGATGGGGAA
Found at i:33452 original size:29 final size:30
Alignment explanation
Indices: 33384--33452 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
33374 CAAGAGGGGT
* *
33384 AAGATTTAACAAAGTATAATCAAATGAGGA
1 AAGATTTGACAAAGTATAATCAAATAAGGA
** *
33414 AAGACGTGACAAA-TATGATCAAATAAGGA
1 AAGATTTGACAAAGTATAATCAAATAAGGA
*
33443 AATATTTGAC
1 AAGATTTGAC
33453 CGAATATAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
29 21 0.68
30 10 0.32
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (30 bp):
AAGATTTGACAAAGTATAATCAAATAAGGA
Found at i:33526 original size:60 final size:60
Alignment explanation
Indices: 33432--34179 Score: 433
Period size: 60 Copynumber: 12.6 Consensus size: 60
33422 ACAAATATGA
* * * * * *
33432 TCAAATAAGGAAATATTTGACCGAATATAGTTAAGAGGGGTGAGATTTGACCGAGTACAG
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAAGAGGGGTGAGATTTGACCGAGTACAG
* * * * * * * * *
33492 TCAAATGAGGAAACACTTGACCAAATACAATTAAGCGCGAGTGAAATTTGACCGAATATAA
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAAGAG-GGGTGAGATTTGACCGAGTACAG
* * * * *
33553 TTAAATGAGGATAGACTTGACCGAATACAATCAAGAGGGGTGAGATTTGATCGAGTATAC
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAAGAGGGGTGAGATTTGACCGAGTACAG
* * * * * *
33613 TCAAATGAGGAAAGACTTGA-CTAATACAATCAAGTAGGGGTGAAATTGGATCGAATACAA
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAAG-AGGGGTGAGATTTGACCGAGTACAG
* * * * * * * * * ** *
33673 TCAAATAAGGATAGTCTTGATCGAATACAGTCAAAAAGAGTAAGATTTGATTGAGTATAG
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAAGAGGGGTGAGATTTGACCGAGTACAG
* * * * * * * *
33733 TCAAATGAGAAAAGACTTGATCGAATATAGTCAGGAGGGGTAAGATTTGACCAAGTATAG
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAAGAGGGGTGAGATTTGACCGAGTACAG
* * * * * * * * * * * * *
33793 CCAAATAAGGAAAAACTTGACCAAATATAGTTAAACAAGGGTGAAATTTGATCGAATATAG
1 TCAAATGAGGAAAGACTTGACCGAATACA-ATCAAGAGGGGTGAGATTTGACCGAGTACAG
* ** ** * ** **
33854 TCAAATAAGGATAA-TTTTGATTGAATACAATTAAGAGGGGTGAGATTTGATTGAAAACAG
1 TCAAATGAGGA-AAGACTTGACCGAATACAATCAAGAGGGGTGAGATTTGACCGAGTACAG
* * * * * * *
33914 TCAAATGAGGAAAGACTTGATCAAATATAGTCAAGCAGGGGTAAAATTT----GA-T-CTG
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAAG-AGGGGTGAGATTTGACCGAGTACAG
* * * * * ** *
33969 TCAAATAAAGAAAGACTTTACCAAATACAATCAAGAAGGGAAAGATTTGACTGAGTACAG
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAAGAGGGGTGAGATTTGACCGAGTACAG
* * * * * * *
34029 TCAAATGAGGAAAGACTTGACCAAATATAGTTAAGCGAGGTTGAAATTTGACC--G-A-A-
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAAGAG-GGGTGAGATTTGACCGAGTACAG
* * ** * * **
34085 TAAAATGAGGAAAGTCTTGAATGAATACAATCAAAAGGGGTAAAGATTTGACAAAGTACAG
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAAGAGGGGT-GAGATTTGACCGAGTACAG
* *
34146 TTAAATGAGGAAAGACTTGACCGAGTACAATCAA
1 TCAAATGAGGAAAGACTTGACCGAATACAATCAA
34180 ATGAGGAAAG
Statistics
Matches: 525, Mismatches: 143, Indels: 39
0.74 0.20 0.06
Matches are distributed among these distances:
54 10 0.02
55 34 0.06
56 35 0.07
57 3 0.01
58 4 0.01
59 18 0.03
60 269 0.51
61 150 0.29
62 2 0.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.24
Consensus pattern (60 bp):
TCAAATGAGGAAAGACTTGACCGAATACAATCAAGAGGGGTGAGATTTGACCGAGTACAG
Found at i:33851 original size:31 final size:30
Alignment explanation
Indices: 33655--33880 Score: 95
Period size: 30 Copynumber: 7.5 Consensus size: 30
33645 AGTAGGGGTG
* * * *
33655 AAATTGGATCGAATACAATCAAATAAGGAT
1 AAATTTGATCGAATATAGTCAAACAAGGAT
* *
33685 -AGTCTTGATCGAATACAGTCAAA-AA-GAGT
1 AAAT-TTGATCGAATATAGTCAAACAAGGA-T
* * ** *
33714 AAGATTTGATTGAGTATAGTCAAATGA-GAA
1 AA-ATTTGATCGAATATAGTCAAACAAGGAT
* ** * *
33744 AAGACTTGATCGAATATAGTC-AGGAGGGGT
1 AA-ATTTGATCGAATATAGTCAAACAAGGAT
* * * *
33774 AAGATTTGA-CCAAGTATAGCCAAATAAGGAA
1 AA-ATTTGATCGAA-TATAGTCAAACAAGGAT
* * * * *
33805 AAACTTGACCAAATATAGTTAAACAAGGGT
1 AAATTTGATCGAATATAGTCAAACAAGGAT
*
33835 GAAATTTGATCGAATATAGTCAAATAAGGAT
1 -AAATTTGATCGAATATAGTCAAACAAGGAT
* *
33866 AATTTTGATTGAATA
1 AAATTTGATCGAATA
33881 CAATTAAGAG
Statistics
Matches: 145, Mismatches: 41, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
28 2 0.01
29 9 0.06
30 97 0.67
31 37 0.26
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
AAATTTGATCGAATATAGTCAAACAAGGAT
Found at i:33880 original size:30 final size:31
Alignment explanation
Indices: 33816--33880 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
33806 AACTTGACCA
* *
33816 AATATAGTTAAACAAGGGTGAAATTTGATCG
1 AATATAGTCAAACAAGGATGAAATTTGATCG
* * *
33847 AATATAGTCAAATAAGGAT-AATTTTGATTG
1 AATATAGTCAAACAAGGATGAAATTTGATCG
33877 AATA
1 AATA
33881 CAATTAAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (31 bp):
AATATAGTCAAACAAGGATGAAATTTGATCG
Found at i:33880 original size:121 final size:121
Alignment explanation
Indices: 33635--33966 Score: 267
Period size: 121 Copynumber: 2.7 Consensus size: 121
33625 AGACTTGACT
* * * ** * ** * *
33635 AATACAATCAAGTAGGGGTGAA-ATTGGATCGAATACAATCAAATAAGGATAGTCTTGATCGAAT
1 AATACAATCAAG-AGGGGT-AAGATTTGATCCAAAACAGCCAAATAAGGAAAAACTTGACCAAAT
* * * * * * * **
33699 ACAGTCAAA-AAGAGTAAGATTTGATTGAGTATAGTCAAATGA-GAAAAGACTTGATCG
64 ATAGTCAAACAAGGGTAAAATTTGATCGAATATAGTCAAATAAGGATAA-TTTTGATCG
* * * * *
33756 AATATAGTCAGGAGGGGTAAGATTTGA-CCAAGTATAGCCAAATAAGGAAAAACTTGACCAAATA
1 AATACAATCAAGAGGGGTAAGATTTGATCCAA-AACAGCCAAATAAGGAAAAACTTGACCAAATA
* * *
33820 TAGTTAAACAAGGGTGAAATTTGATCGAATATAGTCAAATAAGGATAATTTTGATTG
65 TAGTCAAACAAGGGTAAAATTTGATCGAATATAGTCAAATAAGGATAATTTTGATCG
* * ** * * * *
33877 AATACAATTAAGAGGGGTGAGATTTGATTGAAAACAGTCAAATGAGGAAAGACTTGATCAAATAT
1 AATACAATCAAGAGGGGTAAGATTTGATCCAAAACAGCCAAATAAGGAAAAACTTGACCAAATAT
* *
33942 AGTCAAGCAGGGGTAAAATTTGATC
66 AGTCAAACAAGGGTAAAATTTGATC
33967 TGTCAAATAA
Statistics
Matches: 164, Mismatches: 42, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
119 5 0.03
120 41 0.25
121 112 0.68
122 6 0.04
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (121 bp):
AATACAATCAAGAGGGGTAAGATTTGATCCAAAACAGCCAAATAAGGAAAAACTTGACCAAATAT
AGTCAAACAAGGGTAAAATTTGATCGAATATAGTCAAATAAGGATAATTTTGATCG
Found at i:34036 original size:115 final size:115
Alignment explanation
Indices: 33877--34167 Score: 309
Period size: 115 Copynumber: 2.5 Consensus size: 115
33867 ATTTTGATTG
* * ** * ** *
33877 AATACAATTAAGAGGGGTGAGATTTGATTGAAAACAGTCAAATGAGGAAAGACTTGATCAAATAT
1 AATACAATCAAGAAGGGAAAGATTTGACTGAGTACAGTCAAATGAGGAAAGACTTGACCAAATAT
* * * *
33942 AGTCAAGC-AGGGGTAAAATTTGATCTG-TCAAATAAAGAAAGACTTTACCA
66 AGTCAAGCGA-GGGTAAAATTTGA-CCGATAAAATAAAGAAAGACTTGAACA
33992 AATACAATCAAGAAGGGAAAGATTTGACTGAGTACAGTCAAATGAGGAAAGACTTGACCAAATAT
1 AATACAATCAAGAAGGGAAAGATTTGACTGAGTACAGTCAAATGAGGAAAGACTTGACCAAATAT
* * * * * * **
34057 AGTTAAGCGAGGTTGAAATTTGACCGAATAAAATGAGGAAAGTCTTGAATG
66 AGTCAAGCGAGGGTAAAATTTGACCG-ATAAAATAAAGAAAGACTTGAACA
** *
34108 AATACAATCAA-AAGGGGTAAAGATTTGACAAAGTACAGTTAAATGAGGAAAGACTTGACC
1 AATACAATCAAGAA-GGG-AAAGATTTGACTGAGTACAGTCAAATGAGGAAAGACTTGACC
34168 GAGTACAATC
Statistics
Matches: 148, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
114 2 0.01
115 77 0.52
116 30 0.20
117 39 0.26
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.23
Consensus pattern (115 bp):
AATACAATCAAGAAGGGAAAGATTTGACTGAGTACAGTCAAATGAGGAAAGACTTGACCAAATAT
AGTCAAGCGAGGGTAAAATTTGACCGATAAAATAAAGAAAGACTTGAACA
Found at i:34041 original size:30 final size:30
Alignment explanation
Indices: 33968--34330 Score: 115
Period size: 30 Copynumber: 12.2 Consensus size: 30
33958 AATTTGATCT
* * *
33968 GTCAAATAAAGAAAGACTTT-ACCAAATACA
1 GTCAAATGAGGAAAGA-TTTGACTAAATACA
* * * *
33998 ATCAAGAAG-GGAAAGATTTGACTGAGTACA
1 GTCAA-ATGAGGAAAGATTTGACTAAATACA
* * *
34028 GTCAAATGAGGAAAGACTTGACCAAATATA
1 GTCAAATGAGGAAAGATTTGACTAAATACA
* ** * **
34058 GTTAAGCGAGGTTGAA-ATTTGACCGAAT--A
1 GTCAAATGAGG--AAAGATTTGACTAAATACA
* *
34087 ---AAATGAGGAAAG-TCTTGAATGAATACA
1 GTCAAATGAGGAAAGAT-TTGACTAAATACA
* * *
34114 ATCAAAAGGGGTAAAGATTTGAC-AAAGTACA
1 GTCAAATGAGG-AAAGATTTGACTAAA-TACA
* * ** *
34145 GTTAAATGAGGAAAGACTTGACCGAGTACA
1 GTCAAATGAGGAAAGATTTGACTAAATACA
* *
34175 ATCAAATGAGGAAAGACTTGA-TCAAATACA
1 GTCAAATGAGGAAAGATTTGACT-AAATACA
* *** * *
34205 ATCATGCGAGGGTGAA-ATTTGACCAAATACA
1 GTCAAATGA-GG-AAAGATTTGACTAAATACA
* * * *
34236 GTCAAATGAGGAAGGACTTAACTGAATACA
1 GTCAAATGAGGAAAGATTTGACTAAATACA
* * * *
34266 GTCAACA-GGGGTAGAGATTTAACTAAGTACA
1 GTCAA-ATGAGG-AAAGATTTGACTAAATACA
* * *
34297 ATCAAATGAGGAAAGACTTGAC-CAATACA
1 GTCAAATGAGGAAAGATTTGACTAAATACA
34326 GTCAA
1 GTCAA
34331 GCAAGGATGG
Statistics
Matches: 238, Mismatches: 71, Indels: 49
0.66 0.20 0.14
Matches are distributed among these distances:
24 3 0.01
25 8 0.03
26 6 0.03
27 1 0.00
29 16 0.07
30 127 0.53
31 72 0.30
32 5 0.02
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (30 bp):
GTCAAATGAGGAAAGATTTGACTAAATACA
Found at i:34195 original size:91 final size:91
Alignment explanation
Indices: 34087--34254 Score: 216
Period size: 91 Copynumber: 1.8 Consensus size: 91
34077 TGACCGAATA
* * *
34087 AAATGAGGAAAGTCTTGAAT-GAATACAATCAAAAG-GGGTAAAGATTTGA-CAAAGTACAGTTA
1 AAATGAGGAAAGACTTG-ATCAAATACAATCAAAAGAGGGTAAA-ATTTGACCAAA-TACAGTCA
34149 AATGAGGAAAGACTTGACCGAGTACAATC
63 AATGAGGAAAGACTTGACCGAGTACAATC
*** *
34178 AAATGAGGAAAGACTTGATCAAATACAATCATGCGAGGGTGAAATTTGACCAAATACAGTCAAAT
1 AAATGAGGAAAGACTTGATCAAATACAATCAAAAGAGGGTAAAATTTGACCAAATACAGTCAAAT
*
34243 GAGGAAGGACTT
66 GAGGAAAGACTT
34255 AACTGAATAC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
90 2 0.03
91 54 0.82
92 10 0.15
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (91 bp):
AAATGAGGAAAGACTTGATCAAATACAATCAAAAGAGGGTAAAATTTGACCAAATACAGTCAAAT
GAGGAAAGACTTGACCGAGTACAATC
Found at i:34227 original size:61 final size:60
Alignment explanation
Indices: 34162--34330 Score: 171
Period size: 61 Copynumber: 2.8 Consensus size: 60
34152 GAGGAAAGAC
* *
34162 TTGACCGAGTACAATCAAATGAGGAAAGACTTGATCAAATACAATCATGC-GAGGGT-GAAAT
1 TTGACCAAGTACAATCAAATGAGGAAAGACTTGA-CAAATACAATCA-ACAG-GGGTAGAAAT
* * * * * * *
34223 TTGACCAAATACAGTCAAATGAGGAAGGACTTAACTGAATACAGTCAACAGGGGTAGAGAT
1 TTGACCAAGTACAATCAAATGAGGAAAGACTTGAC-AAATACAATCAACAGGGGTAGAAAT
* * * *
34284 TTAACTAAGTACAATCAAATGAGGAAAGACTTGACCAATACAGTCAA
1 TTGACCAAGTACAATCAAATGAGGAAAGACTTGACAAATACAATCAA
34331 GCAAGGATGG
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
60 17 0.19
61 72 0.81
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (60 bp):
TTGACCAAGTACAATCAAATGAGGAAAGACTTGACAAATACAATCAACAGGGGTAGAAAT
Found at i:35139 original size:9 final size:10
Alignment explanation
Indices: 35125--35165 Score: 66
Period size: 10 Copynumber: 4.1 Consensus size: 10
35115 AGAAGAAACC
35125 AAAAAAAGAA
1 AAAAAAAGAA
35135 AAAAAAAGAA
1 AAAAAAAGAA
35145 AAAAAGAAG-A
1 AAAAA-AAGAA
35155 AAAAAAAGAA
1 AAAAAAAGAA
35165 A
1 A
35166 GGGGCATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.10
10 23 0.79
11 3 0.10
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:35141 original size:11 final size:11
Alignment explanation
Indices: 35125--35161 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
35115 AGAAGAAACC
35125 AAAAAAAG-AA
1 AAAAAAAGAAA
35135 AAAAAAAGAAA
1 AAAAAAAGAAA
*
35146 AAAAGAAGAAA
1 AAAAAAAGAAA
35157 AAAAA
1 AAAAA
35162 GAAAGGGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:35869 original size:42 final size:44
Alignment explanation
Indices: 35737--35889 Score: 136
Period size: 43 Copynumber: 3.6 Consensus size: 44
35727 TCTAGACTTC
* * * * * *
35737 TTTATCTTTTGTCTATCCGTCAGCTTAGACCCGAG-AGACTTTT
1 TTTATCTTTTATCTACCCGTCGGCTAAAACTCGAGAAGACTTTT
* * * * *
35780 TTTATGTTTTGTCTGCCCGTCGGCTTAGACTCGAGAA-A-TTTT
1 TTTATCTTTTATCTACCCGTCGGCTAAAACTCGAGAAGACTTTT
*
35822 CTTTATCTTTTATCTACTCGTC-GCTAAAACTCG-GAAGACTTTT
1 -TTTATCTTTTATCTACCCGTCGGCTAAAACTCGAGAAGACTTTT
* *
35865 TTTATCTTTTGTCTGCCCGTCGGCT
1 TTTATCTTTTATCTACCCGTCGGCT
35890 CAGACCTGGG
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 32 0.35
43 55 0.60
44 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (44 bp):
TTTATCTTTTATCTACCCGTCGGCTAAAACTCGAGAAGACTTTT
Found at i:35911 original size:42 final size:42
Alignment explanation
Indices: 35730--36002 Score: 221
Period size: 42 Copynumber: 6.4 Consensus size: 42
35720 GTCTCCTTCT
* * *
35730 AGACTTCTTTATCTTTTGTCTATCCGTCAGCTTAGACCCGAG
1 AGACTTCTTTATCTTTTGTCTACCCGTCAGCTCAGACCTGAG
* * * * *
35772 AGACTTTTTTTATGTTTTGTCTGCCCGTCGGCTTAGA-CTCGAG
1 AGAC-TTCTTTATCTTTTGTCTACCCGTCAGCTCAGACCT-GAG
* * * * * * *
35815 AAATTTTCTTTATCTTTTATCTACTCGTC-GCTAAAACTCGGA-
1 AGA-CTTCTTTATCTTTTGTCTACCCGTCAGCTCAGAC-CTGAG
* * * *
35857 AGACTTTTTTTATCTTTTGTCTGCCCGTCGGCTCAGACCTGGG
1 AGAC-TTCTTTATCTTTTGTCTACCCGTCAGCTCAGACCTGAG
* * * * *
35900 AGACTTCTTTATCTTTTATCTGCCCATCAGTTCAGACCTGGG
1 AGACTTCTTTATCTTTTGTCTACCCGTCAGCTCAGACCTGAG
*
35942 AGACTTCTTCATCTTTTGTCTACCCGTCAGCTCAGACCCT-AG
1 AGACTTCTTTATCTTTTGTCTACCCGTCAGCTCAGA-CCTGAG
*
35984 AGACTTTCTATATCTTTTG
1 AGAC-TTCTTTATCTTTTG
36003 AAGACACCTA
Statistics
Matches: 182, Mismatches: 39, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
42 103 0.57
43 78 0.43
44 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (42 bp):
AGACTTCTTTATCTTTTGTCTACCCGTCAGCTCAGACCTGAG
Found at i:35946 original size:85 final size:84
Alignment explanation
Indices: 35730--36001 Score: 264
Period size: 85 Copynumber: 3.2 Consensus size: 84
35720 GTCTCCTTCT
* * * * *
35730 AGACTTCTTTATCTTTTGTCTATCCGTCAGCTTAGACCCGAGAGACTTTTTTTATGTTTTGTCTG
1 AGACTTCTTTATCTTTTATCTACCCGTCAG-TTAGACCTGGGAGACTTTTTTTATCTTTTGTCTG
*
35795 CCCGTCGGCTTAGA-CTCGAG
65 CCCGTCGGCTCAGACCT-GAG
* * * * * * *
35815 AAATTTTCTTTATCTTTTATCTACTCGTC-GCTAAAACTCGGAAGACTTTTTTTATCTTTTGTCT
1 AGA-CTTCTTTATCTTTTATCTACCCGTCAGTTAGACCT-GGGAGACTTTTTTTATCTTTTGTCT
*
35879 GCCCGTCGGCTCAGACCTGGG
64 GCCCGTCGGCTCAGACCTGAG
* * * * *
35900 AGACTTCTTTATCTTTTATCTGCCCATCAGTTCAGACCTGGGAGAC-TTCTTCATCTTTTGTCTA
1 AGACTTCTTTATCTTTTATCTACCCGTCAGTT-AGACCTGGGAGACTTTTTTTATCTTTTGTCTG
*
35964 CCCGTCAGCTCAGACCCT-AG
65 CCCGTCGGCTCAGA-CCTGAG
*
35984 AGACTTTCTATATCTTTT
1 AGAC-TTCTTTATCTTTT
36002 GAAGACACCT
Statistics
Matches: 151, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
84 58 0.38
85 66 0.44
86 27 0.18
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (84 bp):
AGACTTCTTTATCTTTTATCTACCCGTCAGTTAGACCTGGGAGACTTTTTTTATCTTTTGTCTGC
CCGTCGGCTCAGACCTGAG
Found at i:39843 original size:91 final size:91
Alignment explanation
Indices: 39655--39836 Score: 265
Period size: 91 Copynumber: 2.0 Consensus size: 91
39645 CTTATGTTTT
* *
39655 GATAGATTTACTGTTTGTATCAATACAAATTGCAAAAAATTAAAATTTTTAACTATTAGGACCAT
1 GATACATTTACTATTTGTATCAATACAAATTGCAAAAAATTAAAATTTTTAACTATTAGGACCAT
*
39720 GTATCGATACATGAAAGGCATGTGTC
66 GTATCGATACATAAAAGGCATGTGTC
** * * * * *
39746 GATACATTTACTATTTGTATTGATACAAATTGCAGAAATTTGAAATTTTTAACTGTTGGGACCAT
1 GATACATTTACTATTTGTATCAATACAAATTGCAAAAAATTAAAATTTTTAACTATTAGGACCAT
*
39811 GTATTGATACATAAAAGGCATGTGTC
66 GTATCGATACATAAAAGGCATGTGTC
39837 AGTACATCTA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
91 80 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (91 bp):
GATACATTTACTATTTGTATCAATACAAATTGCAAAAAATTAAAATTTTTAACTATTAGGACCAT
GTATCGATACATAAAAGGCATGTGTC
Found at i:40556 original size:45 final size:45
Alignment explanation
Indices: 40487--40577 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
40477 AAAGTTAATT
*
40487 ATTAGCAGAAAGACAGAAGAGATCATATTCAAATAATAACTAAAA
1 ATTAGCAAAAAGACAGAAGAGATCATATTCAAATAATAACTAAAA
** *
40532 ATTAGCAAAAAGATGGAAGGGATCATATTCAAATAATAACTAAAA
1 ATTAGCAAAAAGACAGAAGAGATCATATTCAAATAATAACTAAAA
40577 A
1 A
40578 CTAAAGATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (45 bp):
ATTAGCAAAAAGACAGAAGAGATCATATTCAAATAATAACTAAAA
Found at i:41521 original size:18 final size:19
Alignment explanation
Indices: 41484--41523 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
41474 AAAAAAAATC
*
41484 TTTTGACGAAGAAGCCAGA
1 TTTTGAAGAAGAAGCCAGA
*
41503 TTTTGAAGAA-AAGCGAGA
1 TTTTGAAGAAGAAGCCAGA
41521 TTT
1 TTT
41524 GAGTGTCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (19 bp):
TTTTGAAGAAGAAGCCAGA
Found at i:41761 original size:2 final size:2
Alignment explanation
Indices: 41754--41778 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
41744 TTAAAGGCAT
41754 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
41779 TCTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43986 original size:21 final size:20
Alignment explanation
Indices: 43935--43988 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
43925 CATTTCAGAC
*
43935 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTA
*
43955 ATGTATTGATACATTCACTA
1 ATGTATCGATACATTCACTA
43975 ATTGTATCGATACA
1 A-TGTATCGATACA
43989 AATTATAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:48612 original size:20 final size:20
Alignment explanation
Indices: 48575--48612 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48565 CACGACATGC
*
48575 AAAAATATTGTTTGCAATTT
1 AAAAATATTGTTTCCAATTT
48595 AAAAATGATT-TTTCCAAT
1 AAAAAT-ATTGTTTCCAAT
48613 CAGGGCTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATATTGTTTCCAATTT
Found at i:52177 original size:20 final size:20
Alignment explanation
Indices: 52152--52203 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
52142 AAAAAAACAG
52152 AATGTATCGATACATT-AAA
1 AATGTATCGATACATTGAAA
52171 CAATGTATCGATACATTGAAA
1 -AATGTATCGATACATTGAAA
*
52192 ATTGTATCGATA
1 AATGTATCGATA
52204 TTTCTGGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:58046 original size:21 final size:20
Alignment explanation
Indices: 57999--58052 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
57989 CATTTGAGAC
*
57999 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTA
*
58019 ATGTATCAATACATTCACTA
1 ATGTATCGATACATTCACTA
58039 ATTGTATCGATACA
1 A-TGTATCGATACA
58053 AATCGTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:58695 original size:155 final size:155
Alignment explanation
Indices: 58400--58742 Score: 363
Period size: 155 Copynumber: 2.2 Consensus size: 155
58390 CTCAATTCTA
* * **
58400 AAAATTACAAAAATTCTTCTAAGGGATACCTTCAACGTAAAAGTACCCCAATACCCCTAAAAGAC
1 AAAATTATAAAAATGCCCCTAAGGGATACCTTCAACGTAAAAGTACCCCAATACCCCTAAAAGAC
* * * * * * ** *
58465 TTAAAAAGATTATAGATGGGATGAACCTAACCTAAATATCCCTCTTCGGCATAGAAGCGGACTTG
66 TAAAAAAGATTATAAAAGGGACGAACCTAACCTAAATATCCCTCTTCGACATAAAAGCAAACCTG
* * *
58530 GAGACAACCTAGGACTT-GGCTTTA-
131 AAGACAACCTAAGA-TTCAGCTTTAG
* * ** * *
58554 ACAAATTATGAAAATGCCCCTAAGGGATACCTTCGACGTAAAAGTA-CCTGATACCCTTAAATGA
1 A-AAATTATAAAAATGCCCCTAAGGGATACCTTCAACGTAAAAGTACCCCAATACCCCTAAAAGA
*
58618 CTAAAAAAAGATTATAAAAGGGACGAACCTATCCTAAATATCCAC-CTTCGACATAAAAGCAAAC
65 CT-AAAAAAGATTATAAAAGGGACGAACCTAACCTAAATATCC-CTCTTCGACATAAAAGCAAAC
** *
58682 CT-AATGATGACCTAAGATTCAGTTTTAG
128 CTGAA-GACAACCTAAGATTCAGCTTTAG
*
58710 AAAATTATAAAAATGCCCCCAAGGGATACCTTC
1 AAAATTATAAAAATGCCCCTAAGGGATACCTTC
58743 TGTTAGGATC
Statistics
Matches: 155, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
154 20 0.13
155 133 0.86
156 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (155 bp):
AAAATTATAAAAATGCCCCTAAGGGATACCTTCAACGTAAAAGTACCCCAATACCCCTAAAAGAC
TAAAAAAGATTATAAAAGGGACGAACCTAACCTAAATATCCCTCTTCGACATAAAAGCAAACCTG
AAGACAACCTAAGATTCAGCTTTAG
Found at i:59039 original size:20 final size:20
Alignment explanation
Indices: 59014--59087 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
59004 ACCCTTAAAA
59014 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
59034 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
59055 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
59075 GTATCGATACATG
1 GTATCGATACATG
59088 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:59058 original size:21 final size:21
Alignment explanation
Indices: 59032--59107 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
59022 ACATGTTGCA
59032 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
59053 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
59073 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
59094 ATGTATCGATACAT
1 ATGTATCGATACAT
59108 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:59064 original size:41 final size:41
Alignment explanation
Indices: 59014--59107 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
59004 ACCCTTAAAA
59014 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
59055 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
59096 GTATCGATACAT
1 GTATCGATACAT
59108 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:59164 original size:13 final size:13
Alignment explanation
Indices: 59146--59171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59136 TACAGCAAGT
59146 ATGTATCGATACA
1 ATGTATCGATACA
59159 ATGTATCGATACA
1 ATGTATCGATACA
59172 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:61419 original size:21 final size:21
Alignment explanation
Indices: 61386--61430 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
61376 TTGCAAGTTG
*
61386 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
61408 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
61428 AAA
1 AAA
61431 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:65341 original size:20 final size:20
Alignment explanation
Indices: 65268--65347 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
65258 AATGTCCAAA
*
65268 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
65288 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
*
65313 ATGTTTCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
65333 TTGTATCGATACATT
1 ATGTATCGATACATT
65348 GTATCGATAC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 30 0.64
24 1 0.02
25 16 0.34
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:65351 original size:13 final size:13
Alignment explanation
Indices: 65333--65371 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
65323 ACATTTTTCT
65333 TTGTATCGATACA
1 TTGTATCGATACA
65346 TTGTATCGATACA
1 TTGTATCGATACA
*
65359 CTGTATCGATACA
1 TTGTATCGATACA
65372 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Done.