Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 56 of 313
Found at i:18835491 original size:21 final size:20
Alignment explanation
Indices: 18835450--18835508 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
18835440 TTTCCTCTTC
18835450 ATTCCCTCTTCATTCCCAAA
1 ATTCCCTCTTCATTCCCAAA
* *
18835470 ATTCCCTCTTCCGTTTCCAAA
1 ATTCCCTCTT-CATTCCCAAA
*
18835491 ATTCCCTCTTAATTCCCA
1 ATTCCCTCTTCATTCCCA
18835509 GGTTATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.22, C:0.39, G:0.02, T:0.37
Consensus pattern (20 bp):
ATTCCCTCTTCATTCCCAAA
Found at i:18837447 original size:42 final size:42
Alignment explanation
Indices: 18837330--18837478 Score: 149
Period size: 42 Copynumber: 3.5 Consensus size: 42
18837320 AGGGTTACTA
* * * * * *
18837330 AGACTACGTGTTAGACCATATTTAGGATATGGGATCAATATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
18837372 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
1 AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
* * * *
18837414 AGACTTCGT-TAAGACCATAGT-TGGGCTATTGGCATCGATACG
1 AGACTACATGTAAGACCATA-TCTGGGATA-TGGCATCGATATG
* * *
18837456 AGATTAAATGTAAGACTATATCT
1 AGACTACATGTAAGACCATATCT
18837479 ACTATAGGAC
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
41 16 0.18
42 62 0.70
43 10 0.11
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (42 bp):
AGACTACATGTAAGACCATATCTGGGATATGGCATCGATATG
Found at i:18842799 original size:20 final size:21
Alignment explanation
Indices: 18842748--18842799 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
18842738 ATGTGGTCAC
18842748 ACAC-GCCTGTGTGGCTTGTG
1 ACACTGCCTGTGTGGCTTGTG
*
18842768 ACACT-CCCGTGTGGCTTGTG
1 ACACTGCCTGTGTGGCTTGTG
18842788 ACA-TGCCTGTGT
1 ACACTGCCTGTGT
18842800 CCTCAGTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.31
Consensus pattern (21 bp):
ACACTGCCTGTGTGGCTTGTG
Found at i:18844262 original size:90 final size:90
Alignment explanation
Indices: 18844070--18844241 Score: 236
Period size: 90 Copynumber: 1.9 Consensus size: 90
18844060 ACCAAATAGG
* *
18844070 GTGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCACACATCGATGCCATATCCCAGATA
1 GTGCCGAAGCCATGTCCCAAACATGGTCTTACACGGGACCACACATCGATGCCATATCCCAGATA
* *
18844135 TTGTCTTATACGAAGTCTCAAATCA
66 TGGTCTTATACGAAATCTCAAATCA
* * ** * * * *
18844160 GTGCCGACGCCATGTCCCAGACATGGTCTTACACGGGACTTCATATCGATGCCATGTCCTAGGTA
1 GTGCCGAAGCCATGTCCCAAACATGGTCTTACACGGGACCACACATCGATGCCATATCCCAGATA
18844225 TGGTCTTATACGAAATC
66 TGGTCTTATACGAAATC
18844242 ATTTATCGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (90 bp):
GTGCCGAAGCCATGTCCCAAACATGGTCTTACACGGGACCACACATCGATGCCATATCCCAGATA
TGGTCTTATACGAAATCTCAAATCA
Found at i:18844324 original size:48 final size:48
Alignment explanation
Indices: 18844245--18844337 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
18844235 CGAAATCATT
** *
18844245 TATCGATGCTGAAGCCATATCCTTGATATGGT-ATTACACAGGATCGCA
1 TATCGATGCTGAAGCCATATCCCAGACATGGTCA-TACACAGGATCGCA
* * *
18844293 TATCGATGCTGATGCCATGTCCCAGACATGGTCATACACGGGATC
1 TATCGATGCTGAAGCCATATCCCAGACATGGTCATACACAGGATC
18844338 TCGTTAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 37 0.97
49 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (48 bp):
TATCGATGCTGAAGCCATATCCCAGACATGGTCATACACAGGATCGCA
Found at i:18855791 original size:28 final size:27
Alignment explanation
Indices: 18855746--18855848 Score: 133
Period size: 28 Copynumber: 3.9 Consensus size: 27
18855736 CTCTTTGGTA
18855746 GGTGTGTTTTGGATGGATTATATTATTCT
1 GGTGTGTTTTGGA-GGATTATATTA-TCT
* *
18855775 GGTGTGTTTGGGAGGATTATATGATACT
1 GGTGTGTTTTGGAGGATTATATTAT-CT
18855803 GGTGTGTTTTGGAGGA-T-TA-TA-CT
1 GGTGTGTTTTGGAGGATTATATTATCT
18855826 GGTGTGTTTTGGAGGATTATATT
1 GGTGTGTTTTGGAGGATTATATT
18855849 GGTGTGTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
23 18 0.27
24 1 0.02
25 3 0.05
26 3 0.05
27 2 0.03
28 27 0.41
29 12 0.18
ACGTcount: A:0.18, C:0.03, G:0.33, T:0.46
Consensus pattern (27 bp):
GGTGTGTTTTGGAGGATTATATTATCT
Found at i:18855824 original size:23 final size:23
Alignment explanation
Indices: 18855798--18855860 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
18855788 GGATTATATG
18855798 ATACTGGTGTGTTTTGGAGGATT
1 ATACTGGTGTGTTTTGGAGGATT
18855821 ATACTGGTGTGTTTTGGAGGATT
1 ATACTGGTGTGTTTTGGAGGATT
*
18855844 ATATTGGTGTGTTTTGG
1 ATACTGGTGTGTTTTGG
18855861 TTGGACATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.16, C:0.03, G:0.35, T:0.46
Consensus pattern (23 bp):
ATACTGGTGTGTTTTGGAGGATT
Found at i:18855873 original size:23 final size:23
Alignment explanation
Indices: 18855802--18855880 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
18855792 TATATGATAC
* *
18855802 TGGTGTGTTTTGGAGGATTATAC
1 TGGTGTGTTTTGGAGGATCATAT
*
18855825 TGGTGTGTTTTGGAGGATTATAT
1 TGGTGTGTTTTGGAGGATCATAT
* *
18855848 TGGTGTGTTTTGGTTGGA-CATTT
1 TGGTGTGTTTTGG-AGGATCATAT
18855871 TGGTGTGTTT
1 TGGTGTGTTT
18855881 GGATGGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 48 0.94
24 3 0.06
ACGTcount: A:0.13, C:0.03, G:0.35, T:0.49
Consensus pattern (23 bp):
TGGTGTGTTTTGGAGGATCATAT
Found at i:18856088 original size:22 final size:23
Alignment explanation
Indices: 18856051--18856095 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
18856041 GCTTTACTGA
18856051 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
18856074 TCAGGCAC-TTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
18856096 CTGATCAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:18858682 original size:27 final size:27
Alignment explanation
Indices: 18858652--18858758 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
18858642 AATACTCTCA
18858652 ATTTGTAAAATTG-CCGAAATACCCTTG
1 ATTTGTAAAA-TGACCGAAATACCCTTG
* *
18858679 ATTTGTAAAATTACTGAAATACCCTTG
1 ATTTGTAAAATGACCGAAATACCCTTG
* * * *
18858706 GTCTGTAAAATGATCGTAATACCCTTG
1 ATTTGTAAAATGACCGAAATACCCTTG
**
18858733 -TGGGTAAAATGACCGAAATACCCTTG
1 ATTTGTAAAATGACCGAAATACCCTTG
18858759 TAGTGCAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
26 23 0.34
27 44 0.66
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (27 bp):
ATTTGTAAAATGACCGAAATACCCTTG
Found at i:18858796 original size:80 final size:80
Alignment explanation
Indices: 18858656--18858811 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
18858646 CTCTCAATTT
* * * * * * *
18858656 GTAAAATTGCCGAAATACCCTTGATTTGTAAAATTACTGAAATACCCTTGGTCTGTAAAATGATC
1 GTAAAATTGCCGAAATACCCTTGATGTGCAAAATTACTAAAATACCCTTGATCAGCAAAATGACC
18858721 GTAATACCCTTGTGG
66 GTAATACCCTTGTGG
*
18858736 GTAAAA-TGACCGAAATACCCTTG-TAGTGCAAAATTACTAAAATACCCTT-ATAGAGCAAAATG
1 GTAAAATTG-CCGAAATACCCTTGAT-GTGCAAAATTACTAAAATACCCTTGAT-CAGCAAAATG
18858798 ACCGTAATACCCTT
63 ACCGTAATACCCTT
18858812 ATATGGTAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 4 0.06
80 61 0.94
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (80 bp):
GTAAAATTGCCGAAATACCCTTGATGTGCAAAATTACTAAAATACCCTTGATCAGCAAAATGACC
GTAATACCCTTGTGG
Found at i:18858806 original size:27 final size:27
Alignment explanation
Indices: 18858712--18858814 Score: 100
Period size: 27 Copynumber: 3.9 Consensus size: 27
18858702 CTTGGTCTGT
* * * * *
18858712 AAAATGATCGTAATACCCTTGT-GGGT
1 AAAATGACCGAAATACCCTTATAGAGC
* *
18858738 AAAATGACCGAAATACCCTTGTAGTGC
1 AAAATGACCGAAATACCCTTATAGAGC
* **
18858765 AAAATTACTAAAATACCCTTATAGAGC
1 AAAATGACCGAAATACCCTTATAGAGC
*
18858792 AAAATGACCGTAATACCCTTATA
1 AAAATGACCGAAATACCCTTATA
18858815 TGGTAATATG
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 20 0.32
27 43 0.68
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTTATAGAGC
Found at i:18858992 original size:27 final size:28
Alignment explanation
Indices: 18858962--18859015 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
18858952 TTGGAGGAAG
18858962 TACTG-TATAATGGCTTTGCCACGTTTT
1 TACTGTTATAATGGCTTTGCCACGTTTT
* **
18858989 TACTGTTCTGGTGGCTTTGCCACGTTT
1 TACTGTTATAATGGCTTTGCCACGTTT
18859016 ACTGGTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.44
Consensus pattern (28 bp):
TACTGTTATAATGGCTTTGCCACGTTTT
Found at i:18859067 original size:23 final size:23
Alignment explanation
Indices: 18859023--18859068 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18859013 TTTACTGGTA
* * **
18859023 TTAGCAGCTTTGTTGCGTTATTG
1 TTAGCAGCTTCGCTGCAATATTG
18859046 TTAGCAGCTTCGCTGCAATATTG
1 TTAGCAGCTTCGCTGCAATATTG
18859069 GTGTGTTGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (23 bp):
TTAGCAGCTTCGCTGCAATATTG
Found at i:18861675 original size:41 final size:40
Alignment explanation
Indices: 18861577--18861722 Score: 134
Period size: 41 Copynumber: 3.5 Consensus size: 40
18861567 TTTTATCAAA
* *
18861577 TCACCGGCATTTAGCCTGCTAGGT-TTTAAACCCGAATTCA-
1 TCACCGGCATTTAGCCTGCTA-GTCTTTAAGCCTGAA-TCAT
*** *
18861617 TCACCGGCACGAAGCCTGCTAGTCTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGTCTTTAAGCCTGAA-TCAT
* * *
18861658 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCTGATATCATT
1 TCACCGGCATTTAGCCTGCTAGTCTTTAAGCCTGA-ATCA-T
*
18861700 TCACTGGCATTATAGCCTGCTAG
1 TCACCGGCATT-TAGCCTGCTAG
18861723 GCCCGAAGCC
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.02
40 30 0.35
41 31 0.36
42 12 0.14
43 10 0.12
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TCACCGGCATTTAGCCTGCTAGTCTTTAAGCCTGAATCAT
Found at i:18861724 original size:43 final size:43
Alignment explanation
Indices: 18861657--18861780 Score: 162
Period size: 43 Copynumber: 2.9 Consensus size: 43
18861647 TCTGAACTCA
* * **
18861657 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCTGATATCAT
1 TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATCAT
* *
18861699 TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATCAT
*
18861742 CTT-ACTGGCATTATAGCTTGCTAGGCCCGAAGCCTGATA
1 -TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCTGATA
18861781 ATATTATTCA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
42 11 0.15
43 59 0.82
44 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (43 bp):
TTCACTGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATCAT
Found at i:18863268 original size:15 final size:15
Alignment explanation
Indices: 18863248--18863277 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18863238 TGTCATCTCT
18863248 TATTTTCTATTTTTC
1 TATTTTCTATTTTTC
*
18863263 TATTTTCTCTTTTTC
1 TATTTTCTATTTTTC
18863278 ATTATACTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTCTATTTTTC
Found at i:18864597 original size:60 final size:59
Alignment explanation
Indices: 18864473--18864613 Score: 171
Period size: 60 Copynumber: 2.4 Consensus size: 59
18864463 CCCAACTGTG
* * *
18864473 TTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTGATA
1 TTGATATGGGCTAGGCCCAGTATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
* *
18864532 CTGATATGGGCTAGGCCCAGTATA-CTCTGA-TACTGTA-AGGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAGGCCCAGTATATCTC-GACT--TGTATA-GGGCTACGGCCCAGATTAATA
18864592 TTGATATGGGCTAAGGCCCAGT
1 TTGATATGGGCT-AGGCCCAGT
18864614 TAACACTAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
58 4 0.06
59 24 0.34
60 34 0.48
61 9 0.13
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (59 bp):
TTGATATGGGCTAGGCCCAGTATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
Found at i:18867250 original size:14 final size:15
Alignment explanation
Indices: 18867221--18867250 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18867211 CAAAATTTAG
18867221 ACATGATACTTTCAC
1 ACATGATACTTTCAC
18867236 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
18867250 A
1 A
18867251 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:18871731 original size:43 final size:43
Alignment explanation
Indices: 18871671--18871791 Score: 181
Period size: 43 Copynumber: 2.8 Consensus size: 43
18871661 AAACTCATTC
* * *
18871671 ACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCATTTT
1 ACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCATCTT
* *
18871713 ATCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATTATCTT
1 ACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCATCTT
*
18871756 ACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 ACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
18871792 ATATTATTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 8 0.11
43 63 0.89
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (43 bp):
ACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATATCATCTT
Found at i:18873727 original size:14 final size:15
Alignment explanation
Indices: 18873698--18873727 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18873688 CAAAATTGAG
18873698 ACATGATACTTTCAC
1 ACATGATACTTTCAC
18873713 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
18873727 A
1 A
18873728 TATAATAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:18874380 original size:39 final size:39
Alignment explanation
Indices: 18874326--18874403 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
18874316 ACGACCATAC
*
18874326 AAAGCCACATTAGGTGCCATTTTGATACTCGATTGAAAG
1 AAAGCCACATAAGGTGCCATTTTGATACTCGATTGAAAG
*
18874365 AAAGCCTCATAAGGTGCCATTTTGATACTCGATTGAAAG
1 AAAGCCACATAAGGTGCCATTTTGATACTCGATTGAAAG
18874404 CTATTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (39 bp):
AAAGCCACATAAGGTGCCATTTTGATACTCGATTGAAAG
Found at i:18878492 original size:39 final size:40
Alignment explanation
Indices: 18878391--18878575 Score: 157
Period size: 40 Copynumber: 4.7 Consensus size: 40
18878381 TTGAATGATG
* *
18878391 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
18878430 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
18878471 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * * *
18878510 TCCGGGTTAAGTCCCAAAGGCAATTGTGCGAGTTAAT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
18878549 AACCGGGCTATGTCCCGAAGGCGTTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
18878576 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 19, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
39 35 0.29
40 71 0.60
41 12 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:18889194 original size:53 final size:54
Alignment explanation
Indices: 18889125--18889331 Score: 184
Period size: 53 Copynumber: 3.8 Consensus size: 54
18889115 TTCCTTTTTA
* * *
18889125 AACTTACCATTTCCATGTCTTGACATGGTCTTACGTGGTGTCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTGTCCTTGCCTTATAG
* * ** *
18889178 AACTTACCATTGCCATGCCTTGGCATGGTCTTATATGG-GATTTTTGCCTTATCG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTG-TCCTTGCCTTATAG
** * * * * * * * * *
18889232 TAGTTTATCAGTGCCATGTCTTGACATGTTCTTACATGATTTCTTTGCCTTGTAA
1 -AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTGTCCTTGCCTTATAG
* * *
18889287 AACTTACCAATGCCATGCCTTGGCACGGTCTTACATGGTGTCCTT
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTGTCCTT
18889332 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 32, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
52 1 0.01
53 43 0.36
54 35 0.30
55 39 0.33
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTGTCCTTGCCTTATAG
Found at i:18891497 original size:46 final size:46
Alignment explanation
Indices: 18891444--18891580 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
18891434 TATATATACA
* * * *
18891444 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
18891490 CATCTCATACACGTTTCGCATTAGCCATTCGCCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* **
18891536 CATCTCGTACACATTTCGCATTAGCCATTCGGCTTCGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
18891581 ATACACTTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:18891613 original size:47 final size:46
Alignment explanation
Indices: 18891554--18891693 Score: 156
Period size: 47 Copynumber: 3.0 Consensus size: 46
18891544 ACACATTTCG
* * *
18891554 CATTAGCCATTCGGCTTCGCCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCTT-ACCACATATATACA-TGTCCACATTCATCA
* * *
18891601 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGG-CTTACCACATATATACATGTCCACATTCATCA
* * *
18891648 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
1 CATTGGCCATTCGG-CTTACCACATATATACATGTCCACATTCATC
18891694 TTATAAAATC
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
46 1 0.01
47 81 0.95
48 3 0.04
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (46 bp):
CATTGGCCATTCGGCTTACCACATATATACATGTCCACATTCATCA
Found at i:18891623 original size:22 final size:22
Alignment explanation
Indices: 18891597--18891672 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
18891587 TTCCACGTTC
18891597 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
18891619 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
18891643 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
18891666 ATCACAT
1 ATCACAT
18891673 ATATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.41
23 7 0.17
24 7 0.17
25 10 0.24
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:18909092 original size:46 final size:46
Alignment explanation
Indices: 18909025--18909385 Score: 242
Period size: 46 Copynumber: 7.8 Consensus size: 46
18909015 TGTAACCCGC
18909025 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
18909071 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * * *
18909121 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
18909164 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * * *
18909214 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
18909257 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * *
18909307 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
18909350 CCATATGTGAACTCGGACTCAACTTAACGAGCTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
18909386 ATGCTCAACC
Statistics
Matches: 235, Mismatches: 53, Indels: 54
0.69 0.15 0.16
Matches are distributed among these distances:
42 6 0.03
43 9 0.04
44 3 0.01
45 5 0.02
46 110 0.47
47 76 0.32
48 7 0.03
49 3 0.01
50 9 0.04
51 7 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:18909140 original size:93 final size:93
Alignment explanation
Indices: 18909032--18909389 Score: 644
Period size: 93 Copynumber: 3.8 Consensus size: 93
18909022 CGCCCATAAG
* * * * *
18909032 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18909097 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
18909125 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18909190 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
18909218 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18909283 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* * *
18909311 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATATGTGAACTCGGACTCAACTTA
1 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
18909376 ACGAGCTCGGATGC
66 ACGAGCTCGGATGC
18909390 TCAACCATCC
Statistics
Matches: 257, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 257 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:18909148 original size:47 final size:47
Alignment explanation
Indices: 18909079--18909334 Score: 244
Period size: 47 Copynumber: 5.5 Consensus size: 47
18909069 ATCCATAAGT
18909079 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
* * * * * * *
18909126 GAACTCAGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT--TTCA-C
18909172 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
* * * * * * *
18909219 GAACTCAGACTCAACTCAACGAGTTC--A-GAC-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT--TTCA-C
18909265 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
18909312 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
18909335 TTCAGACATT
Statistics
Matches: 163, Mismatches: 28, Indels: 36
0.72 0.12 0.16
Matches are distributed among these distances:
42 4 0.02
43 8 0.05
44 4 0.02
45 6 0.04
46 48 0.29
47 71 0.44
48 6 0.04
49 4 0.02
50 8 0.05
51 4 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATTTCAC
Found at i:18917418 original size:59 final size:59
Alignment explanation
Indices: 18917326--18917443 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
18917316 CATACTGTCC
*
18917326 GTATGATTGTTTCGTTACTTTCTTATGAAAATAGATTCATCAAGGTTCGTTTACATAAT
1 GTATGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTTTACATAAT
18917385 GTATGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTTTACATAAT
1 GTATGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTTTACATAAT
18917444 TTATTCACTA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (59 bp):
GTATGATTGTTTCGTTACTTTCCTATGAAAATAGATTCATCAAGGTTCGTTTACATAAT
Found at i:18917860 original size:83 final size:84
Alignment explanation
Indices: 18917714--18917869 Score: 287
Period size: 83 Copynumber: 1.9 Consensus size: 84
18917704 CCATTTTCGC
* *
18917714 ATGGCTATCCAAAATTATACAAGTCCAAAGGGGTCCATGACCCACAACGAACGGGTAGTCCTATA
1 ATGGCTATCCAAAATTATACAAGTCCAAAGGGGTCCACGACCCACAACAAACGGGTAGTCCTATA
18917779 CATGCCATTTCGAAGTTCA
66 CATGCCATTTCGAAGTTCA
18917798 ATGGCTATCCAAAATTATACAAGTCCAAA-GGGTCCACGACCCACAACAAACGGGTAGTCCTATA
1 ATGGCTATCCAAAATTATACAAGTCCAAAGGGGTCCACGACCCACAACAAACGGGTAGTCCTATA
18917862 CATGCCAT
66 CATGCCAT
18917870 ATCCAGAGTT
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
83 41 0.59
84 29 0.41
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (84 bp):
ATGGCTATCCAAAATTATACAAGTCCAAAGGGGTCCACGACCCACAACAAACGGGTAGTCCTATA
CATGCCATTTCGAAGTTCA
Found at i:18927938 original size:39 final size:39
Alignment explanation
Indices: 18927821--18928069 Score: 403
Period size: 39 Copynumber: 6.3 Consensus size: 39
18927811 GCTCCTCGTT
* *
18927821 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
18927861 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
18927901 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
18927940 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
18927979 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
18928018 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
18928057 CAAATGCCTTCGG
1 CAAATGCCTTCGG
18928070 CTTCGGATCT
Statistics
Matches: 201, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
39 153 0.76
40 46 0.23
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:18929820 original size:48 final size:48
Alignment explanation
Indices: 18929749--18929846 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 48
18929739 ACCTCAACAC
* * * * *
18929749 AAAATATTAGAAATCAAGTCTAAACCTCGTGAACCTTGTTCTTTCCCT
1 AAAATATTAAAAACCAAGCCTAAACCTCGTAAACCTTGCTCTTTCCCT
*
18929797 AAAATATTAAAAACCGAGCCTAAACCTCGTAAACCTTGCTCTTTCCCT
1 AAAATATTAAAAACCAAGCCTAAACCTCGTAAACCTTGCTCTTTCCCT
18929845 AA
1 AA
18929847 TCAAGGCCTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.30
Consensus pattern (48 bp):
AAAATATTAAAAACCAAGCCTAAACCTCGTAAACCTTGCTCTTTCCCT
Found at i:18949929 original size:13 final size:13
Alignment explanation
Indices: 18949911--18949939 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18949901 GGTTGTTTAT
18949911 TAAACTAATTAAC
1 TAAACTAATTAAC
18949924 TAAACTAATTAAC
1 TAAACTAATTAAC
18949937 TAA
1 TAA
18949940 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:18953562 original size:27 final size:26
Alignment explanation
Indices: 18953522--18953627 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 26
18953512 AGTAAGCGTC
*
18953522 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
18953549 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
* * *
18953576 CTGGTGGGTCAGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCT-GAT
** *
18953604 CTGGTAACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
18953628 TTCTAGTAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
26 3 0.05
27 47 0.72
28 14 0.22
29 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:18954261 original size:47 final size:46
Alignment explanation
Indices: 18954210--18954303 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 46
18954200 CGACAACAAG
*
18954210 CAAAGCTTCCACAATGAAAATACTTTCCAAAATTAATCACTCTTTC
1 CAAAGCTTCCACAATGAAAAGACTTTCCAAAATTAATCACTCTTTC
* ** * *
18954256 NCAAAGCTTTCGGAATGAAAAGATTTTCCAAAATTATTCACTCTTTC
1 -CAAAGCTTCCACAATGAAAAGACTTTCCAAAATTAATCACTCTTTC
18954303 C
1 C
18954304 TAAAAAGGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
46 1 0.02
47 40 0.98
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.32
Consensus pattern (46 bp):
CAAAGCTTCCACAATGAAAAGACTTTCCAAAATTAATCACTCTTTC
Found at i:18957243 original size:40 final size:40
Alignment explanation
Indices: 18957187--18957404 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
18957177 CGGATGGTAA
* *
18957187 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
18957227 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
18957267 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
18957307 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
18957347 CCAGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
18957387 CC-GGCTAAATCCTGAAGG
1 CCGGGCTAAGTCCCGAAGG
18957405 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 148 0.90
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:18959082 original size:18 final size:18
Alignment explanation
Indices: 18959061--18959099 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
18959051 AATAAAATTG
18959061 AAATGAAAATAAAAATAA
1 AAATGAAAATAAAAATAA
*
18959079 AAATTAAAATAAAAATAA
1 AAATGAAAATAAAAATAA
18959097 AAA
1 AAA
18959100 AAATAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (18 bp):
AAATGAAAATAAAAATAA
Found at i:18959107 original size:6 final size:6
Alignment explanation
Indices: 18959061--18959099 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
18959051 AATAAAATTG
* *
18959061 AAATGA AAATAA AAATAA AAATTA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
18959100 AAATAAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:18964583 original size:13 final size:13
Alignment explanation
Indices: 18964565--18964593 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18964555 GGTTGCTTAT
18964565 TAAACTAATTAAC
1 TAAACTAATTAAC
18964578 TAAACTAATTAAC
1 TAAACTAATTAAC
18964591 TAA
1 TAA
18964594 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:18975362 original size:6 final size:6
Alignment explanation
Indices: 18975351--18975377 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18975341 TGAATGAACA
18975351 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
18975378 TCATCTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:18976751 original size:40 final size:40
Alignment explanation
Indices: 18976697--18976823 Score: 191
Period size: 40 Copynumber: 3.1 Consensus size: 40
18976687 CTCGATATAT
*
18976697 TATATATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGTAA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
*
18976737 TATATATCCGGGTTAAATCCCGCAGGTTTCGTGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-A
* * *
18976779 TATATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTAC
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
18976819 TATAT
1 TATAT
18976824 CCAGGCTTAA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 41 0.52
41 2 0.03
42 36 0.46
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (40 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
Found at i:18976783 original size:42 final size:42
Alignment explanation
Indices: 18976697--18976823 Score: 195
Period size: 42 Copynumber: 3.1 Consensus size: 42
18976687 CTCGATATAT
*
18976697 TATATATCCGGGTTAAAACCCGCAGGCTTCGTGCTGGT-A-A
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
18976737 TATATATCCGGGTTAAATCCCGCAGGTTTCGTGCTGGTAATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
18976779 TATATATCTGGGTTAAATCCCGCAGGCTTAGTGCTGGTACTA
1 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
18976821 TAT
1 TAT
18976824 CCAGGCTTAA
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 36 0.46
41 1 0.01
42 42 0.53
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (42 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:18980640 original size:31 final size:31
Alignment explanation
Indices: 18980602--18980664 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
18980592 GTAATCCGAG
**
18980602 TTGAGTCTACGGACTTGGAGGGGATGCCAGC
1 TTGAGTCTACGGACTTAAAGGGGATGCCAGC
*
18980633 TTGAGTCTACGGACTTAAAGGGGTTGCCAGC
1 TTGAGTCTACGGACTTAAAGGGGATGCCAGC
18980664 T
1 T
18980665 GTAATATCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.25
Consensus pattern (31 bp):
TTGAGTCTACGGACTTAAAGGGGATGCCAGC
Found at i:18981615 original size:44 final size:44
Alignment explanation
Indices: 18981552--18981639 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
18981542 CTCCAAGAAA
*
18981552 TATTACCGAAGTTTGGAGCTTTTTGGGGCTCGCCGGTTGTTACC
1 TATTACCGAAGTTTGGAGCTTTTTGGGGCTCGCCGGTTATTACC
18981596 TATTACCGAAGTTTGGAGCTTTTTGGGGCTCGCCGGTTATTACC
1 TATTACCGAAGTTTGGAGCTTTTTGGGGCTCGCCGGTTATTACC
18981640 GACGATTTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.36
Consensus pattern (44 bp):
TATTACCGAAGTTTGGAGCTTTTTGGGGCTCGCCGGTTATTACC
Found at i:18987080 original size:47 final size:47
Alignment explanation
Indices: 18987002--18987454 Score: 692
Period size: 47 Copynumber: 9.6 Consensus size: 47
18986992 CCCTTCGGGA
* * * * * *
18987002 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18987049 CGTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18987096 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18987143 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18987190 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18987237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18987284 CTTATCACATATATATACACTTTCACATTCATCGCATTGGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
*
18987333 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18987380 CTTATCATATATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATC--ACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18987429 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
18987455 CACAATTATC
Statistics
Matches: 373, Mismatches: 27, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
47 285 0.76
49 87 0.23
50 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18990824 original size:40 final size:40
Alignment explanation
Indices: 18990776--18991299 Score: 780
Period size: 40 Copynumber: 13.1 Consensus size: 40
18990766 GCCCGAATAC
* * * *
18990776 ACATCACCATCATGATTGCTCTTCGGGACCTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
* * * * ** *
18990816 ATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
* * ** *
18990856 ATATCACTAGCACGAATGCTCTTTAGAACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
18990896 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
* * *
18990936 ATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
18990976 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
* * *
18991016 ATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
18991056 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
* * *
18991096 ATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
*
18991136 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCTGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
*
18991176 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCCGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
*
18991216 ACATCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
*
18991256 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
18991296 -CATC
1 ACATC
18991300 GTCGAGACCT
Statistics
Matches: 437, Mismatches: 47, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 4 0.01
40 433 0.99
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:18991422 original size:38 final size:38
Alignment explanation
Indices: 18991353--18991427 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
18991343 GAATTTTAAT
*
18991353 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
18991391 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
18991428 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:18992632 original size:50 final size:50
Alignment explanation
Indices: 18992557--18992657 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
18992547 ATGAAAGTGG
*
18992557 ATTCATCAAGGTTCATTTAAATAATTTATTCACTATTTAATTCTATTCCT
1 ATTCATCAAGGTTCATTTAAATAATTTATTCACTATTTAATTCCATTCCT
*
18992607 ATTCATCAAGGTTCATTTACATAATTTATTCACTATTTAATTCCATTCCT
1 ATTCATCAAGGTTCATTTAAATAATTTATTCACTATTTAATTCCATTCCT
18992657 A
1 A
18992658 CTTTTTGTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.47
Consensus pattern (50 bp):
ATTCATCAAGGTTCATTTAAATAATTTATTCACTATTTAATTCCATTCCT
Found at i:18994269 original size:75 final size:75
Alignment explanation
Indices: 18994146--18994292 Score: 285
Period size: 75 Copynumber: 2.0 Consensus size: 75
18994136 GTGATGAATG
18994146 ATTGCTTACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTGGCTCGTCAGCTATCGGACTCGG
1 ATTGCTTACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTGGCTCGTCAGCTATCGGACTCGG
18994211 GATTTTTGAA
66 GATTTTTGAA
*
18994221 ATTGCTTACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTGGCTCGTCAGTTATCGGACTCGG
1 ATTGCTTACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTGGCTCGTCAGCTATCGGACTCGG
18994286 GATTTTT
66 GATTTTT
18994293 TGAAGTCGAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.48
Consensus pattern (75 bp):
ATTGCTTACTCCGTTTCTTTGTTTCTCTGTTTTATAGATTTTGGCTCGTCAGCTATCGGACTCGG
GATTTTTGAA
Found at i:18997109 original size:13 final size:13
Alignment explanation
Indices: 18997076--18997113 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
18997066 ACTATGATTA
18997076 AATTTTAATATTT
1 AATTTTAATATTT
18997089 AATCTTT-ATATTTT
1 AAT-TTTAATA-TTT
18997103 AATTTTAATAT
1 AATTTTAATAT
18997114 AATTTGGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTTTAATATTT
Found at i:18998763 original size:21 final size:21
Alignment explanation
Indices: 18998733--18998779 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
18998723 AGAGCTCCTC
18998733 ATTGA-CATTGATCGAAGTTG
1 ATTGATCATTGATCGAAGTTG
* *
18998753 ATTGATCATTGGTCGACGTTG
1 ATTGATCATTGATCGAAGTTG
*
18998774 ACTGAT
1 ATTGAT
18998780 GTTGACCGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (21 bp):
ATTGATCATTGATCGAAGTTG
Found at i:19000227 original size:26 final size:26
Alignment explanation
Indices: 19000198--19000253 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
19000188 TGATACAAAT
19000198 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
19000224 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
19000250 TGAT
1 TGAT
19000254 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:19005978 original size:16 final size:16
Alignment explanation
Indices: 19005957--19005987 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19005947 AATTTATTTT
*
19005957 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
19005973 AATTAAATAATTTTC
1 AATTAAATAATTTTC
19005988 TCAACCTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:19011162 original size:2 final size:2
Alignment explanation
Indices: 19011155--19011190 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19011145 TAGTGTTATA
19011155 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
19011191 AGTGAAATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:19014442 original size:36 final size:36
Alignment explanation
Indices: 19014395--19014468 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
19014385 TAGCATAAGG
19014395 ATTGCTAATAATGGATTGGTGAAAAAATTTGATTTA
1 ATTGCTAATAATGGATTGGTGAAAAAATTTGATTTA
**
19014431 ATTGCTAATAATGGATTGGTGAAAATTTTTGATTTA
1 ATTGCTAATAATGGATTGGTGAAAAAATTTGATTTA
19014467 AT
1 AT
19014469 GAATAGATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (36 bp):
ATTGCTAATAATGGATTGGTGAAAAAATTTGATTTA
Found at i:19014847 original size:37 final size:37
Alignment explanation
Indices: 19014797--19014876 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
19014787 GGACAAAAAT
*
19014797 GGGCATGTATGGATAAAATTTCAAAGAAAGGGCTTAA
1 GGGCATGTATGGATAAAAGTTCAAAGAAAGGGCTTAA
*
19014834 GGGCATGTATGGATAAAAGTTCAAAGAGAGGGCTTAA
1 GGGCATGTATGGATAAAAGTTCAAAGAAAGGGCTTAA
19014871 GGGCAT
1 GGGCAT
19014877 TTTGGTCATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.38, C:0.09, G:0.31, T:0.23
Consensus pattern (37 bp):
GGGCATGTATGGATAAAAGTTCAAAGAAAGGGCTTAA
Found at i:19016543 original size:42 final size:41
Alignment explanation
Indices: 19016464--19016603 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 41
19016454 TCCCGGACGT
* * * * * *
19016464 GGTCTTACATGTAACTCAATATCGATGCCTCTATCCCAGACAG
1 GGTCTTACACGAAACTC-A-ATCGAGGCCTGTGTCCCAGACAC
* *
19016507 GGTCTTACACGAAA-TCAGATACGATG-CTGATGTCCCAGACAT
1 GGTCTTACACGAAACTCA-AT-CGAGGCCTG-TGTCCCAGACAC
* *
19016549 GGTCTTATACATAAATCTCAATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACAC-GAAA-CTCAATCGAGGCCTGTGTCCCAGACAC
19016592 GGTCTTACACGA
1 GGTCTTACACGA
19016604 TGTCTCAGAC
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
41 5 0.06
42 27 0.34
43 39 0.49
44 5 0.06
45 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (41 bp):
GGTCTTACACGAAACTCAATCGAGGCCTGTGTCCCAGACAC
Found at i:19017197 original size:15 final size:15
Alignment explanation
Indices: 19017177--19017208 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
19017167 AGCCTTCATA
19017177 ATTCATTCCAAAAAC
1 ATTCATTCCAAAAAC
19017192 ATTCATTCCAAAAAC
1 ATTCATTCCAAAAAC
19017207 AT
1 AT
19017209 CACAAAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (15 bp):
ATTCATTCCAAAAAC
Found at i:19023114 original size:6 final size:6
Alignment explanation
Indices: 19023103--19023142 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
19023093 TGGCTTTCTC
19023103 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTT
19023143 GACTTTCAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:19023148 original size:18 final size:18
Alignment explanation
Indices: 19023109--19023148 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
19023099 TCTCCTTTTT
**
19023109 CTTTTTCTTTTTCTTTTT
1 CTTTTTCTTTTTCTTTGA
19023127 CTTTTTCTTTTTCTTTGA
1 CTTTTTCTTTTTCTTTGA
19023145 CTTT
1 CTTT
19023149 CAGTTATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.03, C:0.17, G:0.03, T:0.78
Consensus pattern (18 bp):
CTTTTTCTTTTTCTTTGA
Found at i:19040419 original size:2 final size:2
Alignment explanation
Indices: 19040412--19040447 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19040402 TACTATTTTC
19040412 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19040448 TGCGCGCAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:19043908 original size:23 final size:23
Alignment explanation
Indices: 19043882--19043927 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
19043872 TTCGGGCTCA
* *
19043882 ATTCATTTAGCGATCGCGAACAT
1 ATTCATTTAACGATCGCAAACAT
19043905 ATTCATTTAACGATCGCAAACAT
1 ATTCATTTAACGATCGCAAACAT
19043928 GTTTGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (23 bp):
ATTCATTTAACGATCGCAAACAT
Found at i:19043936 original size:23 final size:23
Alignment explanation
Indices: 19043887--19043960 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
19043877 GCTCAATTCA
* * * *
19043887 TTTAGCGATCGCGAACATATTCA
1 TTTAACGATCGCAAACATGTTCG
*
19043910 TTTAACGATCGCAAACATGTTTG
1 TTTAACGATCGCAAACATGTTCG
* *
19043933 TTTATATGTTCGCAAACATGTTCG
1 TTTA-ACGATCGCAAACATGTTCG
19043957 TTTA
1 TTTA
19043961 TATATATATT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 22 0.52
24 20 0.48
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (23 bp):
TTTAACGATCGCAAACATGTTCG
Found at i:19043950 original size:24 final size:24
Alignment explanation
Indices: 19043918--19043963 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
19043908 CATTTAACGA
*
19043918 TCGCAAACATGTTTGTTTATATGT
1 TCGCAAACATGTTCGTTTATATGT
19043942 TCGCAAACATGTTCGTTTATAT
1 TCGCAAACATGTTCGTTTATAT
19043964 ATATATTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (24 bp):
TCGCAAACATGTTCGTTTATATGT
Found at i:19043975 original size:17 final size:17
Alignment explanation
Indices: 19043953--19043989 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
19043943 CGCAAACATG
19043953 TTCGTTTATATATATAT
1 TTCGTTTATATATATAT
19043970 TTCGTTTATATATATAT
1 TTCGTTTATATATATAT
19043987 TTC
1 TTC
19043990 CTATTGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.59
Consensus pattern (17 bp):
TTCGTTTATATATATAT
Found at i:19045316 original size:12 final size:11
Alignment explanation
Indices: 19045295--19045333 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
19045285 TAAATACATA
19045295 AGTTATAAACG
1 AGTTATAAACG
19045306 AGTTAATAAACG
1 AGTT-ATAAACG
*
19045318 AGTTTTGAAACG
1 AGTTAT-AAACG
19045330 AGTT
1 AGTT
19045334 TGTTTGGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (11 bp):
AGTTATAAACG
Found at i:19055797 original size:27 final size:27
Alignment explanation
Indices: 19055396--19055796 Score: 541
Period size: 27 Copynumber: 14.8 Consensus size: 27
19055386 ATTACCAAAG
* *
19055396 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
19055423 TACCCTTGATTGACAGAATTACCACTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
19055450 TATCCTCGATTTATATAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
19055477 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
19055504 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
**
19055531 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
19055558 TACCCCTCAATTTATAGAATTACCATTT
1 TA-CCCTCGATTTATAGAATTACCATTT
* *
19055586 TACCCTCGATTTATAAAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
19055613 TACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
19055640 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
19055667 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
19055694 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
19055721 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
19055748 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
19055775 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
19055797 TAAAATACCC
Statistics
Matches: 339, Mismatches: 34, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
27 315 0.93
28 24 0.07
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:19055805 original size:27 final size:27
Alignment explanation
Indices: 19055775--19056049 Score: 206
Period size: 27 Copynumber: 10.2 Consensus size: 27
19055765 ATTACTGTTT
* *
19055775 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
19055802 TACCCT-TAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
*
19055829 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * *
19055856 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
19055882 TACCC-CTGGTTTGTAAAATTACCGAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
19055909 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
19055936 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
19055963 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
19055990 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
19056017 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
19056044 TACCCT
1 TACCCT
19056050 TGACTTTCTA
Statistics
Matches: 202, Mismatches: 32, Indels: 27
0.77 0.12 0.10
Matches are distributed among these distances:
26 28 0.14
27 171 0.85
28 3 0.01
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:19055833 original size:54 final size:54
Alignment explanation
Indices: 19055775--19056133 Score: 262
Period size: 54 Copynumber: 6.6 Consensus size: 54
19055765 ATTACTGTTT
** *
19055775 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
** * ** * *
19055829 TACCCTCGATCAGTAAAATTACCAAAATACCC-TAGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * * **
19055882 TACCC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * *** *
19055936 TACCC-CTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACC-CTTAGTTTACAAAATTACCAAAA
* * *
19055990 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTTAG-TTTACAAAATTACCA-AAA
* * *** * * **
19056044 TACCCTTGACTTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
* * * * *
19056100 TACCCTTGGTTTGTAGATTTACCAAAACACCCTT
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTT
19056134 GTAGGATGAA
Statistics
Matches: 240, Mismatches: 53, Indels: 24
0.76 0.17 0.08
Matches are distributed among these distances:
52 1 0.00
53 45 0.19
54 145 0.60
55 11 0.05
56 37 0.15
57 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTTAGTTTACAAAATTACCAAAA
Found at i:19055833 original size:81 final size:81
Alignment explanation
Indices: 19055383--19055838 Score: 250
Period size: 81 Copynumber: 5.6 Consensus size: 81
19055373 CTCAAATTGT
* * * * *** * * **
19055383 AAAATTACCAAAGTACCCTCGATTTACAGAATTACTATTTTACCCTTGATTGACAGAATTACCAC
1 AAAATTACCAAAATACCCTAGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGT
* *
19055448 TTTATCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * * * ****
19055464 ATAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTAGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGT
*
19055529 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* ***** * * *** * * *
19055545 AGAATTACTGTTTTACCCCTCA-ATTTATAGAATTACCATTTTACCCTCGATTTATAAAATTATC
1 AAAATTACCAAAATA-CCCT-AGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACC
* *
19055609 ATTTTACCCTCGATTTAT
64 GTTTTACCCTCGATTTAC
* * *** * * * **** *
19055627 AGAATTATCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGT
1 AAAATTACCAAAATACCCTAGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGT
19055692 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* **** * * * * *** * *
19055708 AGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTAGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGT
19055773 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
*
19055789 AAAATTACTAAAATACCCTTAG-TTTACAAAATTACCAAAATACCCTCGAT
1 AAAATTACCAAAATACCC-TAGATTTACAAAATTACCAAAATACCCTCGAT
19055839 CAGTAAAATT
Statistics
Matches: 320, Mismatches: 51, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
81 247 0.77
82 73 0.23
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTAGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGT
TTTACCCTCGATTTAC
Found at i:19055860 original size:81 final size:80
Alignment explanation
Indices: 19055775--19056051 Score: 308
Period size: 81 Copynumber: 3.4 Consensus size: 80
19055765 ATTACTGTTT
* ** * * *
19055775 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
*
19055840 AGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * ** * *
19055856 TA-CCCTAGTCTGTAAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATT
19055920 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* ** * *
19055936 TACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAAT
1 TACCCCGA-TTTACAAAATTACTAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCAAT
19056000 TTGTAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
*
19056017 TACCCCTGATTTACAAAGTTAC-AGAAATACCCTTG
1 TACCCC-GATTTACAAAATTACTA-AAATACCCTTG
19056052 ACTTTCTAAA
Statistics
Matches: 169, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
79 2 0.01
80 66 0.39
81 99 0.59
82 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (80 bp):
TACCCCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTT
GTAAAATTACCAAAA
Found at i:19056099 original size:27 final size:27
Alignment explanation
Indices: 19056060--19056111 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
19056050 TGACTTTCTA
19056060 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
19056087 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
19056112 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:19057066 original size:25 final size:24
Alignment explanation
Indices: 19057028--19057097 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
19057018 AGGAAGTGCT
19057028 AAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
19057052 GAAAAGGGCTCTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
*
19057077 AGAAAGGGTTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
19057098 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:19057307 original size:42 final size:42
Alignment explanation
Indices: 19057244--19057333 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
19057234 TACTCCCCAG
* ** * **
19057244 ATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTGAA
1 ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
19057286 ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
1 ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
19057328 ATGGGC
1 ATGGGC
19057334 CTAAGTGCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (42 bp):
ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
Found at i:19057397 original size:31 final size:31
Alignment explanation
Indices: 19057357--19057435 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
19057347 CGTTTACAGT
*
19057357 AAAA-GCTTCGGCCTAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
19057387 AAAAGGCTTCGGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGTGATATGATTTATG
19057418 AAAAGGCTTCGGCCCAGT
1 AAAAGGCTTCGGCCCAGT
19057436 AACTGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 4 0.09
31 43 0.91
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGATTTATG
Found at i:19060558 original size:5 final size:5
Alignment explanation
Indices: 19060548--19060581 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
19060538 AAAATTAAAA
* *
19060548 TATAT TATAT TATTT TATAT TATTT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
19060582 AATAAATAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATAT
Found at i:19060565 original size:10 final size:10
Alignment explanation
Indices: 19060552--19060580 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
19060542 TTAAAATATA
19060552 TTATATTATT
1 TTATATTATT
19060562 TTATATTATT
1 TTATATTATT
19060572 TTATATTAT
1 TTATATTAT
19060581 AAATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATATTATT
Found at i:19060805 original size:22 final size:22
Alignment explanation
Indices: 19060780--19060821 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
19060770 GAAACAGGGG
19060780 AAAGAAAGAAGAAAA-AGAAAGA
1 AAAGAAA-AAGAAAAGAGAAAGA
19060802 AAAGAAAAAGAAAAGAGAAA
1 AAAGAAAAAGAAAAGAGAAA
19060822 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAGAAAAAGAAAAGAGAAAGA
Found at i:19060808 original size:15 final size:13
Alignment explanation
Indices: 19060780--19060814 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
19060770 GAAACAGGGG
19060780 AAAGAAAGAAGAA
1 AAAGAAAGAAGAA
19060793 AAAGAAAGAAAAGAA
1 AAAGAAAG--AAGAA
19060808 AAAGAAA
1 AAAGAAA
19060815 AGAGAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.40
15 12 0.60
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:19066105 original size:25 final size:25
Alignment explanation
Indices: 19066077--19066128 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
19066067 AACGAGGTGT
19066077 TTGCTAAGAGTATTATTGACCCAGA
1 TTGCTAAGAGTATTATTGACCCAGA
19066102 TTGCTAAGAGTATTATTGACCCAGA
1 TTGCTAAGAGTATTATTGACCCAGA
19066127 TT
1 TT
19066129 TGAATAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (25 bp):
TTGCTAAGAGTATTATTGACCCAGA
Found at i:19085344 original size:50 final size:50
Alignment explanation
Indices: 19085269--19085459 Score: 292
Period size: 50 Copynumber: 3.8 Consensus size: 50
19085259 TTGTGAGAAT
19085269 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * * * *
19085319 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAGCTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTC
*
19085370 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
* * *
19085420 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
19085460 GAGCTTCAGT
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
50 81 0.65
51 44 0.35
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
Found at i:19085351 original size:26 final size:26
Alignment explanation
Indices: 19085271--19085353 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
19085261 GTGAGAATAC
19085271 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * * *
19085297 A--CGT-GTACCAGATTGTTAGG-TCAC-
1 ATGTGTAGTACTA-AGTG-CAGGCT-ACT
19085321 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
19085347 ATGTGTA
1 ATGTGTA
19085354 CCTGATAGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 16
0.63 0.12 0.25
Matches are distributed among these distances:
23 5 0.12
24 7 0.17
25 10 0.24
26 14 0.34
27 5 0.12
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:19085444 original size:101 final size:101
Alignment explanation
Indices: 19085269--19085466 Score: 351
Period size: 101 Copynumber: 2.0 Consensus size: 101
19085259 TTGTGAGAAT
*
19085269 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTA
* * *
19085334 AGTGCAGGCTACTATGTGTACCTGATAGCTTCGATC
66 AGTGCAGGCTACTATGCGTACCAGAGAGCTTCGATC
*
19085370 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTCGCATGTGTAGTACTA
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTA
19085435 AGTGCAGGCTACTATGCGTACCAGAGAGCTTC
66 AGTGCAGGCTACTATGCGTACCAGAGAGCTTC
19085467 AGTTATAAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (101 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTA
AGTGCAGGCTACTATGCGTACCAGAGAGCTTCGATC
Found at i:19085494 original size:101 final size:101
Alignment explanation
Indices: 19085275--19085494 Score: 289
Period size: 101 Copynumber: 2.2 Consensus size: 101
19085265 GAATACATGT
* * *
19085275 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
1 GTAGTAATAAGTACAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
* * * * *
19085340 GGCTACTATGTGTACCTGATAGCTTCGATCACATGT
66 GGCTACTATGCGTACCAGAGAGCTTCGATCACAAGG
* * *
19085376 GTAGTACTAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCA
1 GTAGTAATAAGTACAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
* *
19085441 GGCTACTATGCGTACCAGAGAGCTTC-AGTTATAAGG
66 GGCTACTATGCGTACCAGAGAGCTTCGA-TCACAAGG
* *
19085477 GTGGTAATATGTACAGGC
1 GTAGTAATAAGTACAGGC
19085495 CACCTTCCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
100 1 0.01
101 104 0.99
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (101 bp):
GTAGTAATAAGTACAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
GGCTACTATGCGTACCAGAGAGCTTCGATCACAAGG
Found at i:19086251 original size:347 final size:347
Alignment explanation
Indices: 19085616--19086309 Score: 1379
Period size: 347 Copynumber: 2.0 Consensus size: 347
19085606 ATATCTGATC
19085616 TAAATTTGGCAAGATTGATATGGAGTAAGTGATACAATGAAAGTCACTACAAAGAAAACATGAAA
1 TAAATTTGGCAAGATTGATATGGAGTAAGTGATACAATGAAAGTCACTACAAAGAAAACATGAAA
19085681 GAGTGAAATTTAGTAATAAAACAGTTTTGGACAGCAGCAGTTGTGTGACTTTGAAAAATCACCAA
66 GAGTGAAATTTAGTAATAAAACAGTTTTGGACAGCAGCAGTTGTGTGACTTTGAAAAATCACCAA
19085746 AAATGATGAAAATTGAATTATAAGTTGAATAAGACATAAAATAATAGCTTATTGAATCTATTTTC
131 AAATGATGAAAATTGAATTATAAGTTGAATAAGACATAAAATAATAGCTTATTGAATCTATTTTC
19085811 ATATAAAGGAAACATTGTAAGCAAAAGAATTTCATATTATGAGATATTTGAATTCTTGTGAGACA
196 ATATAAAGGAAACATTGTAAGCAAAAGAATTTCATATTATGAGATATTTGAATTCTTGTGAGACA
19085876 GAGTCAGAATGAGTTCGGAATCCCCTATTCCAAATTGGGAAAATCACTAGAAATTGTACAAAAAT
261 GAGTCAGAATGAGTTCGGAATCCCCTATTCCAAATTGGGAAAATCACTAGAAATTGTACAAAAAT
19085941 AATCATGGGTTATAAATTATAT
326 AATCATGGGTTATAAATTATAT
*
19085963 TAAATTTGGCAAGATTGATATGGAGTAAGTGATACAATGAAAGTTACTACAAAGAAAACATGAAA
1 TAAATTTGGCAAGATTGATATGGAGTAAGTGATACAATGAAAGTCACTACAAAGAAAACATGAAA
19086028 GAGTGAAATTTAGTAATAAAACAGTTTTGGACAGCAGCAGTTGTGTGACTTTGAAAAATCACCAA
66 GAGTGAAATTTAGTAATAAAACAGTTTTGGACAGCAGCAGTTGTGTGACTTTGAAAAATCACCAA
19086093 AAATGATGAAAATTGAATTATAAGTTGAATAAGACATAAAATAATAGCTTATTGAATCTATTTTC
131 AAATGATGAAAATTGAATTATAAGTTGAATAAGACATAAAATAATAGCTTATTGAATCTATTTTC
19086158 ATATAAAGGAAACATTGTAAGCAAAAGAATTTCATATTATGAGATATTTGAATTCTTGTGAGACA
196 ATATAAAGGAAACATTGTAAGCAAAAGAATTTCATATTATGAGATATTTGAATTCTTGTGAGACA
19086223 GAGTCAGAATGAGTTCGGAATCCCCTATTCCAAATTGGGAAAATCACTAGAAATTGTACAAAAAT
261 GAGTCAGAATGAGTTCGGAATCCCCTATTCCAAATTGGGAAAATCACTAGAAATTGTACAAAAAT
19086288 AATCATGGGTTATAAATTATAT
326 AATCATGGGTTATAAATTATAT
19086310 GCTTGAAATC
Statistics
Matches: 346, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
347 346 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.30
Consensus pattern (347 bp):
TAAATTTGGCAAGATTGATATGGAGTAAGTGATACAATGAAAGTCACTACAAAGAAAACATGAAA
GAGTGAAATTTAGTAATAAAACAGTTTTGGACAGCAGCAGTTGTGTGACTTTGAAAAATCACCAA
AAATGATGAAAATTGAATTATAAGTTGAATAAGACATAAAATAATAGCTTATTGAATCTATTTTC
ATATAAAGGAAACATTGTAAGCAAAAGAATTTCATATTATGAGATATTTGAATTCTTGTGAGACA
GAGTCAGAATGAGTTCGGAATCCCCTATTCCAAATTGGGAAAATCACTAGAAATTGTACAAAAAT
AATCATGGGTTATAAATTATAT
Found at i:19088470 original size:22 final size:22
Alignment explanation
Indices: 19088442--19088517 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
19088432 TTTCACATCC
19088442 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
19088464 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
19088488 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
19088511 ATCACAT
1 ATCACAT
19088518 ATACATATCT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:19088477 original size:47 final size:47
Alignment explanation
Indices: 19088414--19088520 Score: 196
Period size: 47 Copynumber: 2.3 Consensus size: 47
19088404 CCCTTCGGGA
*
19088414 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
*
19088461 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
19088508 CTTATCACATATA
1 CTTATCACATATA
19088521 CATATCTTGT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:19098511 original size:17 final size:18
Alignment explanation
Indices: 19098477--19098524 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
19098467 AAATTTGTAC
* *
19098477 ATTATAATATTATTTTTT
1 ATTATAATAATATCTTTT
19098495 ATTA-AATAATATCTTTT
1 ATTATAATAATATCTTTT
*
19098512 ATTTTAA-AATATC
1 ATTATAATAATATC
19098525 ACACCCAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTATAATAATATCTTTT
Found at i:19099896 original size:23 final size:23
Alignment explanation
Indices: 19099866--19099917 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
19099856 ACGACCCGAT
19099866 TTTTAGTGGTACCA-AAAAAAAAG
1 TTTTAGTGGTA-CAGAAAAAAAAG
**
19099889 TTTTAGTGGTACAGAAAAAATGG
1 TTTTAGTGGTACAGAAAAAAAAG
19099912 TTTTAG
1 TTTTAG
19099918 AACCTCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (23 bp):
TTTTAGTGGTACAGAAAAAAAAG
Found at i:19104181 original size:17 final size:17
Alignment explanation
Indices: 19104161--19104252 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
19104151 ATTTTAATAG
19104161 ATTTAATATTAAATTTA
1 ATTTAATATTAAATTTA
19104178 ATTTAATACTT--ATCTTA
1 ATTTAATA-TTAAAT-TTA
* **
19104195 A--TAGTATTTTA-TTA
1 ATTTAATATTAAATTTA
*
19104209 ATTTAATAATAAAGTGATT-
1 ATTTAATATTAAA-T--TTA
19104228 ATCTTAATATTAAATTTA
1 AT-TTAATATTAAATTTA
19104246 ATTTAAT
1 ATTTAAT
19104253 GTTTATCTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 24
0.66 0.07 0.28
Matches are distributed among these distances:
14 6 0.11
15 4 0.07
16 9 0.16
17 19 0.33
18 4 0.07
19 3 0.05
20 12 0.21
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTTAATATTAAATTTA
Found at i:19104708 original size:13 final size:13
Alignment explanation
Indices: 19104641--19104707 Score: 98
Period size: 13 Copynumber: 5.2 Consensus size: 13
19104631 AGAAGACTAC
* *
19104641 TCGGTTGAAGCAT
1 TCGGTCGAAGCGT
19104654 TCGGTCGAAGCGT
1 TCGGTCGAAGCGT
19104667 TCGGTCGAAGCGT
1 TCGGTCGAAGCGT
19104680 TCGGTCGAAGCGT
1 TCGGTCGAAGCGT
* *
19104693 TCAGTTGAAGCGT
1 TCGGTCGAAGCGT
19104706 TC
1 TC
19104708 ATCCTAGACG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.18, C:0.21, G:0.34, T:0.27
Consensus pattern (13 bp):
TCGGTCGAAGCGT
Found at i:19105141 original size:13 final size:13
Alignment explanation
Indices: 19105123--19105148 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19105113 GACAATCACA
19105123 TATATATTTAAAT
1 TATATATTTAAAT
19105136 TATATATTTAAAT
1 TATATATTTAAAT
19105149 GATAAATAAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTTAAAT
Found at i:19107802 original size:21 final size:21
Alignment explanation
Indices: 19107773--19107821 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
19107763 AATATCTATG
19107773 AAATGTTAGTAACGTGGTATTA
1 AAAT-TTAGTAACGTGGTATTA
*
19107795 AAATTTAGTAATGTGGTATTA
1 AAATTTAGTAACGTGGTATTA
19107816 AAATTT
1 AAATTT
19107822 CGTTAGGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (21 bp):
AAATTTAGTAACGTGGTATTA
Found at i:19110331 original size:23 final size:23
Alignment explanation
Indices: 19110305--19110349 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
19110295 TGGGTATGTG
*
19110305 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
19110328 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
19110350 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:19113066 original size:27 final size:27
Alignment explanation
Indices: 19113018--19113122 Score: 108
Period size: 27 Copynumber: 3.9 Consensus size: 27
19113008 GCGAGGCTGC
* *
19113018 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
19113045 CAGATATTGTCGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
19113071 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
19113098 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
19113123 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.12
27 55 0.83
28 3 0.05
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:19114511 original size:26 final size:26
Alignment explanation
Indices: 19114480--19114587 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
19114470 TGAAATTCCC
*
19114480 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
19114506 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
19114532 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
19114558 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19114584 ATCA
1 ATCA
19114588 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19119084 original size:17 final size:17
Alignment explanation
Indices: 19119058--19119090 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19119048 TTATTATAAT
*
19119058 TGTGTGTATATATTATG
1 TGTGTATATATATTATG
19119075 TGTGTATATATATTAT
1 TGTGTATATATATTAT
19119091 ATGCATATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (17 bp):
TGTGTATATATATTATG
Found at i:19140070 original size:16 final size:18
Alignment explanation
Indices: 19140051--19140083 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19140041 CATATGAATT
19140051 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
19140067 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
19140084 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:19140712 original size:43 final size:43
Alignment explanation
Indices: 19140650--19140756 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
19140640 TTGAACTCAT
* *
19140650 TCACCGGCATTA-CGCCTGCTAGGCTCGAAGCCCAATATTAAC
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
* *
19140692 TCACTGGCATTATAGCCTGCTAGGTTCGAAGCCCGATATTAAC
1 TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
*
19140735 TCACTAGCATTATAGCCTGCTA
1 TCACTGGCATTATAGCCTGCTA
19140757 ATCAACAAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
42 11 0.19
43 48 0.81
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
TCACTGGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
Found at i:19154648 original size:56 final size:56
Alignment explanation
Indices: 19154562--19154681 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
19154552 ACAAGGGATG
19154562 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
19154618 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
19154674 ATGGGCAA
1 ATGGGCAA
19154682 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:19155949 original size:39 final size:40
Alignment explanation
Indices: 19155849--19156033 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
19155839 TCGAATGATG
* * *
19155849 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
19155888 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
19155929 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
19155968 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
19156007 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
19156034 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:19156055 original size:79 final size:79
Alignment explanation
Indices: 19155902--19156056 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
19155892 AGACTAAGAT
* **
19155902 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
19155967 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
19155981 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
19156044 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
19156057 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:19156596 original size:22 final size:22
Alignment explanation
Indices: 19156571--19156615 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
19156561 TGTATAATTT
19156571 TGGATAGCCATGCGAAAATGGC
1 TGGATAGCCATGCGAAAATGGC
*
19156593 TGGATAGGCATGCGAAAATGGC
1 TGGATAGCCATGCGAAAATGGC
19156615 T
1 T
19156616 TATATATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.33, T:0.20
Consensus pattern (22 bp):
TGGATAGCCATGCGAAAATGGC
Found at i:19159225 original size:13 final size:13
Alignment explanation
Indices: 19159207--19159231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19159197 GATACATATT
19159207 AAATATATATTAA
1 AAATATATATTAA
19159220 AAATATATATTA
1 AAATATATATTA
19159232 TTGCTGTAGT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATATATATTAA
Found at i:19165396 original size:40 final size:40
Alignment explanation
Indices: 19165244--19165389 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
19165234 TTGAATGATG
* * * * *
19165244 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
19165284 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19165324 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19165365 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19165390 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19165396 original size:80 final size:80
Alignment explanation
Indices: 19165244--19165422 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
19165234 TTGAATGATG
* * *
19165244 TCCGGGCTAAGTCTCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
19165309 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
19165324 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
19165387 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
19165404 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19165423 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 59 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:19170975 original size:28 final size:28
Alignment explanation
Indices: 19170934--19170993 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
19170924 CGAATTCCTT
19170934 GACCTGTTACAAAGTCATAATCATGTCA
1 GACCTGTTACAAAGTCATAATCATGTCA
*
19170962 GACCTGTTATAAAGTCATAATCATGTCA
1 GACCTGTTACAAAGTCATAATCATGTCA
19170990 -ACCT
1 GACCT
19170994 CAGTAATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (28 bp):
GACCTGTTACAAAGTCATAATCATGTCA
Found at i:19171501 original size:17 final size:17
Alignment explanation
Indices: 19171479--19171527 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
19171469 TTTAAAATTT
19171479 ATAAAAAATATTTAAAA
1 ATAAAAAATATTTAAAA
19171496 ATAAAAAATA---AAAA
1 ATAAAAAATATTTAAAA
19171510 ATAAAAAAT-TATTAAAA
1 ATAAAAAATAT-TTAAAA
19171527 A
1 A
19171528 AATTCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 13 0.46
17 15 0.54
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAAAATATTTAAAA
Found at i:19171504 original size:7 final size:7
Alignment explanation
Indices: 19171492--19171518 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19171482 AAAAATATTT
19171492 AAAAATA
1 AAAAATA
19171499 AAAAATA
1 AAAAATA
19171506 AAAAATA
1 AAAAATA
19171513 AAAAAT
1 AAAAAT
19171519 TATTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:19174632 original size:33 final size:33
Alignment explanation
Indices: 19174595--19174662 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
19174585 GAGTGCAAAG
19174595 ATAGAACATTATAGAAACTATTGAGTTAAATCA
1 ATAGAACATTATAGAAACTATTGAGTTAAATCA
19174628 ATAGAACATTATAGAAACTATTGAGTTAAATCA
1 ATAGAACATTATAGAAACTATTGAGTTAAATCA
19174661 AT
1 AT
19174663 CTTACAACTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.31
Consensus pattern (33 bp):
ATAGAACATTATAGAAACTATTGAGTTAAATCA
Found at i:19175830 original size:6 final size:6
Alignment explanation
Indices: 19175821--19175854 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
19175811 ATTCAAATAC
*
19175821 AGATTG AGATTG AGATTG AGTTTG AGATTG AGAT
1 AGATTG AGATTG AGATTG AGATTG AGATTG AGAT
19175855 CAAATGAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (6 bp):
AGATTG
Found at i:19179142 original size:13 final size:13
Alignment explanation
Indices: 19179124--19179149 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19179114 ATGAAGTGTT
19179124 GAAGATCAAGCTG
1 GAAGATCAAGCTG
19179137 GAAGATCAAGCTG
1 GAAGATCAAGCTG
19179150 CTATATTATT
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:0.31, T:0.15
Consensus pattern (13 bp):
GAAGATCAAGCTG
Found at i:19183790 original size:12 final size:12
Alignment explanation
Indices: 19183773--19183834 Score: 56
Period size: 12 Copynumber: 5.0 Consensus size: 12
19183763 ATATAGTAAT
19183773 ATAAATCATATA
1 ATAAATCATATA
*
19183785 ATAAATAATATA
1 ATAAATCATATA
*
19183797 A-AAATATATATA
1 ATAAAT-CATATA
19183809 ATAAAATCTATATA
1 AT-AAATC-ATATA
19183823 ATATAAT-ATATA
1 ATA-AATCATATA
19183835 TAAGAAAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
11 4 0.10
12 23 0.55
13 1 0.02
14 14 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAAATCATATA
Found at i:19183804 original size:8 final size:9
Alignment explanation
Indices: 19183769--19183837 Score: 52
Period size: 9 Copynumber: 7.3 Consensus size: 9
19183759 AAATATATAG
19183769 TAATATAAA
1 TAATATAAA
19183778 TCATATAATAAA
1 T-A-AT-ATAAA
19183790 TAATATAAA
1 TAATATAAA
*
19183799 -AATATATA
1 TAATATAAA
19183807 TAATA-AAA
1 TAATATAAA
*
19183815 TCTATATAATA
1 T-AATATAA-A
*
19183826 TAATATATA
1 TAATATAAA
19183835 TAA
1 TAA
19183838 GAAAGATACA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
8 10 0.21
9 17 0.35
10 10 0.21
11 5 0.10
12 6 0.12
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
TAATATAAA
Found at i:19183807 original size:24 final size:28
Alignment explanation
Indices: 19183739--19183837 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 28
19183729 AAATAAAGTG
* *
19183739 TATAATATAATTTACA-AATAAAAT-ATA
1 TATAATATAATATATATAATAAAATCA-A
19183766 TAGTAATATAA-ATCATATAAT-AAAT-AA
1 TA-TAATATAATAT-ATATAATAAAATCAA
*
19183793 TATAA-A-AATATATATAATAAAATCTA
1 TATAATATAATATATATAATAAAATCAA
19183819 TATAATATAATATATATAA
1 TATAATATAATATATATAA
19183838 GAAAGATACA
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
24 9 0.15
25 7 0.11
26 9 0.15
27 7 0.11
28 26 0.43
29 3 0.05
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (28 bp):
TATAATATAATATATATAATAAAATCAA
Found at i:19183877 original size:14 final size:14
Alignment explanation
Indices: 19183755--19183876 Score: 87
Period size: 14 Copynumber: 8.8 Consensus size: 14
19183745 ATAATTTACA
19183755 AATAAAATATATAGT
1 AATAAAATATATA-T
*
19183770 AATATAAAT-CATAT
1 AATA-AAATATATAT
19183784 AAT-AAATA-ATAT
1 AATAAAATATATAT
19183796 -A-AAAATATATAT
1 AATAAAATATATAT
*
19183808 AATAAAATCTATAT
1 AATAAAATATATAT
*
19183822 AATATAATATATAT
1 AATAAAATATATAT
* *
19183836 AAGAAAGATACAT-T
1 AATAAA-ATATATAT
*
19183850 -ATAAGGAATAATAGAT
1 AATAA--AAT-ATATAT
19183866 AATAAAATATA
1 AATAAAATATA
19183877 GTATGTGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
11 6 0.07
12 12 0.14
13 4 0.05
14 36 0.42
15 18 0.21
16 5 0.06
17 4 0.05
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (14 bp):
AATAAAATATATAT
Found at i:19184067 original size:29 final size:31
Alignment explanation
Indices: 19184030--19184089 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
19184020 TATATAACAG
19184030 AATAGATATAATAAATAAT-AAAAATAATAT
1 AATAGATATAATAAATAATAAAAAATAATAT
*
19184060 AATA-ATATAATAGATAATAAAAAATAATAT
1 AATAGATATAATAAATAATAAAAAATAATAT
19184090 GTACTATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 13 0.46
30 15 0.54
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (31 bp):
AATAGATATAATAAATAATAAAAAATAATAT
Found at i:19188798 original size:6 final size:6
Alignment explanation
Indices: 19188787--19188815 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19188777 GATGCTCCCA
19188787 AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG
19188816 ATTCATTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Done.