Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold363
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: 774241
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 50831 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:15697 original size:27 final size:26
Alignment explanation
Indices: 15658--15716 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
15648 TTATTCTAAA
* * *
15658 TTTTGTTTCATTTTTTTATTACTTTC
1 TTTTATTTCATTTATTAATTACTTTC
* *
15684 GTTTTATTTTATTTATTAATTTCTTTC
1 -TTTTATTTCATTTATTAATTACTTTC
15711 TTTTAT
1 TTTTAT
15717 ATAACATTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.73
Consensus pattern (26 bp):
TTTTATTTCATTTATTAATTACTTTC
Found at i:15706 original size:23 final size:22
Alignment explanation
Indices: 15656--15714 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
15646 TCTTATTCTA
*
15656 AATTTTGTTTCATTTTTTTATT
1 AATTTCGTTTCATTTTTTTATT
* *
15678 ACTTTCGTTTTATTTTATTTATT
1 AATTTCGTTTCATTTT-TTTATT
15701 AATTTC-TTTC-TTTT
1 AATTTCGTTTCATTTT
15715 ATATAACATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 4 0.13
22 16 0.52
23 11 0.35
ACGTcount: A:0.17, C:0.08, G:0.03, T:0.71
Consensus pattern (22 bp):
AATTTCGTTTCATTTTTTTATT
Found at i:17578 original size:27 final size:26
Alignment explanation
Indices: 17526--17604 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
17516 ACTTATGGCC
*
17526 ATAACAGTCATTTCATCTCCTA-GGGGT
1 ATAACAGTCATTT--TATCCTATGGGGT
17553 ATAACAGTCATTTTATCCTATTGGGGT
1 ATAACAGTCATTTTATCCTA-TGGGGT
** *
17580 ATTTCGGTCATTTTATCCTATGGGG
1 ATAACAGTCATTTTATCCTATGGGG
17605 GCTATAATAC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 6 0.13
26 5 0.11
27 35 0.76
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (26 bp):
ATAACAGTCATTTTATCCTATGGGGT
Found at i:18972 original size:15 final size:16
Alignment explanation
Indices: 18941--18973 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
18931 TTACTTAATA
18941 TTTAAATTTAACATCAT
1 TTTAAATTT-ACATCAT
18958 TTTAAATTT-CATCAT
1 TTTAAATTTACATCAT
18973 T
1 T
18974 AGTATTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAAATTTACATCAT
Found at i:19215 original size:15 final size:14
Alignment explanation
Indices: 19160--19217 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
19150 TACTGTTTTG
19160 GTATT-TTATAATAT
1 GTATTATTAT-ATAT
19174 GTATTATTACTATTAT
1 GTATTATTA-TA-TAT
*
19190 GTTTTTATTATATAT
1 G-TATTATTATATAT
19205 GTATTACTTATAT
1 GTATTA-TTATAT
19218 TAAATTAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
14 9 0.24
15 14 0.38
16 7 0.19
17 7 0.19
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (14 bp):
GTATTATTATATAT
Found at i:30190 original size:14 final size:14
Alignment explanation
Indices: 30157--30206 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
30147 GCATTGAGTC
30157 GTAAAAAT-AAAAA
1 GTAAAAATGAAAAA
* *
30170 ATGAAAATGAAAATA
1 GTAAAAATGAAAA-A
*
30185 G-AAAAACGAAAAA
1 GTAAAAATGAAAAA
30198 GTAAAAATG
1 GTAAAAATG
30207 GAAAGACTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
13 8 0.29
14 19 0.68
15 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.14, T:0.14
Consensus pattern (14 bp):
GTAAAAATGAAAAA
Found at i:31651 original size:44 final size:43
Alignment explanation
Indices: 31461--31844 Score: 133
Period size: 44 Copynumber: 9.0 Consensus size: 43
31451 CAGATCGGTG
* * * * * *
31461 AAACCACAAATCCTATCTCTCTAAAGTTACAGTGGAACGGATTA
1 AAACCACAGATCTTATCTCCCTAAAGTTACAATGGAGCAGA-TA
* * * * *
31505 AAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGG-GCAGATC
1 AAACCACAGATCTTATCTCCCTAAAGTTACAAT-GGAGCAGATA
* * * * *
31548 ACATC-CAG-TCTTATCTCCCTGAAGTTGCAATGGAGCAGACA
1 AAACCACAGATCTTATCTCCCTAAAGTTACAATGGAGCAGATA
** * * *
31589 AAAGAAATCA-ATCCTATCTCCCTAAAGTTATAATGGAGCGGATTA
1 AAA-CCA-CAGATCTTATCTCCCTAAAGTTACAATGGAGCAGA-TA
** * * * * *
31634 AAACCACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATC
1 AAACCACAGATCTTATCTCCCTAAAGTTACAATGGAGCAGATA
** * * * * * *
31677 GCATC-CAG-TCTTATCTCCCTGAAGTTGCAGTGGATCAGACA
1 AAACCACAGATCTTATCTCCCTAAAGTTACAATGGAGCAGATA
* * * * *
31718 GAAGA-AATCA-ATCTTATC-CGCCTGAAGTTCCAGTGGAGCGGATTA
1 -AA-ACCA-CAGATCTTATCTC-CCTAAAGTTACAATGGAGCAGA-TA
* * * * *
31763 AAACCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATC
1 AAACCACAGATCTTATCTCCCTAAAGTTACAATGGAGCAGATA
** * * * *
31806 GCATC-CAG-TCTTATCTTCCTAAAGTTGCAGTGGAGCAGA
1 AAACCACAGATCTTATCTCCCTAAAGTTACAATGGAGCAGA
31845 CAGAAGAAAC
Statistics
Matches: 259, Mismatches: 63, Indels: 39
0.72 0.17 0.11
Matches are distributed among these distances:
40 2 0.01
41 83 0.32
42 9 0.03
43 17 0.07
44 140 0.54
45 8 0.03
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACCACAGATCTTATCTCCCTAAAGTTACAATGGAGCAGATA
Found at i:31699 original size:129 final size:129
Alignment explanation
Indices: 31469--31949 Score: 714
Period size: 129 Copynumber: 3.7 Consensus size: 129
31459 TGAAACCACA
*
31469 AATCCTATCTCTCTAAAGTTACAGTGGAACGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTAAAGTTACAGTGGAACGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* * * *
31534 CAGTAGGGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAATC
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATC
* * * *
31598 AATCCTATCTCCCTAAAGTTATAATGGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTTG
1 AATCCTATCTCCCTAAAGTTACAGTGGAACGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
*
31663 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGATCAGACAGAAGAAATC
66 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATC
* * * * *
31727 AATCTTATC-CGCCTGAAGTTCCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTT
1 AATCCTATCTC-CCTAAAGTTACAGTGGAACGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * *
31791 GCAGTAGAGCAGATCGCATCCAGTCTTATCTTCCTAAAGTTGCAGTGGAGCAGACAGAAGAAACC
65 GCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATC
* * ** *
31856 AATCCTATCTCCTTGAAGTTTTAGTGGAACGGATTAAAACCACAAATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTAAAGTTACAGTGGAACGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* *
31921 CAGTAGAGCAGATCGTAT-CAGACTTATCT
66 CAGTAGAGCAGATCGCATCCAGTCTTATCT
31950 TTAAAGTTGC
Statistics
Matches: 320, Mismatches: 30, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
128 11 0.03
129 308 0.96
130 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (129 bp):
AATCCTATCTCCCTAAAGTTACAGTGGAACGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATC
Found at i:34877 original size:14 final size:14
Alignment explanation
Indices: 34858--34908 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
34848 TGATTTCCCC
34858 TTTTCATTCATTGT
1 TTTTCATTCATTGT
34872 TTTTCA-TCATGGCATGT
1 TTTTCATTCAT----TGT
*
34889 TTTTCATTCATTCT
1 TTTTCATTCATTGT
34903 TTTTCA
1 TTTTCA
34909 ATCACACTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
13 4 0.13
14 14 0.45
17 9 0.29
18 4 0.13
ACGTcount: A:0.16, C:0.18, G:0.08, T:0.59
Consensus pattern (14 bp):
TTTTCATTCATTGT
Found at i:41437 original size:6 final size:6
Alignment explanation
Indices: 41428--41475 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
41418 TCTATTTCTC
*
41428 CATTTT CATTTT CATTTT AATTTT CATTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
41476 GGAGAAAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.19, C:0.15, G:0.00, T:0.67
Consensus pattern (6 bp):
CATTTT
Found at i:41547 original size:87 final size:86
Alignment explanation
Indices: 41376--41549 Score: 208
Period size: 87 Copynumber: 2.0 Consensus size: 86
41366 CATTTCCAAG
* * * * *
41376 TCATTTTCATTTTGGATAAAACCACATTCATTTACAAATGATTCTATTTCTCCATTTTCATTTTC
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTAAAAATGATTCCATTTCTCCATTTTCAATTTC
* *
41441 ATTTTAATTTTCATTTTCATTT
66 ATATTAATTTT-ATGTTCATTT
* *
41463 TCATTTTCATTTTGGAGAAAACCATAATCATTTAAAAATGTTTCACATTTCTCCATTTTCACCAT
1 TCATTTTCATTTTGGAGAAAACCACAATCATTTAAAAATGATTC-CATTTCTCCATTTTCA--AT
*
41528 TTC-TATTCATTTT-TGTTCATTT
63 TTCATATTAATTTTATGTTCATTT
41550 GATCCAACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
87 47 0.64
88 15 0.20
89 8 0.11
90 4 0.05
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.51
Consensus pattern (86 bp):
TCATTTTCATTTTGGAGAAAACCACAATCATTTAAAAATGATTCCATTTCTCCATTTTCAATTTC
ATATTAATTTTATGTTCATTT
Found at i:46736 original size:25 final size:25
Alignment explanation
Indices: 46687--46768 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
46677 TTAAACTGAA
* *
46687 ACTGAAACTATCT-TTGATAGTATAT
1 ACTGAAACTA-CTATAGATAGAATAT
* * *
46712 CCTGAAACTGCTATAGGTAGAATAT
1 ACTGAAACTACTATAGATAGAATAT
* * *
46737 ACTGAGACTATTATAGATAGACTAT
1 ACTGAAACTACTATAGATAGAATAT
46762 ACTGAAA
1 ACTGAAA
46769 ACACTTAAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 2 0.05
25 42 0.95
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (25 bp):
ACTGAAACTACTATAGATAGAATAT
Found at i:56479 original size:28 final size:28
Alignment explanation
Indices: 56439--56505 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
56429 GATGGAATAC
*
56439 AAATTCAAGTACCAAATACATCAAAAAA
1 AAATTAAAGTACCAAATACATCAAAAAA
56467 AAATTAAAGTACCAAATACATCAAAAAA
1 AAATTAAAGTACCAAATACATCAAAAAA
* *
56495 AATTTTAAGTA
1 AAATTAAAGTA
56506 TCAACTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.22
Consensus pattern (28 bp):
AAATTAAAGTACCAAATACATCAAAAAA
Found at i:56998 original size:19 final size:19
Alignment explanation
Indices: 56976--57028 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
56966 TAAAAACTTT
* *
56976 TAAAATTTCTAAACATAAA
1 TAAAATTTATAAAAATAAA
* *
56995 TAAAAATTATAAAAATAAT
1 TAAAATTTATAAAAATAAA
57014 TAAAATTTATAAAAA
1 TAAAATTTATAAAAA
57029 ATATTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATTTATAAAAATAAA
Found at i:57017 original size:29 final size:29
Alignment explanation
Indices: 56985--57040 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
56975 TTAAAATTTC
*
56985 TAAACATAAATAAAAATTA-TAAAAATAAT
1 TAAA-ATAAATAAAAAATATTAAAAATAAT
**
57014 TAAAATTTATAAAAAATATTAAAAATA
1 TAAAATAAATAAAAAATATTAAAAATA
57041 CTAAGAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (29 bp):
TAAAATAAATAAAAAATATTAAAAATAAT
Found at i:57034 original size:19 final size:19
Alignment explanation
Indices: 56975--57039 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
56965 CTAAAAACTT
* * *
56975 TTAAAATTTCTAAACATAA
1 TTAAAAATTATAAAAATAA
*
56994 ATAAAAATTATAAAAATAA
1 TTAAAAATTATAAAAATAA
*
57013 TTAAAATTTATAAAAA-ATA
1 TTAAAAATTATAAAAATA-A
57032 TTAAAAAT
1 TTAAAAAT
57040 ACTAAGAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 1 0.03
19 37 0.97
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAAATTATAAAAATAA
Found at i:57395 original size:24 final size:23
Alignment explanation
Indices: 57340--57389 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
57330 TTTCTCTCTC
*
57340 TAAGGTTAGGGCTTTTATTTTTT
1 TAAGGTTAGGGTTTTTATTTTTT
*
57363 TATGGTTAGGGTTTTTATTTTTT
1 TAAGGTTAGGGTTTTTATTTTTT
57386 TAAG
1 TAAG
57390 ATTTAGAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.18, C:0.02, G:0.22, T:0.58
Consensus pattern (23 bp):
TAAGGTTAGGGTTTTTATTTTTT
Found at i:67111 original size:31 final size:31
Alignment explanation
Indices: 67069--67141 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
67059 GTTTGCTTCT
* * * *
67069 TGCTAGCTTCAATCCCGTTAGCTTCGCTTTC
1 TGCTAGTTTCAATCCCGCTAGCTTCGCATCC
*
67100 TGCTAGTTTCAATTCCGCTAGCTTCGCATCC
1 TGCTAGTTTCAATCCCGCTAGCTTCGCATCC
*
67131 TACTAGTTTCA
1 TGCTAGTTTCA
67142 CATCTTGTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.16, C:0.30, G:0.15, T:0.38
Consensus pattern (31 bp):
TGCTAGTTTCAATCCCGCTAGCTTCGCATCC
Found at i:73467 original size:48 final size:48
Alignment explanation
Indices: 73392--73487 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
73382 TAAGGGAATT
** * *
73392 CTGTTGAATCCTTTATCGTTGCGAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCATTTTTA
*
73440 CTGTTGAATCCTTTATCACTGCAAGTTAGGCTGACTTAGGCATTTTTA
1 CTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCATTTTTA
73488 AGCAAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCACTGCAAGTTAAGCTGACTTAGGCATTTTTA
Found at i:78595 original size:48 final size:48
Alignment explanation
Indices: 78520--78615 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
78510 TAAGGGAATT
*
78520 CTGTTGAATCCTTTATCATTGCGAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATCATTGCAAGTTAAGCTGACTTAGGCGTTTTTA
*
78568 CTGTTGAATCCTTTATCATTGCAAGTTAGGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATCATTGCAAGTTAAGCTGACTTAGGCGTTTTTA
78616 AGCAAAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.42
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTGCAAGTTAAGCTGACTTAGGCGTTTTTA
Found at i:78733 original size:41 final size:41
Alignment explanation
Indices: 78673--78793 Score: 224
Period size: 41 Copynumber: 3.0 Consensus size: 41
78663 GTCCGTGACA
78673 CTAGTACAATGACTCATACAACCTTTAATAAAAGTAAAGTC
1 CTAGTACAATGACTCATACAACCTTTAATAAAAGTAAAGTC
* *
78714 CTAGTACAATGACTTATACAACCTTTAATAAAAGTGAAGTC
1 CTAGTACAATGACTCATACAACCTTTAATAAAAGTAAAGTC
78755 CTAGTACAATGACTCATACAACCTTTAATAAAAGTAAAG
1 CTAGTACAATGACTCATACAACCTTTAATAAAAGTAAAG
78794 GATAAAAATC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (41 bp):
CTAGTACAATGACTCATACAACCTTTAATAAAAGTAAAGTC
Found at i:87070 original size:17 final size:16
Alignment explanation
Indices: 87035--87070 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
87025 GACTTTTTTG
*
87035 TGACCCTAAAAAGTTT
1 TGACCCTAAAAAATTT
87051 TGACCCTAAAACAATTT
1 TGACCCTAAAA-AATTT
87068 TGA
1 TGA
87071 TACTTGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (16 bp):
TGACCCTAAAAAATTT
Found at i:89879 original size:41 final size:41
Alignment explanation
Indices: 89834--90001 Score: 291
Period size: 41 Copynumber: 4.1 Consensus size: 41
89824 ACCTTTAATA
* *
89834 AAAGTCCTAGTACAACGACTCATACAAACTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
*
89875 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGA
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
* *
89916 AAAGTCTTAGTACAATGACTTATACAACCTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
89957 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
1 AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
89998 AAAG
1 AAAG
90002 GATAAAAATC
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 119 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (41 bp):
AAAGTCCTAGTACAATGACTCATACAACCTTTAATAAAAGT
Found at i:94304 original size:18 final size:17
Alignment explanation
Indices: 94278--94321 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
94268 TTTTTCCTTT
94278 TGCTTTTTTCTTTCTGC
1 TGCTTTTTTCTTTCTGC
* *
94295 TGCTTCTTTTTTTTCTGT
1 TGCTT-TTTTCTTTCTGC
*
94313 TTCTTTTTT
1 TGCTTTTTT
94322 GGCTTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.00, C:0.18, G:0.09, T:0.73
Consensus pattern (17 bp):
TGCTTTTTTCTTTCTGC
Found at i:96974 original size:21 final size:21
Alignment explanation
Indices: 96950--96990 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
96940 AGAGAATAAG
96950 AAATACAAAACCTTAAGGAAC
1 AAATACAAAACCTTAAGGAAC
* * *
96971 AAATTCGAATCCTTAAGGAA
1 AAATACAAAACCTTAAGGAA
96991 ACAGGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (21 bp):
AAATACAAAACCTTAAGGAAC
Found at i:101020 original size:41 final size:41
Alignment explanation
Indices: 100963--101089 Score: 218
Period size: 41 Copynumber: 3.1 Consensus size: 41
100953 AATTATTATC
* *
100963 CTTTACTTTTATTAAAGGTTGTATGAGTAATTGTACTAAGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
*
101004 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGT
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
*
101045 CTTTACTTTTATTAAAGTTTGTATGAGTCATTGTACTAGGA
1 CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
101086 CTTT
1 CTTT
101090 TATTAAAGGT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.27, C:0.09, G:0.17, T:0.46
Consensus pattern (41 bp):
CTTTACTTTTATTAAAGGTTGTATGAGTCATTGTACTAGGA
Found at i:107469 original size:14 final size:14
Alignment explanation
Indices: 107450--107481 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
107440 AAGGAAAGTT
107450 AATTCTATCATGAA
1 AATTCTATCATGAA
107464 AATTCTATCATGAA
1 AATTCTATCATGAA
107478 AATT
1 AATT
107482 GGGATAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (14 bp):
AATTCTATCATGAA
Found at i:111451 original size:78 final size:78
Alignment explanation
Indices: 111357--111592 Score: 472
Period size: 78 Copynumber: 3.0 Consensus size: 78
111347 AAGGGTCTAA
111357 TTATCATTTTATAGCTTTGACTAATTACAATTTAAGTCCCCAAGTCATTTCCTAATTAAAAATAT
1 TTATCATTTTATAGCTTTGACTAATTACAATTTAAGTCCCCAAGTCATTTCCTAATTAAAAATAT
111422 ATAGCGATTAAAC
66 ATAGCGATTAAAC
111435 TTATCATTTTATAGCTTTGACTAATTACAATTTAAGTCCCCAAGTCATTTCCTAATTAAAAATAT
1 TTATCATTTTATAGCTTTGACTAATTACAATTTAAGTCCCCAAGTCATTTCCTAATTAAAAATAT
111500 ATAGCGATTAAAC
66 ATAGCGATTAAAC
111513 TTATCATTTTATAGCTTTGACTAATTACAATTTAAGTCCCCAAGTCATTTCCTAATTAAAAATAT
1 TTATCATTTTATAGCTTTGACTAATTACAATTTAAGTCCCCAAGTCATTTCCTAATTAAAAATAT
111578 ATAGCGATTAAAC
66 ATAGCGATTAAAC
111591 TT
1 TT
111593 TTACAATTTA
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 158 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.39
Consensus pattern (78 bp):
TTATCATTTTATAGCTTTGACTAATTACAATTTAAGTCCCCAAGTCATTTCCTAATTAAAAATAT
ATAGCGATTAAAC
Found at i:112139 original size:21 final size:20
Alignment explanation
Indices: 112115--112154 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
112105 AAATTCTAAG
112115 TTTAT-AATAAATATATAATAT
1 TTTATAAATAAA-A-ATAATAT
112136 TTTATAAATAAAAATAATA
1 TTTATAAATAAAAATAATA
112155 ACACAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTATAAATAAAAATAATAT
Found at i:113873 original size:23 final size:23
Alignment explanation
Indices: 113829--113872 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
113819 CCCAAAATAT
*
113829 AAATATATTTTTTTTTAATTTTA
1 AAATATATTTTATTTTAATTTTA
*
113852 AAATA-ATTTTATTTTATTTTT
1 AAATATATTTTATTTTAATTTT
113873 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
AAATATATTTTATTTTAATTTTA
Found at i:115087 original size:11 final size:11
Alignment explanation
Indices: 115071--115105 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
115061 AATTTAATCA
115071 ATTGTGTTTTG
1 ATTGTGTTTTG
115082 ATTGTGTTTTG
1 ATTGTGTTTTG
*
115093 -TTTTGTTTTG
1 ATTGTGTTTTG
115103 ATT
1 ATT
115106 TTCAGAGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.09, C:0.00, G:0.23, T:0.69
Consensus pattern (11 bp):
ATTGTGTTTTG
Found at i:115460 original size:15 final size:15
Alignment explanation
Indices: 115440--115522 Score: 148
Period size: 15 Copynumber: 5.5 Consensus size: 15
115430 AACCGCTACT
115440 TCCACCTGGGCAGTA
1 TCCACCTGGGCAGTA
115455 TCCACCTGGGCAGTA
1 TCCACCTGGGCAGTA
*
115470 TCCACCTGGGCAATA
1 TCCACCTGGGCAGTA
*
115485 TCCACCTGGGCAATA
1 TCCACCTGGGCAGTA
115500 TCCACCTGGGCAGTA
1 TCCACCTGGGCAGTA
115515 TCCACCTG
1 TCCACCTG
115523 CACAACAGCA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 66 1.00
ACGTcount: A:0.22, C:0.35, G:0.23, T:0.20
Consensus pattern (15 bp):
TCCACCTGGGCAGTA
Found at i:115680 original size:18 final size:17
Alignment explanation
Indices: 115653--115686 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
115643 CTGGGCATCC
115653 ACTACCTCCTCCAGGTT
1 ACTACCTCCTCCAGGTT
*
115670 ACTATCCTCCTGCAGGT
1 ACTA-CCTCCTCCAGGT
115687 CAAGGTCCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.38, G:0.15, T:0.29
Consensus pattern (17 bp):
ACTACCTCCTCCAGGTT
Found at i:119048 original size:43 final size:42
Alignment explanation
Indices: 118966--119048 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 42
118956 TAACTCCCAC
* *
118966 AATTGCATCATAGAATAAATTCTGACATGTCCATTATCTCTT
1 AATTGCATCATAGAATAAATTCTGACATGTACATCATCTCTT
* *
119008 AATTGCATTATAGAAATAAATTTTGACAT-TGACATCATCTC
1 AATTGCATCATAG-AATAAATTCTGACATGT-ACATCATCTC
119049 ACTCATTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 13 0.37
43 22 0.63
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (42 bp):
AATTGCATCATAGAATAAATTCTGACATGTACATCATCTCTT
Found at i:119921 original size:19 final size:19
Alignment explanation
Indices: 119897--119939 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
119887 AAATTCATAA
*
119897 TTTAATTAGTTGGTATAGG
1 TTTAATTAGTCGGTATAGG
119916 TTTAATTAGTCGGTATAGG
1 TTTAATTAGTCGGTATAGG
119935 TTTAA
1 TTTAA
119940 AAGTTCATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTAGTCGGTATAGG
Found at i:121112 original size:22 final size:22
Alignment explanation
Indices: 121087--121128 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
121077 TCACCTCTGG
*
121087 CACCAAACCACCTCTGGTCCGA
1 CACCAAACCACCTCCGGTCCGA
* *
121109 CACCGATCCACCTCCGGTCC
1 CACCAAACCACCTCCGGTCC
121129 TCCACGGCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.50, G:0.14, T:0.14
Consensus pattern (22 bp):
CACCAAACCACCTCCGGTCCGA
Found at i:124524 original size:17 final size:17
Alignment explanation
Indices: 124499--124532 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
124489 ATATGGAAAC
*
124499 TAATATTAGAATATTTG
1 TAATATTAGAAGATTTG
*
124516 TAATCTTAGAAGATTTG
1 TAATATTAGAAGATTTG
124533 ATTTTTAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (17 bp):
TAATATTAGAAGATTTG
Found at i:131150 original size:18 final size:19
Alignment explanation
Indices: 131116--131158 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
131106 TAAAATTAAA
*
131116 AAAAATCAAAATAATTTTT
1 AAAAATCAAAATAATTTAT
*
131135 AAAACTCAAAAT-ATTTAT
1 AAAAATCAAAATAATTTAT
131153 AAAAAT
1 AAAAAT
131159 TCCAGAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATCAAAATAATTTAT
Found at i:131939 original size:19 final size:19
Alignment explanation
Indices: 131915--131952 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
131905 TTCTCTCATC
* *
131915 GTTGCTTCTTTGTTCCTCT
1 GTTGCTTCATTGATCCTCT
131934 GTTGCTTCATTGATCCTCT
1 GTTGCTTCATTGATCCTCT
131953 ACTGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.26, G:0.16, T:0.53
Consensus pattern (19 bp):
GTTGCTTCATTGATCCTCT
Found at i:131982 original size:25 final size:25
Alignment explanation
Indices: 131947--132036 Score: 135
Period size: 25 Copynumber: 3.6 Consensus size: 25
131937 GCTTCATTGA
* * * *
131947 TCCTCTACTGGTTCTGATTATTTGT
1 TCCTCTGCTGGTGCTGGTTCTTTGT
*
131972 TCTTCTGCTGGTGCTGGTTCTTTGT
1 TCCTCTGCTGGTGCTGGTTCTTTGT
131997 TCCTCTGCTGGTGCTGGTTCTTTGT
1 TCCTCTGCTGGTGCTGGTTCTTTGT
132022 TCCTCTGCTGGTGCT
1 TCCTCTGCTGGTGCT
132037 TTGTTCCTCT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 59 1.00
ACGTcount: A:0.03, C:0.23, G:0.24, T:0.49
Consensus pattern (25 bp):
TCCTCTGCTGGTGCTGGTTCTTTGT
Found at i:132007 original size:19 final size:19
Alignment explanation
Indices: 132008--132046 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
131998 CCTCTGCTGG
*
132008 TGCTGGTTCTTTGTTCCTC
1 TGCTGGTGCTTTGTTCCTC
132027 TGCTGGTGCTTTGTTCCTC
1 TGCTGGTGCTTTGTTCCTC
132046 T
1 T
132047 TCTCCACCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.26, G:0.23, T:0.51
Consensus pattern (19 bp):
TGCTGGTGCTTTGTTCCTC
Found at i:134227 original size:15 final size:15
Alignment explanation
Indices: 134207--134243 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
134197 TCGGACTTTT
134207 TTAATTACATAAATA
1 TTAATTACATAAATA
134222 TTAATTACATAAATA
1 TTAATTACATAAATA
134237 TTAATTA
1 TTAATTA
134244 AAAACTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATTACATAAATA
Found at i:135278 original size:18 final size:18
Alignment explanation
Indices: 135255--135320 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
135245 AAAATATGAG
*
135255 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
135273 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
135291 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
135309 AAATGGTGTTCA
1 AAATGATGTTCA
135321 AATTGATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:135898 original size:72 final size:72
Alignment explanation
Indices: 135744--135916 Score: 190
Period size: 72 Copynumber: 2.4 Consensus size: 72
135734 AACAACAATG
* * * * * * *
135744 CTAAACTAGTTTTATCAACAGTTATTTATGTTTGGTTTTTGGATATTGACTTTATGTTCTACTTA
1 CTAAATTAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTGCATATTGAATTTATATTCTACTTA
135809 TTTATGT
66 TTTATGT
* * *
135816 GT-AATCTAGTTTTATTAAAAGTTGTTTATGTTTGGTCTTT-CTTCATTGAATTTATATTCTACT
1 CTAAAT-TAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTGCAT-ATTGAATTTATATTCTACT
*
135879 TATTT-TTT
64 TATTTATGT
*
135887 ACTAAATTAGTTTTATCAATAGTTGTTTAT
1 -CTAAATTAGTTTTATCAAAAGTTGTTTAT
135917 ATGTGATTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
71 5 0.06
72 75 0.90
73 3 0.04
ACGTcount: A:0.25, C:0.09, G:0.12, T:0.54
Consensus pattern (72 bp):
CTAAATTAGTTTTATCAAAAGTTGTTTATGTTTGGTCTTTGCATATTGAATTTATATTCTACTTA
TTTATGT
Found at i:146541 original size:19 final size:19
Alignment explanation
Indices: 146517--146566 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
146507 GGCAGTGTGT
146517 CCAGCCCGTGTGGAATGGC
1 CCAGCCCGTGTGGAATGGC
*
146536 CCAGCCCGTGTAGAATGGC
1 CCAGCCCGTGTGGAATGGC
146555 CCAGCCCGTGTG
1 CCAGCCCGTGTG
146567 ACTCTTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (19 bp):
CCAGCCCGTGTGGAATGGC
Found at i:151529 original size:27 final size:27
Alignment explanation
Indices: 151476--151530 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
151466 CCATGTACGT
* * *
151476 GTGAGCCCTTTATGCGAACCTATATAG
1 GTGAACCCTTTATGCGAACCCACATAG
*
151503 GTGAACCCTTTATGCGAACCCCCATAG
1 GTGAACCCTTTATGCGAACCCACATAG
151530 G
1 G
151531 CAAGCCTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (27 bp):
GTGAACCCTTTATGCGAACCCACATAG
Found at i:151759 original size:22 final size:21
Alignment explanation
Indices: 151706--151787 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 21
151696 TTATAGGTTA
*
151706 TTTATGCAAACCCTATATTT-
1 TTTATGCGAACCCTATATTTG
151726 TTAAATATGCGAACCCTATATATTG
1 TT---TATGCGAACCCTATAT-TTG
* *
151751 TTTATGCGAACCTTATATGTGG
1 TTTATGCGAACCCTATAT-TTG
*
151773 TATATGCGAACCCTA
1 TTTATGCGAACCCTA
151788 ACTATTTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
20 2 0.04
22 30 0.59
23 15 0.29
24 2 0.04
25 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (21 bp):
TTTATGCGAACCCTATATTTG
Found at i:151767 original size:67 final size:68
Alignment explanation
Indices: 151690--151830 Score: 151
Period size: 67 Copynumber: 2.1 Consensus size: 68
151680 GTTATTCATA
* * * * *
151690 CGAATCTTATAGGTTATTTATGCAAACCCTATA-TTTTTAAAT-ATGCGAACCCTATATATTGTT
1 CGAACCTTATAGGTGATATATGCAAACCCTA-ACTATTTAAATAATGCAAACCCTATATATTGTT
151753 TATG
65 TATG
* * * ** *
151757 CGAACCTTATATGTGGTATATGCGAACCCTAACTATTTAAATAATGCAAACTTTATATGTTGTTT
1 CGAACCTTATAGGTGATATATGCAAACCCTAACTATTTAAATAATGCAAACCCTATATATTGTTT
151822 ATG
66 ATG
*
151825 CAAACC
1 CGAACC
151831 CTACATGTGG
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
66 1 0.02
67 33 0.55
68 26 0.43
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (68 bp):
CGAACCTTATAGGTGATATATGCAAACCCTAACTATTTAAATAATGCAAACCCTATATATTGTTT
ATG
Found at i:151839 original size:68 final size:67
Alignment explanation
Indices: 151708--151852 Score: 175
Period size: 68 Copynumber: 2.1 Consensus size: 67
151698 ATAGGTTATT
* * * * * *
151708 TATGCAAACCCTATATTTTTAAATATGCGAACCCTATATATTGTTTATGCGAACCTTATATGTGG
1 TATGCGAACCCTATATATTTAAATATGCAAACCCTATATATTGTTTATGCAAACCCTACATGTGG
151773 TA
66 TA
** *
151775 TATGCGAACCCTA-ACTATTTAAATAATGCAAACTTTATATGTTGTTTATGCAAACCCTACATGT
1 TATGCGAACCCTATA-TATTTAAAT-ATGCAAACCCTATATATTGTTTATGCAAACCCTACATGT
151839 GGTA
64 GGTA
*
151843 TATGTGAACC
1 TATGCGAACC
151853 TTATTTGTTG
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
66 1 0.02
67 20 0.30
68 45 0.68
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (67 bp):
TATGCGAACCCTATATATTTAAATATGCAAACCCTATATATTGTTTATGCAAACCCTACATGTGG
TA
Found at i:151920 original size:15 final size:15
Alignment explanation
Indices: 151899--151958 Score: 86
Period size: 15 Copynumber: 4.1 Consensus size: 15
151889 GGTGTGAACC
151899 ATATGTGCAAACCCT
1 ATATGTGCAAACCCT
* *
151914 GTATGTGTAAACCC-
1 ATATGTGCAAACCCT
*
151928 ATATGAGCAAACCCT
1 ATATGTGCAAACCCT
151943 ATATGTGCAAACCCT
1 ATATGTGCAAACCCT
151958 A
1 A
151959 CTTAAGTAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 11 0.29
15 27 0.71
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (15 bp):
ATATGTGCAAACCCT
Found at i:151937 original size:29 final size:29
Alignment explanation
Indices: 151897--151956 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
151887 TAGGTGTGAA
* * *
151897 CCATATGTGCAAACCCTGTATGTGTAAAC
1 CCATATGAGCAAACCCTATATGTGCAAAC
151926 CCATATGAGCAAACCCTATATGTGCAAAC
1 CCATATGAGCAAACCCTATATGTGCAAAC
151955 CC
1 CC
151957 TACTTAAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (29 bp):
CCATATGAGCAAACCCTATATGTGCAAAC
Found at i:154250 original size:19 final size:17
Alignment explanation
Indices: 154216--154264 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
154206 AAATGTTATA
154216 AAAAAAC-TAAAGAATAT
1 AAAAAACTTAAA-AATAT
154233 ATAATAAACTTAAAAATAT
1 A-AA-AAACTTAAAAATAT
*
154252 AAAAAACTCAAAA
1 AAAAAACTTAAAA
154265 CCCTACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 10 0.36
18 4 0.14
19 10 0.36
20 4 0.14
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAACTTAAAAATAT
Found at i:154253 original size:17 final size:17
Alignment explanation
Indices: 154216--154264 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
154206 AAATGTTATA
154216 AAAAAACT-AAAGAATAT
1 AAAAAACTCAAA-AATAT
*
154233 ATAATAAACTTAAAAATAT
1 A-AA-AAACTCAAAAATAT
154252 AAAAAACTCAAAA
1 AAAAAACTCAAAA
154265 CCCTACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 10 0.36
18 4 0.14
19 11 0.39
20 3 0.11
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAACTCAAAAATAT
Found at i:155444 original size:13 final size:14
Alignment explanation
Indices: 155428--155457 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
155418 ATTTATTTTT
155428 ATATAAAAAAA-TA
1 ATATAAAAAAATTA
155441 ATATAAAAAAATTA
1 ATATAAAAAAATTA
155455 ATA
1 ATA
155458 CGAGTGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
ATATAAAAAAATTA
Found at i:155753 original size:67 final size:67
Alignment explanation
Indices: 155650--155790 Score: 210
Period size: 67 Copynumber: 2.1 Consensus size: 67
155640 GAAGTGAACT
* * * *
155650 TATTCTCTAGTCGATGTGAGATTAAAATTAAATTTTTAATGAAAATAGTGAAAGTGAGCTATGAA
1 TATTATCTAGTCAATGTAAGAGTAAAATTAAATTTTTAATGAAAATAGTGAAAGTGAGCTATGAA
155715 AG
66 AG
* ** *
155717 TATTATCTAGTCAATGTAAGAGTAAAGTTATTTTTTTAATGAAAATATTGAAAGTGAGCTATGAA
1 TATTATCTAGTCAATGTAAGAGTAAAATTAAATTTTTAATGAAAATAGTGAAAGTGAGCTATGAA
155782 AG
66 AG
155784 TATTATC
1 TATTATC
155791 CAATAATGTG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.37
Consensus pattern (67 bp):
TATTATCTAGTCAATGTAAGAGTAAAATTAAATTTTTAATGAAAATAGTGAAAGTGAGCTATGAA
AG
Found at i:156144 original size:46 final size:46
Alignment explanation
Indices: 156092--156230 Score: 278
Period size: 46 Copynumber: 3.0 Consensus size: 46
156082 GGATTAAAAG
156092 ATAAGTTGTAGAAACAAGTGTTATATCTCAACAAAATGAATATACC
1 ATAAGTTGTAGAAACAAGTGTTATATCTCAACAAAATGAATATACC
156138 ATAAGTTGTAGAAACAAGTGTTATATCTCAACAAAATGAATATACC
1 ATAAGTTGTAGAAACAAGTGTTATATCTCAACAAAATGAATATACC
156184 ATAAGTTGTAGAAACAAGTGTTATATCTCAACAAAATGAATATACC
1 ATAAGTTGTAGAAACAAGTGTTATATCTCAACAAAATGAATATACC
156230 A
1 A
156231 CGTGTCAAAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 93 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (46 bp):
ATAAGTTGTAGAAACAAGTGTTATATCTCAACAAAATGAATATACC
Found at i:156351 original size:113 final size:112
Alignment explanation
Indices: 156211--156477 Score: 390
Period size: 112 Copynumber: 2.4 Consensus size: 112
156201 GTGTTATATC
* * * * * *
156211 TCAACAAAATGAATATACCACGTGTCAAAAAATTAGGCTGTCTACATTAGCTAAGAGTCTAAGAC
1 TCAACAAAATGAGTATACCATGTGTCAAAAAATTAGGCTGCCCAAATTAGCT-AGAGACTAAGAC
156276 CTTGTAATATATAATATATAAATTGGTTGTATAAATAATTGACACATG
65 CTTGTAATATATAATATATAAATTGGTTGTATAAATAATTGACACATG
*** * * * *
156324 TCAACAAAATGAGTATGTTATTTGTCAAAAATTTAGGCTGCCCAAATTAGCTGGAGACTGAGACC
1 TCAACAAAATGAGTATACCATGTGTCAAAAAATTAGGCTGCCCAAATTAGCTAGAGACTAAGACC
*
156389 TTGTAATATATAATATATAAATTGGTTGTATAAATAATTGTCACATG
66 TTGTAATATATAATATATAAATTGGTTGTATAAATAATTGACACATG
*
156436 TCAACAAAATGAGTATACCATGTGTAAAAAAATTAGGCTGCC
1 TCAACAAAATGAGTATACCATGTGTCAAAAAATTAGGCTGCC
156478 TGGATCAACC
Statistics
Matches: 134, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
112 92 0.69
113 42 0.31
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (112 bp):
TCAACAAAATGAGTATACCATGTGTCAAAAAATTAGGCTGCCCAAATTAGCTAGAGACTAAGACC
TTGTAATATATAATATATAAATTGGTTGTATAAATAATTGACACATG
Found at i:156885 original size:23 final size:23
Alignment explanation
Indices: 156855--156944 Score: 65
Period size: 23 Copynumber: 4.3 Consensus size: 23
156845 AATAGAGAAA
156855 ACTAAAATTCTTAATATTTTAAT
1 ACTAAAATTCTTAATATTTTAAT
*
156878 ACTAAAA-TATT-AT-TTTTAA-
1 ACTAAAATTCTTAATATTTTAAT
* * *
156897 A-TACAA-TC-TAA-A--TGAAA
1 ACTAAAATTCTTAATATTTTAAT
156914 ACTAAAATTCTTAATATTTTAAT
1 ACTAAAATTCTTAATATTTTAAT
*
156937 AGTAAAAT
1 ACTAAAAT
156945 ATTATTTTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 18
0.66 0.11 0.24
Matches are distributed among these distances:
16 3 0.06
17 2 0.04
18 10 0.20
19 3 0.06
20 9 0.18
21 3 0.06
22 3 0.06
23 17 0.34
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (23 bp):
ACTAAAATTCTTAATATTTTAAT
Found at i:156921 original size:59 final size:58
Alignment explanation
Indices: 156851--156968 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 58
156841 AATAAATAGA
156851 GAAAACTAAAATTCTTAATATTTTAATACTAAAATATTATTTTTAAATACAATCTAAAT
1 GAAAACTAAAATTCTTAATATTTTAATACTAAAATATTA-TTTTAAATACAATCTAAAT
*
156910 GAAAACTAAAATTCTTAATATTTTAATAGTAAAATATTATTTTAAATACAATCTAAAT
1 GAAAACTAAAATTCTTAATATTTTAATACTAAAATATTATTTTAAATACAATCTAAAT
156968 G
1 G
156969 TTTTCTAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 20 0.34
59 38 0.66
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (58 bp):
GAAAACTAAAATTCTTAATATTTTAATACTAAAATATTATTTTAAATACAATCTAAAT
Found at i:168861 original size:31 final size:30
Alignment explanation
Indices: 168802--168931 Score: 102
Period size: 31 Copynumber: 4.3 Consensus size: 30
168792 ATTTTTCTAG
* * *
168802 ATATTAATAT-GAGATATTAAATTAAATTTA
1 ATATTAATCTAGATATATTTAATT-AATTTA
* * *
168832 ATATTGATCTAGACAGTATTTTATTAATTTA
1 ATATTAATCTAGATA-TATTTAATTAATTTA
* * * *
168863 ACATTAATAT-GATATATTAAATTTAATATA
1 ATATTAATCTAGATATATTTAA-TTAATTTA
* *
168893 ATATTTATCTAGATAATATTTCATTAATTTA
1 ATATTAATCTAGAT-ATATTTAATTAATTTA
168924 ATATTAAT
1 ATATTAAT
168932 GTGATTAATT
Statistics
Matches: 76, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
29 5 0.07
30 25 0.33
31 33 0.43
32 13 0.17
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (30 bp):
ATATTAATCTAGATATATTTAATTAATTTA
Found at i:168873 original size:61 final size:61
Alignment explanation
Indices: 168804--168931 Score: 184
Period size: 61 Copynumber: 2.1 Consensus size: 61
168794 TTTTCTAGAT
* * *
168804 ATTAATATGAGATATTAAATTAAATTTAATATTGATCTAGACAGTATTTTATTAATTTAAC
1 ATTAATATGAGATATTAAATTAAATATAATATTGATCTAGACAATATTTCATTAATTTAAC
* * * * *
168865 ATTAATATGATATATTAAATTTAATATAATATTTATCTAGATAATATTTCATTAATTTAAT
1 ATTAATATGAGATATTAAATTAAATATAATATTGATCTAGACAATATTTCATTAATTTAAC
168926 ATTAAT
1 ATTAAT
168932 GTGATTAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (61 bp):
ATTAATATGAGATATTAAATTAAATATAATATTGATCTAGACAATATTTCATTAATTTAAC
Found at i:170242 original size:6 final size:6
Alignment explanation
Indices: 170233--170308 Score: 134
Period size: 6 Copynumber: 12.7 Consensus size: 6
170223 TATCGCGCCG
* *
170233 TATACG TATACA TATACA TGTACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
170281 TATACA TATACA TATACA TATACA TATA
1 TATACA TATACA TATACA TATACA TATA
170309 ATTAGACAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (6 bp):
TATACA
Found at i:170532 original size:16 final size:16
Alignment explanation
Indices: 170511--170575 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
170501 TTCGCTGTAT
170511 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
170527 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
170543 TGGAATAGAGGAGTAA
1 TGGAATAGAGGCGTAA
170559 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
170575 T
1 T
170576 AGCAATTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.38, C:0.05, G:0.37, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:170650 original size:44 final size:45
Alignment explanation
Indices: 170557--170651 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
170547 ATAGAGGAGT
*
170557 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGG
* **
170602 AATGGAATAGAGGCGTAATAG-TATT-TTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAATGG
170646 AATGGA
1 AATGGA
170652 GGTGTGATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.35
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAATGG
Found at i:170829 original size:18 final size:17
Alignment explanation
Indices: 170808--170842 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
170798 TTATTATTAA
*
170808 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
170826 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
170843 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:178506 original size:24 final size:22
Alignment explanation
Indices: 178478--178524 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
178468 AGGCTTTTAT
178478 TTTTAAAACATAAATTTTTTAAAA
1 TTTT-AAA-ATAAATTTTTTAAAA
*
178502 TTTTAAAATATATTTTTTAAAA
1 TTTTAAAATAAATTTTTTAAAA
178524 T
1 T
178525 GTGTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.68
23 3 0.14
24 4 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAATAAATTTTTTAAAA
Found at i:182380 original size:11 final size:11
Alignment explanation
Indices: 182366--182393 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
182356 AAATGAGTAA
182366 TAAAATATTAT
1 TAAAATATTAT
182377 TAAAATATTAT
1 TAAAATATTAT
182388 TAAAAT
1 TAAAAT
182394 GAAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAAATATTAT
Found at i:182534 original size:25 final size:24
Alignment explanation
Indices: 182499--182559 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 24
182489 ATAGTTAAGC
*
182499 ATTATGAATGTGTTATAAATA-AT
1 ATTATGAATGTGTCATAAATACAT
182522 ATTTTATGAATGTGTCATAAATACAT
1 A--TTATGAATGTGTCATAAATACAT
182548 ATTATGAATGTG
1 ATTATGAATGTG
182560 ATTTCCAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 1 0.03
24 11 0.32
25 19 0.56
26 3 0.09
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (24 bp):
ATTATGAATGTGTCATAAATACAT
Found at i:182969 original size:27 final size:26
Alignment explanation
Indices: 182934--182991 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
182924 GATTTCATAC
*
182934 ATTAATTAA-GTTATTATCATTATTATT
1 ATTAATTAATGATATTAT-ATTATTA-T
*
182961 ATTAGTTAATTGATATTATATTATTAT
1 ATTAATTAA-TGATATTATATTATTAT
182988 ATTA
1 ATTA
182992 TGAAGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 13 0.48
28 7 0.26
29 7 0.26
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (26 bp):
ATTAATTAATGATATTATATTATTAT
Found at i:183312 original size:17 final size:18
Alignment explanation
Indices: 183280--183314 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
183270 AATAATAAAG
*
183280 TAAATAAACATAAAAGAA
1 TAAAGAAACATAAAAGAA
183298 TAAAGAAAC-TAAAAGAA
1 TAAAGAAACATAAAAGAA
183315 AAAAAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (18 bp):
TAAAGAAACATAAAAGAA
Found at i:183411 original size:14 final size:14
Alignment explanation
Indices: 183375--183404 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
183365 GGGAGAAAGG
*
183375 AAAGAAGAAAAGAA
1 AAAGAAAAAAAGAA
183389 AAAGAAAAAAAGAA
1 AAAGAAAAAAAGAA
183403 AA
1 AA
183405 GTAAAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAGAA
Found at i:184148 original size:36 final size:35
Alignment explanation
Indices: 184108--184200 Score: 107
Period size: 36 Copynumber: 2.5 Consensus size: 35
184098 TATATGTGTG
* *
184108 GAATTGAAATGAATAT-TGACTTGAAAATGGAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTGAAAATGAAAAAGT
*
184144 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATGAAAAAGT
184181 GAAATTGAATTGAATTGTGA
1 G-AATTGAATTGAATTGTGA
184201 ATTTGGAGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
36 19 0.38
37 16 0.32
38 15 0.30
ACGTcount: A:0.43, C:0.01, G:0.24, T:0.32
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:185681 original size:9 final size:9
Alignment explanation
Indices: 185667--185709 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
185657 AATTTTAAAA
185667 AAATTACAT
1 AAATTACAT
185676 AAATTACAT
1 AAATTACAT
185685 AAATTACAT
1 AAATTACAT
*
185694 AAATTAAAT
1 AAATTACAT
185703 ATAATTA
1 A-AATTA
185710 ATTATTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 27 0.84
10 5 0.16
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTACAT
Found at i:185690 original size:18 final size:18
Alignment explanation
Indices: 185661--185709 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
185651 CTGCATAATT
*
185661 TTAAAAAAATTACATAAA
1 TTAAATAAATTACATAAA
*
185679 TTACATAAATTACATAAA
1 TTAAATAAATTACATAAA
185697 TTAAATATAATTA
1 TTAAATA-AATTA
185710 ATTATTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATAAATTACATAAA
Found at i:186905 original size:45 final size:45
Alignment explanation
Indices: 186821--186906 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
186811 CACCGAAAAA
* * * * *
186821 TATAAATTTAAAATATATAAACAAATAATAAACAGAAAAAAGACT
1 TATAAATTTAAAATATATAAAAAAACAAAAAAAAAAAAAAAGACT
*
186866 TATACATTTAAAATATATAAAAAAACAAAAAAAAAAAAAAA
1 TATAAATTTAAAATATATAAAAAAACAAAAAAAAAAAAAAA
186907 CAAAAGGGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (45 bp):
TATAAATTTAAAATATATAAAAAAACAAAAAAAAAAAAAAAGACT
Found at i:188796 original size:10 final size:10
Alignment explanation
Indices: 188747--188794 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
188737 TAAACTCCCA
188747 AAAGATAAAT
1 AAAGATAAAT
* ** *
188757 ACATTTAATT
1 AAAGATAAAT
188767 AAAGATAAAT
1 AAAGATAAAT
188777 AAAGATAAAT
1 AAAGATAAAT
188787 AAA-ATAAA
1 AAAGATAAA
188795 ATCCTAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:188965 original size:219 final size:214
Alignment explanation
Indices: 188631--189064 Score: 789
Period size: 219 Copynumber: 2.0 Consensus size: 214
188621 AAATATGAGA
*
188631 AGAACAAAAGCCTAGACTTTTGGGGAGAGAGTGTTTACAAAAAAAGATCTTTTTGAGTCACTTCA
1 AGAACAAAAGCCTAAACTTTTGGGGAGAGAGTGTTTACAAAAAAAGATCTTTTTGAGTCACTTCA
188696 CCCCCTATTTATAGTGCTAGGGGAGATAGTCTAATCCTACTTAAACTCCCAAAAGATAAATACAT
66 CCCCCTATTTATAGTGCTAGGGGAGATAGTCTAATCCTACTTAAACTCCCAAAAGATAAATACAT
188761 TTAATTAAAGATAAATAAAGATAAATAAAATAAAATCCTAAAATTAAATAATTCTTTAATAATTA
131 TTAATTAAAGATAAATAAAGATAAATAAAATAAAATCCTAAAATTAAATAATTCTTTAATAATTA
188826 TCTTAATA-TAATTATCCT
196 TCTTAATATTAATTATCCT
*
188844 AGAACAAAAGCCTAAACTTTTGGGGAGAGAGTGTTTACAAAAAAAAGATGGATCTCTTTTGAGTT
1 AGAACAAAAGCCTAAACTTTTGGGGAGAGAGTGTTTAC--AAAAAA-A--GATCT-TTTTGAGTC
188909 ACTTCACCCCCTATTTATAGTGCTAGGGGAGATAGTCTAATCCTACTTAAACTCCCAAAAGATAA
60 ACTTCACCCCCTATTTATAGTGCTAGGGGAGATAGTCTAATCCTACTTAAACTCCCAAAAGATAA
188974 ATACATTTAATTAAAGATAAATAAAGATAAATAAAATAAAATCCTAAAATTAAATAATTCTTTAA
125 ATACATTTAATTAAAGATAAATAAAGATAAATAAAATAAAATCCTAAAATTAAATAATTCTTTAA
189039 TAATTATCTTAATATTAATTATCCT
190 TAATTATCTTAATATTAATTATCCT
189064 A
1 A
189065 ATATAATTAA
Statistics
Matches: 212, Mismatches: 2, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
213 37 0.17
215 6 0.03
216 1 0.00
218 5 0.02
219 152 0.72
220 11 0.05
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.32
Consensus pattern (214 bp):
AGAACAAAAGCCTAAACTTTTGGGGAGAGAGTGTTTACAAAAAAAGATCTTTTTGAGTCACTTCA
CCCCCTATTTATAGTGCTAGGGGAGATAGTCTAATCCTACTTAAACTCCCAAAAGATAAATACAT
TTAATTAAAGATAAATAAAGATAAATAAAATAAAATCCTAAAATTAAATAATTCTTTAATAATTA
TCTTAATATTAATTATCCT
Found at i:189015 original size:10 final size:10
Alignment explanation
Indices: 188966--189013 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
188956 TAAACTCCCA
188966 AAAGATAAAT
1 AAAGATAAAT
* ** *
188976 ACATTTAATT
1 AAAGATAAAT
188986 AAAGATAAAT
1 AAAGATAAAT
188996 AAAGATAAAT
1 AAAGATAAAT
189006 AAA-ATAAA
1 AAAGATAAA
189014 ATCCTAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:189059 original size:15 final size:14
Alignment explanation
Indices: 189038--189073 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
189028 TAATTCTTTA
*
189038 ATAATTATCTTAAT
1 ATAATTATCCTAAT
189052 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
189067 ATAATTA
1 ATAATTA
189074 AAATAAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:196167 original size:16 final size:16
Alignment explanation
Indices: 196146--196183 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
196136 TTTGGTTCGC
196146 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
196162 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
196178 CGTAAT
1 TGTAAT
196184 AGGGAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:198413 original size:48 final size:49
Alignment explanation
Indices: 198357--198459 Score: 154
Period size: 48 Copynumber: 2.1 Consensus size: 49
198347 AGAAAAAAAC
* * * * *
198357 AAATTAAAATTAAGTTTAATATCATGAATC-AAAGGTGAACACTTTATA
1 AAATTAAAAATAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
198405 AAATTAAAAATAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
1 AAATTAAAAATAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
198454 AAATTA
1 AAATTA
198460 TAACACATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 28 0.57
49 21 0.43
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (49 bp):
AAATTAAAAATAAGTTCAATATCATGAATCAAAAGCTCAACACTGTATA
Found at i:202973 original size:12 final size:12
Alignment explanation
Indices: 202956--202981 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
202946 AAAATCAATA
202956 ATATACATATAT
1 ATATACATATAT
202968 ATATACATATAT
1 ATATACATATAT
202980 AT
1 AT
202982 GGAAGTACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATACATATAT
Found at i:205041 original size:88 final size:88
Alignment explanation
Indices: 204940--205156 Score: 301
Period size: 88 Copynumber: 2.5 Consensus size: 88
204930 CTTCACCGTT
* * *
204940 GATGCAAGAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTGCAACAGAGGGAGGCAAGGCTGG
1 GATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACAGAGGGAGGCAAGGCTGG
205005 TGTCTTCGATCAGCTTCGCTGTC
66 TGTCTTCGATCAGCTTCGCTGTC
* * * * * *
205028 GATGCAGGAAGGCAAGATCTGCAATATTCAACCTGCTCCATTACAACCGAGGGAGGTAAGGCTTG
1 GATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACAGAGGGAGGCAAGGCTGG
* * *
205093 TGTCTTCGATCTGCTTTGTTGTC
66 TGTCTTCGATCAGCTTCGCTGTC
* *
205116 GATGCAGGAAGGCAAGATCTGTTATCTTTAACCT-CTCCACT
1 GATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACT
205157 TAGTCAAATT
Statistics
Matches: 112, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 6 0.05
88 106 0.95
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (88 bp):
GATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACAGAGGGAGGCAAGGCTGG
TGTCTTCGATCAGCTTCGCTGTC
Found at i:207173 original size:28 final size:28
Alignment explanation
Indices: 207115--207176 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
207105 ATTTTTTGAC
* * *
207115 TTTGATTTTGATTTTTTTTCTTTTTTCT
1 TTTGATTTTGATTTTTTTCCCTATTTCT
*
207143 TTTGATTTTGATTTTTCTTCCCTATTTTT
1 TTTGATTTTGATTTTT-TTCCCTATTTCT
207172 TTTGA
1 TTTGA
207177 ATTGGATCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.73
Consensus pattern (28 bp):
TTTGATTTTGATTTTTTTCCCTATTTCT
Found at i:211337 original size:12 final size:12
Alignment explanation
Indices: 211320--211345 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
211310 AAAATCAATA
211320 ATATACATATAT
1 ATATACATATAT
211332 ATATACATATAT
1 ATATACATATAT
211344 AT
1 AT
211346 GAAAGTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATACATATAT
Found at i:216300 original size:26 final size:26
Alignment explanation
Indices: 216236--216300 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
216226 AGAAACAACC
* *
216236 ATAAAAATAAAAATATAGTTCAAAAG
1 ATAAAAATAAAAATATAGTTAAAAAA
216262 ATAAGAAAT-AAAATA-AGTCTAAAAAA
1 ATAA-AAATAAAAATATAGT-TAAAAAA
*
216288 ATAACAATAAAAA
1 ATAAAAATAAAAA
216301 CAACTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 6 0.18
26 23 0.70
27 4 0.12
ACGTcount: A:0.69, C:0.05, G:0.06, T:0.20
Consensus pattern (26 bp):
ATAAAAATAAAAATATAGTTAAAAAA
Found at i:216312 original size:22 final size:21
Alignment explanation
Indices: 216284--216357 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 21
216274 ATAAGTCTAA
216284 AAAAATAACAATAAAAACAACT
1 AAAAATAACAATAAAAACAA-T
*
216306 AAAAATATCAAT--AAAC-AT
1 AAAAATAACAATAAAAACAAT
*
216324 AAACATAA-AATAAAAACAA-
1 AAAAATAACAATAAAAACAAT
*
216343 AAACA-AA-AATAAAAA
1 AAAAATAACAATAAAAA
216358 GAAAAAGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
17 3 0.07
18 17 0.37
19 10 0.22
20 5 0.11
22 11 0.24
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAAATAACAATAAAAACAAT
Found at i:216339 original size:6 final size:6
Alignment explanation
Indices: 216284--216380 Score: 56
Period size: 6 Copynumber: 16.7 Consensus size: 6
216274 ATAAGTCTAA
* * * ** * *
216284 AAAAAT AACAAT -AAAA- ACAACT AAAAAT ATCAAT AAACAT AAACAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * * * * *
216330 -AAAAT AAAAAC AAAAAC AAAAAT AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
216377 AAAA
1 AAAA
216381 CAAATAAACT
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
5 9 0.12
6 64 0.88
ACGTcount: A:0.77, C:0.08, G:0.04, T:0.10
Consensus pattern (6 bp):
AAAAAT
Found at i:216353 original size:18 final size:18
Alignment explanation
Indices: 216318--216384 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
216308 AAATATCAAT
*
216318 AAACATAAACATAAAATAA
1 AAACAAAAACA-AAAATAA
216337 AAACAAAAACAAAAATAA
1 AAACAAAAACAAAAATAA
* * *
216355 AAAGAAAAAGAAAAAGAA
1 AAACAAAAACAAAAATAA
*
216373 AAA-GAAAACAAA
1 AAACAAAAACAAA
216385 TAAACTCAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
17 7 0.17
18 25 0.60
19 10 0.24
ACGTcount: A:0.81, C:0.07, G:0.06, T:0.06
Consensus pattern (18 bp):
AAACAAAAACAAAAATAA
Found at i:216362 original size:12 final size:12
Alignment explanation
Indices: 216330--216380 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
216320 ACATAAACAT
* *
216330 AAAATAAAAACA
1 AAAAGAAAAAGA
* *
216342 AAAACAAAAATA
1 AAAAGAAAAAGA
216354 AAAAGAAAAAGA
1 AAAAGAAAAAGA
216366 AAAAGAAAAAGA
1 AAAAGAAAAAGA
216378 AAA
1 AAA
216381 CAAATAAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.84, C:0.04, G:0.08, T:0.04
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:218054 original size:14 final size:14
Alignment explanation
Indices: 218035--218090 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
218025 AGAAAATGAT
218035 AACAAATAAT-AATA
1 AACAAA-AATAAATA
218049 AAC--AAAT-AATA
1 AACAAAAATAAATA
218060 AACAAATAATAAATA
1 AACAAA-AATAAATA
*
218075 AATAAAAATAAATA
1 AACAAAAATAAATA
218089 AA
1 AA
218091 AGAGAAGGGC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 1 0.03
13 1 0.03
14 16 0.43
15 9 0.24
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (14 bp):
AACAAAAATAAATA
Found at i:218058 original size:11 final size:11
Alignment explanation
Indices: 218042--218089 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
218032 GATAACAAAT
218042 AATAATAAACA
1 AATAATAAACA
218053 AATAATAAACA
1 AATAATAAACA
*
218064 AATAATAAATA
1 AATAATAAACA
*
218075 AATAA-AAATA
1 AATAATAAACA
218085 AATAA
1 AATAA
218090 AAGAGAAGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
10 10 0.28
11 26 0.72
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (11 bp):
AATAATAAACA
Found at i:218067 original size:25 final size:25
Alignment explanation
Indices: 218035--218086 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
218025 AGAAAATGAT
218035 AACAAATAAT-AATAAACAAATAATA
1 AACAAATAATAAATAAACAAA-AATA
*
218060 AACAAATAATAAATAAATAAAAATA
1 AACAAATAATAAATAAACAAAAATA
218085 AA
1 AA
218087 TAAAAGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (25 bp):
AACAAATAATAAATAAACAAAAATA
Found at i:221869 original size:50 final size:50
Alignment explanation
Indices: 221794--221929 Score: 209
Period size: 50 Copynumber: 2.7 Consensus size: 50
221784 ATTTGGGTAA
221794 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
** *
221844 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
** *
221894 AGAACATCCCATGTAAGACCTTGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
221930 TTTGGCATGT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 49 0.62
51 30 0.38
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
Found at i:222654 original size:16 final size:18
Alignment explanation
Indices: 222625--222658 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
222615 AAACTAAAAT
222625 AGAGAGTTTAGGATTTTG
1 AGAGAGTTTAGGATTTTG
222643 AGAG-GTTT-GGATTTTG
1 AGAGAGTTTAGGATTTTG
222659 GTGGAAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (18 bp):
AGAGAGTTTAGGATTTTG
Found at i:225502 original size:59 final size:56
Alignment explanation
Indices: 225344--225507 Score: 129
Period size: 63 Copynumber: 2.8 Consensus size: 56
225334 TGATACAATC
*
225344 ATAAGAATATTTAACACTAAGAATTTTATTAAATTATA-TATTTTTGTTAAATTAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATTATTTTTGTTAAATTAT
* * * * * * *
225399 ATTTAATAATAATTATTTCAAATTATATTTTA-TAGTATTATATATTATGATTTTAG-TAAATTC
1 A--TAAGAATATTTAATACTAA-GA-ATTTTATTA--AAT-TATATTAT--TTTT-GTTAAATT-
225462 AT
55 AT
225464 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATA-TATTTT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATTATTTT
225508 AATTAAAATA
Statistics
Matches: 81, Mismatches: 15, Indels: 25
0.67 0.12 0.21
Matches are distributed among these distances:
55 1 0.01
56 3 0.04
57 13 0.16
58 6 0.07
59 10 0.12
60 4 0.05
61 10 0.12
62 6 0.07
63 14 0.17
64 10 0.12
65 4 0.05
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (56 bp):
ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATTATTTTTGTTAAATTAT
Found at i:225520 original size:16 final size:17
Alignment explanation
Indices: 225486--225524 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
225476 AATACTAAGA
225486 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
225503 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
225519 ATTTTA
1 ATTTTA
225525 TAATAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:225528 original size:18 final size:18
Alignment explanation
Indices: 225486--225520 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
225476 AATACTAAGA
*
225486 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
225503 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
225521 TTTATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:225762 original size:45 final size:44
Alignment explanation
Indices: 225677--225772 Score: 131
Period size: 45 Copynumber: 2.2 Consensus size: 44
225667 ATTACACCTC
*
225677 CATTCCATTCAACCAAACACAAGAATACTATTACGCCTCTATTA
1 CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTA
* * *
225721 CATTACATTCAACCAAACA-ATTGAATTGCTATTACGCCTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTA
225766 CATTACA
1 CATTACA
225773 GCGAACCTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 24 0.52
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTATTACGCCTCTATTA
Found at i:232330 original size:12 final size:12
Alignment explanation
Indices: 232300--232350 Score: 68
Period size: 12 Copynumber: 4.2 Consensus size: 12
232290 AAAAGAAAAA
232300 AAAAATTAGAACGT
1 AAAAATTA-AAC-T
232314 AAAAATTAAACT
1 AAAAATTAAACT
*
232326 AAAAA-TAAAAT
1 AAAAATTAAACT
232337 AAAAATTAAACT
1 AAAAATTAAACT
232349 AA
1 AA
232351 TAAAACTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 10 0.29
12 13 0.38
13 3 0.09
14 8 0.24
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.22
Consensus pattern (12 bp):
AAAAATTAAACT
Found at i:233570 original size:24 final size:24
Alignment explanation
Indices: 233543--233597 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
233533 CTGCACCACC
233543 ACCTCTCCCTACTGGATCGAGGCA
1 ACCTCTCCCTACTGGATCGAGGCA
233567 ACCTCTCCCTACTGGATCGAGGCA
1 ACCTCTCCCTACTGGATCGAGGCA
233591 ACCTCTC
1 ACCTCTC
233598 ACTTCTTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.20, C:0.40, G:0.18, T:0.22
Consensus pattern (24 bp):
ACCTCTCCCTACTGGATCGAGGCA
Found at i:235714 original size:27 final size:27
Alignment explanation
Indices: 235684--235804 Score: 79
Period size: 27 Copynumber: 4.5 Consensus size: 27
235674 AACTACCCCA
235684 TGTTTACTGTCCCAACGAACTACCATG
1 TGTTTACTGTCCCAACGAACTACCATG
* * * * **
235711 TGTTTATTG-ACTAGGCGAACTACCCCG
1 TGTTTACTGTCCCA-ACGAACTACCATG
*
235738 TGTTTACTATCCC-A-GTAGACTATCC-TG
1 TGTTTACTGTCCCAACG-A-ACTA-CCATG
* * * *
235765 TATTTACTATCCTAACGAACTATCATG
1 TGTTTACTGTCCCAACGAACTACCATG
235792 TGTTTACTGTCCC
1 TGTTTACTGTCCC
235805 GGTGAACTAT
Statistics
Matches: 68, Mismatches: 18, Indels: 16
0.67 0.18 0.16
Matches are distributed among these distances:
25 1 0.01
26 4 0.06
27 57 0.84
28 5 0.07
29 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (27 bp):
TGTTTACTGTCCCAACGAACTACCATG
Found at i:235927 original size:9 final size:9
Alignment explanation
Indices: 235913--235943 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
235903 GTTAAACGAA
235913 TCGAGTTAT
1 TCGAGTTAT
*
235922 TCGAGTTAA
1 TCGAGTTAT
235931 TCGAGTTAT
1 TCGAGTTAT
235940 TCGA
1 TCGA
235944 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:236211 original size:28 final size:28
Alignment explanation
Indices: 236177--236236 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
236167 AAAATTTTAC
*
236177 TCCCAAAAACCCTCAAAACCTTTTACTT
1 TCCCAAAAACCCGCAAAACCTTTTACTT
*
236205 TCCCAAAACCCCGCAAAACCTTTTACTT
1 TCCCAAAAACCCGCAAAACCTTTTACTT
236233 TCCC
1 TCCC
236237 CCAAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.40, G:0.02, T:0.27
Consensus pattern (28 bp):
TCCCAAAAACCCGCAAAACCTTTTACTT
Found at i:239956 original size:31 final size:31
Alignment explanation
Indices: 239921--239979 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
239911 AACAAAACAG
239921 AATGCCAAAGTGGTATTGATTTTCAACTCAA
1 AATGCCAAAGTGGTATTGATTTTCAACTCAA
239952 AATGCCAAAGTGGTATTGATTTTCAACT
1 AATGCCAAAGTGGTATTGATTTTCAACT
239980 GAGTATTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (31 bp):
AATGCCAAAGTGGTATTGATTTTCAACTCAA
Found at i:241380 original size:10 final size:9
Alignment explanation
Indices: 241337--241376 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
241327 TATACCTTAA
241337 TTAACTTAGT
1 TTAA-TTAGT
*
241347 TTAATTAAT
1 TTAATTAGT
241356 TTAATCTAGT
1 TTAAT-TAGT
241366 TTAATTAGT
1 TTAATTAGT
241375 TT
1 TT
241377 TAATAACATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 15 0.56
10 12 0.44
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (9 bp):
TTAATTAGT
Found at i:249925 original size:3 final size:3
Alignment explanation
Indices: 249900--249957 Score: 66
Period size: 3 Copynumber: 19.3 Consensus size: 3
249890 GTTATCTTTG
*
249900 TTA TTA -TA TTA TATA TTA CTA TTA TTA TTA -TA TTA CTTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
249945 TTT TTA TTA TTA T
1 TTA TTA TTA TTA T
249958 ATACATTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:249930 original size:24 final size:24
Alignment explanation
Indices: 249900--249954 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
249890 GTTATCTTTG
249900 TTATTATATTA-TATATTACTATTA
1 TTATTATATTACT-TATTACTATTA
* *
249924 TTATTATATTACTTATTATTATTT
1 TTATTATATTACTTATTACTATTA
249948 TTATTAT
1 TTATTAT
249955 TATATACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TTATTATATTACTTATTACTATTA
Found at i:255386 original size:1 final size:1
Alignment explanation
Indices: 255380--255492 Score: 64
Period size: 1 Copynumber: 113.0 Consensus size: 1
255370 GATTCAGTTC
* * * * * * * * *
255380 AAAAAAAAGAGAAAAAAACAAAAAAACAAAAAAACAAAAAAAAGAAAAAAAGAGAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * *
255445 AGAGAACAAAAAAGAACAAAAAACAAAAAAACAAAAAGAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
255493 CCTCTACCGG
Statistics
Matches: 76, Mismatches: 36, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:255402 original size:8 final size:8
Alignment explanation
Indices: 255391--255492 Score: 89
Period size: 8 Copynumber: 11.8 Consensus size: 8
255381 AAAAAAAGAG
255391 AAAAAAAC
1 AAAAAAAC
255399 AAAAAAAC
1 AAAAAAAC
255407 AAAAAAAC
1 AAAAAAAC
*
255415 AAAAAAAAG
1 -AAAAAAAC
*
255424 AAAAAAAG
1 AAAAAAAC
*
255432 AGAAAAAAGA
1 A-AAAAAA-C
255442 AAAAGAGAAC
1 AAAA-A-AAC
255452 AAAAAAGA-
1 AAAAAA-AC
255460 ACAAAAAAC
1 A-AAAAAAC
255469 AAAAAAAC
1 AAAAAAAC
255477 AAAAAGAAAC
1 -AAAA-AAAC
255487 AAAAAA
1 AAAAAA
255493 CCTCTACCGG
Statistics
Matches: 81, Mismatches: 3, Indels: 20
0.78 0.03 0.19
Matches are distributed among these distances:
8 37 0.46
9 32 0.40
10 10 0.12
11 2 0.02
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:255404 original size:17 final size:16
Alignment explanation
Indices: 255382--255492 Score: 98
Period size: 17 Copynumber: 6.4 Consensus size: 16
255372 TTCAGTTCAA
255382 AAAAAAGAGAAAAAAAC
1 AAAAAA-AGAAAAAAAC
*
255399 AAAAAAACAAAAAAAC
1 AAAAAAAGAAAAAAAC
*
255415 AAAAAAAAGAAAAAAAG
1 -AAAAAAAGAAAAAAAC
255432 AGAAAAAAGAAAAAGAGA-
1 A-AAAAAAGAAAAA-A-AC
255450 ACAAAAAAGAACAAAAAAC
1 A-AAAAAAG-A-AAAAAAC
*
255469 AAAAAAACAAAAAGAAAC
1 AAAAAAA-GAAAA-AAAC
255487 AAAAAA
1 AAAAAA
255493 CCTCTACCGG
Statistics
Matches: 80, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
16 10 0.12
17 35 0.44
18 27 0.34
19 4 0.05
20 4 0.05
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAAAC
Found at i:255430 original size:35 final size:35
Alignment explanation
Indices: 255379--255492 Score: 131
Period size: 35 Copynumber: 3.2 Consensus size: 35
255369 AGATTCAGTT
*
255379 CAAAAAAAAGAGAAAAAAACAAAAAAACAAAAAAA
1 CAAAAAAAAGAAAAAAAAACAAAAAAACAAAAAAA
* * * *
255414 CAAAAAAAAGAAAAAAAGA-GAAAAAAGAAAAAGA
1 CAAAAAAAAGAAAAAAAAACAAAAAAACAAAAAAA
* *
255448 GAACAAAAAAGAACAAAAAACAAAAAAACAAAAAGAAA
1 CAA-AAAAAAGAAAAAAAAACAAAAAAAC-AAAA-AAA
255486 CAAAAAA
1 CAAAAAA
255493 CCTCTACCGG
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
34 14 0.22
35 31 0.49
36 6 0.10
37 8 0.13
38 4 0.06
ACGTcount: A:0.83, C:0.08, G:0.09, T:0.00
Consensus pattern (35 bp):
CAAAAAAAAGAAAAAAAAACAAAAAAACAAAAAAA
Found at i:255493 original size:25 final size:25
Alignment explanation
Indices: 255383--255493 Score: 103
Period size: 25 Copynumber: 4.7 Consensus size: 25
255373 TCAGTTCAAA
*
255383 AAAAAGAGA-AAAAAACAAAAAAAC
1 AAAAAGAAACAAAAAACAAAAAAAC
*
255407 -AAAA-AAACAAAAAA-AAGAAAA-
1 AAAAAGAAACAAAAAACAAAAAAAC
* * *
255428 AAAGAGAAA-AAAGAAA-AAGAGAAC
1 AAAAAGAAACAAA-AAACAAAAAAAC
255452 AAAAA-AGAACAAAAAACAAAAAAAC
1 AAAAAGA-AACAAAAAACAAAAAAAC
255477 AAAAAGAAACAAAAAAC
1 AAAAAGAAACAAAAAAC
255494 CTCTACCGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
22 14 0.20
23 23 0.32
24 9 0.13
25 24 0.34
26 1 0.01
ACGTcount: A:0.83, C:0.08, G:0.09, T:0.00
Consensus pattern (25 bp):
AAAAAGAAACAAAAAACAAAAAAAC
Found at i:257223 original size:44 final size:43
Alignment explanation
Indices: 257154--257366 Score: 137
Period size: 44 Copynumber: 4.9 Consensus size: 43
257144 CCTGGTTGGC
**
257154 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATT
1 AGTGGAATAGATTGAAGATGGCAGATCTTATCTCCCT-GGCATT
* * * * *
257198 AGTGGAACAGATCGAAGATGGCAGATTTTACCTCCCTGTG-GTT
1 AGTGGAATAGATTGAAGATGGCAGATCTTATCTCCCTG-GCATT
* * * ** * *
257241 ACAATGGAGTACATTGAAG-CCGTA-AT-TCTATCTCCCTGGTCAGT
1 --AGTGGAATAGATTGAAGATGGCAGATCT-TATCTCCCTGG-CATT
* **
257285 AGTGGAATAGATTGAATATTTCAGATCTTATCTCCCTAGGCATT
1 AGTGGAATAGATTGAAGATGGCAGATCTTATCTCCCT-GGCATT
** * * *
257329 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTG
1 AGTGGAATAGATTGAAGATGGCAGATCTTATCTCCCTG
257367 TGGTTACAGT
Statistics
Matches: 124, Mismatches: 35, Indels: 21
0.69 0.19 0.12
Matches are distributed among these distances:
42 15 0.12
43 16 0.13
44 78 0.63
45 15 0.12
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (43 bp):
AGTGGAATAGATTGAAGATGGCAGATCTTATCTCCCTGGCATT
Found at i:257365 original size:131 final size:131
Alignment explanation
Indices: 257131--257774 Score: 970
Period size: 131 Copynumber: 4.9 Consensus size: 131
257121 NNNNNNNNNN
* *
257131 GTAATTCTATCCCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
1 GTAATTCTATCTCCCTGGTTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
* *
257196 TTAGTGGAACAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGC
66 TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
257261 C
131 C
* * *
257262 GTAATTCTATCTCCCTGGTCAGTAGTGGAATAGATTGAATATTTCAGATCTTATCTCCCTAGGCA
1 GTAATTCTATCTCCCTGGTTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
257327 TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
66 TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
257392 C
131 C
* * * *
257393 GTAATTCTATCTCCCTGGTTAGCAGCGGAATAGGTTGAAGATTTCAGATCTTATCCCCCTAAGCA
1 GTAATTCTATCTCCCTGGTTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
* * *
257458 GTAGTGGAGCAGGTCAAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
66 TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
257523 C
131 C
* *
257524 GTAATTCTATCTCCCTGGTTAGCAGCGGAATAGGTTGAAGATTTCAGATCTTATCTCCCTAGGCA
1 GTAATTCTATCTCCCTGGTTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
* *
257589 TTAGTGGAGCAGATCGAAGATGGCGGATTTTACCT-CCTCGTAGTTACAGTGGAGTACATTGAAG
66 TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCT-GTGGTTACAGTGGAGTACATTGAAG
257653 CC
130 CC
** * *
257655 AGTAATTCTA-CTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTGTCT-CCTCAA
1 -GTAATTCTATC-TCCCTGGTTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AG
* * * * * **
257718 GCAGTAGTGGAGCAGGTCAAAGATAGCAGATTGTACCTCCCTGAAGTTACAGTGGAG
63 GCATTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAG
257775 CAGACTGAAT
Statistics
Matches: 471, Mismatches: 37, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
130 3 0.01
131 369 0.78
132 96 0.20
133 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (131 bp):
GTAATTCTATCTCCCTGGTTAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
C
Found at i:257581 original size:44 final size:44
Alignment explanation
Indices: 257400--257583 Score: 117
Period size: 44 Copynumber: 4.2 Consensus size: 44
257390 GCCGTAATTC
*
257400 TATCTCCCTGGTTAGCAGCGGAATAGGTTGAAGATTTCAGATCT
1 TATCTCCCTGGTTAGCAGCGGAATAGGTTGAAGATGTCAGATCT
* * * * * ** ** * *
257444 TATCCCCCTAAG-CAGTAGTGGAGCAGGTCAAAGATGGCAGATTT
1 TATCTCCCT-GGTTAGCAGCGGAATAGGTTGAAGATGTCAGATCT
* * * ** **
257488 TACCTCCCTGTGGTTA-CAGTGGAGTACATTGAAGCCGT-A-AT-T
1 TATCTCCC--TGGTTAGCAGCGGAATAGGTTGAAGATGTCAGATCT
*
257530 CTATCTCCCTGGTTAGCAGCGGAATAGGTTGAAGATTTCAGATCT
1 -TATCTCCCTGGTTAGCAGCGGAATAGGTTGAAGATGTCAGATCT
257575 TATCTCCCT
1 TATCTCCCT
257584 AGGCATTAGT
Statistics
Matches: 98, Mismatches: 33, Indels: 18
0.66 0.22 0.12
Matches are distributed among these distances:
41 6 0.06
42 16 0.16
43 10 0.10
44 48 0.49
45 16 0.16
46 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGGTTAGCAGCGGAATAGGTTGAAGATGTCAGATCT
Found at i:268413 original size:10 final size:10
Alignment explanation
Indices: 268398--268422 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
268388 GTTGATTGGT
268398 TGATTGACTG
1 TGATTGACTG
268408 TGATTGACTG
1 TGATTGACTG
268418 TGATT
1 TGATT
268423 CCTTTGCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (10 bp):
TGATTGACTG
Found at i:268908 original size:9 final size:10
Alignment explanation
Indices: 268879--268923 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
268869 TTTACATACA
268879 TAATAAATA-
1 TAATAAATAT
*
268888 TAA-ATATAT
1 TAATAAATAT
268897 TAATAAAT-T
1 TAATAAATAT
268906 TAATAAATAT
1 TAATAAATAT
268916 ATAATAAA
1 -TAATAAA
268924 GCTTGCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 4 0.13
9 15 0.50
10 4 0.13
11 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATAAATAT
Found at i:271430 original size:15 final size:14
Alignment explanation
Indices: 271403--271442 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
271393 AAAATAAATG
271403 TTTAAATTTTTTAGTT
1 TTTAAA-TTTTTA-TT
271419 TTTAAATTTTTATT
1 TTTAAATTTTTATT
*
271433 TTTTAATTTT
1 TTTAAATTTT
271443 AAGAATAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.48
15 6 0.26
16 6 0.26
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
TTTAAATTTTTATT
Found at i:271936 original size:16 final size:16
Alignment explanation
Indices: 271911--271946 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
271901 AGGATTACCT
271911 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
271927 ATTACTCCTCTATTCC
1 ATTACGCCTCTATTCC
271943 ATTA
1 ATTA
271947 TAGTGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.33, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Done.