Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 43 of 276
Found at i:13507734 original size:8 final size:8
Alignment explanation
Indices: 13507700--13507767 Score: 75
Period size: 8 Copynumber: 8.5 Consensus size: 8
13507690 TAATAATGTG
*
13507700 AATAATAA
1 AATATTAA
13507708 AATATATAA
1 AATAT-TAA
13507717 AATA-TAA
1 AATATTAA
13507724 AATATTAA
1 AATATTAA
*
13507732 AATATCAA
1 AATATTAA
*
13507740 AATATCAA
1 AATATTAA
*
13507748 AATATCAA
1 AATATTAA
*
13507756 AATATTAG
1 AATATTAA
13507764 AATA
1 AATA
13507768 ATAATAATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
7 7 0.13
8 40 0.74
9 7 0.13
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (8 bp):
AATATTAA
Found at i:13507977 original size:22 final size:24
Alignment explanation
Indices: 13507917--13507981 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
13507907 CGTGATAATA
13507917 TTAAAAATATATACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
13507942 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
13507965 TT-AAAATATATACATAA
1 TTAAAAATATATACATAA
13507982 GATAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 21 0.55
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:13508030 original size:15 final size:17
Alignment explanation
Indices: 13507997--13508036 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
13507987 CATGTAGAAA
13507997 AAAT-ATATATGTATAT
1 AAATAATATATGTATAT
13508013 AAATAATATA-GTAT-T
1 AAATAATATATGTATAT
*
13508028 AAAGAATAT
1 AAATAATAT
13508037 GCATAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 9 0.41
16 8 0.36
17 5 0.23
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (17 bp):
AAATAATATATGTATAT
Found at i:13508042 original size:24 final size:22
Alignment explanation
Indices: 13508015--13508058 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
13508005 ATGTATATAA
*
13508015 ATAATATAGTATTAAAGAATATGC
1 ATAAAATAGTA-TAAA-AATATGC
13508039 ATAAAATAGTATAAAAATAT
1 ATAAAATAGTATAAAAATAT
13508059 ATATATACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 4 0.21
24 10 0.53
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (22 bp):
ATAAAATAGTATAAAAATATGC
Found at i:13508713 original size:30 final size:30
Alignment explanation
Indices: 13508635--13508799 Score: 208
Period size: 30 Copynumber: 5.5 Consensus size: 30
13508625 TAGGTACAAG
* *
13508635 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * * *
13508665 AGGTAATGGAGCAA-GTGTGGCTAGTGAATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
13508695 TGGTGGTGGAAAAGGTGTGGCTAATGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
13508725 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
13508755 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
13508785 TGGTGGTGGAAAAGG
1 TGGTGGTGGAAAAGG
13508800 CTAAGATTTA
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
29 2 0.02
30 116 0.98
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:13510419 original size:44 final size:44
Alignment explanation
Indices: 13510357--13510683 Score: 604
Period size: 44 Copynumber: 7.5 Consensus size: 44
13510347 TTTCATTAGA
* * *
13510357 ACGCCC-TTTCGAGTTTTCATCC-TAATCTTTTGTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCA-CCTTGATCTTTTTTGTTAATCAAG
13510400 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
13510444 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
13510488 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
13510532 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
13510576 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
13510620 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
1 ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
13510664 ACGCCCTTTTCGGGTTTTCA
1 ACGCCCTTTTCGGGTTTTCA
13510684 GTATGAACCT
Statistics
Matches: 279, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
43 8 0.03
44 271 0.97
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (44 bp):
ACGCCCTTTTCGGGTTTTCACCTTGATCTTTTTTGTTAATCAAG
Found at i:13516638 original size:16 final size:15
Alignment explanation
Indices: 13516617--13516664 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
13516607 GATGTGAATA
13516617 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
13516633 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
13516648 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
13516664 A
1 A
13516665 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:13516640 original size:24 final size:24
Alignment explanation
Indices: 13516613--13516668 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
13516603 TAATGATGTG
*
13516613 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
13516637 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
13516661 AATAATAA
1 AATAATAA
13516669 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:13516647 original size:8 final size:8
Alignment explanation
Indices: 13516613--13516664 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
13516603 TAATGATGTG
*
13516613 AATAATAA
1 AATATTAA
13516621 AATATATAA
1 AATAT-TAA
13516630 AATA-TAA
1 AATATTAA
13516637 AATATTAA
1 AATATTAA
*
13516645 AATATCAA
1 AATATTAA
*
13516653 AATATTAG
1 AATATTAA
13516661 AATA
1 AATA
13516665 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:13516882 original size:22 final size:24
Alignment explanation
Indices: 13516819--13516883 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
13516809 CGTGATAATA
*
13516819 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
13516844 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
13516867 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
13516884 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:13516930 original size:25 final size:25
Alignment explanation
Indices: 13516902--13517035 Score: 86
Period size: 25 Copynumber: 5.6 Consensus size: 25
13516892 GTAAAAAAAT
13516902 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * * *
13516927 ATATATACATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
*
13516952 ATATATATACATAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
13516978 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
13517000 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
13517023 AAATAT-AATAATA
1 ATATATAAATAATA
13517036 ACAAAAAAGG
Statistics
Matches: 83, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 18 0.22
24 5 0.06
25 32 0.39
26 1 0.01
27 11 0.13
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:13516983 original size:52 final size:51
Alignment explanation
Indices: 13516822--13516983 Score: 138
Period size: 52 Copynumber: 3.2 Consensus size: 51
13516812 GATAATATTA
* * * * *
13516822 AAAATATGTACATAATATAGTGTTAAAA-ATACATACATAATATAG---TT
1 AAAATATATACATAAAATAGTATAAAAATATATATACATAATATAGAATTT
* * * *
13516869 AAGATATATACATAAGATAACATGTAAAAAAATATATATAAATAATAT--AATATT
1 AAAATATATACAT-A-A-AATA-GTATAAAAATATATATACATAATATAGAAT-TT
13516923 AAAGATATATACATAAAATAGTATAAAATATATATATACATAATATAGAATTT
1 AAA-ATATATACATAAAATAGTATAAAA-ATATATATACATAATATAGAATTT
13516976 AAAATATA
1 AAAATATA
13516984 CCTAATATAT
Statistics
Matches: 89, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
47 11 0.12
48 1 0.01
49 1 0.01
50 2 0.02
51 13 0.15
52 37 0.42
53 6 0.07
54 8 0.09
55 10 0.11
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (51 bp):
AAAATATATACATAAAATAGTATAAAAATATATATACATAATATAGAATTT
Found at i:13517608 original size:30 final size:30
Alignment explanation
Indices: 13517567--13517627 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
13517557 GTAATGGAGC
* *
13517567 AAGTGTGGCTAGTGGATTTGGTGGTGGAAA
1 AAGTATGGCTAGTGGAGTTGGTGGTGGAAA
13517597 AAGTATGGCTAGTGGAGTTGGTGGTGGAAA
1 AAGTATGGCTAGTGGAGTTGGTGGTGGAAA
13517627 A
1 A
13517628 GGCTAAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.03, G:0.43, T:0.28
Consensus pattern (30 bp):
AAGTATGGCTAGTGGAGTTGGTGGTGGAAA
Found at i:13519082 original size:116 final size:116
Alignment explanation
Indices: 13518878--13519108 Score: 444
Period size: 116 Copynumber: 2.0 Consensus size: 116
13518868 GTCGATGTAT
*
13518878 ATGTATCTTGACCGTCGGTTTTGGGGGAGCTCAACTATAAATAGAGAGCCTCCCCCTCATTTGTA
1 ATGTATCTTGACCGTCGGTTTTGGGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCATTTGTA
13518943 AATCATCCATTGTAACTTGAATTCTTAAGAGTAATAGAATTCTTGAGCATC
66 AATCATCCATTGTAACTTGAATTCTTAAGAGTAATAGAATTCTTGAGCATC
*
13518994 ATGTATCTTGACCGTCGGTTTTGGGAGAGCTCAACTATAAATAGAGAGCTTCCCCCTCATTTGTA
1 ATGTATCTTGACCGTCGGTTTTGGGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCATTTGTA
13519059 AATCATCCATTGTAACTTGAATTCTTAAGAGTAATAGAATTCTTGAGCAT
66 AATCATCCATTGTAACTTGAATTCTTAAGAGTAATAGAATTCTTGAGCAT
13519109 TTACTCAAAC
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 113 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (116 bp):
ATGTATCTTGACCGTCGGTTTTGGGAGAGCTCAACTATAAATAGAGAGCCTCCCCCTCATTTGTA
AATCATCCATTGTAACTTGAATTCTTAAGAGTAATAGAATTCTTGAGCATC
Found at i:13521987 original size:26 final size:26
Alignment explanation
Indices: 13521934--13521996 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
13521924 TAAGTAAGAT
* * *
13521934 ATAATAAATATTTAATAAATAGATAA
1 ATAATAAATATATAATAAATAAAAAA
13521960 ATAATAAATATAT-ATAATATAAAAAA
1 ATAATAAATATATAATAA-ATAAAAAA
*
13521986 ATTAT-AATATA
1 ATAATAAATATA
13521997 ATGAATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 10 0.31
26 22 0.69
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
ATAATAAATATATAATAAATAAAAAA
Found at i:13522039 original size:24 final size:24
Alignment explanation
Indices: 13521988--13522044 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
13521978 ATAAAAAAAT
* * *
13521988 TATAATATAATGAATTTTTATATT
1 TATAATATAATGAATTTTAACATC
13522012 TATAATTATAAT-AATTTTAACATC
1 TATAA-TATAATGAATTTTAACATC
13522036 TAT-ATATAA
1 TATAATATAA
13522045 AATATTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 1 0.03
24 17 0.59
25 6 0.21
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
TATAATATAATGAATTTTAACATC
Found at i:13523513 original size:24 final size:24
Alignment explanation
Indices: 13523486--13523537 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13523476 TTAGTAAGTC
*
13523486 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
13523510 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13523534 AAAT
1 AAAT
13523538 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13525029 original size:24 final size:24
Alignment explanation
Indices: 13525002--13525053 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
13524992 TTAGTAAGTC
*
13525002 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
13525026 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
13525050 AAAT
1 AAAT
13525054 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:13525177 original size:21 final size:22
Alignment explanation
Indices: 13525147--13525187 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13525137 CATGATTGAA
13525147 AAAAATAAATAAAAAAAATTTC
1 AAAAATAAATAAAAAAAATTTC
*
13525169 AAAAA-AAATTAAAAAAATT
1 AAAAATAAATAAAAAAAATT
13525188 AGCGTGGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAATAAATAAAAAAAATTTC
Found at i:13525373 original size:24 final size:24
Alignment explanation
Indices: 13525346--13525394 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
13525336 TAACTAAAAA
13525346 AAAAAGAATAAAAAC-AAAATTGAT
1 AAAAA-AATAAAAACTAAAATTGAT
* *
13525370 AAAAAAATATAAACTAAATTTGAT
1 AAAAAAATAAAAACTAAAATTGAT
13525394 A
1 A
13525395 TTATACTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (24 bp):
AAAAAAATAAAAACTAAAATTGAT
Found at i:13525719 original size:16 final size:17
Alignment explanation
Indices: 13525698--13525731 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
13525688 TAAAAATGTT
13525698 TAAAAAATTA-TAAAAA
1 TAAAAAATTATTAAAAA
13525714 TAAAAAATTATTAAAAA
1 TAAAAAATTATTAAAAA
13525731 T
1 T
13525732 CATTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAAATTATTAAAAA
Found at i:13528729 original size:17 final size:18
Alignment explanation
Indices: 13528707--13528740 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13528697 CTATTGTCCT
13528707 TATTATAATTA-GTATTA
1 TATTATAATTAGGTATTA
*
13528724 TATTATTATTAGGTATT
1 TATTATAATTAGGTATT
13528741 TTAAGTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (18 bp):
TATTATAATTAGGTATTA
Found at i:13529236 original size:27 final size:26
Alignment explanation
Indices: 13529194--13529269 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
13529184 ACTTTATCTT
* *
13529194 AATTTATTTACATATTATTTATTTGA
1 AATTTATTTATATATTATTTATTTCA
13529220 AATTTACTTTATATATTATTTTATTTCA
1 AATTTA-TTTATATATTA-TTTATTTCA
* *
13529248 AATTGATTTATATTTTATTTAT
1 AATTTATTTATATATTATTTAT
13529270 GTTAAATCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.25
27 20 0.45
28 13 0.30
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (26 bp):
AATTTATTTATATATTATTTATTTCA
Found at i:13531319 original size:22 final size:22
Alignment explanation
Indices: 13531289--13531367 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 22
13531279 ACTTCACCGT
* *
13531289 AAACCCTAAACCTTAAATCTTA
1 AAACCCTAAACCCTAAAACTTA
*
13531311 AAACTCTAAACCCTAAAACTT-
1 AAACCCTAAACCCTAAAACTTA
* * *** *
13531332 AAGCACTAAAAATTAAACCTT-
1 AAACCCTAAACCCTAAAACTTA
13531353 AAACCCTAAACCCTA
1 AAACCCTAAACCCTA
13531368 CACTTGAAAC
Statistics
Matches: 43, Mismatches: 14, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
21 25 0.58
22 18 0.42
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.23
Consensus pattern (22 bp):
AAACCCTAAACCCTAAAACTTA
Found at i:13531341 original size:29 final size:28
Alignment explanation
Indices: 13531288--13531355 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
13531278 AACTTCACCG
* *
13531288 TAAACCCTAAACCTTAAATCTTAAAACT
1 TAAACCCTAAAACTTAAATCTTAAAAAT
13531316 CTAAACCCTAAAACTTAAGCA-C-TAAAAAT
1 -TAAACCCTAAAACTTAA--ATCTTAAAAAT
*
13531345 TAAACCTTAAA
1 TAAACCCTAAA
13531356 CCCTAAACCC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 10 0.29
29 22 0.65
30 1 0.03
31 1 0.03
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.25
Consensus pattern (28 bp):
TAAACCCTAAAACTTAAATCTTAAAAAT
Found at i:13531362 original size:14 final size:14
Alignment explanation
Indices: 13531288--13531367 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
13531278 AACTTCACCG
*
13531288 TAAACCCTAAACCT
1 TAAACCCTAAAACT
* *
13531302 TAAATCTTAAAACT
1 TAAACCCTAAAACT
13531316 CTAAACCCTAAAACT
1 -TAAACCCTAAAACT
* * *
13531331 TAAGCACTAAAAAT
1 TAAACCCTAAAACT
* * *
13531345 TAAACCTTAAACCC
1 TAAACCCTAAAACT
13531359 TAAACCCTA
1 TAAACCCTA
13531368 CACTTGAAAC
Statistics
Matches: 50, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
14 38 0.76
15 12 0.24
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAAACT
Found at i:13532837 original size:21 final size:21
Alignment explanation
Indices: 13532795--13532837 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13532785 AGCACATGTA
* *
13532795 TTCATAAAATTTTAGAATTTT
1 TTCATAAAATTTTACAACTTT
*
13532816 TTCATCAAATTTTACAACTTT
1 TTCATAAAATTTTACAACTTT
13532837 T
1 T
13532838 CATTTTAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (21 bp):
TTCATAAAATTTTACAACTTT
Found at i:13535557 original size:27 final size:26
Alignment explanation
Indices: 13535519--13535572 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 26
13535509 TCTTCATCCA
13535519 AAAATAAGAAATGGGAAAGAGTACCT
1 AAAATAAGAAATGGGAAAGAGTACCT
13535545 NAAAATAAGAAATGGGAAAGAGTACCT
1 -AAAATAAGAAATGGGAAAGAGTACCT
13535572 A
1 A
13535573 CCACAAGCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.54, C:0.07, G:0.22, T:0.15
Consensus pattern (26 bp):
AAAATAAGAAATGGGAAAGAGTACCT
Found at i:13536473 original size:16 final size:16
Alignment explanation
Indices: 13536452--13536487 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
13536442 TTTCTTAACC
13536452 AATAGACGAATAAAGT
1 AATAGACGAATAAAGT
*
13536468 AATAGATGAATAAAGT
1 AATAGACGAATAAAGT
13536484 AATA
1 AATA
13536488 TTTATTAATT
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:0.58, C:0.03, G:0.17, T:0.22
Consensus pattern (16 bp):
AATAGACGAATAAAGT
Found at i:13545580 original size:17 final size:17
Alignment explanation
Indices: 13545535--13545593 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
13545525 ATAATTACTT
13545535 TAATATTAAATT-AATA
1 TAATATTAAATTAAATA
* *
13545551 AAATACT--ATTAAA-A
1 TAATATTAAATTAAATA
*
13545565 TAAGTATTAAATTAAATT
1 TAA-TATTAAATTAAATA
13545583 TAATATTAAAT
1 TAATATTAAAT
13545594 CTATTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
14 6 0.18
15 5 0.15
16 5 0.15
17 14 0.42
18 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
TAATATTAAATTAAATA
Found at i:13547615 original size:29 final size:28
Alignment explanation
Indices: 13547524--13547630 Score: 92
Period size: 29 Copynumber: 3.8 Consensus size: 28
13547514 TACATACATG
*
13547524 CATATAGCCCACTAGGCCCAATCTTA-TT
1 CATATGGCCCACTAGGCCCAAT-TTATTT
* ** *
13547552 CAAATGGCCCATCT-GGCCCTGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTTAT-TT
*
13547581 CTTATGGCCCACTAGGCCCAATTTACTTT
1 CATATGGCCCACTAGGCCCAATTTA-TTT
* *
13547610 CATATGTCCCATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
13547631 ATCATATTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
27 2 0.03
28 17 0.28
29 41 0.67
30 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCAATTTATTT
Found at i:13547637 original size:58 final size:57
Alignment explanation
Indices: 13547530--13547638 Score: 132
Period size: 58 Copynumber: 1.9 Consensus size: 57
13547520 CATGCATATA
***
13547530 GCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCTGTTCATATTCTTATG
1 GCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAAATCATATTCTTATG
* *
13547587 GCCCACTAGGCCCAAT-TTACTTTCATATGTCCCAT-TAGGCCCAAATCATATT
1 GCCCACTAGGCCCAATCTTA--TTCAAATGGCCCATCT-GGCCCAAATCATATT
13547639 ATACTCATGC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 3 0.07
57 17 0.39
58 24 0.55
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAAATCATATTCTTATG
Found at i:13550145 original size:41 final size:41
Alignment explanation
Indices: 13550100--13550997 Score: 1726
Period size: 41 Copynumber: 21.9 Consensus size: 41
13550090 TGATTCAGTA
13550100 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550141 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
13550182 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550223 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550264 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550305 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550346 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550387 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550428 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550469 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550510 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550551 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550592 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550633 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550674 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550715 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550756 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550797 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550838 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
13550879 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
13550920 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
13550961 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAAT
13550998 TACATTCAAT
Statistics
Matches: 850, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
40 2 0.00
41 848 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:13557846 original size:60 final size:60
Alignment explanation
Indices: 13557772--13557892 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
13557762 GGAAATAATA
13557772 ATACTTCAAGTAATAATAGCATAATGAAAACCTTATTACAATCTGGTCTGAAACACACTT
1 ATACTTCAAGTAATAATAGCATAATGAAAACCTTATTACAATCTGGTCTGAAACACACTT
* * *
13557832 ATACTTCGAGTAATAATAGCATAATGAAAACCTTATTACAATCTGGTTTGAAACATACTT
1 ATACTTCAAGTAATAATAGCATAATGAAAACCTTATTACAATCTGGTCTGAAACACACTT
13557892 A
1 A
13557893 ATAAACTTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (60 bp):
ATACTTCAAGTAATAATAGCATAATGAAAACCTTATTACAATCTGGTCTGAAACACACTT
Found at i:13558749 original size:29 final size:28
Alignment explanation
Indices: 13558700--13558799 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
13558690 TAGCCCACTA
* *
13558700 GGCCCAA-TCTTATTCAAATGACCTATCT
1 GGCCCAATTCATATTCATATGACCTAT-T
* *
13558728 GGCCCAATTCATATTCTTATGACCTATA
1 GGCCCAATTCATATTCATATGACCTATT
* ** *
13558756 GGCCCAATTTACCTTCATATGACCCATT
1 GGCCCAATTCATATTCATATGACCTATT
*
13558784 AGGCCCAAATCATATT
1 -GGCCCAATTCATATT
13558800 ATACTTATGC
Statistics
Matches: 56, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
28 29 0.52
29 27 0.48
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (28 bp):
GGCCCAATTCATATTCATATGACCTATT
Found at i:13558759 original size:28 final size:28
Alignment explanation
Indices: 13558698--13558799 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
13558688 TATAGCCCAC
* *
13558698 TAGGCCCAA-TCTTATTCAAATGACCTA
1 TAGGCCCAATTCATATTCATATGACCTA
* *
13558725 TCTGGCCCAATTCATATTCTTATGACCTA
1 T-AGGCCCAATTCATATTCATATGACCTA
* ** *
13558754 TAGGCCCAATTTACCTTCATATGACCCA
1 TAGGCCCAATTCATATTCATATGACCTA
*
13558782 TTAGGCCCAAATCATATT
1 -TAGGCCCAATTCATATT
13558800 ATACTTATGC
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
27 1 0.02
28 28 0.48
29 29 0.50
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.32
Consensus pattern (28 bp):
TAGGCCCAATTCATATTCATATGACCTA
Found at i:13559034 original size:24 final size:24
Alignment explanation
Indices: 13559005--13559055 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
13558995 AGAGCCTAAC
*
13559005 TTTCGACTTTTCAACATTTTGACT
1 TTTCGACTTTTCAACATTTCGACT
**
13559029 TTTCGACTTTTCGGCATTTCGACT
1 TTTCGACTTTTCAACATTTCGACT
13559053 TTT
1 TTT
13559056 GCCGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.51
Consensus pattern (24 bp):
TTTCGACTTTTCAACATTTCGACT
Found at i:13559038 original size:8 final size:8
Alignment explanation
Indices: 13559005--13559055 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
13558995 AGAGCCTAAC
13559005 TTTCGACT
1 TTTCGACT
*
13559013 TTTCAACAT
1 TTTCGAC-T
13559022 TTT-GACT
1 TTTCGACT
13559029 TTTCGACT
1 TTTCGACT
* *
13559037 TTTCGGCA
1 TTTCGACT
13559045 TTTCGACT
1 TTTCGACT
13559053 TTT
1 TTT
13559056 GCCGATTCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 4 0.11
8 27 0.77
9 4 0.11
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.51
Consensus pattern (8 bp):
TTTCGACT
Found at i:13566086 original size:16 final size:16
Alignment explanation
Indices: 13566065--13566096 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13566055 CTCATGCATA
13566065 GTAACTAGATTGGATC
1 GTAACTAGATTGGATC
13566081 GTAACTAGATTGGATC
1 GTAACTAGATTGGATC
13566097 TTTTCTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (16 bp):
GTAACTAGATTGGATC
Found at i:13566890 original size:69 final size:68
Alignment explanation
Indices: 13566756--13566896 Score: 255
Period size: 69 Copynumber: 2.1 Consensus size: 68
13566746 GAAACTAATC
* *
13566756 GCAAATCTCAGTTGCTTATTTGCACGAGTCATTGAGCAAATTATTATCCTTGAGGGGAGTTTATG
1 GCAAATCTCAATTGCTTATTTGCACGAGTCATTGAGCAAAATATTATCCTTGAGGGGAGTTTATG
13566821 AGT
66 AGT
13566824 GCAAATCTCAATTGCTTATTTGCACGAGTCATTAGAGCAAAATATTATCCTTGAGGGGAGTTTAT
1 GCAAATCTCAATTGCTTATTTGCACGAGTCATT-GAGCAAAATATTATCCTTGAGGGGAGTTTAT
13566889 GAGT
65 GAGT
13566893 GCAA
1 GCAA
13566897 GTTTGGGTTC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
68 32 0.46
69 38 0.54
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (68 bp):
GCAAATCTCAATTGCTTATTTGCACGAGTCATTGAGCAAAATATTATCCTTGAGGGGAGTTTATG
AGT
Found at i:13568500 original size:41 final size:41
Alignment explanation
Indices: 13568443--13568525 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
13568433 AGGAAATGGT
*
13568443 ATTTGAAAGTGTTTTTTTTTTTTTTTTTTGGAGAAGATGAA
1 ATTTGAAAGTGTTTTTTTTTTTTTTTTCTGGAGAAGATGAA
*
13568484 ATTTGAAAGTTTTTTTTTTTTTTTTTTCTGGAGAAGATGAA
1 ATTTGAAAGTGTTTTTTTTTTTTTTTTCTGGAGAAGATGAA
13568525 A
1 A
13568526 GGGCCTATTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.25, C:0.01, G:0.18, T:0.55
Consensus pattern (41 bp):
ATTTGAAAGTGTTTTTTTTTTTTTTTTCTGGAGAAGATGAA
Found at i:13577230 original size:3 final size:3
Alignment explanation
Indices: 13577222--13577273 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
13577212 TAACGGAAGG
* *
13577222 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACAG AGAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT
13577269 AAT AA
1 AAT AA
13577274 AGAAACATTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
3 39 0.91
4 4 0.09
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:13577576 original size:3 final size:3
Alignment explanation
Indices: 13577570--13577598 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13577560 ATATCAAAAC
13577570 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13577599 TAAATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13578096 original size:93 final size:93
Alignment explanation
Indices: 13577937--13578123 Score: 356
Period size: 93 Copynumber: 2.0 Consensus size: 93
13577927 TTCTCAAAAA
*
13577937 AAGGACTAAATCCGAAATAAACATGAAGTCTTGGGGCCGATCTTAAAATAAATATAAAGGAGGGG
1 AAGGACTAAATCCGAAATAAACATGAAGTCCTGGGGCCGATCTTAAAATAAATATAAAGGAGGGG
13578002 ACCTTTTTGAATGCGCGCGCGACTACAG
66 ACCTTTTTGAATGCGCGCGCGACTACAG
*
13578030 AAGGACTAAATCCGAAATAAACATGAAGTCCTGGGGCTGATCTTAAAATAAATATAAAGGAGGGG
1 AAGGACTAAATCCGAAATAAACATGAAGTCCTGGGGCCGATCTTAAAATAAATATAAAGGAGGGG
13578095 ACCTTTTTGAATGCGCGCGCGACTACAG
66 ACCTTTTTGAATGCGCGCGCGACTACAG
13578123 A
1 A
13578124 GGGCCAAAAG
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (93 bp):
AAGGACTAAATCCGAAATAAACATGAAGTCCTGGGGCCGATCTTAAAATAAATATAAAGGAGGGG
ACCTTTTTGAATGCGCGCGCGACTACAG
Found at i:13578437 original size:116 final size:115
Alignment explanation
Indices: 13578284--13578522 Score: 406
Period size: 116 Copynumber: 2.1 Consensus size: 115
13578274 AGACCCTTAA
* * * *
13578284 ATAAAAACGCGCGGATCTTGGGAAGTGTCGGAGTCGGGTCTCAGATCAGGGCAGCTAAATGACGC
1 ATAAAAGCGCGCGGATCTTGGGAAGGGTCGGAGTCGGGTCTCAGATCAGGGCAGCTAAACGACAC
13578349 CGTCTCAGCGTTTTGAAGTGGGCACCAAAACGGTGCCGTTTTGGTAGGCT
66 CGTCTCAGCGTTTTGAAGTGGGCACCAAAACGGTGCCGTTTTGGTAGGCT
*
13578399 ATAAAAGCTGCGCGGATCTTGGGAAGGGTCGGAGTCGGGTCTCGGATCAGGGCAGCTAAACGACA
1 ATAAAAGC-GCGCGGATCTTGGGAAGGGTCGGAGTCGGGTCTCAGATCAGGGCAGCTAAACGACA
* *
13578464 CCGTCTCAGCGTTTTGAAGTGGGCACCAAAACGGTGTCGTTTTGGTGGGCT
65 CCGTCTCAGCGTTTTGAAGTGGGCACCAAAACGGTGCCGTTTTGGTAGGCT
13578515 ATAAAAGC
1 ATAAAAGC
13578523 CTGAAAATTT
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
115 7 0.06
116 109 0.94
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.22
Consensus pattern (115 bp):
ATAAAAGCGCGCGGATCTTGGGAAGGGTCGGAGTCGGGTCTCAGATCAGGGCAGCTAAACGACAC
CGTCTCAGCGTTTTGAAGTGGGCACCAAAACGGTGCCGTTTTGGTAGGCT
Found at i:13580154 original size:42 final size:42
Alignment explanation
Indices: 13580043--13580170 Score: 204
Period size: 42 Copynumber: 3.1 Consensus size: 42
13580033 AGACACGTGA
* *
13580043 CTTCAATCAATTCCACTGAAACTTCAAGGAGATATGCTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
* *
13580085 CTTCGCTTAA-TCCACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
*
13580126 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTGG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
13580168 CTT
1 CTT
13580171 TTAGCTGCTC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 38 0.49
42 40 0.51
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
Found at i:13580761 original size:43 final size:44
Alignment explanation
Indices: 13580684--13580778 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 44
13580674 CTGTACATTT
* *
13580684 AGTCTGCTCCACTGCAACTTCAAGGAGATGAGACTTGTAACTTC
1 AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTC
*
13580728 AGTCTGCTCCACTGC-ACTTC-AGGAAGATAAGACTAGTGACTTC
1 AGTCTGCTCCACTGCAACTTCAAGG-AGATAAGACTAGTAACTTC
*
13580771 AATCTGCT
1 AGTCTGCT
13580779 TCGCTGAGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 3 0.07
43 28 0.61
44 15 0.33
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTC
Found at i:13588942 original size:9 final size:9
Alignment explanation
Indices: 13588924--13588955 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
13588914 TGCAATGCCG
13588924 ATGC-ATGA
1 ATGCAATGA
13588932 ATGCAATGA
1 ATGCAATGA
13588941 ATGCAATGA
1 ATGCAATGA
13588950 ATGCAA
1 ATGCAA
13588956 AAAAGCGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:13593183 original size:3 final size:3
Alignment explanation
Indices: 13593175--13593217 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
13593165 TAACGGAAGG
* *
13593175 AAT AAT AAT AAT AAT AAT AAT ACAG AGAT AAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AA
13593218 AGAAACATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
3 30 0.88
4 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:13593520 original size:3 final size:3
Alignment explanation
Indices: 13593514--13593542 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13593504 ATATCAAAAC
13593514 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13593543 TAAATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13595796 original size:42 final size:42
Alignment explanation
Indices: 13595685--13595812 Score: 204
Period size: 42 Copynumber: 3.1 Consensus size: 42
13595675 AGACACGTGA
* *
13595685 CTTCAATCAATTCCACTGAAACTTCAAGGAGATATGCTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
* *
13595727 CTTCGCTTAA-TCCACTGAAACTTCAAGGAGATCTGCTGTAG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
*
13595768 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTGG
1 CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
13595810 CTT
1 CTT
13595813 TTAGCTGCTC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 38 0.49
42 40 0.51
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
CTTCGATCAATTCCACTGAAACTTCAAGGAGATCTGCTGTAG
Found at i:13596403 original size:43 final size:44
Alignment explanation
Indices: 13596326--13596420 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 44
13596316 CTGTACATTT
* *
13596326 AGTCTGCTCCACTGCAACTTCAAGGAGATGAGACTTGTAACTTC
1 AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTC
*
13596370 AGTCTGCTCCACTGC-ACTTC-AGGAAGATAAGACTAGTGACTTC
1 AGTCTGCTCCACTGCAACTTCAAGG-AGATAAGACTAGTAACTTC
*
13596413 AATCTGCT
1 AGTCTGCT
13596421 TCGCTGAGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 3 0.07
43 28 0.61
44 15 0.33
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGTAACTTC
Found at i:13604584 original size:9 final size:9
Alignment explanation
Indices: 13604566--13604597 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
13604556 TGCAATGCCG
13604566 ATGC-ATGA
1 ATGCAATGA
13604574 ATGCAATGA
1 ATGCAATGA
13604583 ATGCAATGA
1 ATGCAATGA
13604592 ATGCAA
1 ATGCAA
13604598 AAAAGCGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:13608016 original size:46 final size:45
Alignment explanation
Indices: 13607960--13608135 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
13607950 TGGTTGAGCA
* *
13607960 TCCGAACTCGTTGAGTTGATTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
13608006 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAAG
*
13608053 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
13608099 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13608136 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 67 0.61
47 31 0.28
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:13608116 original size:93 final size:93
Alignment explanation
Indices: 13607957--13608127 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
13607947 GGATGGTTGA
* * * *
13607957 GCATCCGAACTCGTTGAGTTGATTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13608022 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
13608050 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13608115 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13608128 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:13611865 original size:42 final size:42
Alignment explanation
Indices: 13611799--13611907 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
13611789 GCCATATACT
13611799 AGATATGGTCTTACATATAATCTCATATCGAAGCC-AATACCC
1 AGATATGGTCTTACATATAATCTCATATCGAAGCCAAAT-CCC
* * *
13611841 AGCTATGGTCTTACATGA-AGTCTCATATCGATGCCAAATCCC
1 AGATATGGTCTTACAT-ATAATCTCATATCGAAGCCAAATCCC
*
13611883 AGATATGGTCTTACACATAATCTCA
1 AGATATGGTCTTACATATAATCTCA
13611908 GTAATCCTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 53 0.91
43 4 0.07
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (42 bp):
AGATATGGTCTTACATATAATCTCATATCGAAGCCAAATCCC
Found at i:13613573 original size:87 final size:87
Alignment explanation
Indices: 13613451--13613616 Score: 235
Period size: 87 Copynumber: 1.9 Consensus size: 87
13613441 AAGTTAAGAG
** * * * *
13613451 ATACCTTAAGAGATATGTGACCTGAAAAGGTCAAAAGCTTTGGAAAGCTCGACACTTGAGAATGC
1 ATACCTTAAGAGATATGTGACCTGAAAAGACCAAAAGCTTTAGAAAACTCAACACTTGAGAAGGC
13613516 AAGGTGTATCTTAAGAGATGCA
66 AAGGTGTATCTTAAGAGATGCA
* *
13613538 ATACCTTAA-ACGATATGTGACCTGAAAAGACCAAAAGCTTTAGAAAATTCAACCCTTGAGAAGG
1 ATACCTTAAGA-GATATGTGACCTGAAAAGACCAAAAGCTTTAGAAAACTCAACACTTGAGAAGG
*
13613602 CGAGGTGTATCTTAA
65 CAAGGTGTATCTTAA
13613617 AATATATGAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
86 1 0.01
87 68 0.99
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (87 bp):
ATACCTTAAGAGATATGTGACCTGAAAAGACCAAAAGCTTTAGAAAACTCAACACTTGAGAAGGC
AAGGTGTATCTTAAGAGATGCA
Found at i:13613706 original size:108 final size:108
Alignment explanation
Indices: 13613517--13613733 Score: 267
Period size: 108 Copynumber: 2.0 Consensus size: 108
13613507 TGAGAATGCA
* *
13613517 AGGTGTATCTTAAGAGATGCAATACCTTAAACGATATGTGACCTGAAAAGACCAAAAGCTTTAGA
1 AGGTGTATCTTAAGAGATACAATACCTTAAAAGATATGTGACCTGAAAAGACCAAAAGCTTTAGA
*
13613582 AAATTCAACCCTTGAGAAGGCGAGGTGTATCTTAAAATATATG
66 AAATTCAACCCTTGAGAAGGCGAGGTGTATCTTAAAAGATATG
* * ** * * *
13613625 AGGTGTATTTTAAGAGATACAATACCTTAAAAGGTATGTGATTTGAAAA-AGCTAACAGCTTTCG
1 AGGTGTATCTTAAGAGATACAATACCTTAAAAGATATGTGACCTGAAAAGA-CCAAAAGCTTTAG
* * ** *
13613689 AAAGCTT-GATGCTTGAGAAGGCGAGGTGTATCTTAAGAGATATG
65 AAA-ATTCAACCCTTGAGAAGGCGAGGTGTATCTTAAAAGATATG
13613733 A
1 A
13613734 TACCTTAAGA
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
107 1 0.01
108 89 0.97
109 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (108 bp):
AGGTGTATCTTAAGAGATACAATACCTTAAAAGATATGTGACCTGAAAAGACCAAAAGCTTTAGA
AAATTCAACCCTTGAGAAGGCGAGGTGTATCTTAAAAGATATG
Found at i:13613772 original size:87 final size:86
Alignment explanation
Indices: 13613625--13613969 Score: 322
Period size: 87 Copynumber: 4.0 Consensus size: 86
13613615 AAAATATATG
* * * * * *
13613625 AGGTGTATTTTAAGAGATACAATACCTTAAAAGGTATGTGATTTGAAAAAGCT-AACAGCTTTCG
1 AGGTGTATCTTAAAAGATACGATACCTT-AAAGGTATGTGAATTGAAAAGGCTCAAGAGCTTT-G
* * *
13613689 AAAGCTTGATGCTTGAGAAGGCG
64 AAAGCTCGATGCTTGAAAAGGCA
* * * *
13613712 AGGTGTATCTTAAGAGATATGATACCTTAAGAGGTATGTGAATTGAAAAGGCT-AAAAGCTTTAA
1 AGGTGTATCTTAAAAGATACGATACCTTAA-AGGTATGTGAATTGAAAAGGCTCAAGAGCTTTGA
** *
13613776 CAAGCTTAATGCCTGAAAAGGCA
65 -AAGCTCGATGCTTGAAAAGGCA
* * * *
13613799 ATGTGTATCTTAAAAGATATGATACCTTAATAGGTATGTGTCA-T-AAAAGGGTCAAGAGCTTTG
1 AGGTGTATCTTAAAAGATACGATACCTTAA-AGGTATGTG-AATTGAAAAGGCTCAAGAGCTTTG
*
13613862 AAAAGCTCGACGCTTGAAAAGGCA
64 -AAAGCTCGATGCTTGAAAAGGCA
* * * * * * *
13613886 ATGTATATTTTAAAAGATACGATACCTTAAAAGCATGTGACTTGAAAATG-TCAAGAGCTTTGAA
1 AGGTGTATCTTAAAAGATACGATACCTTAAAGGTATGTGAATTGAAAAGGCTCAAGAGCTTTGAA
13613950 AGGCTCGATGCTTGAGAAAG
66 A-GCTCGATGCTTGA-AAAG
13613970 TGAGGTATCT
Statistics
Matches: 218, Mismatches: 31, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
85 3 0.01
86 42 0.19
87 171 0.78
88 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (86 bp):
AGGTGTATCTTAAAAGATACGATACCTTAAAGGTATGTGAATTGAAAAGGCTCAAGAGCTTTGAA
AGCTCGATGCTTGAAAAGGCA
Found at i:13613807 original size:195 final size:195
Alignment explanation
Indices: 13613451--13613820 Score: 426
Period size: 195 Copynumber: 1.9 Consensus size: 195
13613441 AAGTTAAGAG
* * * *
13613451 ATACCTTAAGAGATATGTGACCTGAAAAGGTCAAAAGCTTTGGAAAGCTCGACACTTGAGAATGC
1 ATACCTTAAAAGATATGTGACCTGAAAAGCTCAAAAGCTTTCGAAAGCTCGACACTTGAGAAGGC
* *
13613516 AAGGTGTATCTTAAGAGATGCAATACCTTAAACGATATGTGACCTGAAAAGACCAAAAGCTTTAG
66 AAGGTGTATCTTAAGAGATACAATACCTTAAACGATATGTGAACTGAAAAGACCAAAAGCTTTAG
* * *
13613581 AAAATTCAACCCTTGAGAAGGCGAGGTGTATCTTAAAATATATGAGGTGTATTTTAAGAGATACA
131 AAAATTCAACCCTTGAAAAGGCAAGGTGTATCTTAAAAGATATGAGGTGTATTTTAAGAGATACA
* ** * * **
13613646 ATACCTTAAAAGGTATGTGATTTGAAAAAGCT-AACAGCTTTCGAAAGCTTGATGCTTGAGAAGG
1 ATACCTTAAAAGATATGTGACCTG-AAAAGCTCAAAAGCTTTCGAAAGCTCGACACTTGAGAAGG
* ** * * * *
13613710 CGAGGTGTATCTTAAGAGATATGATACCTTAAGA-GGTATGTGAATTGAAAAGGCTAAAAGCTTT
65 CAAGGTGTATCTTAAGAGATACAATACCTTAA-ACGATATGTGAACTGAAAAGACCAAAAGCTTT
* * *
13613774 A-ACAAGCTT-AATGCC-TGAAAAGGCAATGTGTATCTTAAAAGATATGA
129 AGA-AA-ATTCAA-CCCTTGAAAAGGCAAGGTGTATCTTAAAAGATATGA
13613821 TACCTTAATA
Statistics
Matches: 144, Mismatches: 26, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
194 1 0.01
195 132 0.92
196 11 0.08
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (195 bp):
ATACCTTAAAAGATATGTGACCTGAAAAGCTCAAAAGCTTTCGAAAGCTCGACACTTGAGAAGGC
AAGGTGTATCTTAAGAGATACAATACCTTAAACGATATGTGAACTGAAAAGACCAAAAGCTTTAG
AAAATTCAACCCTTGAAAAGGCAAGGTGTATCTTAAAAGATATGAGGTGTATTTTAAGAGATACA
Found at i:13616956 original size:21 final size:21
Alignment explanation
Indices: 13616930--13616975 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13616920 TTTTTATTTA
*
13616930 TATATTATTCAT-TATATTATT
1 TATATTA-TCATACATATTATT
*
13616951 TATATTATCATACATTTTATT
1 TATATTATCATACATATTATT
13616972 TATA
1 TATA
13616976 AATTTAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATTATCATACATATTATT
Found at i:13616971 original size:24 final size:23
Alignment explanation
Indices: 13616923--13616971 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
13616913 TATATAATTT
* *
13616923 TTATTTATATATTATTCATTATA
1 TTATTTATATATCATACATTATA
*
13616946 TTATTTATATTATCATACATTTTA
1 TTATTTATA-TATCATACATTATA
13616970 TT
1 TT
13616972 TATAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTTATATATCATACATTATA
Found at i:13628755 original size:9 final size:9
Alignment explanation
Indices: 13628697--13629053 Score: 69
Period size: 10 Copynumber: 37.3 Consensus size: 9
13628687 ATTCTCAATA
13628697 AAAATATTAT
1 AAAA-ATTAT
*
13628707 AAAATTATAT
1 AAAAAT-TAT
13628717 AAAAATTAT
1 AAAAATTAT
*
13628726 -TAAATTGATT
1 AAAAATT-A-T
* *
13628736 TAAACTTAT
1 AAAAATTAT
13628745 AAAAATTAT
1 AAAAATTAT
*
13628754 AAAATATAAT
1 AAAA-ATTAT
13628764 AAAAA-TAT
1 AAAAATTAT
*
13628772 AATAAATTCT
1 AA-AAATTAT
13628782 AATAAATTTAT
1 AA-AAA-TTAT
*
13628793 AAATTTAA-TAA
1 AAA---AATTAT
13628804 AACAAATT-T
1 AA-AAATTAT
13628813 -AAAATATAT
1 AAAAAT-TAT
* *
13628822 AAAATTGTAC
1 AAAAAT-TAT
13628832 AAAAATGTA-
1 AAAAAT-TAT
*
13628841 AAACAAATACTT
1 AAA-AATTA--T
*
13628853 GAAAACTTAT
1 -AAAAATTAT
13628863 AAAAAATTATT
1 -AAAAATTA-T
13628874 AAAAA-TAT
1 AAAAATTAT
*
13628882 AAAAATGATAAA
1 AAAAAT--T-AT
13628894 AAAAATTATT
1 AAAAATTA-T
*
13628904 AAATATT-T
1 AAAAATTAT
* *
13628912 TAACA-T-T
1 AAAAATTAT
*
13628919 -AAAATCAT
1 AAAAATTAT
*
13628927 ATAAACTTAT
1 A-AAAATTAT
13628937 AAAAATTAT
1 AAAAATTAT
13628946 AATAAA-TAT
1 AA-AAATTAT
*
13628955 AAAAAATAT
1 AAAAATTAT
*
13628964 AAAAA-AAT
1 AAAAATTAT
13628972 AATAAATTATTT
1 AA-AAATTA--T
13628984 AAAAAATATAT
1 -AAAAAT-TAT
*
13628995 AAAATATTTT
1 AAAA-ATTAT
***
13629005 AATTCTTAT
1 AAAAATTAT
*
13629014 AAAAACTAAT
1 AAAAA-TTAT
13629024 AAATAA-TAT
1 AAA-AATTAT
13629033 -AAAATTATT
1 AAAAATTA-T
13629042 AAAAATTAT
1 AAAAATTAT
13629051 AAA
1 AAA
13629054 TATCATTTAA
Statistics
Matches: 258, Mismatches: 44, Indels: 91
0.66 0.11 0.23
Matches are distributed among these distances:
6 3 0.01
7 8 0.03
8 33 0.13
9 69 0.27
10 100 0.39
11 20 0.08
12 16 0.06
13 9 0.03
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:13628784 original size:21 final size:19
Alignment explanation
Indices: 13628743--13628805 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 19
13628733 ATTTAAACTT
13628743 ATAAAAATTATAAAATATA
1 ATAAAAATTATAAAATATA
* *
13628762 ATAAAAATATAATAAATTCTA
1 ATAAAAAT-T-ATAAAATATA
* *
13628783 AT-AAATTTAT-AAATTTA
1 ATAAAAATTATAAAATATA
13628800 ATAAAA
1 ATAAAA
13628806 CAAATTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
17 7 0.19
18 5 0.14
19 9 0.25
20 5 0.14
21 10 0.28
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAAATTATAAAATATA
Found at i:13628796 original size:8 final size:9
Alignment explanation
Indices: 13628766--13628804 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
13628756 AATATAATAA
*
13628766 AAATATAAT
1 AAATTTAAT
13628775 AAATTCTAAT
1 AAATT-TAAT
13628785 AAATTT-AT
1 AAATTTAAT
13628793 AAATTTAAT
1 AAATTTAAT
13628802 AAA
1 AAA
13628805 ACAAATTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
8 8 0.30
9 10 0.37
10 9 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
AAATTTAAT
Found at i:13628970 original size:29 final size:31
Alignment explanation
Indices: 13628937--13629007 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 31
13628927 ATAAACTTAT
13628937 AAAAATTATAATA-AATATAAAAAATATA-A
1 AAAAATTATAATATAATATAAAAAATATATA
* * *
13628966 AAAAATAATAA-ATTATTTAAAAAATATATA
1 AAAAATTATAATATAATATAAAAAATATATA
* *
13628996 AAATATTTTAAT
1 AAAAATTATAAT
13629008 TCTTATAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 1 0.03
29 23 0.70
30 9 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAAATTATAATATAATATAAAAAATATATA
Found at i:13628973 original size:8 final size:9
Alignment explanation
Indices: 13628934--13629001 Score: 66
Period size: 9 Copynumber: 7.3 Consensus size: 9
13628924 CATATAAACT
*
13628934 TATAAAAAT
1 TATAAAAAA
*
13628943 TATAATAAA
1 TATAAAAAA
13628952 TATAAAAAA
1 TATAAAAAA
13628961 TATAAAAAA
1 TATAAAAAA
13628970 -ATAATAAATTA
1 TATAA-AAA--A
*
13628981 TTTAAAAAA
1 TATAAAAAA
*
13628990 TATATAAAA
1 TATAAAAAA
13628999 TAT
1 TAT
13629002 TTTAATTCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
8 4 0.08
9 38 0.78
11 4 0.08
12 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TATAAAAAA
Found at i:13629008 original size:29 final size:31
Alignment explanation
Indices: 13628952--13629053 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 31
13628942 TTATAATAAA
13628952 TATAAAAAATATA-AAAAAATAATAAATTAT
1 TATAAAAAATATATAAAAAATAATAAATTAT
* * * *
13628982 T-TAAAAAATATATAAAATAT-TTTAATTCT
1 TATAAAAAATATATAAAAAATAATAAATTAT
* *
13629011 TATAAAAACTA-ATAAATAAT-ATAAA--AT
1 TATAAAAAATATATAAAAAATAATAAATTAT
*
13629038 TATTAAAAAT-TATAAA
1 TATAAAAAATATATAAA
13629054 TATCATTTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
27 14 0.25
29 28 0.49
30 15 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
TATAAAAAATATATAAAAAATAATAAATTAT
Found at i:13629382 original size:16 final size:16
Alignment explanation
Indices: 13629361--13629393 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13629351 CGTTAATTTG
13629361 ATTCGTTTAAAAATAT
1 ATTCGTTTAAAAATAT
13629377 ATTCGTTTAAAAATAT
1 ATTCGTTTAAAAATAT
13629393 A
1 A
13629394 GTTTAAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTCGTTTAAAAATAT
Found at i:13631933 original size:11 final size:10
Alignment explanation
Indices: 13631908--13632098 Score: 50
Period size: 10 Copynumber: 19.6 Consensus size: 10
13631898 TTTATTTTTT
*
13631908 ATTTTTTATA
1 ATTTTATATA
13631918 ATTTTATATCA
1 ATTTTATAT-A
13631929 ATTTTA-AT-
1 ATTTTATATA
*
13631937 ATTTT-TATG
1 ATTTTATATA
*
13631946 ATTTTTTATA
1 ATTTTATATA
*
13631956 AGTTTT-TAAGA
1 A-TTTTAT-ATA
* *
13631967 ACTTTAATATT
1 A-TTTTATATA
* *
13631978 TTTTTATAAA
1 ATTTTATATA
*
13631988 ATTTTAAAT-
1 ATTTTATATA
13631997 ATTTT-TATA
1 ATTTTATATA
*
13632006 A-TTTATTAGA
1 ATTTTA-TATA
*
13632016 ATTTTA-A-G
1 ATTTTATATA
13632024 ATATTTA-ATA
1 AT-TTTATATA
*
13632034 ATATTTATATG
1 AT-TTTATATA
*
13632045 GTTTTAT-T-
1 ATTTTATATA
*
13632053 ATTTTATTACA
1 ATTTTA-TATA
*
13632064 ATTTT-CATA
1 ATTTTATATA
*
13632073 AGTTTATATCA
1 ATTTTATAT-A
13632084 ATTTTA-ATA
1 ATTTTATATA
*
13632093 TTTTTA
1 ATTTTA
13632099 AAACTATTTT
Statistics
Matches: 134, Mismatches: 28, Indels: 39
0.67 0.14 0.19
Matches are distributed among these distances:
8 19 0.14
9 31 0.23
10 47 0.35
11 36 0.27
12 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (10 bp):
ATTTTATATA
Found at i:13631952 original size:38 final size:36
Alignment explanation
Indices: 13631900--13631981 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 36
13631890 TTCAAGTTTT
* *
13631900 TATTTTTTATTTTTTATAA-TTTTATATCAATTTTAA
1 TATTTTTTATTTTTTATAAGTTTT-TAACAACTTTAA
*
13631936 TATTTTTATGATTTTTTATAAGTTTTTAAGAACTTTAA
1 TATTTTT-T-ATTTTTTATAAGTTTTTAACAACTTTAA
13631974 TATTTTTT
1 TATTTTTT
13631982 TATAAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
36 7 0.17
37 2 0.05
38 27 0.68
39 4 0.10
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (36 bp):
TATTTTTTATTTTTTATAAGTTTTTAACAACTTTAA
Found at i:13631961 original size:10 final size:9
Alignment explanation
Indices: 13631901--13632020 Score: 55
Period size: 10 Copynumber: 12.6 Consensus size: 9
13631891 TCAAGTTTTT
13631901 ATTTTT-TA
1 ATTTTTATA
*
13631909 TTTTTTATA
1 ATTTTTATA
13631918 ATTTTATATCA
1 ATTTT-TAT-A
*
13631929 ATTTTAAT-
1 ATTTTTATA
13631937 ATTTTTATGA
1 ATTTTTAT-A
*
13631947 TTTTTTATA
1 ATTTTTATA
*
13631956 AGTTTTTAAGA
1 A-TTTTT-ATA
* *
13631967 ACTTTAATA
1 ATTTTTATA
*
13631976 TTTTTTTATAA
1 -ATTTTTAT-A
* *
13631987 AATTTTAAA
1 ATTTTTATA
13631996 TATTTTTATA
1 -ATTTTTATA
*
13632006 ATTTATTAGA
1 ATTT-TTATA
13632016 ATTTT
1 ATTTT
13632021 AAGATATTTA
Statistics
Matches: 82, Mismatches: 19, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
8 12 0.15
9 15 0.18
10 45 0.55
11 10 0.12
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:13631981 original size:20 final size:22
Alignment explanation
Indices: 13631958--13632002 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
13631948 TTTTTATAAG
*
13631958 TTTTTA-AGAACTTT-AATATT
1 TTTTTATAAAACTTTAAATATT
*
13631978 TTTTTATAAAATTTTAAATATT
1 TTTTTATAAAACTTTAAATATT
13632000 TTT
1 TTT
13632003 ATAATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 6 0.29
22 9 0.43
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTATAAAACTTTAAATATT
Found at i:13632098 original size:48 final size:45
Alignment explanation
Indices: 13631987--13632098 Score: 102
Period size: 48 Copynumber: 2.4 Consensus size: 45
13631977 TTTTTTATAA
*
13631987 AATTTTAAATATTTTTATAATTTATTAGAATTTTAAGATATTTAAT
1 AATTTT-AATATTTTTATAATTTATTACAATTTTAAGATATTTAAT
* * *
13632033 AATATTT-ATATGGTTTTATTATTTTATTACAATTTTCATA-AGTTTATAT
1 AAT-TTTAATAT--TTTTA-TAATTTATTACAATTTTAAGATA-TTTA-AT
13632082 CAATTTTAATATTTTTA
1 -AATTTTAATATTTTTA
13632099 AAACTATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
45 4 0.07
46 3 0.06
47 9 0.17
48 26 0.48
49 5 0.09
50 7 0.13
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (45 bp):
AATTTTAATATTTTTATAATTTATTACAATTTTAAGATATTTAAT
Found at i:13632128 original size:20 final size:21
Alignment explanation
Indices: 13632092--13632139 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
13632082 CAATTTTAAT
13632092 ATTTTTAAAACTATTTTTTTA
1 ATTTTTAAAACTATTTTTTTA
13632113 ATTTTTAGAAA-T-TTTTTTTA
1 ATTTTTA-AAACTATTTTTTTA
*
13632133 TTTTTTA
1 ATTTTTA
13632140 TAACCTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 14 0.56
21 8 0.32
22 3 0.12
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTTTAAAACTATTTTTTTA
Found at i:13648546 original size:14 final size:14
Alignment explanation
Indices: 13648527--13648558 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
13648517 AAATAAGTCT
*
13648527 TTTTCCAGAAATCA
1 TTTTCCAGAAACCA
13648541 TTTTCCAGAAACCA
1 TTTTCCAGAAACCA
13648555 TTTT
1 TTTT
13648559 TAATGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (14 bp):
TTTTCCAGAAACCA
Found at i:13654328 original size:16 final size:15
Alignment explanation
Indices: 13654300--13654352 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
13654290 CGTCTTGTGG
13654300 ATTTTTTAAAAAATA
1 ATTTTTTAAAAAATA
* *
13654315 ATTTATTTATAAAATT
1 ATTT-TTTAAAAAATA
*
13654331 ATTATTTTAATAAATAA
1 ATT-TTTTAAAAAAT-A
13654348 ATTTT
1 ATTTT
13654353 ATGATAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 4 0.13
16 22 0.73
17 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTTAAAAAATA
Found at i:13664750 original size:3 final size:3
Alignment explanation
Indices: 13664742--13664794 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
13664732 CTCTGGAGCT
13664742 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
13664790 TCA TC
1 TCA TC
13664795 TAAGTTCTCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:13673885 original size:15 final size:17
Alignment explanation
Indices: 13673867--13673901 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13673857 TATATTCTTA
13673867 AAAAATA-TT-AAAAAT
1 AAAAATATTTAAAAAAT
13673882 AAAAATATTTAAAAAAT
1 AAAAATATTTAAAAAAT
13673899 AAA
1 AAA
13673902 GAAAATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 2 0.11
17 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATATTTAAAAAAT
Found at i:13673886 original size:16 final size:18
Alignment explanation
Indices: 13673865--13673901 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
13673855 TATATATTCT
13673865 TAAAAAATA-TT-AAAAA
1 TAAAAAATATTTAAAAAA
13673881 T-AAAAATATTTAAAAAA
1 TAAAAAATATTTAAAAAA
13673898 TAAA
1 TAAA
13673902 GAAAATCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.39
16 3 0.17
17 6 0.33
18 2 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAAATATTTAAAAAA
Found at i:13675080 original size:14 final size:15
Alignment explanation
Indices: 13675063--13675103 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
13675053 TTATTTATTA
13675063 AATTAATTTT-AATT
1 AATTAATTTTCAATT
13675077 AATTAATTTTTCAATT
1 AATTAA-TTTTCAATT
*
13675093 AAATAATTTTC
1 AATTAATTTTC
13675104 TCATCCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:13675094 original size:16 final size:15
Alignment explanation
Indices: 13675063--13675102 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
13675053 TTATTTATTA
13675063 AATTAA-TTTTAATT
1 AATTAATTTTTAATT
13675077 AATTAATTTTTCAATT
1 AATTAATTTTT-AATT
*
13675093 AAATAATTTT
1 AATTAATTTT
13675103 CTCATCCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 4 0.17
16 13 0.57
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTAATTTTTAATT
Found at i:13677945 original size:23 final size:23
Alignment explanation
Indices: 13677911--13677954 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
13677901 AAGAGAAGGT
*
13677911 ATCAAACGTTGTCAGACATGGGA
1 ATCAAACCTTGTCAGACATGGGA
13677934 ATCAAACCTTGTCAGACATGG
1 ATCAAACCTTGTCAGACATGG
13677955 TTCGTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
ATCAAACCTTGTCAGACATGGGA
Found at i:13679113 original size:28 final size:28
Alignment explanation
Indices: 13679077--13679139 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
13679067 TTCCACTTTT
13679077 TCCATCTGCATTTATTTTCTTCTTATAGA
1 TCCA-CTGCATTTATTTTCTTCTTATAGA
13679106 TCCACTGCATTTATTTTCTTCTTATAGA
1 TCCACTGCATTTATTTTCTTCTTATAGA
13679134 TCCACT
1 TCCACT
13679140 TACACCTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 30 0.88
29 4 0.12
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.49
Consensus pattern (28 bp):
TCCACTGCATTTATTTTCTTCTTATAGA
Found at i:13680252 original size:19 final size:18
Alignment explanation
Indices: 13680224--13680262 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
13680214 GGTGATGAAA
* *
13680224 AATTATAATGTATGAAAAT
1 AATTAAAATGCAT-AAAAT
13680243 AATTAAAATGCATAAAAT
1 AATTAAAATGCATAAAAT
13680261 AA
1 AA
13680263 AGACAGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (18 bp):
AATTAAAATGCATAAAAT
Found at i:13681950 original size:18 final size:17
Alignment explanation
Indices: 13681927--13681960 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13681917 TCAGAAGAGT
*
13681927 ATCGATATCTTGTACAAC
1 ATCGATA-CTTATACAAC
13681945 ATCGATACTTATACAA
1 ATCGATACTTATACAA
13681961 AAAGTATCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (17 bp):
ATCGATACTTATACAAC
Found at i:13683244 original size:28 final size:28
Alignment explanation
Indices: 13683204--13683262 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
13683194 ATTTTGCCAC
*
13683204 CATGAACTTCCACTATGGTACCTGTTAA
1 CATGAACTTCCACTATCGTACCTGTTAA
*
13683232 CATGGACTTCCACTATCGTACCTGTTAA
1 CATGAACTTCCACTATCGTACCTGTTAA
13683260 CAT
1 CAT
13683263 TAATGTTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (28 bp):
CATGAACTTCCACTATCGTACCTGTTAA
Found at i:13688700 original size:51 final size:51
Alignment explanation
Indices: 13688642--13688743 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
13688632 CGGATCAAGA
13688642 TGCTAAGTAAAGAAGTTGTTTAATTTAGATTGATAGTGACAAATGAAATCT
1 TGCTAAGTAAAGAAGTTGTTTAATTTAGATTGATAGTGACAAATGAAATCT
13688693 TGCTAAGTAAAGAAGTTGTTTAATTTAGATTGATAGTGACAAATGAAATCT
1 TGCTAAGTAAAGAAGTTGTTTAATTTAGATTGATAGTGACAAATGAAATCT
13688744 AGGTGAATTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (51 bp):
TGCTAAGTAAAGAAGTTGTTTAATTTAGATTGATAGTGACAAATGAAATCT
Found at i:13688787 original size:43 final size:43
Alignment explanation
Indices: 13688721--13688812 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
13688711 TTTAATTTAG
*
13688721 ATTGATAGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGT
1 ATTGTTAGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGT
13688764 ATTGTTAGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGT
1 ATTGTTAGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGT
13688807 ATTGTT
1 ATTGTT
13688813 TTGCTTCTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (43 bp):
ATTGTTAGTGACAAATGAAATCTAGGTGAATTCTTTCTTAGGT
Found at i:13689813 original size:20 final size:20
Alignment explanation
Indices: 13689788--13689828 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
13689778 TCATTTTCAC
13689788 CCATGGTAATTTATG-CTTGA
1 CCATGGTAATTT-TGACTTGA
13689808 CCATGGTAATTTTGACTTGA
1 CCATGGTAATTTTGACTTGA
13689828 C
1 C
13689829 ATGTGGTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
CCATGGTAATTTTGACTTGA
Found at i:13691582 original size:23 final size:21
Alignment explanation
Indices: 13691556--13691637 Score: 85
Period size: 23 Copynumber: 3.7 Consensus size: 21
13691546 CATAAAGCAC
13691556 TGAATATAACATGCACAAGGTGT
1 TGAATATAACA--CACAAGGTGT
13691579 TGAATATAACACACATA-GTGT
1 TGAATATAACACACA-AGGTGT
* **
13691600 TGAATGTAACACATACAAGGCAT
1 TGAATATAACAC--ACAAGGTGT
13691623 TGAATATAACACACA
1 TGAATATAACACACA
13691638 TAAAGCATTG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
21 22 0.43
22 2 0.04
23 27 0.53
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (21 bp):
TGAATATAACACACAAGGTGT
Found at i:13691610 original size:44 final size:44
Alignment explanation
Indices: 13691556--13691639 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
13691546 CATAAAGCAC
** **
13691556 TGAATATAACATGCACAAGGTGTTGAATATAACACACATAGTGT
1 TGAATATAACACACACAAGGCATTGAATATAACACACATAGTGT
* *
13691600 TGAATGTAACACATACAAGGCATTGAATATAACACACATA
1 TGAATATAACACACACAAGGCATTGAATATAACACACATA
13691640 AAGCATTGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (44 bp):
TGAATATAACACACACAAGGCATTGAATATAACACACATAGTGT
Found at i:13691645 original size:23 final size:23
Alignment explanation
Indices: 13691546--13691649 Score: 77
Period size: 23 Copynumber: 4.6 Consensus size: 23
13691536 GATTAACATG
* **
13691546 CATAAAGCACTGAATATAACATG
1 CATAAAGCATTGAATATAACACA
* * **
13691569 CACAAGGTGTTGAATATAACACA
1 CATAAAGCATTGAATATAACACA
** *
13691592 CAT--AGTGTTGAATGTAACACA
1 CATAAAGCATTGAATATAACACA
* * *
13691613 TACAAGGCATTGAATATAACACA
1 CATAAAGCATTGAATATAACACA
13691636 CATAAAGCATTGAA
1 CATAAAGCATTGAA
13691650 ACTCCCACCT
Statistics
Matches: 60, Mismatches: 19, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
21 17 0.28
23 43 0.72
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.23
Consensus pattern (23 bp):
CATAAAGCATTGAATATAACACA
Found at i:13692212 original size:5 final size:5
Alignment explanation
Indices: 13692202--13692384 Score: 366
Period size: 5 Copynumber: 36.6 Consensus size: 5
13692192 AAGTAAAAAA
13692202 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
13692252 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
13692302 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
13692352 AATAT AATAT AATAT AATAT AATAT AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AAT
13692385 TAAATNAACC
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 178 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:13695649 original size:22 final size:23
Alignment explanation
Indices: 13695601--13695649 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
13695591 CCTCGGCTAC
* *
13695601 CACGCCTCTGTCATGGCCGTTTCA
1 CACGCCTCTG-CAGGGCCGTCTCA
*
13695625 CACGCCTCTG-AGGGCCGTCTGA
1 CACGCCTCTGCAGGGCCGTCTCA
13695647 CAC
1 CAC
13695650 CTGCAACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 12 0.55
24 10 0.45
ACGTcount: A:0.14, C:0.39, G:0.24, T:0.22
Consensus pattern (23 bp):
CACGCCTCTGCAGGGCCGTCTCA
Found at i:13698472 original size:15 final size:15
Alignment explanation
Indices: 13698452--13698503 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
13698442 CGATAAATTT
13698452 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
13698467 ATTGAAATTAT-TTG
1 ATTGAATTTATATTG
13698481 ATTGAATTTATATTG
1 ATTGAATTTATATTG
13698496 ATTGAATT
1 ATTGAATT
13698504 ATAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.38
15 21 0.62
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:13698483 original size:14 final size:15
Alignment explanation
Indices: 13698452--13698506 Score: 78
Period size: 14 Copynumber: 3.8 Consensus size: 15
13698442 CGATAAATTT
*
13698452 ATTGAATTTATATTG
1 ATTGAAATTATATTG
13698467 ATTGAAATTAT-TTG
1 ATTGAAATTATATTG
*
13698481 ATTGAATTTATATTG
1 ATTGAAATTATATTG
13698496 ATTG-AATTATA
1 ATTGAAATTATA
13698507 AAATATACAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
14 19 0.53
15 17 0.47
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:13698484 original size:29 final size:27
Alignment explanation
Indices: 13698448--13698505 Score: 98
Period size: 29 Copynumber: 2.1 Consensus size: 27
13698438 TATGCGATAA
13698448 ATTTATTGAATTTATATTGATTGAAATT
1 ATTTATTGAATTTATATTGATTG-AATT
13698476 ATTTGATTGAATTTATATTGATTGAATT
1 ATTT-ATTGAATTTATATTGATTGAATT
13698504 AT
1 AT
13698506 AAAATATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
ATTTATTGAATTTATATTGATTGAATT
Found at i:13698926 original size:21 final size:21
Alignment explanation
Indices: 13698891--13698961 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
13698881 AGGCACTTTA
13698891 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
13698914 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
13698935 TGTGTTGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
13698956 TGTGTC
1 TGTGTC
13698962 ATTTTAGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 37 0.80
23 9 0.20
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:13698970 original size:21 final size:21
Alignment explanation
Indices: 13698902--13698972 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
13698892 GTGTCGTATT
*
13698902 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCATA
**
13698923 TCAGGCACCTCGTGTGTTGTA
1 TCAGGCACCTCGTGTGTCATA
*
13698944 TCAGGCACCTCGTGTGTCATT
1 TCAGGCACCTCGTGTGTCATA
*
13698965 TTAGGCAC
1 TCAGGCAC
13698973 TTTATGTGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.31
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCATA
Found at i:13698981 original size:42 final size:42
Alignment explanation
Indices: 13698878--13698986 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
13698868 GGCTTTATCG
*
13698878 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCGTGTGTCAT
* ** *
13698922 ATCAGGCACCTCGTGTGTTGTATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCAT
* *
13698964 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
13698987 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.67
44 18 0.33
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCAT
Found at i:13699336 original size:54 final size:54
Alignment explanation
Indices: 13699277--13699383 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
13699267 ATGTGATTTG
*
13699277 AGATATATGAATCGTATGTATATACTGAAAGCTATCAGGGATAGTAAGTTGATA
1 AGATATATGAATCGTATGTATATACTAAAAGCTATCAGGGATAGTAAGTTGATA
*
13699331 AGATATATGAATCGTATGTATATACTAAAAGTTATCAGGGATAGTAAGTTGAT
1 AGATATATGAATCGTATGTATATACTAAAAGCTATCAGGGATAGTAAGTTGAT
13699384 TGATATAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (54 bp):
AGATATATGAATCGTATGTATATACTAAAAGCTATCAGGGATAGTAAGTTGATA
Found at i:13700244 original size:11 final size:11
Alignment explanation
Indices: 13700228--13700259 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
13700218 TACATGCCAT
*
13700228 AATTGAGTTGA
1 AATTGAGTCGA
13700239 AATTGAGTCGA
1 AATTGAGTCGA
13700250 AATTGAGTCG
1 AATTGAGTCG
13700260 GGATCGGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.31
Consensus pattern (11 bp):
AATTGAGTCGA
Found at i:13704125 original size:21 final size:21
Alignment explanation
Indices: 13704090--13704160 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
13704080 AGGCACTTTA
13704090 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
13704113 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
13704134 TGTGTTGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
13704155 TGTGTC
1 TGTGTC
13704161 ATTTTAGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 37 0.80
23 9 0.20
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:13704169 original size:21 final size:21
Alignment explanation
Indices: 13704101--13704171 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
13704091 GTGTCGTATT
*
13704101 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCATA
**
13704122 TCAGGCACCTCGTGTGTTGTA
1 TCAGGCACCTCGTGTGTCATA
*
13704143 TCAGGCACCTCGTGTGTCATT
1 TCAGGCACCTCGTGTGTCATA
*
13704164 TTAGGCAC
1 TCAGGCAC
13704172 TTTATGTGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.31
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCATA
Found at i:13704180 original size:42 final size:42
Alignment explanation
Indices: 13704077--13704185 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
13704067 GGCTTTATCG
*
13704077 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCGTGTGTCAT
* ** *
13704121 ATCAGGCACCTCGTGTGTTGTATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCAT
* *
13704163 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
13704186 ACTGATCAAG
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.67
44 18 0.33
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCAT
Found at i:13708060 original size:8 final size:8
Alignment explanation
Indices: 13708047--13708076 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13708037 AGATTGGCAC
13708047 AAGCCGAA
1 AAGCCGAA
13708055 AAGCCGAA
1 AAGCCGAA
*
13708063 ATGCCGAA
1 AAGCCGAA
13708071 AAGCCG
1 AAGCCG
13708077 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:13708548 original size:32 final size:27
Alignment explanation
Indices: 13708466--13708552 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
13708456 AGGAAGCGTC
*
13708466 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
13708493 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
13708520 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
13708547 CTGGTG
1 CTGGTG
13708553 ACTTCGTCAT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
26 7 0.13
27 47 0.85
28 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:13710068 original size:23 final size:22
Alignment explanation
Indices: 13710009--13710079 Score: 61
Period size: 27 Copynumber: 2.9 Consensus size: 22
13709999 AAAATTATTA
13710009 AAAATCTATAAAAATATTTAAATATGT
1 AAAA-CTA-AAAAAT-TTTAAA-AT-T
*
13710036 ATAAATCTAAAAATTTCTTAAAATT
1 A-AAA-CTAAAAAATT-TTAAAATT
13710061 AAAACTAAAAAATTTTAAA
1 AAAACTAAAAAATTTTAAA
13710080 CTAACATTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 5 0.12
23 9 0.22
24 3 0.08
25 2 0.05
26 3 0.08
27 11 0.28
28 7 0.17
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (22 bp):
AAAACTAAAAAATTTTAAAATT
Found at i:13718430 original size:10 final size:10
Alignment explanation
Indices: 13718415--13718464 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
13718405 TAATTTTAGG
13718415 ATTTAT-TTT
1 ATTTATCTTT
13718424 CATTTATCTTT
1 -ATTTATCTTT
13718435 ATTTATCTTT
1 ATTTATCTTT
13718445 ATTTAT-TTGT
1 ATTTATCTT-T
13718455 ATTTATCTTT
1 ATTTATCTTT
13718465 TAGTATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:13724015 original size:24 final size:24
Alignment explanation
Indices: 13723947--13724042 Score: 110
Period size: 24 Copynumber: 4.1 Consensus size: 24
13723937 GTAGTTTCGC
13723947 TTGAATAAAATGAAAAGGACTAAA
1 TTGAATAAAATGAAAAGGACTAAA
**
13723971 TTG--T-AAAT-ATTAGAGACTAAA
1 TTGAATAAAATGAAAAG-GACTAAA
* *
13723992 TTGAGTAAAATGAAAAGGATTAAA
1 TTGAATAAAATGAAAAGGACTAAA
*
13724016 TTGAATAAAATGAAAAAGACTAAA
1 TTGAATAAAATGAAAAGGACTAAA
13724040 TTG
1 TTG
13724043 TAAATATTAG
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.05
21 14 0.24
22 1 0.02
23 1 0.02
24 37 0.63
25 3 0.05
ACGTcount: A:0.54, C:0.03, G:0.17, T:0.26
Consensus pattern (24 bp):
TTGAATAAAATGAAAAGGACTAAA
Found at i:13726258 original size:15 final size:15
Alignment explanation
Indices: 13726234--13726266 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13726224 ATAATGGTCC
13726234 TATCCCGGCATGACA
1 TATCCCGGCATGACA
*
13726249 TATCCTGGCATGACA
1 TATCCCGGCATGACA
13726264 TAT
1 TAT
13726267 GAAATCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (15 bp):
TATCCCGGCATGACA
Found at i:13731129 original size:46 final size:46
Alignment explanation
Indices: 13731060--13731364 Score: 434
Period size: 46 Copynumber: 6.6 Consensus size: 46
13731050 TGATGTCATA
* * *
13731060 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCATGTTGCCATG
* *
13731106 GTATCTTTCAAACATGATCTTACTCATTTCATGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* **
13731152 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGCCATG
*
13731199 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* * *
13731245 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
* *
13731291 GTATCTTTCAACCATGGTCTTACAT-ATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTAC-TCATTTCATGTCATGTTGCCATG
*
13731337 GTATCTTTCAACCATGGTCTTACACATT
1 GTATCTTTCAACCATGGTCTTACTCATT
13731365 CCATATCAGA
Statistics
Matches: 235, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
45 4 0.02
46 188 0.80
47 43 0.18
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGCCATG
Found at i:13731240 original size:139 final size:138
Alignment explanation
Indices: 13731060--13731373 Score: 443
Period size: 139 Copynumber: 2.3 Consensus size: 138
13731050 TGATGTCATA
* * * *
13731060 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAAACATGAT
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCAGGTTGCCATGGTATCTTTCAAACATGAT
* * * * *
13731124 CTTACTCATTTCATGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCAT-TTTCCCGTC
65 CTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTA--CATATTTCACATC
*
13731188 ATGTTGCCATG
128 AGGTTGCCATG
* *
13731199 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGGTATCTTTCAAACATGATC
*
13731264 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGG
66 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACATATTTCACATCAGG
13731329 TTGCCATG
131 TTGCCATG
* * *
13731337 GTATCTTTCAACCATGGTCTTACACATTCCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
13731374 AGAGCACACT
Statistics
Matches: 157, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
137 3 0.02
138 54 0.34
139 100 0.64
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (138 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGGTATCTTTCAAACATGATC
TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACATATTTCACATCAGG
TTGCCATG
Found at i:13739839 original size:23 final size:24
Alignment explanation
Indices: 13739810--13739862 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
13739800 CAAAGTTATT
*
13739810 ATAAAT-ATATAGAATTTTAA-AAA
1 ATAAATAATAT-GAATTATAACAAA
*
13739833 TTAAATAATATGAATTATAACAAA
1 ATAAATAATATGAATTATAACAAA
13739857 ATAAAT
1 ATAAAT
13739863 TTATGTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
ATAAATAATATGAATTATAACAAA
Found at i:13740009 original size:17 final size:18
Alignment explanation
Indices: 13739987--13740048 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
13739977 TTTTTATTTA
13739987 ATTTATATAT-AAATAAT
1 ATTTATATATAAAATAAT
*
13740004 ATTTATATTTAAAATAATTT
1 ATTTATATATAAAATAA--T
*
13740024 ATTTTTTATATAAATATAAT
1 A-TTTATATATAAA-ATAAT
13740044 -TTTAT
1 ATTTAT
13740049 CTAAAAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
17 9 0.25
18 10 0.28
20 3 0.08
21 10 0.28
22 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTATATATAAAATAAT
Found at i:13740019 original size:15 final size:18
Alignment explanation
Indices: 13739985--13740045 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 18
13739975 ACTTTTTATT
13739985 TAATTTATATATAAATAA
1 TAATTTATATATAAATAA
*
13740003 T-ATTTATATTTAAAATAA
1 TAATTTATATAT-AAATAA
* *
13740021 TTTATTTTTTATATAAAT-A
1 --TAATTTATATATAAATAA
13740040 TAATTT
1 TAATTT
13740046 TATCTAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
17 14 0.41
18 7 0.21
19 1 0.03
20 5 0.15
21 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTTATATATAAATAA
Found at i:13740056 original size:38 final size:38
Alignment explanation
Indices: 13739982--13740061 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
13739972 ATTACTTTTT
*
13739982 ATTTAATTTATATATAAATAATATTTATATTTAAAATA
1 ATTTAATTTATATATAAATAATATTTATATTAAAAATA
* * *
13740020 ATTTATTTTTTATATAAAT-ATAATTT-TATCTAAAAATT
1 ATTTAATTTATATATAAATAAT-ATTTATAT-TAAAAATA
13740058 ATTT
1 ATTT
13740062 TTTAGAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 5 0.14
38 31 0.86
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (38 bp):
ATTTAATTTATATATAAATAATATTTATATTAAAAATA
Found at i:13743031 original size:13 final size:13
Alignment explanation
Indices: 13742992--13743039 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
13742982 AGCCAAAAAG
* *
13742992 AAAAATAAAAAAA
1 AAAAATAATACAA
13743005 TAAAAATCAATACAA
1 -AAAAAT-AATACAA
*
13743020 AATAATAATACAA
1 AAAAATAATACAA
13743033 AAAAATA
1 AAAAATA
13743040 TAAATGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 13 0.45
14 11 0.38
15 5 0.17
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAATACAA
Found at i:13743959 original size:22 final size:22
Alignment explanation
Indices: 13743931--13743980 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
13743921 CCAAAAACCA
*
13743931 ACTCAACCTAGGTATATGTCAT
1 ACTCAACCTAGGTATATGCCAT
13743953 ACTCAACCTAGGTATATGCCAT
1 ACTCAACCTAGGTATATGCCAT
13743975 ACTCAA
1 ACTCAA
13743981 AACGAAACGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (22 bp):
ACTCAACCTAGGTATATGCCAT
Done.